Multiple sequence alignment - TraesCS4D01G202800

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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 TraesCS4D01G202800 chr4D 100.000 4053 0 0 1 4053 349565299 349561247 0.000000e+00 7485.0
1 TraesCS4D01G202800 chr4A 91.795 1950 128 12 2073 4020 115304032 115305951 0.000000e+00 2686.0
2 TraesCS4D01G202800 chr4A 93.622 1176 34 11 744 1919 115301684 115302818 0.000000e+00 1718.0
3 TraesCS4D01G202800 chr4A 89.292 607 62 3 3109 3714 161603603 161604207 0.000000e+00 758.0
4 TraesCS4D01G202800 chr4A 88.689 610 67 2 3109 3717 113631306 113631914 0.000000e+00 743.0
5 TraesCS4D01G202800 chr4A 94.052 269 11 2 485 748 115295229 115295497 1.750000e-108 403.0
6 TraesCS4D01G202800 chr4A 92.806 139 8 2 1950 2086 49260514 49260652 2.470000e-47 200.0
7 TraesCS4D01G202800 chr4B 93.765 1684 95 3 2073 3755 432787775 432786101 0.000000e+00 2519.0
8 TraesCS4D01G202800 chr4B 94.673 1239 47 7 721 1951 432789042 432787815 0.000000e+00 1905.0
9 TraesCS4D01G202800 chr4B 89.787 470 32 6 485 954 432790245 432789792 4.510000e-164 588.0
10 TraesCS4D01G202800 chr4B 93.255 341 21 2 3715 4053 451722835 451722495 6.050000e-138 501.0
11 TraesCS4D01G202800 chr1D 89.672 610 60 2 3109 3718 280041207 280040601 0.000000e+00 774.0
12 TraesCS4D01G202800 chr1D 77.990 418 78 11 2099 2510 437000517 437000108 2.420000e-62 250.0
13 TraesCS4D01G202800 chr7A 89.491 609 64 0 3111 3719 410408051 410408659 0.000000e+00 771.0
14 TraesCS4D01G202800 chr7A 92.669 341 23 2 3715 4053 503348344 503348004 1.310000e-134 490.0
15 TraesCS4D01G202800 chr1B 89.233 613 66 0 3109 3721 169997612 169997000 0.000000e+00 767.0
16 TraesCS4D01G202800 chr1B 88.657 432 49 0 54 485 45206254 45206685 9.980000e-146 527.0
17 TraesCS4D01G202800 chr1B 87.731 432 53 0 54 485 402051879 402052310 4.680000e-139 505.0
18 TraesCS4D01G202800 chr1B 92.878 337 21 2 3718 4051 269446494 269446158 1.690000e-133 486.0
19 TraesCS4D01G202800 chr1B 83.565 432 71 0 54 485 537466135 537466566 4.880000e-109 405.0
20 TraesCS4D01G202800 chr1B 77.512 418 82 9 2099 2510 592172866 592172455 1.460000e-59 241.0
21 TraesCS4D01G202800 chr1B 95.349 129 5 1 1948 2075 681792490 681792362 1.910000e-48 204.0
22 TraesCS4D01G202800 chr1B 94.545 55 3 0 1 55 402051780 402051834 7.220000e-13 86.1
23 TraesCS4D01G202800 chr6D 89.327 609 63 2 3109 3717 165407912 165407306 0.000000e+00 763.0
24 TraesCS4D01G202800 chr6D 92.733 344 23 2 3712 4053 301658837 301659180 2.810000e-136 496.0
25 TraesCS4D01G202800 chr2D 88.511 618 64 7 3109 3725 327393445 327392834 0.000000e+00 741.0
26 TraesCS4D01G202800 chr2D 93.976 332 19 1 3723 4053 455885234 455885565 6.050000e-138 501.0
27 TraesCS4D01G202800 chr2D 92.878 337 23 1 3718 4053 274615389 274615053 4.710000e-134 488.0
28 TraesCS4D01G202800 chr2D 77.665 394 85 3 2120 2511 174324525 174324917 1.880000e-58 237.0
29 TraesCS4D01G202800 chr5A 88.274 614 66 3 3109 3717 450563432 450562820 0.000000e+00 730.0
30 TraesCS4D01G202800 chr2B 94.200 431 24 1 55 485 196539314 196538885 0.000000e+00 656.0
31 TraesCS4D01G202800 chr2B 84.491 432 67 0 54 485 380258207 380257776 1.040000e-115 427.0
32 TraesCS4D01G202800 chr2B 94.776 134 6 1 1943 2075 656161207 656161340 1.480000e-49 207.0
33 TraesCS4D01G202800 chr2B 94.737 133 6 1 1948 2079 492619560 492619692 5.310000e-49 206.0
34 TraesCS4D01G202800 chr6B 93.056 432 30 0 54 485 88186457 88186888 2.060000e-177 632.0
35 TraesCS4D01G202800 chr6B 80.247 324 62 2 2171 2493 689032316 689031994 4.050000e-60 243.0
36 TraesCS4D01G202800 chr6B 96.850 127 3 1 1950 2075 394838243 394838369 1.140000e-50 211.0
37 TraesCS4D01G202800 chr6B 95.385 130 5 1 1947 2075 234690701 234690572 5.310000e-49 206.0
38 TraesCS4D01G202800 chr6B 80.876 251 46 2 1285 1534 689033184 689032935 3.200000e-46 196.0
39 TraesCS4D01G202800 chr3D 92.733 344 21 4 3712 4053 473422974 473423315 1.010000e-135 494.0
40 TraesCS4D01G202800 chr3D 79.045 377 66 10 2152 2523 610805007 610804639 3.130000e-61 246.0
41 TraesCS4D01G202800 chr7D 92.669 341 22 3 3715 4052 204955959 204955619 4.710000e-134 488.0
