Multiple sequence alignment - TraesCS1D01G224500

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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 TraesCS1D01G224500 chr1D 100.000 3654 0 0 1347 5000 313203988 313200335 0.000000e+00 6748.0
1 TraesCS1D01G224500 chr1D 100.000 1046 0 0 1 1046 313205334 313204289 0.000000e+00 1932.0
2 TraesCS1D01G224500 chr1D 96.078 102 3 1 4326 4427 74280085 74280185 1.110000e-36 165.0
3 TraesCS1D01G224500 chr1D 91.304 115 9 1 4326 4440 189199133 189199020 6.700000e-34 156.0
4 TraesCS1D01G224500 chr1D 89.062 64 5 2 2146 2207 75855242 75855179 1.490000e-10 78.7
5 TraesCS1D01G224500 chr1B 95.365 2999 107 18 1347 4332 423561965 423558986 0.000000e+00 4739.0
6 TraesCS1D01G224500 chr1B 84.964 419 54 8 16 430 423563060 423562647 2.780000e-112 416.0
7 TraesCS1D01G224500 chr1B 84.718 373 35 14 4628 4996 423557615 423557261 2.210000e-93 353.0
8 TraesCS1D01G224500 chr1B 97.423 194 4 1 4426 4618 423558988 423558795 3.730000e-86 329.0
9 TraesCS1D01G224500 chr1B 82.609 345 51 7 72 412 566986989 566987328 3.780000e-76 296.0
10 TraesCS1D01G224500 chr1B 81.948 349 55 8 72 415 671461327 671460982 6.330000e-74 289.0
11 TraesCS1D01G224500 chr1B 87.783 221 22 3 4655 4871 452994141 452994360 2.310000e-63 254.0
12 TraesCS1D01G224500 chr1B 79.058 382 39 23 545 924 423562475 423562133 1.810000e-54 224.0
13 TraesCS1D01G224500 chr1B 94.574 129 1 1 924 1046 423562086 423561958 1.420000e-45 195.0
14 TraesCS1D01G224500 chr1B 97.030 101 2 1 4327 4427 301472072 301472171 8.610000e-38 169.0
15 TraesCS1D01G224500 chr1A 97.511 2089 47 5 2249 4332 392746424 392744336 0.000000e+00 3565.0
16 TraesCS1D01G224500 chr1A 94.860 856 22 5 1431 2264 392747376 392746521 0.000000e+00 1317.0
17 TraesCS1D01G224500 chr1A 91.409 582 23 11 4426 5000 392744338 392743777 0.000000e+00 773.0
18 TraesCS1D01G224500 chr1A 82.599 431 69 4 1 430 392749022 392748597 4.730000e-100 375.0
19 TraesCS1D01G224500 chr1A 88.710 186 11 5 741 924 392747922 392747745 8.430000e-53 219.0
20 TraesCS1D01G224500 chr1A 89.412 170 16 2 589 756 392748388 392748219 3.920000e-51 213.0
21 TraesCS1D01G224500 chr1A 96.117 103 3 1 4327 4429 12578042 12578143 3.100000e-37 167.0
22 TraesCS1D01G224500 chr1A 91.525 59 3 2 2151 2207 560439223 560439165 4.150000e-11 80.5
23 TraesCS1D01G224500 chr3B 83.237 346 55 3 72 415 392840248 392839904 1.040000e-81 315.0
24 TraesCS1D01G224500 chr3B 88.732 213 20 2 4667 4876 255045698 255045487 1.790000e-64 257.0
25 TraesCS1D01G224500 chr3B 97.087 103 2 1 4329 4431 373126016 373126117 6.650000e-39 172.0
26 TraesCS1D01G224500 chr7D 80.685 409 72 6 8 412 102957306 102957711 1.350000e-80 311.0
27 TraesCS1D01G224500 chr7D 79.036 415 78 8 1 411 179527779 179528188 4.930000e-70 276.0
28 TraesCS1D01G224500 chr7D 79.268 410 74 9 12 415 194501378 194500974 4.930000e-70 276.0
29 TraesCS1D01G224500 chr7D 82.736 307 46 6 72 375 620227502 620227200 2.970000e-67 267.0
30 TraesCS1D01G224500 chr2D 80.244 410 72 8 12 416 131165076 131164671 2.930000e-77 300.0
31 TraesCS1D01G224500 chr2D 97.030 101 1 2 4327 4427 83963505 83963603 8.610000e-38 169.0
32 TraesCS1D01G224500 chr2D 88.525 61 6 1 2146 2205 131306065 131306005 6.940000e-09 73.1
33 TraesCS1D01G224500 chr6A 80.000 415 74 8 14 424 405817053 405816644 1.050000e-76 298.0
34 TraesCS1D01G224500 chr6A 81.766 351 55 6 72 415 121713656 121713308 8.190000e-73 285.0
35 TraesCS1D01G224500 chr6A 78.286 350 65 9 72 415 441299202 441298858 1.090000e-51 215.0
36 TraesCS1D01G224500 chr6D 81.616 359 61 4 68 424 285497242 285496887 4.900000e-75 292.0
37 TraesCS1D01G224500 chr6D 82.029 345 53 7 72 412 16968016 16968355 8.190000e-73 285.0
38 TraesCS1D01G224500 chr6D 89.062 64 5 2 2146 2207 469369936 469369873 1.490000e-10 78.7
