Multiple sequence alignment - TraesCS7B01G180600

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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 TraesCS7B01G180600 chr7B 100.000 2608 0 0 2722 5329 270526542 270523935 0.000000e+00 4817.0
1 TraesCS7B01G180600 chr7B 100.000 1263 0 0 1 1263 270529263 270528001 0.000000e+00 2333.0
2 TraesCS7B01G180600 chr7B 100.000 822 0 0 1614 2435 270527650 270526829 0.000000e+00 1519.0
3 TraesCS7B01G180600 chr7A 94.783 2147 56 27 2722 4835 298857990 298860113 0.000000e+00 3293.0
4 TraesCS7B01G180600 chr7A 97.030 404 12 0 1652 2055 298857144 298857547 0.000000e+00 680.0
5 TraesCS7B01G180600 chr7A 96.867 383 8 3 2056 2435 298857578 298857959 5.820000e-179 638.0
6 TraesCS7B01G180600 chr7A 96.154 390 13 1 876 1263 298856424 298856813 2.090000e-178 636.0
7 TraesCS7B01G180600 chr7A 89.822 393 30 5 4834 5221 298860161 298860548 3.710000e-136 496.0
8 TraesCS7B01G180600 chr7A 85.047 107 5 1 1118 1224 543596002 543596097 1.220000e-16 99.0
9 TraesCS7B01G180600 chr7D 93.969 1940 70 24 2722 4641 269530217 269528305 0.000000e+00 2891.0
10 TraesCS7B01G180600 chr7D 92.881 885 54 6 1 880 269533293 269532413 0.000000e+00 1277.0
11 TraesCS7B01G180600 chr7D 93.577 685 26 13 1758 2435 269530921 269530248 0.000000e+00 1005.0
12 TraesCS7B01G180600 chr7D 91.560 391 28 4 495 880 269532259 269531869 7.860000e-148 534.0
13 TraesCS7B01G180600 chr7D 90.633 395 6 10 879 1263 269531805 269531432 3.710000e-136 496.0
14 TraesCS7B01G180600 chr7D 91.365 359 25 3 4865 5221 269525859 269525505 2.230000e-133 486.0
15 TraesCS7B01G180600 chr7D 83.721 215 8 6 4630 4834 269526763 269526566 1.530000e-40 178.0
16 TraesCS7B01G180600 chr7D 96.774 93 3 0 879 971 269532349 269532257 7.150000e-34 156.0
17 TraesCS7B01G180600 chr7D 86.585 82 1 2 1614 1695 269530990 269530919 1.230000e-11 82.4
18 TraesCS7B01G180600 chr1B 90.809 272 24 1 212 483 426907029 426906759 3.920000e-96 363.0
19 TraesCS7B01G180600 chr1B 85.769 260 28 7 4965 5221 161986939 161987192 3.160000e-67 267.0
20 TraesCS7B01G180600 chr1B 97.059 102 3 0 5228 5329 52778031 52777930 7.100000e-39 172.0
21 TraesCS7B01G180600 chr1B 97.087 103 1 2 5228 5329 423677721 423677620 7.100000e-39 172.0
22 TraesCS7B01G180600 chr1D 86.220 254 23 9 4971 5219 479562814 479562568 1.140000e-66 265.0
23 TraesCS7B01G180600 chr1D 85.600 250 28 5 4975 5221 104576816 104576572 6.850000e-64 255.0
24 TraesCS7B01G180600 chr1A 86.000 250 25 7 4976 5221 107468654 107468897 5.290000e-65 259.0
25 TraesCS7B01G180600 chr6D 83.712 264 33 8 4962 5221 427470839 427470582 1.920000e-59 241.0
26 TraesCS7B01G180600 chr6A 82.955 264 35 8 4962 5221 572132241 572131984 4.150000e-56 230.0
27 TraesCS7B01G180600 chr4D 82.576 264 32 11 4963 5221 9185795 9186049 2.500000e-53 220.0
28 TraesCS7B01G180600 chr6B 98.000 100 2 0 5230 5329 127548981 127548882 1.970000e-39 174.0
29 TraesCS7B01G180600 chr6B 97.059 102 3 0 5228 5329 247497572 247497673 7.100000e-39 172.0
30 TraesCS7B01G180600 chr6B 95.327 107 4 1 5223 5329 504545047 504544942 9.180000e-38 169.0
31 TraesCS7B01G180600 chr5B 98.000 100 2 0 5230 5329 57546142 57546241 1.970000e-39 174.0
32 TraesCS7B01G180600 chr5B 98.958 96 1 0 5234 5329 243659465 243659370 7.100000e-39 172.0
33 TraesCS7B01G180600 chr5B 100.000 90 0 0 5240 5329 567961687 567961598 3.300000e-37 167.0
34 TraesCS7B01G180600 chr4B 98.000 100 2 0 5230 5329 263401521 263401620 1.970000e-39 174.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G180600 chr7B 270523935 270529263 5328 True 2889.666667 4817 100.000000 1 5329 3 chr7B.!!$R1 5328
1 TraesCS7B01G180600 chr7A 298856424 298860548 4124 False 1148.600000 3293 94.931200 876 5221 5 chr7A.!!$F2 4345
2 TraesCS7B01G180600 chr7D 269525505 269533293 7788 True 789.488889 2891 91.229444 1 5221 9 chr7D.!!$R1 5220

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
870 875 0.740149 TCCAAAATAGCATGCCAGCG 59.260 50.000 15.66 0.0 40.15 5.18 F
1945 2663 0.461870 ATTACATCCGCGCTTCTGCA 60.462 50.000 5.56 0.0 39.64 4.41 F
1952 2670 2.564975 GCGCTTCTGCATGTGCTT 59.435 55.556 0.00 0.0 42.66 3.91 F