42 TraesCS4D01G202800 chr7D 76.847 406 86 8 2112 2513 78214189 78213788 5.270000e-54 222.0
43 TraesCS4D01G202800 chr3B 83.333 432 72 0 54 485 381031508 381031077 2.270000e-107 399.0
44 TraesCS4D01G202800 chr3B 83.289 377 63 0 54 430 783105125 783105501 8.340000e-92 348.0
45 TraesCS4D01G202800 chr3B 79.521 376 69 8 2152 2523 828420997 828420626 1.120000e-65 261.0
46 TraesCS4D01G202800 chr3B 89.894 188 18 1 298 485 250246674 250246860 1.460000e-59 241.0
47 TraesCS4D01G202800 chr6A 79.953 424 79 6 1114 1534 599831943 599831523 1.420000e-79 307.0
48 TraesCS4D01G202800 chr1A 78.841 397 76 5 2118 2510 534051262 534050870 1.120000e-65 261.0
49 TraesCS4D01G202800 chr2A 78.406 389 80 4 2125 2511 174245677 174246063 2.420000e-62 250.0
50 TraesCS4D01G202800 chr2A 77.722 395 84 4 2120 2511 174027287 174027680 5.240000e-59 239.0
51 TraesCS4D01G202800 chr2A 94.161 137 6 2 1941 2076 389220646 389220781 1.480000e-49 207.0
52 TraesCS4D01G202800 chr7B 77.540 374 80 4 2143 2514 25636460 25636089 5.270000e-54 222.0
53 TraesCS4D01G202800 chr7B 92.308 143 8 3 1934 2075 86170372 86170232 2.470000e-47 200.0
54 TraesCS4D01G202800 chr7B 75.676 370 87 3 2625 2992 25635995 25635627 8.950000e-42 182.0
55 TraesCS4D01G202800 chrUn 96.850 127 3 1 1950 2075 93156331 93156457 1.140000e-50 211.0
56 TraesCS4D01G202800 chr3A 77.446 368 73 8 2152 2514 745513504 745513142 1.140000e-50 211.0


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 TraesCS4D01G202800 chr4D 349561247 349565299 4052 True 7485.000000 7485 100.000000 1 4053 1 chr4D.!!$R1 4052
1 TraesCS4D01G202800 chr4A 115301684 115305951 4267 False 2202.000000 2686 92.708500 744 4020 2 chr4A.!!$F5 3276
2 TraesCS4D01G202800 chr4A 161603603 161604207 604 False 758.000000 758 89.292000 3109 3714 1 chr4A.!!$F4 605
3 TraesCS4D01G202800 chr4A 113631306 113631914 608 False 743.000000 743 88.689000 3109 3717 1 chr4A.!!$F2 608
4 TraesCS4D01G202800 chr4B 432786101 432790245 4144 True 1670.666667 2519 92.741667 485 3755 3 chr4B.!!$R2 3270
5 TraesCS4D01G202800 chr1D 280040601 280041207 606 True 774.000000 774 89.672000 3109 3718 1 chr1D.!!$R1 609
6 TraesCS4D01G202800 chr7A 410408051 410408659 608 False 771.000000 771 89.491000 3111 3719 1 chr7A.!!$F1 608
7 TraesCS4D01G202800 chr1B 169997000 169997612 612 True 767.000000 767 89.233000 3109 3721 1 chr1B.!!$R1 612
8 TraesCS4D01G202800 chr1B 402051780 402052310 530 False 295.550000 505 91.138000 1 485 2 chr1B.!!$F3 484
9 TraesCS4D01G202800 chr6D 165407306 165407912 606 True 763.000000 763 89.327000 3109 3717 1 chr6D.!!$R1 608
10 TraesCS4D01G202800 chr2D 327392834 327393445 611 True 741.000000 741 88.511000 3109 3725 1 chr2D.!!$R2 616
11 TraesCS4D01G202800 chr5A 450562820 450563432 612 True 730.000000 730 88.274000 3109 3717 1 chr5A.!!$R1 608
12 TraesCS4D01G202800 chr6B 689031994 689033184 1190 True 219.500000 243 80.561500 1285 2493 2 chr6B.!!$R2 1208
13 TraesCS4D01G202800 chr7B 25635627 25636460 833 True 202.000000 222 76.608000 2143 2992 2 chr7B.!!$R2 849

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
812 859 0.173029 CAGATGAGACTGCGACAGCT 59.827 55.0 6.74 5.47 45.42 4.24 F
816 863 0.601046 TGAGACTGCGACAGCTTTGG 60.601 55.0 6.74 0.00 45.42 3.28 F
905 1931 1.499368 TGTGCAGCTCCATCCATCTA 58.501 50.0 0.00 0.00 0.00 1.98 F
1968 4148 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.0 5.23 0.00 44.66 2.17 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1657 2737 0.036010 ATCTGCCCACCAACTCTTCG 60.036 55.0 0.00 0.0 0.0 3.79 R
1729 2809 0.890996 CGGCCAGGTTTTTGAGCTCT 60.891 55.0 16.19 0.0 32.7 4.09 R
2847 5054 0.521735 AAGAAACGCGCCTGAATTCC 59.478 50.0 5.73 0.0 0.0 3.01 R
3641 5853 2.392933 TTTAAACCGTCGCTTTGCTG 57.607 45.0 0.00 0.0 0.0 4.41 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
17 18 4.841617 TGGCTCCGGCGATCCTCT 62.842 66.667 9.30 0.00 39.81 3.69
78 125 3.028850 CCAGATTTGCCAGACCATCAAT 58.971 45.455 0.00 0.00 0.00 2.57
79 126 3.181479 CCAGATTTGCCAGACCATCAATG 60.181 47.826 0.00 0.00 0.00 2.82