39 TraesCS1D01G224500 chr2A 82.216 343 57 4 72 412 3862154 3862494 4.900000e-75 292.0
40 TraesCS1D01G224500 chr4B 81.322 348 59 5 72 415 637369597 637369252 1.370000e-70 278.0
41 TraesCS1D01G224500 chr4B 78.223 349 67 8 72 415 616648887 616648543 1.090000e-51 215.0
42 TraesCS1D01G224500 chr4B 77.937 349 68 8 72 415 108186444 108186100 5.070000e-50 209.0
43 TraesCS1D01G224500 chr7A 86.694 248 25 3 4634 4873 456261113 456260866 8.250000e-68 268.0
44 TraesCS1D01G224500 chr7A 96.078 102 3 1 4326 4427 222500974 222500874 1.110000e-36 165.0
45 TraesCS1D01G224500 chr5B 89.474 209 17 3 4668 4873 554528806 554529012 4.970000e-65 259.0
46 TraesCS1D01G224500 chr5B 100.000 33 0 0 2169 2201 403829905 403829873 1.500000e-05 62.1
47 TraesCS1D01G224500 chr5D 89.216 204 18 3 4673 4873 453836771 453836973 8.310000e-63 252.0
48 TraesCS1D01G224500 chr5D 88.517 209 19 3 4668 4873 172260208 172260002 1.070000e-61 248.0
49 TraesCS1D01G224500 chr2B 83.658 257 28 9 4629 4873 26426632 26426378 3.890000e-56 230.0
50 TraesCS1D01G224500 chr2B 92.857 112 5 3 4318 4427 549025503 549025613 5.180000e-35 159.0
51 TraesCS1D01G224500 chr3A 90.164 122 7 4 4309 4428 648862911 648863029 2.410000e-33 154.0


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 TraesCS1D01G224500 chr1D 313200335 313205334 4999 True 4340.000000 6748 100.000000 1 5000 2 chr1D.!!$R3 4999
1 TraesCS1D01G224500 chr1B 423557261 423563060 5799 True 1042.666667 4739 89.350333 16 4996 6 chr1B.!!$R2 4980
2 TraesCS1D01G224500 chr1A 392743777 392749022 5245 True 1077.000000 3565 90.750167 1 5000 6 chr1A.!!$R2 4999

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
903 1313 0.249657 GTCATCCATCGACTGGCCTC 60.250 60.0 3.32 0.0 45.52 4.70 F
905 1315 0.249784 CATCCATCGACTGGCCTCTG 60.250 60.0 3.32 0.0 45.52 3.35 F
906 1316 1.406065 ATCCATCGACTGGCCTCTGG 61.406 60.0 3.32 0.0 45.52 3.86 F
3003 3609 1.740297 TGGTATGGTGCGCGTAAATT 58.260 45.0 8.43 0.0 0.00 1.82 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2078 2556 0.251916 TTCCAACCGTAGCCAGGATG 59.748 55.000 0.0 0.0 0.00 3.51 R
2643 3245 3.196469 TGGTGGTGATTTGCAACTGAAAA 59.804 39.130 0.0 0.0 34.44 2.29 R
3033 3639 8.050930 GTGGGTAAAAATGATCCCTAAGACTTA 58.949 37.037 0.0 0.0 40.48 2.24 R
4897 6684 0.037303 ACCCATCTGGCACTCAACTG 59.963 55.000 0.0 0.0 37.83 3.16 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
22 23 1.344953 ACAAGGGTGGTGTGAGCTCA 61.345 55.000 13.74 13.74 0.00 4.26
23 24 0.604780 CAAGGGTGGTGTGAGCTCAG 60.605 60.000 18.89 0.00 0.00 3.35
33 34 3.929610 GGTGTGAGCTCAGAGTTGTTATC 59.070 47.826 18.89 1.30 0.00 1.75
49 50 1.306148 TATCTGCGGACTAGGTGTCG 58.694 55.000 0.00 0.00 46.24 4.35
51 52 1.136984 CTGCGGACTAGGTGTCGTC 59.863 63.158 0.00 0.00 46.24 4.20
61 62 1.465794 AGGTGTCGTCTCTAAGCTCC 58.534 55.000 0.00 0.00 0.00 4.70
62 63 1.174783 GGTGTCGTCTCTAAGCTCCA 58.825 55.000 0.00 0.00 0.00 3.86
70 71 4.160439 TCGTCTCTAAGCTCCATCATTGTT 59.840 41.667 0.00 0.00 0.00 2.83
84 85 5.640357 CCATCATTGTTTTCCTCCATTGTTG 59.360 40.000 0.00 0.00 0.00 3.33
103 105 3.683365 TGCTTTGTCATAGCAGTCTCA 57.317 42.857 13.25 0.00 43.30 3.27
106 108 2.654749 TTGTCATAGCAGTCTCACCG 57.345 50.000 0.00 0.00 0.00 4.94
155 157 1.893137 CCCTTTTAGTGCCCAGGTTTC 59.107 52.381 0.00 0.00 0.00 2.78
174 176 1.208614 CCTTTGTTGAGCTCAGCGC 59.791 57.895 23.30 15.07 39.57 5.92
206 208 2.031870 GGTGCTTTGGTTTGGTCTTCT 58.968 47.619 0.00 0.00 0.00 2.85
215 217 2.427506 GTTTGGTCTTCTAGGTGGCAG 58.572 52.381 0.00 0.00 0.00 4.85
217 219 0.976641 TGGTCTTCTAGGTGGCAGTG 59.023 55.000 0.00 0.00 0.00 3.66
247 249 4.644498 GTGTACACCTTAGCTTTTGGGTA 58.356 43.478 15.42 0.00 0.00 3.69
265 267 3.321111 GGGTAAGCATCAGTATCTTCCGA 59.679 47.826 0.00 0.00 0.00 4.55
268 270 2.298610 AGCATCAGTATCTTCCGACGA 58.701 47.619 0.00 0.00 0.00 4.20