3694 4488 1.222936 CGCAGAGGATTTGGGAGCT 59.777 57.895 0.00 0.0 0.00 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2281 3033 4.393371 TGAGTATTGAGCTATCGATCTCCG 59.607 45.833 0.00 0.0 40.25 4.63 R
3602 4396 0.388134 TTTGGTCGACTGCTACGCTC 60.388 55.000 16.46 0.0 0.00 5.03 R
3863 4658 1.533033 TCGTTGTGAGGAGCCCTGA 60.533 57.895 0.00 0.0 31.76 3.86 R
5289 8339 0.105039 CATAGTCTTGGAGTCCGGCC 59.895 60.000 4.30 0.0 0.00 6.13 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
42 43 3.831715 GGTAACTCAATGGTGTCAAGC 57.168 47.619 0.00 0.00 0.00 4.01
46 47 3.213206 ACTCAATGGTGTCAAGCTCAA 57.787 42.857 0.00 0.00 0.00 3.02
124 125 2.206750 GAATCGCTTTACGCCATACCA 58.793 47.619 0.00 0.00 43.23 3.25
136 137 1.511613 CCATACCACCCAGATGTCCT 58.488 55.000 0.00 0.00 0.00 3.85
139 140 3.576861 CATACCACCCAGATGTCCTAGA 58.423 50.000 0.00 0.00 0.00 2.43
173 174 6.816640 ACAAGCTTTATCAAACTAGCATACGA 59.183 34.615 0.00 0.00 36.11 3.43
202 203 7.373617 TCCTCTATGAGTGCAAATAACCATA 57.626 36.000 0.00 0.00 0.00 2.74
218 219 1.750778 CCATAGCTTGGCATTCGGTTT 59.249 47.619 0.00 0.00 39.09 3.27
227 228 1.327507 GCATTCGGTTTCGTCAAAGC 58.672 50.000 0.00 0.00 36.76 3.51
233 234 2.875933 TCGGTTTCGTCAAAGCTTGAAT 59.124 40.909 0.00 0.00 42.15 2.57
234 235 3.314080 TCGGTTTCGTCAAAGCTTGAATT 59.686 39.130 0.00 0.00 42.15 2.17
241 242 6.228273 TCGTCAAAGCTTGAATTTAGTCAG 57.772 37.500 0.00 0.00 42.15 3.51
256 257 1.211457 AGTCAGCCACATCTTCATCCC 59.789 52.381 0.00 0.00 0.00 3.85
271 272 3.637273 CCCCTAGGGCCCATACGC 61.637 72.222 27.56 0.00 35.35 4.42
316 317 0.811219 TGAGCGATGCCAAGAATCCG 60.811 55.000 0.00 0.00 0.00 4.18
361 362 2.303022 TCAACCTCTGACATGTTCCTCC 59.697 50.000 0.00 0.00 0.00 4.30
378 379 2.611518 CTCCTGTGTCGGACATCTTTC 58.388 52.381 14.78 1.34 32.74 2.62
388 389 3.196039 TCGGACATCTTTCGTGGGAATAA 59.804 43.478 0.00 0.00 30.88 1.40
405 406 6.127196 TGGGAATAAAGTGTTTTGCAAGTCTT 60.127 34.615 0.00 0.81 0.00 3.01
406 407 6.761242 GGGAATAAAGTGTTTTGCAAGTCTTT 59.239 34.615 17.37 17.37 0.00 2.52
409 410 9.296400 GAATAAAGTGTTTTGCAAGTCTTTACA 57.704 29.630 19.37 9.44 32.72 2.41
411 412 6.509418 AAGTGTTTTGCAAGTCTTTACAGA 57.491 33.333 0.00 0.00 0.00 3.41
415 416 6.806739 GTGTTTTGCAAGTCTTTACAGAAAGT 59.193 34.615 0.00 0.00 42.41 2.66
422 423 6.147328 GCAAGTCTTTACAGAAAGTTACGGAT 59.853 38.462 0.00 0.00 42.41 4.18
426 427 7.813627 AGTCTTTACAGAAAGTTACGGATCTTC 59.186 37.037 0.00 0.00 42.41 2.87
431 432 3.197983 AGAAAGTTACGGATCTTCCCTGG 59.802 47.826 0.00 0.00 31.13 4.45
449 450 4.331968 CCTGGCACTTTAATAGACCACAA 58.668 43.478 0.00 0.00 32.62 3.33
451 452 4.720046 TGGCACTTTAATAGACCACAACA 58.280 39.130 0.00 0.00 31.58 3.33
483 484 6.428385 GCATTAGCTTGTGTTTCATAGTCT 57.572 37.500 0.00 0.00 37.91 3.24
518 519 6.823689 GCATTACCTTCTAACCAATCTTCTCA 59.176 38.462 0.00 0.00 0.00 3.27
539 540 3.063997 CACCGCCTTTTTGTATCAGCTAG 59.936 47.826 0.00 0.00 0.00 3.42
561 562 2.240500 GCGATAAGCTGAGCCCACG 61.241 63.158 0.00 3.65 44.04 4.94
570 571 1.135575 GCTGAGCCCACGAAGAAATTG 60.136 52.381 0.00 0.00 0.00 2.32
574 575 1.154035 CCCACGAAGAAATTGCCGC 60.154 57.895 0.00 0.00 0.00 6.53
611 612 3.644966 AGCCTAAAAATCGTCCATCCA 57.355 42.857 0.00 0.00 0.00 3.41
625 627 2.501316 TCCATCCATCGGTGCATATAGG 59.499 50.000 0.00 0.00 0.00 2.57
691 693 7.855375 TGATCCAAAATCTCTCTCATTAGTGT 58.145 34.615 0.00 0.00 0.00 3.55
716 718 2.724977 TAGTGTTGTCCTTGAGCTCG 57.275 50.000 9.64 0.00 0.00 5.03
779 781 5.414454 TGGTCTCATTGTAGTATTTTGTGGC 59.586 40.000 0.00 0.00 0.00 5.01
789 791 7.371936 TGTAGTATTTTGTGGCAACCAATTAC 58.628 34.615 0.00 3.13 34.18 1.89
795 797 1.544246 GTGGCAACCAATTACCAGTCC 59.456 52.381 0.00 0.00 31.44 3.85
796 798 0.808755 GGCAACCAATTACCAGTCCG 59.191 55.000 0.00 0.00 0.00 4.79
797 799 1.612199 GGCAACCAATTACCAGTCCGA 60.612 52.381 0.00 0.00 0.00 4.55
798 800 2.365582 GCAACCAATTACCAGTCCGAT 58.634 47.619 0.00 0.00 0.00 4.18
811 814 4.876107 ACCAGTCCGATTTTTGCTGTATAG 59.124 41.667 0.00 0.00 0.00 1.31
852 857 5.607119 TCAAGCCGACATAAAAGTCTTTC 57.393 39.130 0.00 0.00 36.38 2.62
863 868 9.860898 GACATAAAAGTCTTTCCAAAATAGCAT 57.139 29.630 0.00 0.00 35.65 3.79
