Multiple sequence alignment - TraesCS2A01G000900

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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 TraesCS2A01G000900 chr2A 100.000 4551 0 0 1 4551 499632 504182 0.000000e+00 8405.0
1 TraesCS2A01G000900 chr2A 96.970 198 3 2 3781 3975 509354 509551 3.390000e-86 329.0
2 TraesCS2A01G000900 chr2A 84.354 147 11 7 4115 4254 509660 509801 2.860000e-27 134.0
3 TraesCS2A01G000900 chr2A 81.250 112 11 5 4269 4378 510532 510635 1.050000e-11 82.4
4 TraesCS2A01G000900 chr2A 93.617 47 3 0 3976 4022 509571 509617 2.270000e-08 71.3
5 TraesCS2A01G000900 chr2D 94.085 1978 59 20 618 2562 385999 387951 0.000000e+00 2952.0
6 TraesCS2A01G000900 chr2D 94.429 1472 51 11 2567 4022 387997 389453 0.000000e+00 2235.0
7 TraesCS2A01G000900 chr2D 80.829 1085 116 40 2885 3924 634833304 634834341 0.000000e+00 767.0
8 TraesCS2A01G000900 chr2D 92.938 354 10 6 4075 4423 389458 389801 6.800000e-138 501.0
9 TraesCS2A01G000900 chr2D 80.241 582 87 15 1 559 385396 385972 3.280000e-111 412.0
10 TraesCS2A01G000900 chr2D 97.872 47 1 0 3976 4022 634834913 634834959 1.050000e-11 82.4
11 TraesCS2A01G000900 chr2B 89.672 2014 150 28 2 1994 10863279 10861303 0.000000e+00 2514.0
12 TraesCS2A01G000900 chr2B 92.686 1668 70 20 2376 4022 10860915 10859279 0.000000e+00 2357.0
13 TraesCS2A01G000900 chr2B 86.978 407 20 13 4139 4533 10859254 10858869 1.170000e-115 427.0
14 TraesCS2A01G000900 chr2B 86.571 350 28 7 1995 2331 10861268 10860925 7.190000e-98 368.0
15 TraesCS2A01G000900 chr3B 81.224 474 83 5 2883 3353 733436237 733435767 1.200000e-100 377.0
16 TraesCS2A01G000900 chr1D 75.223 448 45 33 4126 4536 452995563 452995145 7.890000e-33 152.0
17 TraesCS2A01G000900 chr1B 90.000 60 5 1 1872 1930 348805107 348805048 4.880000e-10 76.8


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 TraesCS2A01G000900 chr2A 499632 504182 4550 False 8405.0 8405 100.00000 1 4551 1 chr2A.!!$F1 4550
1 TraesCS2A01G000900 chr2D 385396 389801 4405 False 1525.0 2952 90.42325 1 4423 4 chr2D.!!$F1 4422
2 TraesCS2A01G000900 chr2D 634833304 634834959 1655 False 424.7 767 89.35050 2885 4022 2 chr2D.!!$F2 1137
3 TraesCS2A01G000900 chr2B 10858869 10863279 4410 True 1416.5 2514 88.97675 2 4533 4 chr2B.!!$R1 4531

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
181 209 0.035739 ACTTGTTTACGGCCCGTCAT 59.964 50.0 14.44 0.0 41.54 3.06 F
1464 1514 0.103937 GAGTTGAGATGGAGGAGCCG 59.896 60.0 0.00 0.0 40.66 5.52 F
1465 1515 0.616111 AGTTGAGATGGAGGAGCCGT 60.616 55.0 0.00 0.0 40.66 5.68 F
2715 2884 0.449388 CTTCTGATGGCGCAGGAAAC 59.551 55.0 10.83 0.0 36.55 2.78 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2128 2244 0.111639 TTTACAAGGGTGTCCAGGCC 59.888 55.0 0.0 0.0 39.3 5.19 R
2368 2495 0.251165 TTTGCCCTCTGGTTGGTAGC 60.251 55.0 0.0 0.0 0.0 3.58 R
2839 3008 0.454600 TCGCCTGTTCTATGACCGTC 59.545 55.0 0.0 0.0 0.0 4.79 R
4530 5298 0.032678 AGACACCGACTCAACAGCAG 59.967 55.0 0.0 0.0 0.0 4.24 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
47 48 6.832520 TCTCCATAGATTATGAGCTCTCAC 57.167 41.667 16.19 2.36 43.11 3.51
48 49 6.310149 TCTCCATAGATTATGAGCTCTCACA 58.690 40.000 16.19 0.00 43.11 3.58
49 50 6.433716 TCTCCATAGATTATGAGCTCTCACAG 59.566 42.308 16.19 0.00 43.11 3.66
50 51 5.479724 TCCATAGATTATGAGCTCTCACAGG 59.520 44.000 16.19 7.05 43.11 4.00
51 52 5.479724 CCATAGATTATGAGCTCTCACAGGA 59.520 44.000 16.19 0.00 43.11 3.86
52 53 6.350361 CCATAGATTATGAGCTCTCACAGGAG 60.350 46.154 16.19 0.00 43.11 3.69
53 54 6.433716 CATAGATTATGAGCTCTCACAGGAGA 59.566 42.308 16.19 0.00 43.11 3.71
54 55 7.123098 CATAGATTATGAGCTCTCACAGGAGAT 59.877 40.741 16.19 0.00 42.61 2.75
75 76 7.360113 AGATCTTTAGAAGTGAGGAGATTCC 57.640 40.000 0.00 0.00 36.58 3.01
103 104 6.463360 TGACTTCTTTTTGGCTTGTTTCTTT 58.537 32.000 0.00 0.00 0.00 2.52
108 109 6.569780 TCTTTTTGGCTTGTTTCTTTACTCC 58.430 36.000 0.00 0.00 0.00 3.85
110 111 2.871453 TGGCTTGTTTCTTTACTCCCC 58.129 47.619 0.00 0.00 0.00 4.81
126 153 0.399454 CCCCTCATAGTGGATGCCTG 59.601 60.000 0.00 0.00 35.29 4.85
134 161 0.990374 AGTGGATGCCTGCTTCTCTT 59.010 50.000 5.20 0.00 0.00 2.85