271 273 4.051922 GCATCAGTATCTTCCGACGAATT 58.948 43.478 0.00 0.00 0.00 2.17
272 274 5.009710 AGCATCAGTATCTTCCGACGAATTA 59.990 40.000 0.00 0.00 0.00 1.40
275 277 4.579340 TCAGTATCTTCCGACGAATTAGCT 59.421 41.667 0.00 0.00 0.00 3.32
283 285 1.063616 CGACGAATTAGCTCCTCGTGA 59.936 52.381 18.86 0.00 45.25 4.35
284 286 2.287069 CGACGAATTAGCTCCTCGTGAT 60.287 50.000 18.86 0.00 45.25 3.06
316 318 2.073101 GGGAGCCCCTTTCGGAGAT 61.073 63.158 3.16 0.00 41.34 2.75
330 332 1.545875 CGGAGATGGAGGAGGTCGTAT 60.546 57.143 0.00 0.00 0.00 3.06
332 334 2.224917 GGAGATGGAGGAGGTCGTATCT 60.225 54.545 0.00 0.00 34.29 1.98
411 413 1.228245 TCAAGGCCTTGCTGGTGTC 60.228 57.895 36.24 0.00 40.24 3.67
415 417 1.073897 GGCCTTGCTGGTGTCTCTT 59.926 57.895 0.00 0.00 38.35 2.85
417 419 0.250467 GCCTTGCTGGTGTCTCTTCA 60.250 55.000 0.00 0.00 38.35 3.02
419 421 2.082231 CCTTGCTGGTGTCTCTTCATG 58.918 52.381 0.00 0.00 0.00 3.07
445 528 3.396491 GCTTGCTAGCTGTTTGCAG 57.604 52.632 17.23 1.87 44.27 4.41
450 533 1.093159 GCTAGCTGTTTGCAGAGCAT 58.907 50.000 7.70 5.06 46.03 3.79
462 545 6.016024 TGTTTGCAGAGCATTGTCTATCTTTT 60.016 34.615 0.00 0.00 38.76 2.27
464 547 6.915544 TGCAGAGCATTGTCTATCTTTTAG 57.084 37.500 0.00 0.00 31.71 1.85
465 548 6.409704 TGCAGAGCATTGTCTATCTTTTAGT 58.590 36.000 0.00 0.00 31.71 2.24
471 554 9.548208 GAGCATTGTCTATCTTTTAGTTGTTTC 57.452 33.333 0.00 0.00 0.00 2.78
472 555 9.066892 AGCATTGTCTATCTTTTAGTTGTTTCA 57.933 29.630 0.00 0.00 0.00 2.69
500 583 8.870160 TTTTGTTCTTGTAAGTTTGATGGATG 57.130 30.769 0.00 0.00 0.00 3.51
501 584 7.815840 TTGTTCTTGTAAGTTTGATGGATGA 57.184 32.000 0.00 0.00 0.00 2.92
509 592 9.685276 TTGTAAGTTTGATGGATGATGTAATCT 57.315 29.630 0.00 0.00 45.81 2.40
513 596 7.348815 AGTTTGATGGATGATGTAATCTTGGA 58.651 34.615 0.00 0.00 45.81 3.53
515 598 6.251255 TGATGGATGATGTAATCTTGGACA 57.749 37.500 0.00 0.00 45.81 4.02
516 599 6.661777 TGATGGATGATGTAATCTTGGACAA 58.338 36.000 0.00 0.00 45.81 3.18
518 601 7.781219 TGATGGATGATGTAATCTTGGACAATT 59.219 33.333 0.00 0.00 45.81 2.32
519 602 7.337480 TGGATGATGTAATCTTGGACAATTG 57.663 36.000 3.24 3.24 45.81 2.32
521 604 7.781219 TGGATGATGTAATCTTGGACAATTGAT 59.219 33.333 13.59 0.00 45.81 2.57
522 605 8.080417 GGATGATGTAATCTTGGACAATTGATG 58.920 37.037 13.59 0.00 45.81 3.07
525 608 5.263599 TGTAATCTTGGACAATTGATGGCT 58.736 37.500 13.59 0.00 37.17 4.75
526 609 5.716228 TGTAATCTTGGACAATTGATGGCTT 59.284 36.000 13.59 0.00 37.17 4.35
527 610 5.750352 AATCTTGGACAATTGATGGCTTT 57.250 34.783 13.59 0.00 37.17 3.51
529 612 3.896888 TCTTGGACAATTGATGGCTTTGT 59.103 39.130 13.59 0.00 37.17 2.83
530 613 4.344679 TCTTGGACAATTGATGGCTTTGTT 59.655 37.500 13.59 0.00 37.17 2.83
531 614 5.538053 TCTTGGACAATTGATGGCTTTGTTA 59.462 36.000 13.59 0.00 37.17 2.41
532 615 5.798125 TGGACAATTGATGGCTTTGTTAA 57.202 34.783 13.59 0.00 37.17 2.01
533 616 6.357579 TGGACAATTGATGGCTTTGTTAAT 57.642 33.333 13.59 0.00 37.17 1.40
534 617 6.767456 TGGACAATTGATGGCTTTGTTAATT 58.233 32.000 13.59 0.00 37.17 1.40
535 618 6.873076 TGGACAATTGATGGCTTTGTTAATTC 59.127 34.615 13.59 0.00 37.17 2.17
536 619 6.873076 GGACAATTGATGGCTTTGTTAATTCA 59.127 34.615 13.59 0.00 37.17 2.57
537 620 7.387397 GGACAATTGATGGCTTTGTTAATTCAA 59.613 33.333 13.59 0.00 37.17 2.69
538 621 8.674263 ACAATTGATGGCTTTGTTAATTCAAA 57.326 26.923 13.59 0.00 36.18 2.69
539 622 9.287373 ACAATTGATGGCTTTGTTAATTCAAAT 57.713 25.926 13.59 0.00 36.83 2.32
540 623 9.763465 CAATTGATGGCTTTGTTAATTCAAATC 57.237 29.630 0.00 0.00 36.83 2.17
541 624 9.504708 AATTGATGGCTTTGTTAATTCAAATCA 57.495 25.926 0.00 0.00 36.83 2.57
542 625 8.537049 TTGATGGCTTTGTTAATTCAAATCAG 57.463 30.769 0.00 0.00 36.83 2.90
543 626 7.894708 TGATGGCTTTGTTAATTCAAATCAGA 58.105 30.769 0.00 0.00 36.83 3.27
560 643 2.700371 TCAGACTTGACTTGAGCCTTCA 59.300 45.455 0.00 0.00 0.00 3.02