864 869 9.643693 ACATAAAAGTCTTTCCAAAATAGCATG 57.356 29.630 0.00 0.00 0.00 4.06
865 870 8.598075 CATAAAAGTCTTTCCAAAATAGCATGC 58.402 33.333 10.51 10.51 0.00 4.06
867 872 4.088634 AGTCTTTCCAAAATAGCATGCCA 58.911 39.130 15.66 0.00 0.00 4.92
868 873 4.159135 AGTCTTTCCAAAATAGCATGCCAG 59.841 41.667 15.66 0.00 0.00 4.85
869 874 2.965572 TTCCAAAATAGCATGCCAGC 57.034 45.000 15.66 0.00 0.00 4.85
870 875 0.740149 TCCAAAATAGCATGCCAGCG 59.260 50.000 15.66 0.00 40.15 5.18
973 1588 1.668294 CCCGAATCCTCCTCATCCG 59.332 63.158 0.00 0.00 0.00 4.18
1133 1760 1.079503 GGAGTTGGCGATCTGTTGTC 58.920 55.000 0.00 0.00 0.00 3.18
1644 2362 2.795121 GACATGATGTCACTTGTCGC 57.205 50.000 19.96 0.00 46.22 5.19
1645 2363 2.068519 GACATGATGTCACTTGTCGCA 58.931 47.619 19.96 0.00 46.22 5.10
1646 2364 2.674852 GACATGATGTCACTTGTCGCAT 59.325 45.455 19.96 0.00 46.22 4.73
1647 2365 3.860641 ACATGATGTCACTTGTCGCATA 58.139 40.909 0.00 0.00 0.00 3.14
1648 2366 3.867493 ACATGATGTCACTTGTCGCATAG 59.133 43.478 0.00 0.00 0.00 2.23
1691 2409 2.074576 CATCAGCATCCATCTAAGCGG 58.925 52.381 0.00 0.00 0.00 5.52
1704 2422 3.371965 TCTAAGCGGACCTATGACCTTT 58.628 45.455 0.00 0.00 0.00 3.11
1705 2423 2.693267 AAGCGGACCTATGACCTTTC 57.307 50.000 0.00 0.00 0.00 2.62
1784 2502 3.826157 TGTTTATTCTTCAAGCTGGTGGG 59.174 43.478 0.00 0.00 0.00 4.61
1945 2663 0.461870 ATTACATCCGCGCTTCTGCA 60.462 50.000 5.56 0.00 39.64 4.41
1950 2668 4.824166 CCGCGCTTCTGCATGTGC 62.824 66.667 5.56 9.15 39.64 4.57
1952 2670 2.564975 GCGCTTCTGCATGTGCTT 59.435 55.556 0.00 0.00 42.66 3.91
1978 2696 8.651589 TGGAACAGTTATAGCAGTATATAGCT 57.348 34.615 7.02 7.02 44.55 3.32
2040 2758 7.195374 AGCTATGATTTACAACTAACCTGGA 57.805 36.000 0.00 0.00 0.00 3.86
2089 2838 7.062957 AGTTTAATGCCATGCCTCTAGTATTT 58.937 34.615 0.00 0.00 0.00 1.40
2104 2854 3.073678 AGTATTTCGCAGTGCATCACAA 58.926 40.909 16.83 0.00 36.74 3.33
2105 2855 3.501828 AGTATTTCGCAGTGCATCACAAA 59.498 39.130 16.83 5.85 36.74 2.83
3077 3836 8.970859 ATTATAGGATCTGGCATAATGTAAGC 57.029 34.615 0.00 0.00 0.00 3.09
3085 3844 4.842574 TGGCATAATGTAAGCAAGTCAGA 58.157 39.130 0.00 0.00 0.00 3.27
3200 3965 4.278419 AGCAATTACACAGTTCAACCTTCC 59.722 41.667 0.00 0.00 0.00 3.46
3210 3975 5.071788 ACAGTTCAACCTTCCAGTTCATAGA 59.928 40.000 0.00 0.00 0.00 1.98
3299 4090 5.499004 TGACCTAACTGCCTTTTGATAGT 57.501 39.130 0.00 0.00 0.00 2.12
3324 4115 4.515191 GCAAGTTCCTGATTGTGTCTTACA 59.485 41.667 0.00 0.00 37.56 2.41
3417 4208 8.517878 CATGGATTTCTTAAGTCTTGTGATTGT 58.482 33.333 1.63 0.00 0.00 2.71
3418 4209 8.099364 TGGATTTCTTAAGTCTTGTGATTGTC 57.901 34.615 1.63 0.00 0.00 3.18
3419 4210 7.939039 TGGATTTCTTAAGTCTTGTGATTGTCT 59.061 33.333 1.63 0.00 0.00 3.41
3420 4211 8.233190 GGATTTCTTAAGTCTTGTGATTGTCTG 58.767 37.037 1.63 0.00 0.00 3.51
3421 4212 8.908786 ATTTCTTAAGTCTTGTGATTGTCTGA 57.091 30.769 1.63 0.00 0.00 3.27
3422 4213 8.908786 TTTCTTAAGTCTTGTGATTGTCTGAT 57.091 30.769 1.63 0.00 0.00 2.90
3423 4214 8.908786 TTCTTAAGTCTTGTGATTGTCTGATT 57.091 30.769 1.63 0.00 0.00 2.57
3424 4215 8.315391 TCTTAAGTCTTGTGATTGTCTGATTG 57.685 34.615 1.63 0.00 0.00 2.67
3602 4396 2.109126 GCACTTGGCTTAGCTCCCG 61.109 63.158 3.59 0.00 40.25 5.14
3694 4488 1.222936 CGCAGAGGATTTGGGAGCT 59.777 57.895 0.00 0.00 0.00 4.09
3863 4658 6.305272 ACTCACATGTTATCTCCATGACTT 57.695 37.500 0.00 0.00 41.78 3.01
3916 4711 3.460340 CTCTCTTAGTCCTGACCCTCCTA 59.540 52.174 0.00 0.00 0.00 2.94
4207 5005 7.757097 CAGTATTGCTACTGTACCTTACTTG 57.243 40.000 5.22 0.00 46.54 3.16
4208 5006 6.255887 CAGTATTGCTACTGTACCTTACTTGC 59.744 42.308 5.22 0.00 46.54 4.01
4209 5007 4.610605 TTGCTACTGTACCTTACTTGCA 57.389 40.909 0.00 0.00 0.00 4.08
4211 5009 4.503910 TGCTACTGTACCTTACTTGCATG 58.496 43.478 0.00 0.00 0.00 4.06
4212 5010 4.020573 TGCTACTGTACCTTACTTGCATGT 60.021 41.667 10.40 10.40 0.00 3.21
4213 5011 4.935808 GCTACTGTACCTTACTTGCATGTT 59.064 41.667 10.85 0.00 0.00 2.71
4214 5012 5.063564 GCTACTGTACCTTACTTGCATGTTC 59.936 44.000 10.85 0.00 0.00 3.18
4215 5013 4.968259 ACTGTACCTTACTTGCATGTTCA 58.032 39.130 10.85 0.00 0.00 3.18
4259 5057 9.874215 CTTGCTTGATAATGTAGTGTATGATTG 57.126 33.333 0.00 0.00 0.00 2.67