81 128 3.446161 AGATTTGCCAGACCATCAATGTG 59.554 43.478 0.00 0.00 0.00 3.21
115 162 3.322466 CCTTCCTCGTGCCTGGGT 61.322 66.667 0.00 0.00 0.00 4.51
134 181 0.179111 TTGGCTCCGTCGATGATCAC 60.179 55.000 6.11 0.00 0.00 3.06
137 184 0.179137 GCTCCGTCGATGATCACACA 60.179 55.000 6.11 0.00 0.00 3.72
150 197 2.030562 ACACAAACCCTCTCGGCG 59.969 61.111 0.00 0.00 33.26 6.46
156 203 4.779733 ACCCTCTCGGCGGTGGAT 62.780 66.667 7.21 0.00 33.26 3.41
159 206 2.725008 CTCTCGGCGGTGGATCTC 59.275 66.667 7.21 0.00 0.00 2.75
172 219 2.765807 ATCTCCCCGTGCTCCAGG 60.766 66.667 0.00 0.00 0.00 4.45
177 224 4.394712 CCCGTGCTCCAGGTGGAC 62.395 72.222 3.12 3.12 39.78 4.02
186 233 4.709840 CAGGTGGACTGGCTGAAG 57.290 61.111 0.00 0.00 43.70 3.02
189 236 0.768221 AGGTGGACTGGCTGAAGGAA 60.768 55.000 0.00 0.00 0.00 3.36
192 239 1.003580 GTGGACTGGCTGAAGGAATGA 59.996 52.381 0.00 0.00 0.00 2.57
223 270 0.967380 GGTTGCCACCTCATTCCAGG 60.967 60.000 0.00 0.00 40.44 4.45
224 271 1.304381 TTGCCACCTCATTCCAGGC 60.304 57.895 0.00 0.00 45.41 4.85
231 278 1.064166 ACCTCATTCCAGGCCTGAATG 60.064 52.381 34.91 32.72 36.98 2.67
255 302 0.817634 CGGTGCACTCCCAAAACAGA 60.818 55.000 17.98 0.00 0.00 3.41
258 305 1.956477 GTGCACTCCCAAAACAGATGT 59.044 47.619 10.32 0.00 0.00 3.06
264 311 3.138304 CTCCCAAAACAGATGTGACGAA 58.862 45.455 0.00 0.00 0.00 3.85
282 329 1.887198 GAAGTCTCGAGGTTGTGGAGA 59.113 52.381 13.56 0.00 37.67 3.71
306 353 2.498167 AGCTGGCAGAAGTAGTTGTTG 58.502 47.619 20.86 0.00 0.00 3.33
315 362 3.650942 AGAAGTAGTTGTTGGTCCATCCA 59.349 43.478 0.00 0.00 45.60 3.41
330 377 1.133982 CATCCACGTCTCTGGAGTCTG 59.866 57.143 0.00 0.00 43.82 3.51
345 392 1.066858 AGTCTGTCGTTGCACCATAGG 60.067 52.381 0.00 0.00 0.00 2.57
368 415 0.686789 TCTAAGTGCAGCAGCCAGAA 59.313 50.000 0.00 0.00 41.13 3.02
369 416 1.072173 TCTAAGTGCAGCAGCCAGAAA 59.928 47.619 0.00 0.00 41.13 2.52
390 437 3.710209 AGGACTTTCATCTTGTCAGGG 57.290 47.619 0.00 0.00 32.84 4.45
396 443 1.139498 TCATCTTGTCAGGGGCCCAA 61.139 55.000 27.72 9.88 0.00 4.12
409 456 1.304282 GCCCAAGCCTTCCAGATGA 59.696 57.895 0.00 0.00 0.00 2.92
423 470 3.008266 TCCAGATGATTGCTGTGAAGTCA 59.992 43.478 0.00 0.00 0.00 3.41
426 473 3.439476 AGATGATTGCTGTGAAGTCAAGC 59.561 43.478 7.91 7.91 0.00 4.01
433 480 3.936203 TGAAGTCAAGCGCCGGGT 61.936 61.111 2.29 0.00 0.00 5.28
444 491 2.741211 GCCGGGTGGTCTTCGAAC 60.741 66.667 2.18 0.00 37.67 3.95
447 494 1.374252 CGGGTGGTCTTCGAACTGG 60.374 63.158 0.00 0.00 0.00 4.00
475 522 2.178521 CGAAGCGCGTGGAGTAGT 59.821 61.111 8.43 0.00 34.64 2.73
476 523 1.443872 CGAAGCGCGTGGAGTAGTT 60.444 57.895 8.43 0.00 34.64 2.24
496 543 5.176592 AGTTGCCGGAGTATTTTCTAAGAC 58.823 41.667 5.05 0.00 0.00 3.01
503 550 5.978322 CGGAGTATTTTCTAAGACTAGGCAC 59.022 44.000 0.00 0.00 36.02 5.01
538 585 6.751888 GTGTTTGTATTGTCAAAGATATGGCC 59.248 38.462 0.00 0.00 37.87 5.36
547 594 7.514784 TGTCAAAGATATGGCCATAATCTTG 57.485 36.000 30.46 27.64 32.56 3.02
574 621 4.691860 AGAGCGGAATGTCAGATTTTTG 57.308 40.909 0.00 0.00 0.00 2.44
586 633 2.940410 CAGATTTTTGGGCATGGCAATC 59.060 45.455 22.06 19.28 0.00 2.67
618 665 8.545229 TTTTTATGGCAATTTATGTTGAGGTG 57.455 30.769 0.00 0.00 0.00 4.00
619 666 7.473735 TTTATGGCAATTTATGTTGAGGTGA 57.526 32.000 0.00 0.00 0.00 4.02
620 667 5.999205 ATGGCAATTTATGTTGAGGTGAA 57.001 34.783 0.00 0.00 0.00 3.18
623 670 5.716228 TGGCAATTTATGTTGAGGTGAAGAT 59.284 36.000 0.00 0.00 0.00 2.40
635 682 8.677300 TGTTGAGGTGAAGATGATAAATTTAGC 58.323 33.333 6.51 6.51 0.00 3.09
637 684 8.442632 TGAGGTGAAGATGATAAATTTAGCTG 57.557 34.615 14.13 0.00 0.00 4.24
646 693 9.135189 AGATGATAAATTTAGCTGGCAAACATA 57.865 29.630 14.13 0.00 0.00 2.29
655 702 4.236935 AGCTGGCAAACATAACAATTTCG 58.763 39.130 0.00 0.00 0.00 3.46
658 705 3.738282 TGGCAAACATAACAATTTCGTGC 59.262 39.130 0.00 0.00 0.00 5.34
661 708 4.388469 GCAAACATAACAATTTCGTGCCAT 59.612 37.500 0.00 0.00 0.00 4.40
684 731 5.993055 TGATAATGAACTGAGGCAGATTCA 58.007 37.500 0.82 7.86 36.64 2.57
732 779 1.680338 ATCTAATTTGGCTCCGTGGC 58.320 50.000 0.00 0.00 42.18 5.01
754 801 1.134401 AGCACGGTGATGGGTAGAATG 60.134 52.381 13.29 0.00 0.00 2.67