561 644 3.134623 TCAGACTTGACTTGAGCCTTCAA 59.865 43.478 0.00 0.00 40.92 2.69
598 683 2.952310 GCTCCCTAATCCATTCAACACC 59.048 50.000 0.00 0.00 0.00 4.16
600 685 1.676006 CCCTAATCCATTCAACACCGC 59.324 52.381 0.00 0.00 0.00 5.68
609 694 2.511600 CAACACCGCGGAGATCCC 60.512 66.667 35.90 0.00 0.00 3.85
653 738 4.217118 GTCTTCTTCACCATGAAACATGCT 59.783 41.667 0.00 0.00 35.73 3.79
700 797 5.172934 ACATGCATGCTTTATTTTGGTCTG 58.827 37.500 26.53 0.00 0.00 3.51
719 816 6.213397 TGGTCTGAAGAAGATCATAAGTTGGA 59.787 38.462 0.00 0.00 41.31 3.53
871 1281 2.143419 GCCTCCCCGTCTCCATCAT 61.143 63.158 0.00 0.00 0.00 2.45
900 1310 0.531532 CTGGTCATCCATCGACTGGC 60.532 60.000 8.51 0.00 45.52 4.85
901 1311 1.227674 GGTCATCCATCGACTGGCC 60.228 63.158 0.00 0.00 45.52 5.36
902 1312 1.690219 GGTCATCCATCGACTGGCCT 61.690 60.000 3.32 0.00 45.52 5.19
903 1313 0.249657 GTCATCCATCGACTGGCCTC 60.250 60.000 3.32 0.00 45.52 4.70
904 1314 0.397675 TCATCCATCGACTGGCCTCT 60.398 55.000 3.32 0.00 45.52 3.69
905 1315 0.249784 CATCCATCGACTGGCCTCTG 60.250 60.000 3.32 0.00 45.52 3.35
906 1316 1.406065 ATCCATCGACTGGCCTCTGG 61.406 60.000 3.32 0.00 45.52 3.86
1040 1504 3.479269 CGCTTTCCCGCACGTCTC 61.479 66.667 0.00 0.00 0.00 3.36
1041 1505 3.119096 GCTTTCCCGCACGTCTCC 61.119 66.667 0.00 0.00 0.00 3.71
1042 1506 2.434359 CTTTCCCGCACGTCTCCC 60.434 66.667 0.00 0.00 0.00 4.30
1043 1507 2.920912 TTTCCCGCACGTCTCCCT 60.921 61.111 0.00 0.00 0.00 4.20
1044 1508 2.837371 CTTTCCCGCACGTCTCCCTC 62.837 65.000 0.00 0.00 0.00 4.30
1964 2428 5.690865 TGGAAGATTATGGTAATCGGCTTT 58.309 37.500 4.56 0.00 0.00 3.51
1988 2452 5.199982 TCTATTCCCCTGCAATTTTACCA 57.800 39.130 0.00 0.00 0.00 3.25
1989 2453 5.776358 TCTATTCCCCTGCAATTTTACCAT 58.224 37.500 0.00 0.00 0.00 3.55
2142 2620 2.285743 GGAGAGGCTCCCCACCTT 60.286 66.667 10.60 0.00 44.36 3.50
2157 2643 6.184789 TCCCCACCTTAACATCTCATTTTAC 58.815 40.000 0.00 0.00 0.00 2.01
2218 2705 4.600692 AAAACCTACAGTTGGAAATGGC 57.399 40.909 8.17 0.00 39.19 4.40
2394 2995 7.328493 TGTCTTGTCTTCATTAGTTATGACACG 59.672 37.037 0.00 0.00 42.88 4.49
2781 3384 8.417106 TGTTCTGTAGTTGCCAATTGATTTTTA 58.583 29.630 7.12 0.00 0.00 1.52
3003 3609 1.740297 TGGTATGGTGCGCGTAAATT 58.260 45.000 8.43 0.00 0.00 1.82
3033 3639 9.836864 TTGTATTGATGCAGTGATTTCTACTAT 57.163 29.630 0.00 0.00 0.00 2.12
3136 3742 6.288294 TCAACATATCCGCTGCTTATAAACT 58.712 36.000 0.00 0.00 0.00 2.66
3138 3744 6.102897 ACATATCCGCTGCTTATAAACTCT 57.897 37.500 0.00 0.00 0.00 3.24
3194 3800 7.665690 TCTCATATATCTCAGCTCCAGTTTTC 58.334 38.462 0.00 0.00 0.00 2.29
3234 3840 6.001460 ACTTTTGTTTTGATAGATGGACGGA 58.999 36.000 0.00 0.00 0.00 4.69
3342 3948 4.161377 ACTGCCTTGGTTAAAGAGCAAAAA 59.839 37.500 0.00 0.00 44.44 1.94
3879 4485 5.046014 ACTGCAGAGAAACATACAGGAATCT 60.046 40.000 23.35 0.00 0.00 2.40
3894 4500 3.134458 GGAATCTGGCAACCTAGAATCG 58.866 50.000 0.00 0.00 0.00 3.34
4055 4661 2.254546 TCAGACGTGTTCATGGCTTT 57.745 45.000 0.00 0.00 0.00 3.51
4142 4748 1.354101 TTTACCGGAAAGGAGCTCCA 58.646 50.000 33.90 8.39 45.00 3.86
4184 4790 4.706962 TCAGAGCTGCTGTCTTATTGTCTA 59.293 41.667 7.01 0.00 45.14 2.59
4337 4944 8.649973 CTTGTAAAGTTGTGATATACTCCCTC 57.350 38.462 0.00 0.00 39.70 4.30
4338 4945 7.120923 TGTAAAGTTGTGATATACTCCCTCC 57.879 40.000 0.00 0.00 0.00 4.30
4339 4946 4.939052 AAGTTGTGATATACTCCCTCCG 57.061 45.455 0.00 0.00 0.00 4.63
4340 4947 3.912248 AGTTGTGATATACTCCCTCCGT 58.088 45.455 0.00 0.00 0.00 4.69
4341 4948 4.287552 AGTTGTGATATACTCCCTCCGTT 58.712 43.478 0.00 0.00 0.00 4.44
4342 4949 4.341520 AGTTGTGATATACTCCCTCCGTTC 59.658 45.833 0.00 0.00 0.00 3.95
4343 4950 3.228453 TGTGATATACTCCCTCCGTTCC 58.772 50.000 0.00 0.00 0.00 3.62
4344 4951 3.228453 GTGATATACTCCCTCCGTTCCA 58.772 50.000 0.00 0.00 0.00 3.53
4345 4952 3.640029 GTGATATACTCCCTCCGTTCCAA 59.360 47.826 0.00 0.00 0.00 3.53