4269 5067 9.836864 AATGTAGTGTATGATTGAATTCTGCTA 57.163 29.630 7.05 0.00 0.00 3.49
4303 5101 3.065371 CCCCTATTTCGCAGAAACACATC 59.935 47.826 5.99 0.00 45.90 3.06
4386 5184 6.794158 GTGTTTCATGAAGAAGACTGAAATCG 59.206 38.462 8.41 0.00 39.15 3.34
4424 5222 5.164606 AGTCGGCGCGAATTTTATAATTT 57.835 34.783 12.10 0.00 37.72 1.82
4516 5317 6.153340 TGAATCAAAATTTTCTAGGGCCTCTG 59.847 38.462 10.74 4.42 0.00 3.35
4611 5413 5.707242 TTCATTTGTTAATTACCCGTGCA 57.293 34.783 0.00 0.00 0.00 4.57
4622 5424 1.078497 CCCGTGCATTGTAGCTGGA 60.078 57.895 0.00 0.00 34.16 3.86
4686 7041 4.595986 ACCTTCAGTGTTAAGTGGTGTTT 58.404 39.130 0.00 0.00 0.00 2.83
4687 7042 4.398044 ACCTTCAGTGTTAAGTGGTGTTTG 59.602 41.667 0.00 0.00 0.00 2.93
4688 7043 4.398044 CCTTCAGTGTTAAGTGGTGTTTGT 59.602 41.667 0.00 0.00 0.00 2.83
4690 7045 4.328536 TCAGTGTTAAGTGGTGTTTGTGT 58.671 39.130 0.00 0.00 0.00 3.72
4735 7099 6.873605 GGCTATTTTTACATGACAGCCTTTTT 59.126 34.615 0.00 0.00 43.00 1.94
4828 7192 2.355513 CCTAGCTGCTTGACTTCATGGT 60.356 50.000 7.79 0.00 0.00 3.55
4858 7271 5.705441 TGATTCCCAGTAGCAAAACTAACAG 59.295 40.000 0.00 0.00 30.90 3.16
4930 7978 1.735386 CTCCAGTGGAGCAAGACATG 58.265 55.000 26.03 0.23 43.29 3.21
4997 8045 5.528690 ACCGGTCATGTCTCAAATAATCATG 59.471 40.000 0.00 0.00 37.71 3.07
5005 8053 9.797556 CATGTCTCAAATAATCATGTTCACAAT 57.202 29.630 0.00 0.00 33.53 2.71
5011 8059 9.589111 TCAAATAATCATGTTCACAATTGGATG 57.411 29.630 10.83 0.00 0.00 3.51
5168 8216 3.570125 CAGCGAGGTAGAATAGGACATGA 59.430 47.826 0.00 0.00 0.00 3.07
5194 8244 2.636412 CGGCTCACGGGACTCAAGA 61.636 63.158 0.00 0.00 39.42 3.02
5221 8271 1.622811 CATCTCCCATGCCCTACTCTC 59.377 57.143 0.00 0.00 0.00 3.20
5222 8272 0.468214 TCTCCCATGCCCTACTCTCG 60.468 60.000 0.00 0.00 0.00 4.04
5223 8273 0.468214 CTCCCATGCCCTACTCTCGA 60.468 60.000 0.00 0.00 0.00 4.04
5224 8274 0.032515 TCCCATGCCCTACTCTCGAA 60.033 55.000 0.00 0.00 0.00 3.71
5225 8275 0.830648 CCCATGCCCTACTCTCGAAA 59.169 55.000 0.00 0.00 0.00 3.46
5226 8276 1.473434 CCCATGCCCTACTCTCGAAAC 60.473 57.143 0.00 0.00 0.00 2.78
5227 8277 1.473434 CCATGCCCTACTCTCGAAACC 60.473 57.143 0.00 0.00 0.00 3.27
5228 8278 0.831307 ATGCCCTACTCTCGAAACCC 59.169 55.000 0.00 0.00 0.00 4.11
5229 8279 0.252103 TGCCCTACTCTCGAAACCCT 60.252 55.000 0.00 0.00 0.00 4.34
5230 8280 0.175989 GCCCTACTCTCGAAACCCTG 59.824 60.000 0.00 0.00 0.00 4.45
5231 8281 1.848652 CCCTACTCTCGAAACCCTGA 58.151 55.000 0.00 0.00 0.00 3.86
5232 8282 1.477295 CCCTACTCTCGAAACCCTGAC 59.523 57.143 0.00 0.00 0.00 3.51
5233 8283 1.132643 CCTACTCTCGAAACCCTGACG 59.867 57.143 0.00 0.00 0.00 4.35
5234 8284 1.132643 CTACTCTCGAAACCCTGACGG 59.867 57.143 0.00 0.00 37.81 4.79
5242 8292 2.743718 ACCCTGACGGTGCTTGAG 59.256 61.111 0.00 0.00 46.09 3.02
5243 8293 2.046892 CCCTGACGGTGCTTGAGG 60.047 66.667 0.00 0.00 0.00 3.86
5244 8294 2.046892 CCTGACGGTGCTTGAGGG 60.047 66.667 0.00 0.00 0.00 4.30
5245 8295 2.583441 CCTGACGGTGCTTGAGGGA 61.583 63.158 0.00 0.00 0.00 4.20
5246 8296 1.079543 CTGACGGTGCTTGAGGGAG 60.080 63.158 0.00 0.00 0.00 4.30
5247 8297 1.821061 CTGACGGTGCTTGAGGGAGT 61.821 60.000 0.00 0.00 0.00 3.85
5248 8298 1.079750 GACGGTGCTTGAGGGAGTC 60.080 63.158 0.00 0.00 0.00 3.36
5249 8299 2.266055 CGGTGCTTGAGGGAGTCC 59.734 66.667 0.00 0.00 0.00 3.85
5251 8301 1.298014 GGTGCTTGAGGGAGTCCTG 59.702 63.158 9.58 0.00 45.05 3.86
5252 8302 1.298014 GTGCTTGAGGGAGTCCTGG 59.702 63.158 9.58 0.00 45.05 4.45
5253 8303 1.158466 TGCTTGAGGGAGTCCTGGA 59.842 57.895 9.58 0.00 45.05 3.86
5254 8304 1.194781 TGCTTGAGGGAGTCCTGGAC 61.195 60.000 19.20 19.20 45.05 4.02
5255 8305 0.907230 GCTTGAGGGAGTCCTGGACT 60.907 60.000 28.70 28.70 46.42 3.85
5256 8306 1.619977 GCTTGAGGGAGTCCTGGACTA 60.620 57.143 28.41 10.70 43.53 2.59
5257 8307 2.383855 CTTGAGGGAGTCCTGGACTAG 58.616 57.143 28.41 17.08 43.53 2.57
5258 8308 0.631753 TGAGGGAGTCCTGGACTAGG 59.368 60.000 28.41 0.00 43.53 3.02
5265 8315 4.051932 CCTGGACTAGGGGGTGTC 57.948 66.667 0.00 0.00 43.33 3.67
5268 8318 2.762875 GGACTAGGGGGTGTCCGG 60.763 72.222 0.00 0.00 42.51 5.14
5269 8319 2.361771 GACTAGGGGGTGTCCGGA 59.638 66.667 0.00 0.00 36.01 5.14