757 804 1.913419 ACGGTGATGGGTAGAATGGTT 59.087 47.619 0.00 0.00 0.00 3.67
805 852 2.999355 GTCAAAGTCCAGATGAGACTGC 59.001 50.000 5.19 0.00 43.77 4.40
812 859 0.173029 CAGATGAGACTGCGACAGCT 59.827 55.000 6.74 5.47 45.42 4.24
813 860 0.894141 AGATGAGACTGCGACAGCTT 59.106 50.000 6.74 0.00 45.42 3.74
816 863 0.601046 TGAGACTGCGACAGCTTTGG 60.601 55.000 6.74 0.00 45.42 3.28
841 888 7.169308 GGTATTGTCGTATTGATAGTGAAGGTG 59.831 40.741 0.00 0.00 0.00 4.00
858 905 7.714377 AGTGAAGGTGATAGCATTATTCTCTTG 59.286 37.037 0.00 0.00 0.00 3.02
876 1902 6.466812 TCTCTTGCTAGTCAAATGATGTTGA 58.533 36.000 0.00 0.00 35.14 3.18
905 1931 1.499368 TGTGCAGCTCCATCCATCTA 58.501 50.000 0.00 0.00 0.00 1.98
906 1932 2.052468 TGTGCAGCTCCATCCATCTAT 58.948 47.619 0.00 0.00 0.00 1.98
907 1933 3.242011 TGTGCAGCTCCATCCATCTATA 58.758 45.455 0.00 0.00 0.00 1.31
1076 2102 4.785453 CCTGCTCCCGACCCTTGC 62.785 72.222 0.00 0.00 0.00 4.01
1206 2232 2.266055 GGCGACCTCAGGGAACAG 59.734 66.667 0.00 0.00 36.25 3.16
1657 2737 2.127232 GAGTTTTCGGCGTGCTGC 60.127 61.111 6.85 0.00 45.38 5.25
1729 2809 0.546122 ACGAGCTGGATATTTGGCCA 59.454 50.000 0.00 0.00 0.00 5.36
1861 2941 2.420022 CGCAAACATTCGGAGGATTCTT 59.580 45.455 0.00 0.00 0.00 2.52
1954 4134 8.597662 TGAAATTACAGTTACACTTGTACTCC 57.402 34.615 0.00 0.00 0.00 3.85
1956 4136 6.930068 ATTACAGTTACACTTGTACTCCCT 57.070 37.500 0.00 0.00 0.00 4.20
1957 4137 4.868314 ACAGTTACACTTGTACTCCCTC 57.132 45.455 0.00 0.00 0.00 4.30
1958 4138 3.577415 ACAGTTACACTTGTACTCCCTCC 59.423 47.826 0.00 0.00 0.00 4.30
1960 4140 2.560105 GTTACACTTGTACTCCCTCCGT 59.440 50.000 0.00 0.00 0.00 4.69
1962 4142 0.531200 CACTTGTACTCCCTCCGTCC 59.469 60.000 0.00 0.00 0.00 4.79
1967 4147 0.967380 GTACTCCCTCCGTCCGGAAA 60.967 60.000 5.23 0.00 44.66 3.13
1968 4148 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
1969 4149 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
1970 4150 1.339097 CTCCCTCCGTCCGGAAATAT 58.661 55.000 5.23 0.00 44.66 1.28
1971 4151 1.692519 CTCCCTCCGTCCGGAAATATT 59.307 52.381 5.23 0.00 44.66 1.28
1972 4152 2.104281 CTCCCTCCGTCCGGAAATATTT 59.896 50.000 5.23 0.00 44.66 1.40
1973 4153 2.158871 TCCCTCCGTCCGGAAATATTTG 60.159 50.000 5.23 0.00 44.66 2.32
1974 4154 2.420967 CCCTCCGTCCGGAAATATTTGT 60.421 50.000 5.23 0.00 44.66 2.83
1975 4155 2.870411 CCTCCGTCCGGAAATATTTGTC 59.130 50.000 5.23 0.00 44.66 3.18
1976 4156 3.527533 CTCCGTCCGGAAATATTTGTCA 58.472 45.455 5.23 0.00 44.66 3.58
1977 4157 4.127171 CTCCGTCCGGAAATATTTGTCAT 58.873 43.478 5.23 0.00 44.66 3.06
1978 4158 4.124238 TCCGTCCGGAAATATTTGTCATC 58.876 43.478 5.23 0.00 42.05 2.92
1979 4159 3.874543 CCGTCCGGAAATATTTGTCATCA 59.125 43.478 5.23 0.00 37.50 3.07
1980 4160 4.334203 CCGTCCGGAAATATTTGTCATCAA 59.666 41.667 5.23 0.00 37.50 2.57
1981 4161 5.163703 CCGTCCGGAAATATTTGTCATCAAA 60.164 40.000 5.23 0.00 41.49 2.69
1982 4162 6.318628 CGTCCGGAAATATTTGTCATCAAAA 58.681 36.000 5.23 0.00 44.97 2.44
1983 4163 6.972328 CGTCCGGAAATATTTGTCATCAAAAT 59.028 34.615 5.23 0.00 44.97 1.82
1984 4164 7.044117 CGTCCGGAAATATTTGTCATCAAAATG 60.044 37.037 5.23 0.00 44.97 2.32
1985 4165 7.222611 GTCCGGAAATATTTGTCATCAAAATGG 59.777 37.037 5.23 0.00 44.97 3.16
1986 4166 7.123397 TCCGGAAATATTTGTCATCAAAATGGA 59.877 33.333 0.00 0.00 44.97 3.41
1987 4167 7.927629 CCGGAAATATTTGTCATCAAAATGGAT 59.072 33.333 5.17 0.00 44.97 3.41
1988 4168 9.964303 CGGAAATATTTGTCATCAAAATGGATA 57.036 29.630 5.17 0.00 44.97 2.59
1995 4175 7.789202 TTGTCATCAAAATGGATAAAAGGGA 57.211 32.000 0.00 0.00 33.42 4.20
1996 4176 7.976414 TGTCATCAAAATGGATAAAAGGGAT 57.024 32.000 0.00 0.00 33.42 3.85
1997 4177 7.784037 TGTCATCAAAATGGATAAAAGGGATG 58.216 34.615 0.00 0.00 33.42 3.51
1998 4178 7.399765 TGTCATCAAAATGGATAAAAGGGATGT 59.600 33.333 0.00 0.00 33.29 3.06
1999 4179 8.912988 GTCATCAAAATGGATAAAAGGGATGTA 58.087 33.333 0.00 0.00 33.29 2.29
2000 4180 9.659135 TCATCAAAATGGATAAAAGGGATGTAT 57.341 29.630 0.00 0.00 33.29 2.29
2001 4181 9.918630 CATCAAAATGGATAAAAGGGATGTATC 57.081 33.333 0.00 0.00 0.00 2.24
2002 4182 9.887862 ATCAAAATGGATAAAAGGGATGTATCT 57.112 29.630 0.00 0.00 0.00 1.98