4346 4953 4.100498 GTGATATACTCCCTCCGTTCCAAA 59.900 45.833 0.00 0.00 0.00 3.28
4347 4954 4.717778 TGATATACTCCCTCCGTTCCAAAA 59.282 41.667 0.00 0.00 0.00 2.44
4348 4955 5.368523 TGATATACTCCCTCCGTTCCAAAAT 59.631 40.000 0.00 0.00 0.00 1.82
4349 4956 6.555738 TGATATACTCCCTCCGTTCCAAAATA 59.444 38.462 0.00 0.00 0.00 1.40
4350 4957 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
4351 4958 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
4352 4959 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
4353 4960 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
4354 4961 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
4355 4962 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
4356 4963 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
4357 4964 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
4358 4965 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
4359 4966 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
4360 4967 4.142469 CCGTTCCAAAATAGATGACCCAAC 60.142 45.833 0.00 0.00 0.00 3.77
4361 4968 4.700213 CGTTCCAAAATAGATGACCCAACT 59.300 41.667 0.00 0.00 0.00 3.16
4362 4969 5.183140 CGTTCCAAAATAGATGACCCAACTT 59.817 40.000 0.00 0.00 0.00 2.66
4363 4970 6.294508 CGTTCCAAAATAGATGACCCAACTTT 60.295 38.462 0.00 0.00 0.00 2.66
4364 4971 7.094549 CGTTCCAAAATAGATGACCCAACTTTA 60.095 37.037 0.00 0.00 0.00 1.85
4365 4972 8.749354 GTTCCAAAATAGATGACCCAACTTTAT 58.251 33.333 0.00 0.00 0.00 1.40
4366 4973 9.983024 TTCCAAAATAGATGACCCAACTTTATA 57.017 29.630 0.00 0.00 0.00 0.98
4367 4974 9.403583 TCCAAAATAGATGACCCAACTTTATAC 57.596 33.333 0.00 0.00 0.00 1.47
4368 4975 9.408648 CCAAAATAGATGACCCAACTTTATACT 57.591 33.333 0.00 0.00 0.00 2.12
4413 5020 9.408648 AGTATAAAGTTGGGTCATCTATTTTGG 57.591 33.333 0.00 0.00 0.00 3.28
4414 5021 9.403583 GTATAAAGTTGGGTCATCTATTTTGGA 57.596 33.333 0.00 0.00 0.00 3.53
4415 5022 8.893563 ATAAAGTTGGGTCATCTATTTTGGAA 57.106 30.769 0.00 0.00 0.00 3.53
4416 5023 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
4417 5024 4.700213 AGTTGGGTCATCTATTTTGGAACG 59.300 41.667 0.00 0.00 0.00 3.95
4418 5025 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
4419 5026 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
4420 5027 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
4421 5028 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
4422 5029 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
4423 5030 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
4424 5031 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
4425 5032 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
4426 5033 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
4427 5034 2.845363 TTTTGGAACGGAGGGAGTAC 57.155 50.000 0.00 0.00 0.00 2.73
4512 5119 8.829612 ACCTTTTGAACATGAAATCATTGAAAC 58.170 29.630 0.00 0.00 33.61 2.78
4618 5226 1.139853 GGGTAGGAATCTGACTGGCAG 59.860 57.143 14.16 14.16 46.31 4.85
4641 6419 6.426328 CAGAGATTCTGTTGCTCAAGTTACTT 59.574 38.462 0.00 0.00 39.58 2.24
4669 6453 4.672409 ACTCTGTTTGCTACAAAACTTGC 58.328 39.130 0.00 0.00 40.11 4.01
4799 6583 6.721668 GGCTTATAAATATTCTTTGGCTCCCT 59.278 38.462 0.00 0.00 0.00 4.20
4819 6603 7.095695 TCCCTTTTGGTCGAATCAATAAATC 57.904 36.000 3.72 0.00 38.10 2.17
4846 6633 4.817517 TGAAATACCCTCGAAGACTGTTC 58.182 43.478 0.00 0.00 0.00 3.18
4897 6684 2.128035 CACGCTTAAGGGTCATCGATC 58.872 52.381 21.26 0.00 39.30 3.69
4898 6685 1.754803 ACGCTTAAGGGTCATCGATCA 59.245 47.619 18.71 0.00 36.39 2.92
4906 6693 2.167281 AGGGTCATCGATCAGTTGAGTG 59.833 50.000 0.00 0.00 29.93 3.51
4939 6726 6.601217 GGTTAGGAGCTTGAGAGAAAAATCAT 59.399 38.462 0.00 0.00 0.00 2.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 0.604780 CTGAGCTCACACCACCCTTG 60.605 60.000 13.74 0.00 0.00 3.61