5270 8320 1.075450 GACTAGGGGGTGTCCGGAT 60.075 63.158 7.81 0.00 36.01 4.18
5271 8321 0.186873 GACTAGGGGGTGTCCGGATA 59.813 60.000 7.81 0.10 36.01 2.59
5272 8322 0.187851 ACTAGGGGGTGTCCGGATAG 59.812 60.000 7.81 5.89 36.01 2.08
5273 8323 1.152398 TAGGGGGTGTCCGGATAGC 60.152 63.158 20.91 20.91 36.01 2.97
5274 8324 2.668106 TAGGGGGTGTCCGGATAGCC 62.668 65.000 34.24 34.24 39.05 3.93
5290 8340 0.891373 AGCCGGACTATCATCATCGG 59.109 55.000 5.05 0.00 40.33 4.18
5291 8341 3.425578 CCGGACTATCATCATCGGC 57.574 57.895 0.00 0.00 0.00 5.54
5292 8342 0.108615 CCGGACTATCATCATCGGCC 60.109 60.000 0.00 0.00 0.00 6.13
5293 8343 0.456824 CGGACTATCATCATCGGCCG 60.457 60.000 22.12 22.12 0.00 6.13
5294 8344 0.108615 GGACTATCATCATCGGCCGG 60.109 60.000 27.83 10.69 0.00 6.13
5295 8345 0.888619 GACTATCATCATCGGCCGGA 59.111 55.000 27.83 16.64 0.00 5.14
5296 8346 0.603569 ACTATCATCATCGGCCGGAC 59.396 55.000 27.83 0.00 0.00 4.79
5297 8347 0.891373 CTATCATCATCGGCCGGACT 59.109 55.000 27.83 7.73 0.00 3.85
5298 8348 0.888619 TATCATCATCGGCCGGACTC 59.111 55.000 27.83 0.00 0.00 3.36
5299 8349 1.821061 ATCATCATCGGCCGGACTCC 61.821 60.000 27.83 0.00 0.00 3.85
5300 8350 2.443952 ATCATCGGCCGGACTCCA 60.444 61.111 27.83 4.46 0.00 3.86
5301 8351 2.063979 ATCATCGGCCGGACTCCAA 61.064 57.895 27.83 3.54 0.00 3.53
5302 8352 2.032860 ATCATCGGCCGGACTCCAAG 62.033 60.000 27.83 0.99 0.00 3.61
5303 8353 2.363795 ATCGGCCGGACTCCAAGA 60.364 61.111 27.83 1.69 0.00 3.02
5304 8354 2.722201 ATCGGCCGGACTCCAAGAC 61.722 63.158 27.83 0.00 0.00 3.01
5305 8355 3.382832 CGGCCGGACTCCAAGACT 61.383 66.667 20.10 0.00 0.00 3.24
5306 8356 2.050350 CGGCCGGACTCCAAGACTA 61.050 63.158 20.10 0.00 0.00 2.59
5307 8357 1.392710 CGGCCGGACTCCAAGACTAT 61.393 60.000 20.10 0.00 0.00 2.12
5308 8358 0.105039 GGCCGGACTCCAAGACTATG 59.895 60.000 5.05 0.00 0.00 2.23
5309 8359 1.112113 GCCGGACTCCAAGACTATGA 58.888 55.000 5.05 0.00 0.00 2.15
5310 8360 1.480954 GCCGGACTCCAAGACTATGAA 59.519 52.381 5.05 0.00 0.00 2.57
5311 8361 2.482142 GCCGGACTCCAAGACTATGAAG 60.482 54.545 5.05 0.00 0.00 3.02
5312 8362 3.024547 CCGGACTCCAAGACTATGAAGA 58.975 50.000 0.00 0.00 0.00 2.87
5313 8363 3.639094 CCGGACTCCAAGACTATGAAGAT 59.361 47.826 0.00 0.00 0.00 2.40
5314 8364 4.827835 CCGGACTCCAAGACTATGAAGATA 59.172 45.833 0.00 0.00 0.00 1.98
5315 8365 5.278561 CCGGACTCCAAGACTATGAAGATAC 60.279 48.000 0.00 0.00 0.00 2.24
5316 8366 5.299531 CGGACTCCAAGACTATGAAGATACA 59.700 44.000 0.00 0.00 0.00 2.29
5317 8367 6.183360 CGGACTCCAAGACTATGAAGATACAA 60.183 42.308 0.00 0.00 0.00 2.41
5318 8368 7.206687 GGACTCCAAGACTATGAAGATACAAG 58.793 42.308 0.00 0.00 0.00 3.16
5319 8369 7.068839 GGACTCCAAGACTATGAAGATACAAGA 59.931 40.741 0.00 0.00 0.00 3.02
5320 8370 8.546083 ACTCCAAGACTATGAAGATACAAGAT 57.454 34.615 0.00 0.00 0.00 2.40
5321 8371 8.986991 ACTCCAAGACTATGAAGATACAAGATT 58.013 33.333 0.00 0.00 0.00 2.40
5322 8372 9.258826 CTCCAAGACTATGAAGATACAAGATTG 57.741 37.037 0.00 0.00 0.00 2.67
5323 8373 8.981659 TCCAAGACTATGAAGATACAAGATTGA 58.018 33.333 0.00 0.00 0.00 2.57
5324 8374 9.605275 CCAAGACTATGAAGATACAAGATTGAA 57.395 33.333 0.00 0.00 0.00 2.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 4.286032 AGCTTGACACCATTGAGTTACCTA 59.714 41.667 0.00 0.00 0.00 3.08
22 23 3.412386 AGCTTGACACCATTGAGTTACC 58.588 45.455 0.00 0.00 0.00 2.85
42 43 8.840867 GCTTTCGTCATTAACTACATTTTTGAG 58.159 33.333 0.00 0.00 0.00 3.02
46 47 8.296713 ACATGCTTTCGTCATTAACTACATTTT 58.703 29.630 0.00 0.00 0.00 1.82
81 82 2.669240 GGCGTCCTACAAAGCCCT 59.331 61.111 0.00 0.00 43.54 5.19
124 125 1.019650 ACCCTCTAGGACATCTGGGT 58.980 55.000 0.00 0.00 42.52 4.51
136 137 7.011499 TGATAAAGCTTGTTGTTACCCTCTA 57.989 36.000 0.00 0.00 0.00 2.43
139 140 6.549736 AGTTTGATAAAGCTTGTTGTTACCCT 59.450 34.615 0.00 0.00 0.00 4.34
173 174 7.934120 GGTTATTTGCACTCATAGAGGAAGTAT 59.066 37.037 0.00 0.00 33.35 2.12
202 203 0.889186 ACGAAACCGAATGCCAAGCT 60.889 50.000 0.00 0.00 0.00 3.74
218 219 5.334105 GCTGACTAAATTCAAGCTTTGACGA 60.334 40.000 0.00 0.00 39.87 4.20
227 228 6.149973 TGAAGATGTGGCTGACTAAATTCAAG 59.850 38.462 0.00 0.00 0.00 3.02