2007 4187 8.742125 ATGGATAAAAGGGATGTATCTAGACA 57.258 34.615 0.00 0.00 0.00 3.41
2008 4188 8.742125 TGGATAAAAGGGATGTATCTAGACAT 57.258 34.615 0.00 0.00 42.82 3.06
2009 4189 9.837681 TGGATAAAAGGGATGTATCTAGACATA 57.162 33.333 0.00 0.00 40.18 2.29
2062 4242 8.741101 TTCATTTTGATGACAAGTATTTTCGG 57.259 30.769 0.00 0.00 37.32 4.30
2064 4244 8.020819 TCATTTTGATGACAAGTATTTTCGGAC 58.979 33.333 0.00 0.00 37.32 4.79
2065 4245 5.524511 TTGATGACAAGTATTTTCGGACG 57.475 39.130 0.00 0.00 0.00 4.79
2068 4248 5.347635 TGATGACAAGTATTTTCGGACGAAG 59.652 40.000 7.25 0.00 35.38 3.79
2069 4249 3.991773 TGACAAGTATTTTCGGACGAAGG 59.008 43.478 7.25 0.00 35.38 3.46
2071 4251 3.007182 ACAAGTATTTTCGGACGAAGGGA 59.993 43.478 7.25 0.00 35.38 4.20
2084 4271 5.745769 CGGACGAAGGGAGTAATAACTTAAC 59.254 44.000 0.00 0.00 35.56 2.01
2085 4272 5.745769 GGACGAAGGGAGTAATAACTTAACG 59.254 44.000 0.00 0.00 35.56 3.18
2095 4282 8.601476 GGAGTAATAACTTAACGAGGAACATTG 58.399 37.037 0.00 0.00 35.56 2.82
2107 4294 3.558033 AGGAACATTGTTTGTAACGGGT 58.442 40.909 3.08 0.00 37.68 5.28
2259 4461 3.191371 GCACCAAAGATGACTTACTTGGG 59.809 47.826 0.00 0.00 41.51 4.12
2393 4595 4.338682 GGAGACAACATCGGTACTACTCAT 59.661 45.833 0.00 0.00 0.00 2.90
2483 4685 6.038825 GGTTTATTTGGGAAAAACAAACCTGG 59.961 38.462 13.76 0.00 40.25 4.45
2532 4734 9.930693 AAAACGGTAAATATTTAATTGCCAGAA 57.069 25.926 9.48 0.00 31.55 3.02
2573 4779 8.682936 ATCCTTTATATGATGACACCAACTTC 57.317 34.615 0.00 0.00 0.00 3.01
2574 4780 7.054124 TCCTTTATATGATGACACCAACTTCC 58.946 38.462 0.00 0.00 0.00 3.46
2641 4847 3.474600 CATTCAGGTGACCATGATCCTC 58.525 50.000 3.63 0.00 0.00 3.71
2699 4905 0.901827 TAGCCGGAAGACATGCAAGA 59.098 50.000 5.05 0.00 0.00 3.02
2847 5054 0.462759 GGGATCTCCAAAGCGTCCAG 60.463 60.000 0.00 0.00 37.91 3.86
2866 5073 0.521735 GGAATTCAGGCGCGTTTCTT 59.478 50.000 8.43 0.00 0.00 2.52
3125 5332 2.696187 TGTGTGGTGTAACTGAGTGCTA 59.304 45.455 0.00 0.00 36.74 3.49
3170 5377 5.880054 AATGAAATCCTGGTTGTCGTAAG 57.120 39.130 0.00 0.00 0.00 2.34
3195 5402 8.035394 AGACGGATATGAAATATATGGTGTGTC 58.965 37.037 0.00 0.00 40.26 3.67
3265 5472 3.493176 CCAATTAGCTTGCTTATTGGGGC 60.493 47.826 30.33 0.00 42.02 5.80
3291 5498 2.839486 TTGCAGACGGTTTCTCAGAT 57.161 45.000 0.00 0.00 28.96 2.90
3408 5615 3.117813 ACTGTTTGTGTTAGGCCACCTTA 60.118 43.478 5.01 0.00 34.61 2.69
3613 5821 1.404047 CCGATGGTTTTTGGGTCATGC 60.404 52.381 0.00 0.00 0.00 4.06
3641 5853 3.873812 CCCCCTATCGCCCACACC 61.874 72.222 0.00 0.00 0.00 4.16
3669 5881 2.540931 GCGACGGTTTAAAACTCTGTCA 59.459 45.455 13.62 0.00 32.39 3.58
3768 5980 6.357367 TCCTTATATCTTCCTCAAAACAGCC 58.643 40.000 0.00 0.00 0.00 4.85
3770 5982 6.774656 CCTTATATCTTCCTCAAAACAGCCAT 59.225 38.462 0.00 0.00 0.00 4.40
3794 6006 6.414732 TCATACCTACCTATTATGGCATTGC 58.585 40.000 4.78 0.00 0.00 3.56
3830 6042 5.583457 CGAGATATATTGCCATGCATCTTCA 59.417 40.000 0.00 0.00 38.76 3.02
3831 6043 6.260271 CGAGATATATTGCCATGCATCTTCAT 59.740 38.462 0.00 0.00 38.76 2.57
3853 6066 8.572855 TCATTGTTCCATTATTATGACACACA 57.427 30.769 0.00 0.00 33.37 3.72
3862 6075 9.620660 CCATTATTATGACACACATCATCATTG 57.379 33.333 0.00 0.00 39.97 2.82
3871 6084 6.500910 ACACACATCATCATTGTCATATTGC 58.499 36.000 0.00 0.00 0.00 3.56
3891 6104 5.622770 TGCTTTGCATGATCATATAGCTG 57.377 39.130 21.21 8.91 31.71 4.24
3893 6106 5.180680 TGCTTTGCATGATCATATAGCTGAC 59.819 40.000 21.21 10.05 31.71 3.51
3908 6121 3.198068 AGCTGACATAGTATTTGTGGCG 58.802 45.455 0.00 0.00 31.74 5.69
3911 6124 3.339141 TGACATAGTATTTGTGGCGCAA 58.661 40.909 10.83 9.85 34.87 4.85
3925 6138 1.366111 GCGCAACCACCGTACATCAT 61.366 55.000 0.30 0.00 0.00 2.45
3962 6175 2.479275 CGCTAGATCATTGCACATCCTG 59.521 50.000 0.00 0.00 0.00 3.86
3972 6185 1.596934 CACATCCTGGTACACCGCT 59.403 57.895 0.00 0.00 39.43 5.52
3988 6201 4.081972 ACACCGCTAGAGGCATTCATATAG 60.082 45.833 13.07 0.00 41.91 1.31
3996 6209 8.690884 GCTAGAGGCATTCATATAGAGTCATAA 58.309 37.037 0.00 0.00 41.35 1.90
4025 6238 9.917129 TGTTCTAGTATCGAGTTGTAATTTTGA 57.083 29.630 0.00 0.00 0.00 2.69
4030 6243 8.603242 AGTATCGAGTTGTAATTTTGAGTTGT 57.397 30.769 0.00 0.00 0.00 3.32