13 14 4.814147 CAGATAACAACTCTGAGCTCACA 58.186 43.478 13.74 0.79 42.22 3.58
14 15 3.616379 GCAGATAACAACTCTGAGCTCAC 59.384 47.826 13.74 0.00 42.22 3.51
18 19 1.929836 CCGCAGATAACAACTCTGAGC 59.070 52.381 4.19 0.00 42.22 4.26
22 23 3.381908 CCTAGTCCGCAGATAACAACTCT 59.618 47.826 0.00 0.00 0.00 3.24
23 24 3.130693 ACCTAGTCCGCAGATAACAACTC 59.869 47.826 0.00 0.00 0.00 3.01
33 34 1.136984 GACGACACCTAGTCCGCAG 59.863 63.158 0.00 0.00 44.66 5.18
49 50 6.183360 GGAAAACAATGATGGAGCTTAGAGAC 60.183 42.308 0.00 0.00 0.00 3.36
51 52 5.884792 AGGAAAACAATGATGGAGCTTAGAG 59.115 40.000 0.00 0.00 0.00 2.43
61 62 5.121142 GCAACAATGGAGGAAAACAATGATG 59.879 40.000 0.00 0.00 0.00 3.07
62 63 5.012354 AGCAACAATGGAGGAAAACAATGAT 59.988 36.000 0.00 0.00 0.00 2.45
70 71 3.703556 TGACAAAGCAACAATGGAGGAAA 59.296 39.130 0.00 0.00 0.00 3.13
84 85 2.675348 GGTGAGACTGCTATGACAAAGC 59.325 50.000 0.00 0.00 40.50 3.51
103 105 0.250901 AGGAGAAGCAAATGCACGGT 60.251 50.000 8.28 0.00 45.16 4.83
106 108 0.179179 GCGAGGAGAAGCAAATGCAC 60.179 55.000 8.28 1.59 45.16 4.57
155 157 1.871772 CGCTGAGCTCAACAAAGGG 59.128 57.895 18.85 10.08 0.00 3.95
174 176 2.030007 CCAAAGCACCACCAACATGTAG 60.030 50.000 0.00 0.00 0.00 2.74
176 178 0.752054 CCAAAGCACCACCAACATGT 59.248 50.000 0.00 0.00 0.00 3.21
206 208 4.063967 CGACGCCACTGCCACCTA 62.064 66.667 0.00 0.00 0.00 3.08
215 217 2.735857 GTGTACACCCGACGCCAC 60.736 66.667 15.42 0.00 0.00 5.01
225 227 3.483421 ACCCAAAAGCTAAGGTGTACAC 58.517 45.455 18.01 18.01 0.00 2.90
240 242 5.437060 GGAAGATACTGATGCTTACCCAAA 58.563 41.667 0.00 0.00 0.00 3.28
247 249 2.688446 TCGTCGGAAGATACTGATGCTT 59.312 45.455 0.00 0.00 45.19 3.91
250 252 5.343593 GCTAATTCGTCGGAAGATACTGATG 59.656 44.000 0.00 0.00 45.19 3.07
251 253 5.241949 AGCTAATTCGTCGGAAGATACTGAT 59.758 40.000 0.00 0.00 45.19 2.90
254 256 4.023021 GGAGCTAATTCGTCGGAAGATACT 60.023 45.833 0.00 0.00 45.19 2.12
268 270 1.202698 GCCCATCACGAGGAGCTAATT 60.203 52.381 0.00 0.00 0.00 1.40
271 273 2.490148 CGCCCATCACGAGGAGCTA 61.490 63.158 0.00 0.00 0.00 3.32
272 274 3.842923 CGCCCATCACGAGGAGCT 61.843 66.667 0.00 0.00 0.00 4.09
316 318 2.820728 TTCAGATACGACCTCCTCCA 57.179 50.000 0.00 0.00 0.00 3.86
349 351 6.086785 AGAGTAACACTTTGTCACCTCTAC 57.913 41.667 0.00 0.00 31.35 2.59
351 353 4.649674 TGAGAGTAACACTTTGTCACCTCT 59.350 41.667 0.00 0.00 33.91 3.69
352 354 4.745620 GTGAGAGTAACACTTTGTCACCTC 59.254 45.833 0.00 0.00 32.30 3.85
354 356 3.808174 GGTGAGAGTAACACTTTGTCACC 59.192 47.826 15.13 15.13 41.92 4.02
355 357 4.508124 CAGGTGAGAGTAACACTTTGTCAC 59.492 45.833 0.00 8.04 38.20 3.67
411 413 0.323178 AAGCAGGCCACCATGAAGAG 60.323 55.000 5.01 0.00 0.00 2.85
415 417 1.851065 TAGCAAGCAGGCCACCATGA 61.851 55.000 5.01 0.00 0.00 3.07
417 419 1.077212 CTAGCAAGCAGGCCACCAT 60.077 57.895 5.01 0.00 0.00 3.55
437 520 4.582869 AGATAGACAATGCTCTGCAAACA 58.417 39.130 0.00 0.00 43.62 2.83
445 528 9.548208 GAAACAACTAAAAGATAGACAATGCTC 57.452 33.333 0.00 0.00 0.00 4.26
500 583 6.040166 AGCCATCAATTGTCCAAGATTACATC 59.960 38.462 5.13 0.00 0.00 3.06
501 584 5.895534 AGCCATCAATTGTCCAAGATTACAT 59.104 36.000 5.13 0.00 0.00 2.29
509 592 4.686191 AACAAAGCCATCAATTGTCCAA 57.314 36.364 5.13 0.00 36.33 3.53
513 596 8.674263 TTTGAATTAACAAAGCCATCAATTGT 57.326 26.923 5.13 0.00 38.85 2.71
515 598 9.504708 TGATTTGAATTAACAAAGCCATCAATT 57.495 25.926 0.00 0.00 42.86 2.32
516 599 9.158233 CTGATTTGAATTAACAAAGCCATCAAT 57.842 29.630 0.00 0.00 42.86 2.57
518 601 7.814107 GTCTGATTTGAATTAACAAAGCCATCA 59.186 33.333 0.00 0.00 42.86 3.07
519 602 8.031277 AGTCTGATTTGAATTAACAAAGCCATC 58.969 33.333 0.00 0.00 42.86 3.51
521 604 7.288810 AGTCTGATTTGAATTAACAAAGCCA 57.711 32.000 0.00 0.00 42.86 4.75
522 605 7.867403 TCAAGTCTGATTTGAATTAACAAAGCC 59.133 33.333 12.47 0.00 42.86 4.35
526 609 9.734620 CAAGTCAAGTCTGATTTGAATTAACAA 57.265 29.630 22.18 0.00 46.79 2.83