148 175 4.467795 TGCTTCTCTTACCTAGTTGCTCAT 59.532 41.667 0.00 0.00 0.00 2.90
162 190 4.398988 AGTTGCTCATGACTGAAACAACAA 59.601 37.500 16.81 0.00 43.90 2.83
163 191 4.291540 TGCTCATGACTGAAACAACAAC 57.708 40.909 0.00 0.00 0.00 3.32
167 195 5.677091 GCTCATGACTGAAACAACAACTTGT 60.677 40.000 0.00 0.00 42.81 3.16
175 203 2.855660 ACAACAACTTGTTTACGGCC 57.144 45.000 4.30 0.00 38.77 6.13
180 208 0.179051 AACTTGTTTACGGCCCGTCA 60.179 50.000 14.44 0.83 41.54 4.35
181 209 0.035739 ACTTGTTTACGGCCCGTCAT 59.964 50.000 14.44 0.00 41.54 3.06
182 210 0.725117 CTTGTTTACGGCCCGTCATC 59.275 55.000 14.44 0.92 41.54 2.92
198 226 3.366781 CGTCATCGAGCCACATCTCATAT 60.367 47.826 0.00 0.00 39.71 1.78
199 227 4.172505 GTCATCGAGCCACATCTCATATC 58.827 47.826 0.00 0.00 33.41 1.63
200 228 2.997485 TCGAGCCACATCTCATATCG 57.003 50.000 0.00 0.00 33.41 2.92
204 232 3.733380 CGAGCCACATCTCATATCGGATC 60.733 52.174 0.00 0.00 33.41 3.36
205 233 3.168292 AGCCACATCTCATATCGGATCA 58.832 45.455 0.00 0.00 0.00 2.92
215 243 3.260128 TCATATCGGATCAAGAGCATGCT 59.740 43.478 22.92 22.92 0.00 3.79
217 245 3.758755 ATCGGATCAAGAGCATGCTAA 57.241 42.857 22.74 7.12 0.00 3.09
219 247 3.461061 TCGGATCAAGAGCATGCTAAAG 58.539 45.455 22.74 13.13 0.00 1.85
222 250 4.095483 CGGATCAAGAGCATGCTAAAGTTT 59.905 41.667 22.74 7.57 0.00 2.66
224 252 5.803967 GGATCAAGAGCATGCTAAAGTTTTG 59.196 40.000 22.74 16.79 0.00 2.44
225 253 6.349611 GGATCAAGAGCATGCTAAAGTTTTGA 60.350 38.462 22.74 20.82 0.00 2.69
233 261 3.811083 TGCTAAAGTTTTGAACCGAGGA 58.189 40.909 0.97 0.00 0.00 3.71
239 267 1.535896 GTTTTGAACCGAGGAAGGAGC 59.464 52.381 0.00 0.00 34.73 4.70
277 305 1.076923 GGTGAGGGACTAGCGGAGA 60.077 63.158 0.00 0.00 41.55 3.71
287 315 2.595009 CTAGCGGAGAAAGGTGGGCC 62.595 65.000 0.00 0.00 0.00 5.80
359 395 2.372172 GACGGGGATGTTAGGGATTCAT 59.628 50.000 0.00 0.00 0.00 2.57
383 419 0.980754 TCACATGATGCGTAGGGGGT 60.981 55.000 0.00 0.00 0.00 4.95
430 466 4.134187 CGTCCACGTCGTGCATGC 62.134 66.667 20.01 11.82 31.34 4.06
431 467 3.788766 GTCCACGTCGTGCATGCC 61.789 66.667 20.01 5.63 31.34 4.40
453 489 2.202349 GCTCCACGCAATGAACGC 60.202 61.111 0.00 0.00 38.92 4.84
478 514 1.112113 GTGCCAGAGGGAATAGTCGA 58.888 55.000 0.00 0.00 35.59 4.20
479 515 1.112113 TGCCAGAGGGAATAGTCGAC 58.888 55.000 7.70 7.70 35.59 4.20
503 539 2.534757 GCGCTATCTAGGTCAAAACGTC 59.465 50.000 0.00 0.00 0.00 4.34
504 540 3.734293 GCGCTATCTAGGTCAAAACGTCT 60.734 47.826 0.00 0.00 0.00 4.18
568 604 3.732938 CCACTGGGAGGGAAGAGG 58.267 66.667 0.00 0.00 35.59 3.69
574 610 4.168291 GGAGGGAAGAGGCGCTGG 62.168 72.222 7.64 0.00 0.00 4.85
577 613 2.747855 GGGAAGAGGCGCTGGTTG 60.748 66.667 7.64 0.00 0.00 3.77
578 614 3.435186 GGAAGAGGCGCTGGTTGC 61.435 66.667 7.64 0.00 38.57 4.17
597 633 2.880879 CCATCACGACGACCGCAG 60.881 66.667 0.00 0.00 43.32 5.18
601 637 2.137425 ATCACGACGACCGCAGACAA 62.137 55.000 0.00 0.00 43.32 3.18
602 638 1.733041 CACGACGACCGCAGACAAT 60.733 57.895 0.00 0.00 43.32 2.71
642 679 3.149196 ACCTGCTTACATCACCTTGTTG 58.851 45.455 0.00 0.00 0.00 3.33
648 685 6.526526 TGCTTACATCACCTTGTTGTACTTA 58.473 36.000 0.00 0.00 33.69 2.24
650 687 6.128363 GCTTACATCACCTTGTTGTACTTACC 60.128 42.308 0.00 0.00 33.69 2.85
651 688 4.648651 ACATCACCTTGTTGTACTTACCC 58.351 43.478 0.00 0.00 29.32 3.69
677 714 0.465705 TTCATGGACGATGGGCTCTC 59.534 55.000 0.00 0.00 32.26 3.20
678 715 0.687427 TCATGGACGATGGGCTCTCA 60.687 55.000 0.00 0.00 32.26 3.27
695 732 4.079980 TCTCACCGGAGATCTCTAGAAG 57.920 50.000 21.81 12.84 45.12 2.85
705 747 6.594159 CGGAGATCTCTAGAAGTAGGAGAATC 59.406 46.154 21.81 0.00 0.00 2.52
739 781 5.002464 TGTTCGGCTTGTTAGGACTATAC 57.998 43.478 0.00 0.00 0.00 1.47
747 789 9.355215 CGGCTTGTTAGGACTATACTATAAATG 57.645 37.037 0.00 0.00 0.00 2.32
763 805 2.730129 AATGACCCCAACCACCAGGC 62.730 60.000 0.00 0.00 39.06 4.85
790 832 7.660617 CAGATGGCTATTTGATCTCACAACTAT 59.339 37.037 0.00 0.00 0.00 2.12
792 834 6.888105 TGGCTATTTGATCTCACAACTATCA 58.112 36.000 0.00 0.00 0.00 2.15
860 902 7.593273 TGAAAAATATTTAAACACACAGGCTCG 59.407 33.333 0.01 0.00 0.00 5.03
866 908 1.583054 AACACACAGGCTCGACTTTC 58.417 50.000 0.00 0.00 0.00 2.62