233 234 4.517285 GGATGAAGATGTGGCTGACTAAA 58.483 43.478 0.00 0.00 0.00 1.85
234 235 3.118261 GGGATGAAGATGTGGCTGACTAA 60.118 47.826 0.00 0.00 0.00 2.24
241 242 1.072965 CCTAGGGGATGAAGATGTGGC 59.927 57.143 0.00 0.00 33.58 5.01
256 257 2.426023 GTGCGTATGGGCCCTAGG 59.574 66.667 25.70 18.11 0.00 3.02
316 317 1.473258 TGCCAGTTATGTGGAATGCC 58.527 50.000 0.00 0.00 40.44 4.40
361 362 1.721389 CACGAAAGATGTCCGACACAG 59.279 52.381 2.57 0.00 38.85 3.66
378 379 3.971150 TGCAAAACACTTTATTCCCACG 58.029 40.909 0.00 0.00 0.00 4.94
388 389 6.509418 TCTGTAAAGACTTGCAAAACACTT 57.491 33.333 0.00 1.19 0.00 3.16
405 406 5.482878 AGGGAAGATCCGTAACTTTCTGTAA 59.517 40.000 0.00 0.00 37.43 2.41
406 407 5.021458 AGGGAAGATCCGTAACTTTCTGTA 58.979 41.667 0.00 0.00 37.43 2.74
409 410 3.197983 CCAGGGAAGATCCGTAACTTTCT 59.802 47.826 0.00 0.00 37.43 2.52
411 412 2.355818 GCCAGGGAAGATCCGTAACTTT 60.356 50.000 0.00 0.00 37.43 2.66
415 416 0.539986 GTGCCAGGGAAGATCCGTAA 59.460 55.000 0.00 0.00 37.43 3.18
422 423 4.080526 GGTCTATTAAAGTGCCAGGGAAGA 60.081 45.833 0.00 0.00 0.00 2.87
426 427 3.279434 GTGGTCTATTAAAGTGCCAGGG 58.721 50.000 0.00 0.00 33.99 4.45
431 432 5.240844 ACCTTGTTGTGGTCTATTAAAGTGC 59.759 40.000 0.00 0.00 31.03 4.40
483 484 2.086869 GAAGGTAATGCAAGCAGCTCA 58.913 47.619 0.00 0.00 45.94 4.26
518 519 2.200373 AGCTGATACAAAAAGGCGGT 57.800 45.000 0.00 0.00 0.00 5.68
539 540 1.573436 GGCTCAGCTTATCGCATGC 59.427 57.895 7.91 7.91 42.61 4.06
561 562 3.900941 TGAAAAGAGCGGCAATTTCTTC 58.099 40.909 18.96 9.28 33.90 2.87
570 571 1.336755 TGGAACTTTGAAAAGAGCGGC 59.663 47.619 9.71 0.00 39.31 6.53
574 575 4.926140 AGGCTTGGAACTTTGAAAAGAG 57.074 40.909 9.71 0.00 39.31 2.85
676 678 6.037281 CACTAACGCTACACTAATGAGAGAGA 59.963 42.308 0.00 0.00 0.00 3.10
680 682 5.892160 ACACTAACGCTACACTAATGAGA 57.108 39.130 0.00 0.00 0.00 3.27
691 693 3.859627 GCTCAAGGACAACACTAACGCTA 60.860 47.826 0.00 0.00 0.00 4.26
716 718 0.404426 ACCCTCCCTTGTTGGTAAGC 59.596 55.000 0.00 0.00 0.00 3.09
757 759 6.494893 TGCCACAAAATACTACAATGAGAC 57.505 37.500 0.00 0.00 0.00 3.36
763 765 5.854010 TTGGTTGCCACAAAATACTACAA 57.146 34.783 0.00 0.00 30.78 2.41
764 766 6.412362 AATTGGTTGCCACAAAATACTACA 57.588 33.333 0.00 0.00 30.78 2.74
765 767 6.809689 GGTAATTGGTTGCCACAAAATACTAC 59.190 38.462 3.91 0.00 39.62 2.73
775 777 1.544246 GGACTGGTAATTGGTTGCCAC 59.456 52.381 0.00 0.00 43.93 5.01
779 781 5.385509 AAAATCGGACTGGTAATTGGTTG 57.614 39.130 0.00 0.00 0.00 3.77
789 791 5.409643 CTATACAGCAAAAATCGGACTGG 57.590 43.478 0.00 0.00 32.60 4.00
811 814 2.618241 TGATAAGCGAATTGGTGATGGC 59.382 45.455 0.00 0.00 0.00 4.40
852 857 0.249155 CCGCTGGCATGCTATTTTGG 60.249 55.000 18.92 8.61 0.00 3.28
934 1005 4.019983 TCCAGGAGGAAGACGAGC 57.980 61.111 0.00 0.00 42.23 5.03
1133 1760 2.437716 CGTTTGGGGATCACCGGG 60.438 66.667 10.08 0.00 41.60 5.73
1638 2356 7.993101 AGTGAAATACTACTACTATGCGACAA 58.007 34.615 0.00 0.00 38.04 3.18
1639 2357 7.563888 AGTGAAATACTACTACTATGCGACA 57.436 36.000 0.00 0.00 38.04 4.35
1646 2364 9.636789 TGCCAGAATAGTGAAATACTACTACTA 57.363 33.333 0.00 0.00 44.30 1.82
1647 2365 8.534954 TGCCAGAATAGTGAAATACTACTACT 57.465 34.615 0.00 0.00 44.30 2.57
1648 2366 9.413048 GATGCCAGAATAGTGAAATACTACTAC 57.587 37.037 0.00 0.00 44.30 2.73
1784 2502 6.256321 AGTCAATGTCTTCATTTTTGTGTTGC 59.744 34.615 0.00 0.00 41.66 4.17
1945 2663 5.009631 TGCTATAACTGTTCCAAAGCACAT 58.990 37.500 12.20 0.00 33.84 3.21
1952 2670 9.090103 AGCTATATACTGCTATAACTGTTCCAA 57.910 33.333 0.00 0.00 37.81 3.53
2017 2735 7.859325 TTCCAGGTTAGTTGTAAATCATAGC 57.141 36.000 0.00 0.00 0.00 2.97
2209 2959 6.774656 AGGCTAGAAAATGGAAATATCAGTGG 59.225 38.462 0.00 0.00 0.00 4.00
2281 3033 4.393371 TGAGTATTGAGCTATCGATCTCCG 59.607 45.833 0.00 0.00 40.25 4.63
3076 3835 2.393271 AGGTATGCAGTCTGACTTGC 57.607 50.000 18.87 18.87 0.00 4.01
3077 3836 4.081972 ACAGTAGGTATGCAGTCTGACTTG 60.082 45.833 7.77 5.33 0.00 3.16
3085 3844 3.366396 AGTAGCACAGTAGGTATGCAGT 58.634 45.455 0.00 0.00 41.97 4.40
3200 3965 4.707105 TGGCACACCATATCTATGAACTG 58.293 43.478 0.00 0.00 42.67 3.16
3279 4070 5.045869 TGCTACTATCAAAAGGCAGTTAGGT 60.046 40.000 0.00 0.00 0.00 3.08