535 618 4.070716 AGGCTCAAGTCAAGTCTGATTTG 58.929 43.478 6.57 6.57 45.79 2.32
536 619 4.363991 AGGCTCAAGTCAAGTCTGATTT 57.636 40.909 0.00 0.00 32.08 2.17
537 620 4.202398 TGAAGGCTCAAGTCAAGTCTGATT 60.202 41.667 0.00 0.00 33.05 2.57
538 621 3.326006 TGAAGGCTCAAGTCAAGTCTGAT 59.674 43.478 0.00 0.00 33.05 2.90
539 622 2.700371 TGAAGGCTCAAGTCAAGTCTGA 59.300 45.455 0.00 0.00 0.00 3.27
540 623 3.117491 TGAAGGCTCAAGTCAAGTCTG 57.883 47.619 0.00 0.00 0.00 3.51
541 624 3.845781 TTGAAGGCTCAAGTCAAGTCT 57.154 42.857 0.00 0.00 36.62 3.24
542 625 4.322567 AGATTGAAGGCTCAAGTCAAGTC 58.677 43.478 5.66 4.20 44.68 3.01
543 626 4.363991 AGATTGAAGGCTCAAGTCAAGT 57.636 40.909 5.66 0.00 44.68 3.16
578 661 3.206150 CGGTGTTGAATGGATTAGGGAG 58.794 50.000 0.00 0.00 0.00 4.30
609 694 1.507141 GAATTGCTCGTATGCCCGGG 61.507 60.000 19.09 19.09 0.00 5.73
653 738 9.241919 TGTTTTATTATCTCTTGGATCTTGCAA 57.758 29.630 0.00 0.00 35.98 4.08
700 797 9.823647 TTGTCTATCCAACTTATGATCTTCTTC 57.176 33.333 0.00 0.00 0.00 2.87
719 816 8.798859 AACTTGAGAGCACAATTATTGTCTAT 57.201 30.769 7.71 6.08 43.23 1.98
805 1215 3.251004 ACTGGTTTGAGTGATCTTTTCGC 59.749 43.478 0.00 0.00 34.93 4.70
900 1310 2.825836 GAATGCGTGGGCCAGAGG 60.826 66.667 6.40 0.00 38.85 3.69
901 1311 1.033746 AATGAATGCGTGGGCCAGAG 61.034 55.000 6.40 5.33 38.85 3.35
902 1312 1.001020 AATGAATGCGTGGGCCAGA 60.001 52.632 6.40 0.00 38.85 3.86
903 1313 1.314534 TGAATGAATGCGTGGGCCAG 61.315 55.000 6.40 1.95 38.85 4.85
904 1314 0.683828 ATGAATGAATGCGTGGGCCA 60.684 50.000 0.00 0.00 38.85 5.36
905 1315 0.031178 GATGAATGAATGCGTGGGCC 59.969 55.000 0.00 0.00 38.85 5.80
906 1316 0.740149 TGATGAATGAATGCGTGGGC 59.260 50.000 0.00 0.00 40.52 5.36
1964 2428 6.916909 TGGTAAAATTGCAGGGGAATAGATA 58.083 36.000 0.00 0.00 0.00 1.98
1988 2452 2.154462 GTACAAGCAAGCACAGGACAT 58.846 47.619 0.00 0.00 0.00 3.06
1989 2453 1.593196 GTACAAGCAAGCACAGGACA 58.407 50.000 0.00 0.00 0.00 4.02
2029 2499 5.241506 TGAACAATTAAGAGGCCTCAACAAG 59.758 40.000 33.90 20.05 0.00 3.16
2078 2556 0.251916 TTCCAACCGTAGCCAGGATG 59.748 55.000 0.00 0.00 0.00 3.51
2118 2596 4.144727 GGAGCCTCTCCCCTCCGA 62.145 72.222 1.44 0.00 44.36 4.55
2206 2693 5.486735 TCATGAAATTGCCATTTCCAACT 57.513 34.783 17.86 1.30 45.53 3.16
2218 2705 5.032863 GCAGTTCCGAGAATCATGAAATTG 58.967 41.667 0.00 0.00 33.17 2.32
2256 2743 5.474532 TCATGTCAAAATCCAGAACTGAAGG 59.525 40.000 3.19 0.00 0.00 3.46
2642 3244 3.555547 GGTGGTGATTTGCAACTGAAAAC 59.444 43.478 0.00 0.00 34.44 2.43
2643 3245 3.196469 TGGTGGTGATTTGCAACTGAAAA 59.804 39.130 0.00 0.00 34.44 2.29
3033 3639 8.050930 GTGGGTAAAAATGATCCCTAAGACTTA 58.949 37.037 0.00 0.00 40.48 2.24
3181 3787 6.016777 ACAGAACATTAAGAAAACTGGAGCTG 60.017 38.462 0.00 0.00 0.00 4.24
3342 3948 2.821969 ACGCAATGCCTTTGAGAATTCT 59.178 40.909 7.95 7.95 37.31 2.40
3667 4273 2.015736 AGCAATCGTCTAACAGCAGG 57.984 50.000 0.00 0.00 0.00 4.85
3879 4485 3.449377 TCATGTACGATTCTAGGTTGCCA 59.551 43.478 0.00 0.00 0.00 4.92
3894 4500 2.726066 GCGCTTGCAGAGTTTCATGTAC 60.726 50.000 0.00 0.00 38.92 2.90
4055 4661 2.104111 CGGGGCATTCTACACCTAATCA 59.896 50.000 0.00 0.00 0.00 2.57
4125 4731 0.543410 TGTGGAGCTCCTTTCCGGTA 60.543 55.000 32.28 7.74 37.54 4.02
4142 4748 1.852157 ATGGGGGTGAACGCTCATGT 61.852 55.000 11.68 0.00 46.51 3.21
4184 4790 7.986085 AAATTTACACTCATGTAGTCTGCTT 57.014 32.000 0.00 0.00 42.29 3.91
4332 4939 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
4333 4940 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
4334 4941 3.877508 GGTCATCTATTTTGGAACGGAGG 59.122 47.826 0.00 0.00 0.00 4.30
4335 4942 3.877508 GGGTCATCTATTTTGGAACGGAG 59.122 47.826 0.00 0.00 0.00 4.63
4336 4943 3.264706 TGGGTCATCTATTTTGGAACGGA 59.735 43.478 0.00 0.00 0.00 4.69
4337 4944 3.616219 TGGGTCATCTATTTTGGAACGG 58.384 45.455 0.00 0.00 0.00 4.44