901 943 2.642807 CCAACCCAAACCCTAGAGAGAA 59.357 50.000 0.00 0.00 0.00 2.87
1418 1468 4.218578 CGAGATGCGGCAGGAGCT 62.219 66.667 9.25 0.00 41.70 4.09
1461 1511 3.433314 CCAATGGAGTTGAGATGGAGGAG 60.433 52.174 0.00 0.00 40.37 3.69
1462 1512 1.198713 TGGAGTTGAGATGGAGGAGC 58.801 55.000 0.00 0.00 0.00 4.70
1463 1513 0.467804 GGAGTTGAGATGGAGGAGCC 59.532 60.000 0.00 0.00 37.10 4.70
1464 1514 0.103937 GAGTTGAGATGGAGGAGCCG 59.896 60.000 0.00 0.00 40.66 5.52
1465 1515 0.616111 AGTTGAGATGGAGGAGCCGT 60.616 55.000 0.00 0.00 40.66 5.68
1471 1521 3.083349 TGGAGGAGCCGTCCATGG 61.083 66.667 4.97 4.97 46.80 3.66
1472 1522 2.764128 GGAGGAGCCGTCCATGGA 60.764 66.667 11.44 11.44 46.80 3.41
1483 1533 1.380246 TCCATGGACTGCAATGGGC 60.380 57.895 11.44 0.00 43.09 5.36
1771 1835 4.886579 TCACTGCACTGCACATATATAGG 58.113 43.478 0.00 0.00 33.79 2.57
1795 1859 5.504665 GCAGACATACATACAGAATTGGCAC 60.505 44.000 0.00 0.00 0.00 5.01
1826 1890 9.750125 TTACTTCAGCAATACATACATACAGAG 57.250 33.333 0.00 0.00 0.00 3.35
1930 2010 4.320870 ACCCCTGTAAAAATACACGTCTG 58.679 43.478 0.00 0.00 0.00 3.51
2125 2241 8.860088 ACCAGTCTTTTCATTAGTGCTTTAATT 58.140 29.630 0.00 0.00 0.00 1.40
2134 2250 6.321181 TCATTAGTGCTTTAATTAAGGCCTGG 59.679 38.462 24.52 15.56 37.47 4.45
2156 2280 4.082408 GGACACCCTTGTAAATTTGGCTAC 60.082 45.833 0.00 0.00 35.47 3.58
2331 2456 1.686052 TGTGTGAACTTCCCATTTGCC 59.314 47.619 0.00 0.00 0.00 4.52
2344 2471 2.416547 CCATTTGCCGTCTCTGTGTTAG 59.583 50.000 0.00 0.00 0.00 2.34
2348 2475 1.961394 TGCCGTCTCTGTGTTAGAACT 59.039 47.619 0.00 0.00 34.32 3.01
2362 2489 4.401519 TGTTAGAACTTCTGGAGGGATACG 59.598 45.833 1.17 0.00 37.60 3.06
2366 2493 2.088674 CTTCTGGAGGGATACGCGGG 62.089 65.000 12.47 0.00 37.60 6.13
2368 2495 3.151710 TGGAGGGATACGCGGGTG 61.152 66.667 16.34 0.00 37.60 4.61
2371 2498 2.123597 AGGGATACGCGGGTGCTA 60.124 61.111 16.34 0.00 39.65 3.49
2372 2499 2.028631 GGGATACGCGGGTGCTAC 59.971 66.667 16.34 2.98 39.65 3.58
2373 2500 2.028631 GGATACGCGGGTGCTACC 59.971 66.667 16.34 9.09 39.65 3.18
2374 2501 2.788640 GGATACGCGGGTGCTACCA 61.789 63.158 16.34 0.00 41.02 3.25
2622 2791 8.817876 AGTCCCCTATAAATAGAGCTATGAAAC 58.182 37.037 0.00 0.00 32.05 2.78
2666 2835 5.564063 CGATTACTCGGCAACTGGATACATA 60.564 44.000 0.00 0.00 43.67 2.29
2715 2884 0.449388 CTTCTGATGGCGCAGGAAAC 59.551 55.000 10.83 0.00 36.55 2.78
2839 3008 3.534554 TGTTGATGTGAATGGATCCTCG 58.465 45.455 14.23 0.00 0.00 4.63
2953 3122 2.510906 GTGGTGCCACAGTGGACT 59.489 61.111 24.96 0.00 45.53 3.85
3010 3179 0.392336 TCAAATGGCTGGGCACAAAC 59.608 50.000 0.00 0.00 0.00 2.93
3045 3214 6.586082 CCAGAAAATGAGAACAAAATAACCCG 59.414 38.462 0.00 0.00 0.00 5.28
3148 3317 1.153901 CATTGCAGAAAGGCGGCTG 60.154 57.895 14.21 0.97 38.60 4.85
3170 3339 1.444553 CTGAGACGTGAACTCGGCC 60.445 63.158 0.00 0.00 40.00 6.13
3198 3367 1.633432 CTACCAGTGGGGATTTGACCA 59.367 52.381 15.21 0.00 41.15 4.02
3307 3476 5.960202 AGCAAGGAATTTATGGAACCATCTT 59.040 36.000 9.75 3.89 37.82 2.40
3427 3603 7.170658 GCACCAAAGAAGATAGATAGTGATGAC 59.829 40.741 0.00 0.00 0.00 3.06
3563 3739 6.147492 GGATGATGAGTAGTTGCTGATTGATC 59.853 42.308 0.00 0.00 0.00 2.92
3616 3792 7.346751 TCAGGAGTTTGGATTTATAAATGGC 57.653 36.000 15.39 2.20 0.00 4.40
3712 3904 1.379576 AGAGCCTTGCCAGCAATCC 60.380 57.895 5.38 0.22 35.20 3.01
3735 3947 6.016360 TCCAAGTTTTGACATGGACTTGTATG 60.016 38.462 17.57 8.57 44.54 2.39
3736 3948 6.239008 CCAAGTTTTGACATGGACTTGTATGT 60.239 38.462 17.57 0.00 44.54 2.29
3737 3949 6.959639 AGTTTTGACATGGACTTGTATGTT 57.040 33.333 0.00 0.00 37.63 2.71
3738 3950 6.738114 AGTTTTGACATGGACTTGTATGTTG 58.262 36.000 0.00 0.00 37.63 3.33
3739 3951 6.321181 AGTTTTGACATGGACTTGTATGTTGT 59.679 34.615 0.00 0.00 37.63 3.32
3740 3952 7.500892 AGTTTTGACATGGACTTGTATGTTGTA 59.499 33.333 0.00 0.00 37.63 2.41
3741 3953 7.994425 TTTGACATGGACTTGTATGTTGTAT 57.006 32.000 0.00 0.00 37.63 2.29
3744 3956 5.116180 ACATGGACTTGTATGTTGTATCCG 58.884 41.667 0.00 0.00 34.00 4.18
3871 4094 0.809385 CTGATCCAAGCCAGTTGCAG 59.191 55.000 0.00 0.00 44.83 4.41
3895 4118 1.213296 TGGGGCTGAGAGGATTAACC 58.787 55.000 0.00 0.00 39.35 2.85