4031 6244 9.701098 AGTATCGAGTTGTAATTTTGAGTTGTA 57.299 29.630 0.00 0.00 0.00 2.41
4034 6247 8.428186 TCGAGTTGTAATTTTGAGTTGTAAGT 57.572 30.769 0.00 0.00 0.00 2.24
4035 6248 9.531942 TCGAGTTGTAATTTTGAGTTGTAAGTA 57.468 29.630 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 2.494445 CCGCGACATGGAGCAGTA 59.506 61.111 8.23 0.00 0.00 2.74
46 47 3.019564 GGCAAATCTGGTTAGCATCACT 58.980 45.455 0.00 0.00 0.00 3.41
47 48 2.754552 TGGCAAATCTGGTTAGCATCAC 59.245 45.455 0.00 0.00 0.00 3.06
78 125 1.079612 CACCAGATCGCTGCTCACA 60.080 57.895 0.00 0.00 40.91 3.58
79 126 2.459442 GCACCAGATCGCTGCTCAC 61.459 63.158 0.00 0.00 40.91 3.51
81 128 2.894387 GGCACCAGATCGCTGCTC 60.894 66.667 10.80 0.00 40.91 4.26
115 162 0.179111 GTGATCATCGACGGAGCCAA 60.179 55.000 0.00 0.00 0.00 4.52
123 170 2.673368 GAGGGTTTGTGTGATCATCGAC 59.327 50.000 0.00 0.00 0.00 4.20
150 197 3.083997 AGCACGGGGAGATCCACC 61.084 66.667 0.47 0.00 35.50 4.61
172 219 1.003580 TCATTCCTTCAGCCAGTCCAC 59.996 52.381 0.00 0.00 0.00 4.02
177 224 1.093159 GCTGTCATTCCTTCAGCCAG 58.907 55.000 5.25 0.00 45.76 4.85
186 233 1.817099 CTGGCTCGGCTGTCATTCC 60.817 63.158 0.00 0.00 0.00 3.01
189 236 2.596851 AACCTGGCTCGGCTGTCAT 61.597 57.895 0.00 0.00 0.00 3.06
224 271 2.568090 GCACCGTTGCCATTCAGG 59.432 61.111 0.00 0.00 43.66 3.86
234 281 0.681564 TGTTTTGGGAGTGCACCGTT 60.682 50.000 14.63 0.00 0.00 4.44
243 290 2.766313 TCGTCACATCTGTTTTGGGAG 58.234 47.619 0.00 0.00 0.00 4.30
249 296 3.004419 TCGAGACTTCGTCACATCTGTTT 59.996 43.478 0.00 0.00 46.72 2.83
255 302 1.535833 ACCTCGAGACTTCGTCACAT 58.464 50.000 15.71 0.00 46.72 3.21
258 305 1.001706 CACAACCTCGAGACTTCGTCA 60.002 52.381 15.71 0.00 46.72 4.35
264 311 1.249407 GTCTCCACAACCTCGAGACT 58.751 55.000 15.71 0.00 45.89 3.24
266 313 1.924731 ATGTCTCCACAACCTCGAGA 58.075 50.000 15.71 0.00 35.64 4.04
270 317 2.419297 CCAGCTATGTCTCCACAACCTC 60.419 54.545 0.00 0.00 35.64 3.85
277 324 1.483827 CTTCTGCCAGCTATGTCTCCA 59.516 52.381 0.00 0.00 0.00 3.86
279 326 2.977772 ACTTCTGCCAGCTATGTCTC 57.022 50.000 0.00 0.00 0.00 3.36
282 329 3.261897 ACAACTACTTCTGCCAGCTATGT 59.738 43.478 0.00 0.00 0.00 2.29
306 353 0.970937 TCCAGAGACGTGGATGGACC 60.971 60.000 7.87 0.00 41.99 4.46
315 362 0.250381 ACGACAGACTCCAGAGACGT 60.250 55.000 0.70 0.00 0.00 4.34
330 377 0.810031 ATCGCCTATGGTGCAACGAC 60.810 55.000 0.00 0.00 38.12 4.34
345 392 1.640604 GCTGCTGCACTTAGATCGC 59.359 57.895 11.11 0.00 39.41 4.58
368 415 4.401925 CCCTGACAAGATGAAAGTCCTTT 58.598 43.478 0.00 0.00 35.14 3.11
369 416 3.245052 CCCCTGACAAGATGAAAGTCCTT 60.245 47.826 0.00 0.00 0.00 3.36
396 443 1.284198 ACAGCAATCATCTGGAAGGCT 59.716 47.619 0.00 0.00 38.90 4.58
409 456 0.239347 GCGCTTGACTTCACAGCAAT 59.761 50.000 0.00 0.00 33.03 3.56
423 470 4.699522 GAAGACCACCCGGCGCTT 62.700 66.667 7.64 0.00 34.02 4.68
426 473 4.367023 TTCGAAGACCACCCGGCG 62.367 66.667 0.00 0.00 34.32 6.46
433 480 0.313043 GACGTCCAGTTCGAAGACCA 59.687 55.000 3.51 0.00 34.32 4.02
435 482 0.040603 ACGACGTCCAGTTCGAAGAC 60.041 55.000 10.58 1.65 34.32 3.01
441 488 1.513586 CGCCTACGACGTCCAGTTC 60.514 63.158 10.58 1.38 43.93 3.01
460 507 2.027625 GCAACTACTCCACGCGCTT 61.028 57.895 5.73 0.00 0.00 4.68
471 518 6.255237 GTCTTAGAAAATACTCCGGCAACTAC 59.745 42.308 0.00 0.00 0.00 2.73
475 522 5.416271 AGTCTTAGAAAATACTCCGGCAA 57.584 39.130 0.00 0.00 0.00 4.52
476 523 5.068723 CCTAGTCTTAGAAAATACTCCGGCA 59.931 44.000 0.00 0.00 0.00 5.69
503 550 5.631929 TGACAATACAAACACTAGTGCGTAG 59.368 40.000 22.90 12.42 34.52 3.51
564 611 1.642112 TGCCATGCCCAAAAATCTGA 58.358 45.000 0.00 0.00 0.00 3.27
574 621 0.542805 AACATTGGATTGCCATGCCC 59.457 50.000 0.00 0.00 45.46 5.36
597 644 6.889177 TCTTCACCTCAACATAAATTGCCATA 59.111 34.615 0.00 0.00 0.00 2.74
614 661 6.264067 GCCAGCTAAATTTATCATCTTCACCT 59.736 38.462 0.00 0.00 0.00 4.00
615 662 6.039717 TGCCAGCTAAATTTATCATCTTCACC 59.960 38.462 0.00 0.00 0.00 4.02
618 665 7.975616 TGTTTGCCAGCTAAATTTATCATCTTC 59.024 33.333 0.00 0.00 0.00 2.87
619 666 7.839907 TGTTTGCCAGCTAAATTTATCATCTT 58.160 30.769 0.00 0.00 0.00 2.40