3299 4090 4.623932 AGACACAATCAGGAACTTGCTA 57.376 40.909 0.00 0.00 34.60 3.49
3324 4115 1.466025 CCACATGCACAAGCCCAACT 61.466 55.000 0.00 0.00 41.13 3.16
3403 4194 6.551385 GTCAATCAGACAATCACAAGACTT 57.449 37.500 0.00 0.00 46.77 3.01
3417 4208 3.921119 AAATTTGCGCAGTCAATCAGA 57.079 38.095 11.31 0.00 0.00 3.27
3418 4209 4.089493 CAGAAAATTTGCGCAGTCAATCAG 59.911 41.667 11.31 1.44 0.00 2.90
3419 4210 3.982701 CAGAAAATTTGCGCAGTCAATCA 59.017 39.130 11.31 0.00 0.00 2.57
3420 4211 3.181537 GCAGAAAATTTGCGCAGTCAATC 60.182 43.478 11.31 8.31 0.00 2.67
3421 4212 2.733026 GCAGAAAATTTGCGCAGTCAAT 59.267 40.909 11.31 4.87 0.00 2.57
3422 4213 2.126467 GCAGAAAATTTGCGCAGTCAA 58.874 42.857 11.31 2.00 0.00 3.18
3423 4214 1.337703 AGCAGAAAATTTGCGCAGTCA 59.662 42.857 11.31 0.00 45.98 3.41
3424 4215 2.056094 AGCAGAAAATTTGCGCAGTC 57.944 45.000 11.31 4.62 45.98 3.51
3602 4396 0.388134 TTTGGTCGACTGCTACGCTC 60.388 55.000 16.46 0.00 0.00 5.03
3842 4637 6.298441 TGAAGTCATGGAGATAACATGTGA 57.702 37.500 0.00 0.00 44.57 3.58
3848 4643 3.135530 AGCCCTGAAGTCATGGAGATAAC 59.864 47.826 6.79 0.00 34.09 1.89
3863 4658 1.533033 TCGTTGTGAGGAGCCCTGA 60.533 57.895 0.00 0.00 31.76 3.86
3916 4711 2.654079 CCTGCTCAGGCTCCGTTCT 61.654 63.158 2.59 0.00 42.44 3.01
3959 4754 6.678568 TCCTATCATCTTCAGAATCTTCCC 57.321 41.667 0.00 0.00 0.00 3.97
4203 5001 3.890756 TCCAAGTCATTGAACATGCAAGT 59.109 39.130 0.00 0.00 38.83 3.16
4204 5002 4.508461 TCCAAGTCATTGAACATGCAAG 57.492 40.909 0.00 0.00 38.83 4.01
4205 5003 4.811908 CATCCAAGTCATTGAACATGCAA 58.188 39.130 0.00 0.00 38.83 4.08
4206 5004 3.367600 GCATCCAAGTCATTGAACATGCA 60.368 43.478 0.00 0.00 40.21 3.96
4207 5005 3.119245 AGCATCCAAGTCATTGAACATGC 60.119 43.478 0.00 9.59 40.47 4.06
4208 5006 4.713824 AGCATCCAAGTCATTGAACATG 57.286 40.909 0.00 0.00 38.83 3.21
4209 5007 5.503927 AGTAGCATCCAAGTCATTGAACAT 58.496 37.500 0.00 0.00 38.83 2.71
4211 5009 5.181748 AGAGTAGCATCCAAGTCATTGAAC 58.818 41.667 0.00 0.00 38.83 3.18
4212 5010 5.426689 AGAGTAGCATCCAAGTCATTGAA 57.573 39.130 0.00 0.00 38.83 2.69
4213 5011 5.181009 CAAGAGTAGCATCCAAGTCATTGA 58.819 41.667 0.00 0.00 38.83 2.57
4214 5012 4.201891 GCAAGAGTAGCATCCAAGTCATTG 60.202 45.833 0.00 0.00 36.09 2.82
4215 5013 3.944015 GCAAGAGTAGCATCCAAGTCATT 59.056 43.478 0.00 0.00 0.00 2.57
4259 5057 4.865365 GGCACGGTATAGATAGCAGAATTC 59.135 45.833 0.00 0.00 0.00 2.17
4269 5067 3.194968 CGAAATAGGGGCACGGTATAGAT 59.805 47.826 0.00 0.00 0.00 1.98
4303 5101 1.860950 CGATTCCATCCGTAGTTGCAG 59.139 52.381 0.00 0.00 0.00 4.41
4386 5184 4.492570 CGCCGACTAAAATTCATCAGACAC 60.493 45.833 0.00 0.00 0.00 3.67
4424 5222 5.690865 ACTGATTGAACAAGTAACCAAGGA 58.309 37.500 0.00 0.00 0.00 3.36
4816 7180 5.584649 GGAATCATCGTAACCATGAAGTCAA 59.415 40.000 0.00 0.00 33.94 3.18
4828 7192 4.746535 TTGCTACTGGGAATCATCGTAA 57.253 40.909 0.00 0.00 0.00 3.18
4858 7271 6.543831 AGAAATGGGTACATTGATCTAACTGC 59.456 38.462 0.00 0.00 46.25 4.40
4930 7978 7.466746 AGATGCTCTTAGAATCTCTATCACC 57.533 40.000 0.00 0.00 35.70 4.02
4961 8009 2.438975 ACCGGTCACTATCCGCGA 60.439 61.111 8.23 0.00 45.71 5.87
4997 8045 8.514594 TCTAATTTGAGACATCCAATTGTGAAC 58.485 33.333 4.43 0.00 33.90 3.18
5005 8053 7.230747 TGAGGTTTCTAATTTGAGACATCCAA 58.769 34.615 17.66 3.19 33.05 3.53
5011 8059 8.110860 TGGATTTGAGGTTTCTAATTTGAGAC 57.889 34.615 2.57 2.57 30.54 3.36
5042 8090 4.667262 TCGGTTTGCATTGCATGTAATAC 58.333 39.130 12.95 4.25 38.76 1.89
5045 8093 3.650070 TTCGGTTTGCATTGCATGTAA 57.350 38.095 12.95 0.00 38.76 2.41
5046 8094 3.443329 AGATTCGGTTTGCATTGCATGTA 59.557 39.130 12.95 0.00 38.76 2.29
5047 8095 2.231964 AGATTCGGTTTGCATTGCATGT 59.768 40.909 12.95 0.00 38.76 3.21
5048 8096 2.883574 AGATTCGGTTTGCATTGCATG 58.116 42.857 12.95 3.45 38.76 4.06
5049 8097 3.598019 AAGATTCGGTTTGCATTGCAT 57.402 38.095 12.95 0.00 38.76 3.96
5050 8098 4.022416 ACTTAAGATTCGGTTTGCATTGCA 60.022 37.500 10.09 7.38 36.47 4.08
5051 8099 4.324402 CACTTAAGATTCGGTTTGCATTGC 59.676 41.667 10.09 0.46 0.00 3.56
5055 8103 3.745799 TCCACTTAAGATTCGGTTTGCA 58.254 40.909 10.09 0.00 0.00 4.08
5056 8104 3.426292 GCTCCACTTAAGATTCGGTTTGC 60.426 47.826 10.09 6.94 0.00 3.68