3949 4682 3.838565 TCAGAGAGAACCTGACTGACTT 58.161 45.455 0.00 0.00 35.89 3.01
3952 4685 4.520874 CAGAGAGAACCTGACTGACTTGTA 59.479 45.833 0.00 0.00 33.65 2.41
3953 4686 5.184864 CAGAGAGAACCTGACTGACTTGTAT 59.815 44.000 0.00 0.00 33.65 2.29
3954 4687 5.417580 AGAGAGAACCTGACTGACTTGTATC 59.582 44.000 0.00 0.00 0.00 2.24
3955 4688 5.080337 AGAGAACCTGACTGACTTGTATCA 58.920 41.667 0.00 0.00 0.00 2.15
3956 4689 5.719085 AGAGAACCTGACTGACTTGTATCAT 59.281 40.000 0.00 0.00 0.00 2.45
3957 4690 5.971763 AGAACCTGACTGACTTGTATCATC 58.028 41.667 0.00 0.00 0.00 2.92
4029 4781 8.246430 CCAGTAGGTAAAAGTATATGGAGTGA 57.754 38.462 0.00 0.00 0.00 3.41
4030 4782 8.871125 CCAGTAGGTAAAAGTATATGGAGTGAT 58.129 37.037 0.00 0.00 0.00 3.06
4031 4783 9.698309 CAGTAGGTAAAAGTATATGGAGTGATG 57.302 37.037 0.00 0.00 0.00 3.07
4032 4784 8.871125 AGTAGGTAAAAGTATATGGAGTGATGG 58.129 37.037 0.00 0.00 0.00 3.51
4033 4785 6.534634 AGGTAAAAGTATATGGAGTGATGGC 58.465 40.000 0.00 0.00 0.00 4.40
4034 4786 5.705905 GGTAAAAGTATATGGAGTGATGGCC 59.294 44.000 0.00 0.00 0.00 5.36
4035 4787 4.373156 AAAGTATATGGAGTGATGGCCC 57.627 45.455 0.00 0.00 0.00 5.80
4036 4788 1.902508 AGTATATGGAGTGATGGCCCG 59.097 52.381 0.00 0.00 0.00 6.13
4037 4789 1.623811 GTATATGGAGTGATGGCCCGT 59.376 52.381 0.00 0.00 0.00 5.28
4038 4790 2.024176 ATATGGAGTGATGGCCCGTA 57.976 50.000 0.00 0.00 0.00 4.02
4039 4791 2.024176 TATGGAGTGATGGCCCGTAT 57.976 50.000 0.00 0.00 0.00 3.06
4040 4792 0.687354 ATGGAGTGATGGCCCGTATC 59.313 55.000 0.00 0.00 0.00 2.24
4041 4793 0.689412 TGGAGTGATGGCCCGTATCA 60.689 55.000 0.00 0.00 32.44 2.15
4042 4794 0.687354 GGAGTGATGGCCCGTATCAT 59.313 55.000 7.45 0.00 36.96 2.45
4043 4795 1.338200 GGAGTGATGGCCCGTATCATC 60.338 57.143 7.45 0.00 39.94 2.92
4044 4796 1.344438 GAGTGATGGCCCGTATCATCA 59.656 52.381 7.45 2.50 44.95 3.07
4046 4798 2.768253 TGATGGCCCGTATCATCATC 57.232 50.000 0.00 0.00 43.09 2.92
4047 4799 1.977129 TGATGGCCCGTATCATCATCA 59.023 47.619 0.00 0.00 43.09 3.07
4048 4800 2.573009 TGATGGCCCGTATCATCATCAT 59.427 45.455 0.00 0.00 43.09 2.45
4049 4801 2.768253 TGGCCCGTATCATCATCATC 57.232 50.000 0.00 0.00 0.00 2.92
4050 4802 1.977129 TGGCCCGTATCATCATCATCA 59.023 47.619 0.00 0.00 0.00 3.07
4051 4803 2.573009 TGGCCCGTATCATCATCATCAT 59.427 45.455 0.00 0.00 0.00 2.45
4052 4804 3.201290 GGCCCGTATCATCATCATCATC 58.799 50.000 0.00 0.00 0.00 2.92
4053 4805 3.369787 GGCCCGTATCATCATCATCATCA 60.370 47.826 0.00 0.00 0.00 3.07
4054 4806 4.449131 GCCCGTATCATCATCATCATCAT 58.551 43.478 0.00 0.00 0.00 2.45
4055 4807 4.510711 GCCCGTATCATCATCATCATCATC 59.489 45.833 0.00 0.00 0.00 2.92
4056 4808 5.667466 CCCGTATCATCATCATCATCATCA 58.333 41.667 0.00 0.00 0.00 3.07
4057 4809 6.289064 CCCGTATCATCATCATCATCATCAT 58.711 40.000 0.00 0.00 0.00 2.45
4058 4810 6.424207 CCCGTATCATCATCATCATCATCATC 59.576 42.308 0.00 0.00 0.00 2.92
4059 4811 6.984474 CCGTATCATCATCATCATCATCATCA 59.016 38.462 0.00 0.00 0.00 3.07
4060 4812 7.657761 CCGTATCATCATCATCATCATCATCAT 59.342 37.037 0.00 0.00 0.00 2.45
4061 4813 8.704234 CGTATCATCATCATCATCATCATCATC 58.296 37.037 0.00 0.00 0.00 2.92
4062 4814 9.547753 GTATCATCATCATCATCATCATCATCA 57.452 33.333 0.00 0.00 0.00 3.07
4064 4816 8.668510 TCATCATCATCATCATCATCATCATC 57.331 34.615 0.00 0.00 0.00 2.92
4065 4817 8.267183 TCATCATCATCATCATCATCATCATCA 58.733 33.333 0.00 0.00 0.00 3.07
4066 4818 9.064706 CATCATCATCATCATCATCATCATCAT 57.935 33.333 0.00 0.00 0.00 2.45
4067 4819 8.668510 TCATCATCATCATCATCATCATCATC 57.331 34.615 0.00 0.00 0.00 2.92
4068 4820 8.267183 TCATCATCATCATCATCATCATCATCA 58.733 33.333 0.00 0.00 0.00 3.07
4069 4821 9.064706 CATCATCATCATCATCATCATCATCAT 57.935 33.333 0.00 0.00 0.00 2.45
4070 4822 8.442632 TCATCATCATCATCATCATCATCATG 57.557 34.615 0.00 0.00 0.00 3.07
4071 4823 8.049117 TCATCATCATCATCATCATCATCATGT 58.951 33.333 0.00 0.00 0.00 3.21
4072 4824 9.330063 CATCATCATCATCATCATCATCATGTA 57.670 33.333 0.00 0.00 0.00 2.29
4073 4825 8.718102 TCATCATCATCATCATCATCATGTAC 57.282 34.615 0.00 0.00 0.00 2.90
4122 4874 6.720309 TCTCTCTCTAGATATGGAGTGATGG 58.280 44.000 6.02 0.00 33.56 3.51