620 667 7.408756 TGTTTGCCAGCTAAATTTATCATCT 57.591 32.000 0.00 0.00 0.00 2.90
623 670 8.526978 TGTTATGTTTGCCAGCTAAATTTATCA 58.473 29.630 0.00 0.00 0.00 2.15
635 682 4.143347 GCACGAAATTGTTATGTTTGCCAG 60.143 41.667 0.00 0.00 0.00 4.85
637 684 3.122780 GGCACGAAATTGTTATGTTTGCC 59.877 43.478 0.00 0.00 0.00 4.52
646 693 6.206395 TCATTATCATGGCACGAAATTGTT 57.794 33.333 0.00 0.00 0.00 2.83
655 702 3.004106 GCCTCAGTTCATTATCATGGCAC 59.996 47.826 0.00 0.00 37.91 5.01
658 705 4.711399 TCTGCCTCAGTTCATTATCATGG 58.289 43.478 0.00 0.00 32.61 3.66
661 708 5.993055 TGAATCTGCCTCAGTTCATTATCA 58.007 37.500 7.33 0.00 31.78 2.15
684 731 2.173519 CATGATTGGCACCTTTGACCT 58.826 47.619 0.00 0.00 0.00 3.85
705 752 4.494199 CGGAGCCAAATTAGATTCACGTTC 60.494 45.833 0.00 0.00 0.00 3.95
709 756 3.065371 CCACGGAGCCAAATTAGATTCAC 59.935 47.826 0.00 0.00 0.00 3.18
732 779 0.249120 TCTACCCATCACCGTGCTTG 59.751 55.000 0.00 0.00 0.00 4.01
754 801 1.133407 TGGCGAAAAGACACACAAACC 59.867 47.619 0.00 0.00 28.76 3.27
757 804 2.225491 GCTATGGCGAAAAGACACACAA 59.775 45.455 0.00 0.00 43.31 3.33
812 859 9.093970 CTTCACTATCAATACGACAATACCAAA 57.906 33.333 0.00 0.00 0.00 3.28
813 860 7.709182 CCTTCACTATCAATACGACAATACCAA 59.291 37.037 0.00 0.00 0.00 3.67
816 863 7.919091 TCACCTTCACTATCAATACGACAATAC 59.081 37.037 0.00 0.00 0.00 1.89
858 905 4.604976 GCCATCAACATCATTTGACTAGC 58.395 43.478 0.00 0.00 38.31 3.42
905 1931 9.824216 ACGGTATAGGCATGAGGTTATATATAT 57.176 33.333 0.00 0.00 0.00 0.86
906 1932 9.074576 CACGGTATAGGCATGAGGTTATATATA 57.925 37.037 0.00 0.00 0.00 0.86
907 1933 7.471539 GCACGGTATAGGCATGAGGTTATATAT 60.472 40.741 0.00 0.00 0.00 0.86
1076 2102 4.079850 AGAGCTGCCACAGGAGCG 62.080 66.667 0.00 0.00 40.34 5.03
1657 2737 0.036010 ATCTGCCCACCAACTCTTCG 60.036 55.000 0.00 0.00 0.00 3.79
1707 2787 1.667236 CCAAATATCCAGCTCGTGCA 58.333 50.000 12.58 0.00 42.74 4.57
1729 2809 0.890996 CGGCCAGGTTTTTGAGCTCT 60.891 55.000 16.19 0.00 32.70 4.09
1861 2941 2.463752 ACTCACAAGTAGCCGGGAATA 58.536 47.619 2.18 0.00 32.59 1.75
1951 4131 1.339097 ATATTTCCGGACGGAGGGAG 58.661 55.000 13.64 0.00 46.06 4.30
1953 4133 2.218603 CAAATATTTCCGGACGGAGGG 58.781 52.381 13.64 0.00 46.06 4.30
1954 4134 2.870411 GACAAATATTTCCGGACGGAGG 59.130 50.000 13.64 0.00 46.06 4.30
1956 4136 3.613494 TGACAAATATTTCCGGACGGA 57.387 42.857 1.83 9.76 43.52 4.69
1957 4137 3.874543 TGATGACAAATATTTCCGGACGG 59.125 43.478 1.83 3.96 0.00 4.79
1958 4138 5.478233 TTGATGACAAATATTTCCGGACG 57.522 39.130 1.83 0.00 32.73 4.79
1960 4140 7.123397 TCCATTTTGATGACAAATATTTCCGGA 59.877 33.333 0.00 0.00 43.99 5.14
1962 4142 8.876275 ATCCATTTTGATGACAAATATTTCCG 57.124 30.769 0.00 0.00 43.99 4.30
1969 4149 8.824783 TCCCTTTTATCCATTTTGATGACAAAT 58.175 29.630 0.00 0.00 43.99 2.32
1970 4150 8.200024 TCCCTTTTATCCATTTTGATGACAAA 57.800 30.769 0.00 0.00 43.10 2.83
1971 4151 7.789202 TCCCTTTTATCCATTTTGATGACAA 57.211 32.000 0.00 0.00 0.00 3.18
1972 4152 7.399765 ACATCCCTTTTATCCATTTTGATGACA 59.600 33.333 0.00 0.00 33.22 3.58
1973 4153 7.785033 ACATCCCTTTTATCCATTTTGATGAC 58.215 34.615 0.00 0.00 33.22 3.06
1974 4154 7.976414 ACATCCCTTTTATCCATTTTGATGA 57.024 32.000 0.00 0.00 33.22 2.92
1975 4155 9.918630 GATACATCCCTTTTATCCATTTTGATG 57.081 33.333 0.00 0.00 34.68 3.07
1976 4156 9.887862 AGATACATCCCTTTTATCCATTTTGAT 57.112 29.630 0.00 0.00 0.00 2.57
1981 4161 9.170890 TGTCTAGATACATCCCTTTTATCCATT 57.829 33.333 0.00 0.00 0.00 3.16
1982 4162 8.742125 TGTCTAGATACATCCCTTTTATCCAT 57.258 34.615 0.00 0.00 0.00 3.41
1983 4163 8.742125 ATGTCTAGATACATCCCTTTTATCCA 57.258 34.615 0.00 0.00 35.08 3.41
2037 4217 8.572185 TCCGAAAATACTTGTCATCAAAATGAA 58.428 29.630 0.00 0.00 43.42 2.57
2039 4219 7.007367 CGTCCGAAAATACTTGTCATCAAAATG 59.993 37.037 0.00 0.00 32.87 2.32
2044 4224 4.811908 TCGTCCGAAAATACTTGTCATCA 58.188 39.130 0.00 0.00 0.00 3.07
2045 4225 5.220416 CCTTCGTCCGAAAATACTTGTCATC 60.220 44.000 3.52 0.00 33.34 2.92
2046 4226 4.630069 CCTTCGTCCGAAAATACTTGTCAT 59.370 41.667 3.52 0.00 33.34 3.06
2047 4227 3.991773 CCTTCGTCCGAAAATACTTGTCA 59.008 43.478 3.52 0.00 33.34 3.58