5158 8206 0.385751 CGGCGTGTCTCATGTCCTAT 59.614 55.000 0.00 0.00 0.00 2.57
5194 8244 4.552365 CATGGGAGATGGCGGCGT 62.552 66.667 9.37 2.02 0.00 5.68
5226 8276 2.046892 CCTCAAGCACCGTCAGGG 60.047 66.667 0.00 0.00 43.47 4.45
5227 8277 2.046892 CCCTCAAGCACCGTCAGG 60.047 66.667 0.00 0.00 45.13 3.86
5228 8278 1.079543 CTCCCTCAAGCACCGTCAG 60.080 63.158 0.00 0.00 0.00 3.51
5229 8279 1.816863 GACTCCCTCAAGCACCGTCA 61.817 60.000 0.00 0.00 0.00 4.35
5230 8280 1.079750 GACTCCCTCAAGCACCGTC 60.080 63.158 0.00 0.00 0.00 4.79
5231 8281 2.584391 GGACTCCCTCAAGCACCGT 61.584 63.158 0.00 0.00 0.00 4.83
5232 8282 2.266055 GGACTCCCTCAAGCACCG 59.734 66.667 0.00 0.00 0.00 4.94
5233 8283 1.298014 CAGGACTCCCTCAAGCACC 59.702 63.158 0.00 0.00 42.02 5.01
5234 8284 1.194781 TCCAGGACTCCCTCAAGCAC 61.195 60.000 0.00 0.00 42.02 4.40
5235 8285 1.158466 TCCAGGACTCCCTCAAGCA 59.842 57.895 0.00 0.00 42.02 3.91
5236 8286 0.907230 AGTCCAGGACTCCCTCAAGC 60.907 60.000 17.31 0.00 38.71 4.01
5237 8287 2.383855 CTAGTCCAGGACTCCCTCAAG 58.616 57.143 26.42 12.66 42.40 3.02
5238 8288 2.534042 CTAGTCCAGGACTCCCTCAA 57.466 55.000 26.42 6.35 42.40 3.02
5248 8298 4.051932 GACACCCCCTAGTCCAGG 57.948 66.667 0.00 0.00 45.07 4.45
5252 8302 0.186873 TATCCGGACACCCCCTAGTC 59.813 60.000 6.12 0.00 0.00 2.59
5253 8303 0.187851 CTATCCGGACACCCCCTAGT 59.812 60.000 6.12 0.00 0.00 2.57
5254 8304 1.186267 GCTATCCGGACACCCCCTAG 61.186 65.000 6.12 3.64 0.00 3.02
5255 8305 1.152398 GCTATCCGGACACCCCCTA 60.152 63.158 6.12 0.00 0.00 3.53
5256 8306 2.446036 GCTATCCGGACACCCCCT 60.446 66.667 6.12 0.00 0.00 4.79
5257 8307 3.557290 GGCTATCCGGACACCCCC 61.557 72.222 6.12 0.00 0.00 5.40
5269 8319 2.690497 CCGATGATGATAGTCCGGCTAT 59.310 50.000 15.50 15.50 42.75 2.97
5270 8320 2.092323 CCGATGATGATAGTCCGGCTA 58.908 52.381 0.00 1.72 0.00 3.93
5271 8321 0.891373 CCGATGATGATAGTCCGGCT 59.109 55.000 0.00 0.00 0.00 5.52
5272 8322 3.425578 CCGATGATGATAGTCCGGC 57.574 57.895 0.00 0.00 0.00 6.13
5273 8323 0.108615 GGCCGATGATGATAGTCCGG 60.109 60.000 0.00 0.00 39.88 5.14
5274 8324 0.456824 CGGCCGATGATGATAGTCCG 60.457 60.000 24.07 0.00 0.00 4.79
5275 8325 0.108615 CCGGCCGATGATGATAGTCC 60.109 60.000 30.73 0.00 0.00 3.85
5276 8326 0.888619 TCCGGCCGATGATGATAGTC 59.111 55.000 30.73 0.00 0.00 2.59
5277 8327 0.603569 GTCCGGCCGATGATGATAGT 59.396 55.000 30.73 0.00 0.00 2.12
5278 8328 0.891373 AGTCCGGCCGATGATGATAG 59.109 55.000 30.73 6.27 0.00 2.08
5279 8329 0.888619 GAGTCCGGCCGATGATGATA 59.111 55.000 30.73 0.00 0.00 2.15
5280 8330 1.668294 GAGTCCGGCCGATGATGAT 59.332 57.895 30.73 6.58 0.00 2.45
5281 8331 2.498941 GGAGTCCGGCCGATGATGA 61.499 63.158 30.73 12.55 0.00 2.92
5282 8332 2.029666 GGAGTCCGGCCGATGATG 59.970 66.667 30.73 9.82 0.00 3.07
5283 8333 2.032860 CTTGGAGTCCGGCCGATGAT 62.033 60.000 30.73 9.58 0.00 2.45
5284 8334 2.682136 TTGGAGTCCGGCCGATGA 60.682 61.111 30.73 14.33 0.00 2.92
5285 8335 2.202932 CTTGGAGTCCGGCCGATG 60.203 66.667 30.73 11.63 0.00 3.84
5286 8336 2.363795 TCTTGGAGTCCGGCCGAT 60.364 61.111 30.73 12.65 0.00 4.18
5287 8337 2.488771 TAGTCTTGGAGTCCGGCCGA 62.489 60.000 30.73 10.38 0.00 5.54
5288 8338 1.392710 ATAGTCTTGGAGTCCGGCCG 61.393 60.000 21.04 21.04 0.00 6.13
5289 8339 0.105039 CATAGTCTTGGAGTCCGGCC 59.895 60.000 4.30 0.00 0.00 6.13
5290 8340 1.112113 TCATAGTCTTGGAGTCCGGC 58.888 55.000 4.30 0.00 0.00 6.13
5291 8341 3.024547 TCTTCATAGTCTTGGAGTCCGG 58.975 50.000 4.30 0.00 0.00 5.14
5292 8342 4.927978 ATCTTCATAGTCTTGGAGTCCG 57.072 45.455 4.30 0.00 0.00 4.79
5293 8343 6.716934 TGTATCTTCATAGTCTTGGAGTCC 57.283 41.667 0.73 0.73 0.00 3.85
5294 8344 8.001881 TCTTGTATCTTCATAGTCTTGGAGTC 57.998 38.462 0.00 0.00 0.00 3.36
5295 8345 7.962995 TCTTGTATCTTCATAGTCTTGGAGT 57.037 36.000 0.00 0.00 0.00 3.85
5296 8346 9.258826 CAATCTTGTATCTTCATAGTCTTGGAG 57.741 37.037 0.00 0.00 0.00 3.86
5297 8347 8.981659 TCAATCTTGTATCTTCATAGTCTTGGA 58.018 33.333 0.00 0.00 0.00 3.53
5298 8348 9.605275 TTCAATCTTGTATCTTCATAGTCTTGG 57.395 33.333 0.00 0.00 0.00 3.61


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

AutoCloner maintained by Alex Coulton.