4123 4875 5.260424 TCTCTCTAGATATGGAGTGATGGC 58.740 45.833 0.32 0.00 30.44 4.40
4124 4876 5.003096 TCTCTAGATATGGAGTGATGGCA 57.997 43.478 0.32 0.00 0.00 4.92
4125 4877 5.015515 TCTCTAGATATGGAGTGATGGCAG 58.984 45.833 0.32 0.00 0.00 4.85
4126 4878 4.092279 TCTAGATATGGAGTGATGGCAGG 58.908 47.826 0.00 0.00 0.00 4.85
4137 4889 1.776063 TGATGGCAGGCATAGGAATGA 59.224 47.619 9.96 0.00 34.84 2.57
4212 4964 7.138692 AGACTGAGCATGTCTGTTTTATTTC 57.861 36.000 5.65 0.00 42.46 2.17
4220 4973 6.705825 GCATGTCTGTTTTATTTCTTTGGGTT 59.294 34.615 0.00 0.00 0.00 4.11
4221 4974 7.226523 GCATGTCTGTTTTATTTCTTTGGGTTT 59.773 33.333 0.00 0.00 0.00 3.27
4222 4975 8.764287 CATGTCTGTTTTATTTCTTTGGGTTTC 58.236 33.333 0.00 0.00 0.00 2.78
4223 4976 6.975772 TGTCTGTTTTATTTCTTTGGGTTTCG 59.024 34.615 0.00 0.00 0.00 3.46
4241 4994 3.520290 TCGTTCGGCATCTCAATAAGT 57.480 42.857 0.00 0.00 0.00 2.24
4461 5229 1.317613 TTAGCTTTGGTGGTGCTGTG 58.682 50.000 0.00 0.00 37.62 3.66
4509 5277 2.742372 GGTGCAAGATGACGGCGT 60.742 61.111 14.65 14.65 0.00 5.68
4526 5294 1.495069 GTCGTCTTGCTGCTGCTTC 59.505 57.895 17.00 3.94 40.48 3.86
4527 5295 1.669115 TCGTCTTGCTGCTGCTTCC 60.669 57.895 17.00 1.66 40.48 3.46
4528 5296 2.866028 GTCTTGCTGCTGCTTCCG 59.134 61.111 17.00 2.86 40.48 4.30
4529 5297 1.669115 GTCTTGCTGCTGCTTCCGA 60.669 57.895 17.00 5.08 40.48 4.55
4530 5298 1.669115 TCTTGCTGCTGCTTCCGAC 60.669 57.895 17.00 0.00 40.48 4.79
4531 5299 1.670406 CTTGCTGCTGCTTCCGACT 60.670 57.895 17.00 0.00 40.48 4.18
4532 5300 1.909141 CTTGCTGCTGCTTCCGACTG 61.909 60.000 17.00 0.00 40.48 3.51
4533 5301 3.797546 GCTGCTGCTTCCGACTGC 61.798 66.667 8.53 0.00 36.03 4.40
4534 5302 2.047465 CTGCTGCTTCCGACTGCT 60.047 61.111 0.00 0.00 33.58 4.24
4535 5303 2.357881 TGCTGCTTCCGACTGCTG 60.358 61.111 0.00 0.00 33.58 4.41
4536 5304 2.358003 GCTGCTTCCGACTGCTGT 60.358 61.111 0.00 0.00 0.00 4.40
4537 5305 1.963338 GCTGCTTCCGACTGCTGTT 60.963 57.895 0.00 0.00 0.00 3.16
4538 5306 1.864862 CTGCTTCCGACTGCTGTTG 59.135 57.895 4.02 4.02 0.00 3.33
4539 5307 0.601046 CTGCTTCCGACTGCTGTTGA 60.601 55.000 12.31 3.00 0.00 3.18
4540 5308 0.601046 TGCTTCCGACTGCTGTTGAG 60.601 55.000 12.31 4.25 0.00 3.02
4541 5309 0.601311 GCTTCCGACTGCTGTTGAGT 60.601 55.000 12.31 0.00 0.00 3.41
4542 5310 1.423395 CTTCCGACTGCTGTTGAGTC 58.577 55.000 12.31 1.89 37.14 3.36
4546 5314 2.522060 GACTGCTGTTGAGTCGGTG 58.478 57.895 0.00 0.00 31.01 4.94
4547 5315 0.249489 GACTGCTGTTGAGTCGGTGT 60.249 55.000 0.00 0.00 31.01 4.16
4548 5316 0.249489 ACTGCTGTTGAGTCGGTGTC 60.249 55.000 0.00 0.00 0.00 3.67
4549 5317 0.032678 CTGCTGTTGAGTCGGTGTCT 59.967 55.000 0.00 0.00 0.00 3.41
4550 5318 0.249447 TGCTGTTGAGTCGGTGTCTG 60.249 55.000 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 30 6.551085 TCTCCTGTGAGAGCTCATAATCTAT 58.449 40.000 17.77 0.00 42.73 1.98
43 44 6.405731 CCTCACTTCTAAAGATCTCCTGTGAG 60.406 46.154 21.26 21.26 44.64 3.51
46 47 5.584913 TCCTCACTTCTAAAGATCTCCTGT 58.415 41.667 0.00 0.00 0.00 4.00
47 48 5.890985 TCTCCTCACTTCTAAAGATCTCCTG 59.109 44.000 0.00 0.00 0.00 3.86
48 49 6.086011 TCTCCTCACTTCTAAAGATCTCCT 57.914 41.667 0.00 0.00 0.00 3.69
49 50 6.976934 ATCTCCTCACTTCTAAAGATCTCC 57.023 41.667 0.00 0.00 0.00 3.71
50 51 7.287696 AGGAATCTCCTCACTTCTAAAGATCTC 59.712 40.741 0.00 0.00 45.66 2.75
51 52 7.132128 AGGAATCTCCTCACTTCTAAAGATCT 58.868 38.462 0.00 0.00 45.66 2.75
52 53 7.360113 AGGAATCTCCTCACTTCTAAAGATC 57.640 40.000 0.00 0.00 45.66 2.75
75 76 3.633986 ACAAGCCAAAAAGAAGTCAGGAG 59.366 43.478 0.00 0.00 0.00 3.69
77 78 4.391405 AACAAGCCAAAAAGAAGTCAGG 57.609 40.909 0.00 0.00 0.00 3.86
85 86 5.753438 GGGAGTAAAGAAACAAGCCAAAAAG 59.247 40.000 0.00 0.00 0.00 2.27
86 87 5.395879 GGGGAGTAAAGAAACAAGCCAAAAA 60.396 40.000 0.00 0.00 0.00 1.94
108 109 0.250640 GCAGGCATCCACTATGAGGG 60.251 60.000 0.00 0.00 37.86 4.30
110 111 2.104451 AGAAGCAGGCATCCACTATGAG 59.896 50.000 0.00 0.00 37.86 2.90
126 153 4.457834 TGAGCAACTAGGTAAGAGAAGC 57.542 45.455 0.00 0.00 0.00 3.86
134 161 5.011635 TGTTTCAGTCATGAGCAACTAGGTA 59.988 40.000 0.00 0.00 36.61 3.08
162 190 0.035739 ATGACGGGCCGTAAACAAGT 59.964 50.000 34.29 6.01 41.37 3.16