2050 4230 3.592059 TCCCTTCGTCCGAAAATACTTG 58.408 45.455 3.52 0.00 33.34 3.16
2056 4236 3.967332 ATTACTCCCTTCGTCCGAAAA 57.033 42.857 3.52 0.00 33.34 2.29
2062 4242 6.555315 TCGTTAAGTTATTACTCCCTTCGTC 58.445 40.000 0.00 0.00 31.99 4.20
2064 4244 5.975939 CCTCGTTAAGTTATTACTCCCTTCG 59.024 44.000 0.00 0.00 31.99 3.79
2065 4245 7.105241 TCCTCGTTAAGTTATTACTCCCTTC 57.895 40.000 0.00 0.00 31.99 3.46
2068 4248 6.633856 TGTTCCTCGTTAAGTTATTACTCCC 58.366 40.000 0.00 0.00 31.99 4.30
2069 4249 8.601476 CAATGTTCCTCGTTAAGTTATTACTCC 58.399 37.037 0.00 0.00 31.99 3.85
2071 4251 9.498176 AACAATGTTCCTCGTTAAGTTATTACT 57.502 29.630 0.00 0.00 35.68 2.24
2084 4271 3.364565 CCCGTTACAAACAATGTTCCTCG 60.365 47.826 0.00 1.27 43.63 4.63
2085 4272 3.566742 ACCCGTTACAAACAATGTTCCTC 59.433 43.478 0.00 0.00 43.63 3.71
2095 4282 2.413634 GCATGCACTACCCGTTACAAAC 60.414 50.000 14.21 0.00 0.00 2.93
2107 4294 8.996271 CAAAGATCTGAAATATAGCATGCACTA 58.004 33.333 21.98 11.04 0.00 2.74
2259 4461 6.457528 GCCTCATGTTTGACTCTAGCAATAAC 60.458 42.308 0.00 0.00 0.00 1.89
2393 4595 3.678806 GCTTAGAACGATCATGGTCCACA 60.679 47.826 0.00 0.00 0.00 4.17
2553 4759 6.575244 AGGGAAGTTGGTGTCATCATATAA 57.425 37.500 0.00 0.00 0.00 0.98
2623 4829 2.557555 AGAGGATCATGGTCACCTGA 57.442 50.000 8.54 0.00 37.82 3.86
2641 4847 5.069251 AGGATACAACCGAAGAACCTCATAG 59.931 44.000 0.00 0.00 41.41 2.23
2699 4905 3.695830 TTTGTCTCCGATTAGCACCTT 57.304 42.857 0.00 0.00 0.00 3.50
2847 5054 0.521735 AAGAAACGCGCCTGAATTCC 59.478 50.000 5.73 0.00 0.00 3.01
2866 5073 3.407967 GGTCCCCAGCCGAATGGA 61.408 66.667 7.38 0.00 43.57 3.41
3170 5377 8.035394 AGACACACCATATATTTCATATCCGTC 58.965 37.037 0.00 0.00 0.00 4.79
3241 5448 3.385755 CCCAATAAGCAAGCTAATTGGCT 59.614 43.478 10.99 10.99 44.60 4.75
3252 5459 4.141959 GCAATAGAAAGCCCCAATAAGCAA 60.142 41.667 0.00 0.00 0.00 3.91
3265 5472 4.690748 TGAGAAACCGTCTGCAATAGAAAG 59.309 41.667 0.00 0.00 36.41 2.62
3331 5538 4.020928 TGATCCAACACGCCTACTTTCTAA 60.021 41.667 0.00 0.00 0.00 2.10
3512 5720 3.881688 GCATCAGAGACAATTATGCAGGT 59.118 43.478 0.00 0.00 41.94 4.00
3641 5853 2.392933 TTTAAACCGTCGCTTTGCTG 57.607 45.000 0.00 0.00 0.00 4.41
3669 5881 3.751767 GGTTTAACCCCCTTTCCGT 57.248 52.632 2.04 0.00 30.04 4.69
3764 5976 6.586344 CCATAATAGGTAGGTATGATGGCTG 58.414 44.000 0.00 0.00 35.45 4.85
3768 5980 7.012704 GCAATGCCATAATAGGTAGGTATGATG 59.987 40.741 0.00 0.00 0.00 3.07
3770 5982 6.414732 GCAATGCCATAATAGGTAGGTATGA 58.585 40.000 0.00 0.00 0.00 2.15
3794 6006 6.870965 GGCAATATATCTCGGAATAGCTATGG 59.129 42.308 7.09 0.17 0.00 2.74
3798 6010 5.939764 TGGCAATATATCTCGGAATAGCT 57.060 39.130 0.00 0.00 0.00 3.32
3799 6011 5.049818 GCATGGCAATATATCTCGGAATAGC 60.050 44.000 0.00 0.00 0.00 2.97
3800 6012 6.051074 TGCATGGCAATATATCTCGGAATAG 58.949 40.000 0.00 0.00 34.76 1.73
3801 6013 5.988287 TGCATGGCAATATATCTCGGAATA 58.012 37.500 0.00 0.00 34.76 1.75
3802 6014 4.847198 TGCATGGCAATATATCTCGGAAT 58.153 39.130 0.00 0.00 34.76 3.01
3803 6015 4.284829 TGCATGGCAATATATCTCGGAA 57.715 40.909 0.00 0.00 34.76 4.30
3804 6016 3.979101 TGCATGGCAATATATCTCGGA 57.021 42.857 0.00 0.00 34.76 4.55
3805 6017 4.449131 AGATGCATGGCAATATATCTCGG 58.551 43.478 2.46 0.00 43.62 4.63
3830 6042 9.187996 TGATGTGTGTCATAATAATGGAACAAT 57.812 29.630 0.00 0.00 38.47 2.71
3831 6043 8.572855 TGATGTGTGTCATAATAATGGAACAA 57.427 30.769 0.00 0.00 38.47 2.83
3853 6066 6.811954 TGCAAAGCAATATGACAATGATGAT 58.188 32.000 0.00 0.00 34.76 2.45
3862 6075 9.717892 CTATATGATCATGCAAAGCAATATGAC 57.282 33.333 18.72 0.00 43.62 3.06
3871 6084 6.796705 TGTCAGCTATATGATCATGCAAAG 57.203 37.500 18.72 10.48 0.00 2.77
3891 6104 3.486875 GGTTGCGCCACAAATACTATGTC 60.487 47.826 14.15 0.00 40.82 3.06
3893 6106 2.421775 TGGTTGCGCCACAAATACTATG 59.578 45.455 14.15 0.00 43.61 2.23
3908 6121 3.569250 AAAATGATGTACGGTGGTTGC 57.431 42.857 0.00 0.00 0.00 4.17
3988 6201 9.953697 ACTCGATACTAGAACAAATTATGACTC 57.046 33.333 0.00 0.00 0.00 3.36
4004 6217 9.701098 ACAACTCAAAATTACAACTCGATACTA 57.299 29.630 0.00 0.00 0.00 1.82


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

AutoCloner maintained by Alex Coulton.