4338 4945 4.700213 AGTTGGGTCATCTATTTTGGAACG 59.300 41.667 0.00 0.00 0.00 3.95
4339 4946 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
4340 4947 8.893563 ATAAAGTTGGGTCATCTATTTTGGAA 57.106 30.769 0.00 0.00 0.00 3.53
4341 4948 9.403583 GTATAAAGTTGGGTCATCTATTTTGGA 57.596 33.333 0.00 0.00 0.00 3.53
4342 4949 9.408648 AGTATAAAGTTGGGTCATCTATTTTGG 57.591 33.333 0.00 0.00 0.00 3.28
4387 4994 9.408648 CCAAAATAGATGACCCAACTTTATACT 57.591 33.333 0.00 0.00 0.00 2.12
4388 4995 9.403583 TCCAAAATAGATGACCCAACTTTATAC 57.596 33.333 0.00 0.00 0.00 1.47
4389 4996 9.983024 TTCCAAAATAGATGACCCAACTTTATA 57.017 29.630 0.00 0.00 0.00 0.98
4390 4997 8.749354 GTTCCAAAATAGATGACCCAACTTTAT 58.251 33.333 0.00 0.00 0.00 1.40
4391 4998 7.094549 CGTTCCAAAATAGATGACCCAACTTTA 60.095 37.037 0.00 0.00 0.00 1.85
4392 4999 6.294508 CGTTCCAAAATAGATGACCCAACTTT 60.295 38.462 0.00 0.00 0.00 2.66
4393 5000 5.183140 CGTTCCAAAATAGATGACCCAACTT 59.817 40.000 0.00 0.00 0.00 2.66
4394 5001 4.700213 CGTTCCAAAATAGATGACCCAACT 59.300 41.667 0.00 0.00 0.00 3.16
4395 5002 4.142469 CCGTTCCAAAATAGATGACCCAAC 60.142 45.833 0.00 0.00 0.00 3.77
4396 5003 4.013728 CCGTTCCAAAATAGATGACCCAA 58.986 43.478 0.00 0.00 0.00 4.12
4397 5004 3.264706 TCCGTTCCAAAATAGATGACCCA 59.735 43.478 0.00 0.00 0.00 4.51
4398 5005 3.877508 CTCCGTTCCAAAATAGATGACCC 59.122 47.826 0.00 0.00 0.00 4.46
4399 5006 3.877508 CCTCCGTTCCAAAATAGATGACC 59.122 47.826 0.00 0.00 0.00 4.02
4400 5007 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
4401 5008 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
4402 5009 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
4403 5010 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
4404 5011 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
4405 5012 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
4406 5013 3.198417 GGTACTCCCTCCGTTCCAAAATA 59.802 47.826 0.00 0.00 0.00 1.40
4407 5014 2.026542 GGTACTCCCTCCGTTCCAAAAT 60.027 50.000 0.00 0.00 0.00 1.82
4408 5015 1.348696 GGTACTCCCTCCGTTCCAAAA 59.651 52.381 0.00 0.00 0.00 2.44
4409 5016 0.978907 GGTACTCCCTCCGTTCCAAA 59.021 55.000 0.00 0.00 0.00 3.28
4410 5017 0.115745 AGGTACTCCCTCCGTTCCAA 59.884 55.000 0.00 0.00 40.71 3.53
4411 5018 1.778981 AGGTACTCCCTCCGTTCCA 59.221 57.895 0.00 0.00 40.71 3.53
4412 5019 4.781264 AGGTACTCCCTCCGTTCC 57.219 61.111 0.00 0.00 40.71 3.62
4424 5031 5.952033 AGATTACGAAGACAACTGAGGTAC 58.048 41.667 0.00 0.00 0.00 3.34
4425 5032 6.015688 ACAAGATTACGAAGACAACTGAGGTA 60.016 38.462 0.00 0.00 0.00 3.08
4426 5033 5.221461 ACAAGATTACGAAGACAACTGAGGT 60.221 40.000 0.00 0.00 0.00 3.85
4427 5034 5.230942 ACAAGATTACGAAGACAACTGAGG 58.769 41.667 0.00 0.00 0.00 3.86
4618 5226 6.648725 AGAAGTAACTTGAGCAACAGAATCTC 59.351 38.462 0.00 0.00 0.00 2.75
4620 5228 6.597614 CAGAAGTAACTTGAGCAACAGAATC 58.402 40.000 0.00 0.00 0.00 2.52
4621 5229 5.049129 GCAGAAGTAACTTGAGCAACAGAAT 60.049 40.000 0.00 0.00 0.00 2.40
4624 5232 3.812053 AGCAGAAGTAACTTGAGCAACAG 59.188 43.478 0.00 0.00 0.00 3.16
4641 6419 4.600692 TTGTAGCAAACAGAGTAGCAGA 57.399 40.909 0.00 0.00 39.87 4.26
4669 6453 7.201145 AGCAGTGATAACAATAGTAACGGTAG 58.799 38.462 0.00 0.00 0.00 3.18
4789 6573 0.183971 TCGACCAAAAGGGAGCCAAA 59.816 50.000 0.00 0.00 41.15 3.28
4799 6583 7.695480 TCCAGATTTATTGATTCGACCAAAA 57.305 32.000 3.87 0.00 0.00 2.44
4819 6603 4.100189 AGTCTTCGAGGGTATTTCATCCAG 59.900 45.833 0.00 0.00 0.00 3.86
4897 6684 0.037303 ACCCATCTGGCACTCAACTG 59.963 55.000 0.00 0.00 37.83 3.16
4898 6685 0.773644 AACCCATCTGGCACTCAACT 59.226 50.000 0.00 0.00 37.83 3.16
4906 6693 0.548510 AAGCTCCTAACCCATCTGGC 59.451 55.000 0.00 0.00 37.83 4.85
4939 6726 9.296400 CTTTTAACATCTCCAAAACTTTTTCGA 57.704 29.630 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.