163 191 0.725117 GATGACGGGCCGTAAACAAG 59.275 55.000 34.29 0.00 41.37 3.16
167 195 1.140161 CTCGATGACGGGCCGTAAA 59.860 57.895 34.29 23.83 41.37 2.01
175 203 0.596083 GAGATGTGGCTCGATGACGG 60.596 60.000 0.00 0.00 40.21 4.79
180 208 2.165234 CCGATATGAGATGTGGCTCGAT 59.835 50.000 0.00 0.00 37.73 3.59
181 209 1.541588 CCGATATGAGATGTGGCTCGA 59.458 52.381 0.00 0.00 37.73 4.04
182 210 1.541588 TCCGATATGAGATGTGGCTCG 59.458 52.381 0.00 0.00 37.73 5.03
198 226 3.118629 ACTTTAGCATGCTCTTGATCCGA 60.119 43.478 26.57 0.00 0.00 4.55
199 227 3.201290 ACTTTAGCATGCTCTTGATCCG 58.799 45.455 26.57 7.69 0.00 4.18
200 228 5.573337 AAACTTTAGCATGCTCTTGATCC 57.427 39.130 26.57 0.00 0.00 3.36
204 232 5.403466 GGTTCAAAACTTTAGCATGCTCTTG 59.597 40.000 26.57 16.95 0.00 3.02
205 233 5.532557 GGTTCAAAACTTTAGCATGCTCTT 58.467 37.500 26.57 8.71 0.00 2.85
215 243 5.038651 TCCTTCCTCGGTTCAAAACTTTA 57.961 39.130 0.00 0.00 0.00 1.85
217 245 3.477530 CTCCTTCCTCGGTTCAAAACTT 58.522 45.455 0.00 0.00 0.00 2.66
219 247 1.535896 GCTCCTTCCTCGGTTCAAAAC 59.464 52.381 0.00 0.00 0.00 2.43
222 250 0.984230 ATGCTCCTTCCTCGGTTCAA 59.016 50.000 0.00 0.00 0.00 2.69
224 252 0.462759 CCATGCTCCTTCCTCGGTTC 60.463 60.000 0.00 0.00 0.00 3.62
225 253 0.909610 TCCATGCTCCTTCCTCGGTT 60.910 55.000 0.00 0.00 0.00 4.44
233 261 1.142688 ACCCCACTTCCATGCTCCTT 61.143 55.000 0.00 0.00 0.00 3.36
239 267 1.379044 GCCTCACCCCACTTCCATG 60.379 63.158 0.00 0.00 0.00 3.66
277 305 3.200168 ACCATGGGGCCCACCTTT 61.200 61.111 31.54 9.57 35.80 3.11
287 315 0.875908 CGCACTACATCGACCATGGG 60.876 60.000 18.09 0.00 36.72 4.00
359 395 1.070601 CCTACGCATCATGTGATCCCA 59.929 52.381 4.86 0.00 31.21 4.37
383 419 3.833645 CCTACAGCACCGCCGCTA 61.834 66.667 0.00 0.00 41.38 4.26
390 426 4.426313 GCCCCACCCTACAGCACC 62.426 72.222 0.00 0.00 0.00 5.01
478 514 1.776662 TTGACCTAGATAGCGCTGGT 58.223 50.000 22.90 18.82 0.00 4.00
479 515 2.866762 GTTTTGACCTAGATAGCGCTGG 59.133 50.000 22.90 15.19 0.00 4.85
535 571 4.918201 GGGATCGCCTTGCTCCGG 62.918 72.222 0.00 0.00 0.00 5.14
559 595 2.930562 AACCAGCGCCTCTTCCCT 60.931 61.111 2.29 0.00 0.00 4.20
574 610 1.491563 GTCGTCGTGATGGTGCAAC 59.508 57.895 0.00 0.00 0.00 4.17
577 613 3.179265 CGGTCGTCGTGATGGTGC 61.179 66.667 0.00 0.00 0.00 5.01
578 614 3.179265 GCGGTCGTCGTGATGGTG 61.179 66.667 0.00 0.00 41.72 4.17
597 633 7.116519 GGTTATCCTCACTATTAAGCGATTGTC 59.883 40.741 0.00 0.00 0.00 3.18
601 637 6.692486 CAGGTTATCCTCACTATTAAGCGAT 58.308 40.000 0.00 0.00 43.07 4.58
602 638 5.509163 GCAGGTTATCCTCACTATTAAGCGA 60.509 44.000 0.00 0.00 43.07 4.93
624 661 4.968259 AGTACAACAAGGTGATGTAAGCA 58.032 39.130 0.00 0.00 37.37 3.91
635 672 3.751518 AGCAAGGGTAAGTACAACAAGG 58.248 45.455 0.00 0.00 0.00 3.61
642 679 4.081087 TCCATGAAGAGCAAGGGTAAGTAC 60.081 45.833 0.00 0.00 36.04 2.73
648 685 0.036010 CGTCCATGAAGAGCAAGGGT 60.036 55.000 0.00 0.00 36.04 4.34
650 687 1.938577 CATCGTCCATGAAGAGCAAGG 59.061 52.381 0.00 0.00 36.70 3.61
651 688 1.938577 CCATCGTCCATGAAGAGCAAG 59.061 52.381 0.00 0.00 33.80 4.01
677 714 4.069304 CCTACTTCTAGAGATCTCCGGTG 58.931 52.174 19.30 8.64 0.00 4.94
678 715 3.975312 TCCTACTTCTAGAGATCTCCGGT 59.025 47.826 19.30 12.53 0.00 5.28
739 781 4.207165 CTGGTGGTTGGGGTCATTTATAG 58.793 47.826 0.00 0.00 0.00 1.31
747 789 4.678743 GGCCTGGTGGTTGGGGTC 62.679 72.222 0.00 0.00 35.27 4.46
763 805 4.711399 TGTGAGATCAAATAGCCATCTGG 58.289 43.478 0.00 0.00 38.53 3.86
790 832 7.602265 GGAGCAATTACTTTAGGCAAATTTTGA 59.398 33.333 13.26 0.00 0.00 2.69
792 834 7.449247 TGGAGCAATTACTTTAGGCAAATTTT 58.551 30.769 0.00 0.00 0.00 1.82
855 897 0.036306 TGGGGAAAGAAAGTCGAGCC 59.964 55.000 0.00 0.00 0.00 4.70
860 902 2.447443 GGTGGATGGGGAAAGAAAGTC 58.553 52.381 0.00 0.00 0.00 3.01
866 908 0.614697 GGTTGGGTGGATGGGGAAAG 60.615 60.000 0.00 0.00 0.00 2.62
1383 1433 3.542676 TCAGACGGCGGTGGTTGT 61.543 61.111 13.24 0.00 0.00 3.32
1464 1514 1.669999 GCCCATTGCAGTCCATGGAC 61.670 60.000 33.72 33.72 44.86 4.02
1465 1515 1.380246 GCCCATTGCAGTCCATGGA 60.380 57.895 11.44 11.44 40.77 3.41
1466 1516 3.213264 GCCCATTGCAGTCCATGG 58.787 61.111 4.97 4.97 40.77 3.66
1483 1533 4.531912 CTTGAGCGCGCCATGCTG 62.532 66.667 30.33 9.81 44.18 4.41
1682 1741 3.474806 GTGTCGGAATCACCTGCG 58.525 61.111 0.00 0.00 36.31 5.18
1771 1835 4.576053 TGCCAATTCTGTATGTATGTCTGC 59.424 41.667 0.00 0.00 0.00 4.26
1795 1859 8.613060 ATGTATGTATTGCTGAAGTAATCCAG 57.387 34.615 0.00 0.00 32.67 3.86
1850 1923 7.868415 CCTAAACGTAGAAGATCAAAGGGATAG 59.132 40.741 0.00 0.00 36.00 2.08
1930 2010 4.929781 ACGACAATCTTATCCTTCGGTAC 58.070 43.478 0.00 0.00 0.00 3.34
2125 2241 0.770557 ACAAGGGTGTCCAGGCCTTA 60.771 55.000 0.00 0.00 29.49 2.69
2126 2242 0.770557 TACAAGGGTGTCCAGGCCTT 60.771 55.000 0.00 0.00 39.30 4.35
2127 2243 0.770557 TTACAAGGGTGTCCAGGCCT 60.771 55.000 0.00 0.00 39.30 5.19
2128 2244 0.111639 TTTACAAGGGTGTCCAGGCC 59.888 55.000 0.00 0.00 39.30 5.19
2134 2250 4.082408 GGTAGCCAAATTTACAAGGGTGTC 60.082 45.833 7.12 1.90 39.30 3.67
2156 2280 3.864789 ATGCTCCATTTGTAGGGTAGG 57.135 47.619 0.00 0.00 0.00 3.18
2331 2456 4.023107 TCCAGAAGTTCTAACACAGAGACG 60.023 45.833 4.74 0.00 33.83 4.18
2344 2471 1.536284 CGCGTATCCCTCCAGAAGTTC 60.536 57.143 0.00 0.00 0.00 3.01
2348 2475 2.131709 CCCGCGTATCCCTCCAGAA 61.132 63.158 4.92 0.00 0.00 3.02
2362 2489 2.746277 CTGGTTGGTAGCACCCGC 60.746 66.667 3.90 0.00 37.50 6.13
2366 2493 1.377333 GCCCTCTGGTTGGTAGCAC 60.377 63.158 0.00 0.00 0.00 4.40
2368 2495 0.251165 TTTGCCCTCTGGTTGGTAGC 60.251 55.000 0.00 0.00 0.00 3.58
2371 2498 1.147817 AGATTTTGCCCTCTGGTTGGT 59.852 47.619 0.00 0.00 0.00 3.67
2372 2499 1.547372 CAGATTTTGCCCTCTGGTTGG 59.453 52.381 0.00 0.00 36.15 3.77
2839 3008 0.454600 TCGCCTGTTCTATGACCGTC 59.545 55.000 0.00 0.00 0.00 4.79
3045 3214 3.883489 GCCAATAGGGTCATGGTAAGTTC 59.117 47.826 0.00 0.00 39.65 3.01
3148 3317 1.340657 CGAGTTCACGTCTCAGCTGC 61.341 60.000 9.47 0.00 32.79 5.25
3198 3367 1.451936 GCAACCTCCTCGCCCATAT 59.548 57.895 0.00 0.00 0.00 1.78
3307 3476 0.614697 TCCAGCGGAAGGATGACTGA 60.615 55.000 0.00 0.00 32.47 3.41
3427 3603 3.759618 ACCTAAACTCTGTCTCTTCCTCG 59.240 47.826 0.00 0.00 0.00 4.63
3563 3739 2.237143 TCAACCAGCCTCCTAGAATGTG 59.763 50.000 0.00 0.00 0.00 3.21
3593 3769 6.462909 GGGCCATTTATAAATCCAAACTCCTG 60.463 42.308 4.39 0.00 0.00 3.86
3616 3792 3.518705 TCAACCAAATCAATGAATGGGGG 59.481 43.478 18.57 11.86 37.26 5.40
3871 4094 0.915364 ATCCTCTCAGCCCCAAAGAC 59.085 55.000 0.00 0.00 0.00 3.01
3917 4140 8.035394 GTCAGGTTCTCTCTGATAACAACATAA 58.965 37.037 0.00 0.00 42.36 1.90
3949 4682 9.039165 ACAGGTATACATGATGATGATGATACA 57.961 33.333 23.38 0.00 31.68 2.29
3953 4686 8.699130 GGATACAGGTATACATGATGATGATGA 58.301 37.037 23.38 0.00 33.36 2.92
3954 4687 8.702819 AGGATACAGGTATACATGATGATGATG 58.297 37.037 23.38 0.00 41.41 3.07
3955 4688 8.851106 AGGATACAGGTATACATGATGATGAT 57.149 34.615 23.38 6.94 41.41 2.45
3956 4689 8.118600 AGAGGATACAGGTATACATGATGATGA 58.881 37.037 23.38 2.71 41.41 2.92
3957 4690 8.196103 CAGAGGATACAGGTATACATGATGATG 58.804 40.741 23.38 8.84 41.41 3.07
4022 4774 0.689412 TGATACGGGCCATCACTCCA 60.689 55.000 4.39 0.00 0.00 3.86
4023 4775 0.687354 ATGATACGGGCCATCACTCC 59.313 55.000 4.39 0.00 35.33 3.85
4024 4776 1.344438 TGATGATACGGGCCATCACTC 59.656 52.381 4.39 8.37 42.76 3.51
4025 4777 1.423584 TGATGATACGGGCCATCACT 58.576 50.000 4.39 0.00 42.76 3.41
4028 4780 2.768253 TGATGATGATACGGGCCATC 57.232 50.000 4.39 0.00 39.55 3.51
4029 4781 2.573009 TGATGATGATGATACGGGCCAT 59.427 45.455 4.39 0.00 0.00 4.40
4030 4782 1.977129 TGATGATGATGATACGGGCCA 59.023 47.619 4.39 0.00 0.00 5.36
4031 4783 2.768253 TGATGATGATGATACGGGCC 57.232 50.000 0.00 0.00 0.00 5.80
4032 4784 3.865446 TGATGATGATGATGATACGGGC 58.135 45.455 0.00 0.00 0.00 6.13
4033 4785 5.667466 TGATGATGATGATGATGATACGGG 58.333 41.667 0.00 0.00 0.00 5.28
4034 4786 6.984474 TGATGATGATGATGATGATGATACGG 59.016 38.462 0.00 0.00 0.00 4.02
4035 4787 8.594881 ATGATGATGATGATGATGATGATACG 57.405 34.615 0.00 0.00 0.00 3.06
4036 4788 9.547753 TGATGATGATGATGATGATGATGATAC 57.452 33.333 0.00 0.00 0.00 2.24
4038 4790 9.282569 GATGATGATGATGATGATGATGATGAT 57.717 33.333 0.00 0.00 0.00 2.45
4039 4791 8.267183 TGATGATGATGATGATGATGATGATGA 58.733 33.333 0.00 0.00 0.00 2.92
4040 4792 8.442632 TGATGATGATGATGATGATGATGATG 57.557 34.615 0.00 0.00 0.00 3.07
4041 4793 9.282569 GATGATGATGATGATGATGATGATGAT 57.717 33.333 0.00 0.00 0.00 2.45
4042 4794 8.267183 TGATGATGATGATGATGATGATGATGA 58.733 33.333 0.00 0.00 0.00 2.92
4043 4795 8.442632 TGATGATGATGATGATGATGATGATG 57.557 34.615 0.00 0.00 0.00 3.07
4044 4796 9.064706 CATGATGATGATGATGATGATGATGAT 57.935 33.333 0.00 0.00 0.00 2.45
4045 4797 8.049117 ACATGATGATGATGATGATGATGATGA 58.951 33.333 0.00 0.00 33.36 2.92
4046 4798 8.218338 ACATGATGATGATGATGATGATGATG 57.782 34.615 0.00 0.00 33.36 3.07
4047 4799 9.331282 GTACATGATGATGATGATGATGATGAT 57.669 33.333 0.00 0.00 33.36 2.45
4048 4800 8.318412 TGTACATGATGATGATGATGATGATGA 58.682 33.333 0.00 0.00 33.36 2.92
4049 4801 8.391106 GTGTACATGATGATGATGATGATGATG 58.609 37.037 0.00 0.00 33.36 3.07
4050 4802 8.100791 TGTGTACATGATGATGATGATGATGAT 58.899 33.333 0.00 0.00 33.36 2.45
4051 4803 7.446769 TGTGTACATGATGATGATGATGATGA 58.553 34.615 0.00 0.00 33.36 2.92
4052 4804 7.387948 ACTGTGTACATGATGATGATGATGATG 59.612 37.037 0.00 0.00 33.36 3.07
4053 4805 7.450903 ACTGTGTACATGATGATGATGATGAT 58.549 34.615 0.00 0.00 33.36 2.45
4054 4806 6.823497 ACTGTGTACATGATGATGATGATGA 58.177 36.000 0.00 0.00 33.36 2.92
4055 4807 7.148623 GCTACTGTGTACATGATGATGATGATG 60.149 40.741 0.00 0.00 33.36 3.07
4056 4808 6.872547 GCTACTGTGTACATGATGATGATGAT 59.127 38.462 0.00 0.00 33.36 2.45
4057 4809 6.218746 GCTACTGTGTACATGATGATGATGA 58.781 40.000 0.00 0.00 33.36 2.92
4058 4810 5.407691 GGCTACTGTGTACATGATGATGATG 59.592 44.000 0.00 0.00 33.36 3.07
4059 4811 5.512060 GGGCTACTGTGTACATGATGATGAT 60.512 44.000 0.00 0.00 33.36 2.45
4060 4812 4.202253 GGGCTACTGTGTACATGATGATGA 60.202 45.833 0.00 0.00 33.36 2.92
4061 4813 4.060900 GGGCTACTGTGTACATGATGATG 58.939 47.826 0.00 0.00 35.49 3.07
4062 4814 3.243873 CGGGCTACTGTGTACATGATGAT 60.244 47.826 0.00 0.00 0.00 2.45
4063 4815 2.100749 CGGGCTACTGTGTACATGATGA 59.899 50.000 0.00 0.00 0.00 2.92
4064 4816 2.159099 ACGGGCTACTGTGTACATGATG 60.159 50.000 0.00 0.00 34.12 3.07
4065 4817 2.108168 ACGGGCTACTGTGTACATGAT 58.892 47.619 0.00 0.00 34.12 2.45
4066 4818 1.552578 ACGGGCTACTGTGTACATGA 58.447 50.000 0.00 0.00 34.12 3.07
4067 4819 2.268298 GAACGGGCTACTGTGTACATG 58.732 52.381 0.00 0.00 36.03 3.21
4068 4820 1.206371 GGAACGGGCTACTGTGTACAT 59.794 52.381 0.00 0.00 36.03 2.29
4069 4821 0.604578 GGAACGGGCTACTGTGTACA 59.395 55.000 0.00 0.00 36.03 2.90
4070 4822 3.430779 GGAACGGGCTACTGTGTAC 57.569 57.895 0.00 0.00 36.03 2.90
4122 4874 5.005740 TCAACATATCATTCCTATGCCTGC 58.994 41.667 0.00 0.00 31.12 4.85
4123 4875 5.646793 CCTCAACATATCATTCCTATGCCTG 59.353 44.000 0.00 0.00 31.12 4.85
4124 4876 5.311649 ACCTCAACATATCATTCCTATGCCT 59.688 40.000 0.00 0.00 31.12 4.75
4125 4877 5.564550 ACCTCAACATATCATTCCTATGCC 58.435 41.667 0.00 0.00 31.12 4.40
4126 4878 7.880195 ACTAACCTCAACATATCATTCCTATGC 59.120 37.037 0.00 0.00 31.12 3.14
4137 4889 8.157476 AGTTTCACAAGACTAACCTCAACATAT 58.843 33.333 0.00 0.00 0.00 1.78
4212 4964 0.596082 ATGCCGAACGAAACCCAAAG 59.404 50.000 0.00 0.00 0.00 2.77
4220 4973 3.857052 ACTTATTGAGATGCCGAACGAA 58.143 40.909 0.00 0.00 0.00 3.85
4221 4974 3.520290 ACTTATTGAGATGCCGAACGA 57.480 42.857 0.00 0.00 0.00 3.85
4222 4975 4.109766 TGTACTTATTGAGATGCCGAACG 58.890 43.478 0.00 0.00 0.00 3.95
4223 4976 5.523916 ACATGTACTTATTGAGATGCCGAAC 59.476 40.000 0.00 0.00 0.00 3.95
4426 5187 7.936301 ACCAAAGCTAATGCCTAAAATTCAAAA 59.064 29.630 0.00 0.00 40.80 2.44
4437 5205 1.549203 CACCACCAAAGCTAATGCCT 58.451 50.000 0.00 0.00 40.80 4.75
4461 5229 3.285215 AGCACAGCACAGCACAGC 61.285 61.111 0.00 0.00 0.00 4.40
4509 5277 1.669115 GGAAGCAGCAGCAAGACGA 60.669 57.895 3.17 0.00 45.49 4.20
4528 5296 0.249489 ACACCGACTCAACAGCAGTC 60.249 55.000 0.00 0.00 37.51 3.51
4529 5297 0.249489 GACACCGACTCAACAGCAGT 60.249 55.000 0.00 0.00 0.00 4.40
4530 5298 0.032678 AGACACCGACTCAACAGCAG 59.967 55.000 0.00 0.00 0.00 4.24
4531 5299 0.249447 CAGACACCGACTCAACAGCA 60.249 55.000 0.00 0.00 0.00 4.41
4532 5300 2.522060 CAGACACCGACTCAACAGC 58.478 57.895 0.00 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.