Multiple sequence alignment - TraesCS1A01G352800

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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 TraesCS1A01G352800 chr1A 100.000 3695 0 0 1 3695 536668030 536664336 0.000000e+00 6824.0
1 TraesCS1A01G352800 chr1A 100.000 31 0 0 554 584 58931195 58931165 1.430000e-04 58.4
2 TraesCS1A01G352800 chr1D 84.312 1976 134 63 1399 3316 441297396 441299253 0.000000e+00 1770.0
3 TraesCS1A01G352800 chr1D 90.483 725 40 18 698 1399 441296632 441297350 0.000000e+00 929.0
4 TraesCS1A01G352800 chr1D 82.467 673 58 23 1398 2028 448449575 448450229 5.430000e-148 534.0
5 TraesCS1A01G352800 chr1D 90.173 346 14 5 3365 3695 441299342 441299682 2.040000e-117 433.0
6 TraesCS1A01G352800 chr1D 84.935 385 34 10 1398 1775 244964399 244964766 5.830000e-98 368.0
7 TraesCS1A01G352800 chr1D 95.385 65 3 0 1327 1391 448449459 448449523 1.820000e-18 104.0
8 TraesCS1A01G352800 chr1D 95.238 63 3 0 1327 1389 244964283 244964345 2.350000e-17 100.0
9 TraesCS1A01G352800 chr1B 84.437 1902 134 48 1399 3244 599333230 599335025 0.000000e+00 1724.0
10 TraesCS1A01G352800 chr1B 93.290 775 39 10 629 1399 599332414 599333179 0.000000e+00 1131.0
11 TraesCS1A01G352800 chr1B 85.411 377 21 12 3344 3695 599336421 599336788 9.760000e-96 361.0
12 TraesCS1A01G352800 chr1B 91.667 60 4 1 3264 3322 599336302 599336361 8.500000e-12 82.4
13 TraesCS1A01G352800 chr2A 92.599 554 36 3 2 552 754021145 754021696 0.000000e+00 791.0
14 TraesCS1A01G352800 chr2A 100.000 29 0 0 558 586 763189752 763189724 2.000000e-03 54.7
15 TraesCS1A01G352800 chr7A 89.180 573 53 6 1 568 8176278 8176846 0.000000e+00 706.0
16 TraesCS1A01G352800 chr7A 88.831 573 55 6 1 568 8055638 8056206 0.000000e+00 695.0
17 TraesCS1A01G352800 chr7A 89.234 483 48 3 88 568 8218568 8219048 5.280000e-168 601.0
18 TraesCS1A01G352800 chr6D 87.074 557 60 6 1 553 71359608 71359060 1.460000e-173 619.0
19 TraesCS1A01G352800 chr5D 86.918 558 66 5 1 554 33709068 33709622 1.460000e-173 619.0
20 TraesCS1A01G352800 chr5D 84.393 346 32 10 1398 1736 445000677 445000347 1.660000e-83 320.0
21 TraesCS1A01G352800 chr5D 94.521 73 4 0 1327 1399 445000793 445000721 3.020000e-21 113.0
22 TraesCS1A01G352800 chr3A 86.885 549 62 6 20 559 590370410 590369863 1.130000e-169 606.0
23 TraesCS1A01G352800 chr3A 84.416 385 36 10 1398 1775 702448449 702448816 1.260000e-94 357.0
24 TraesCS1A01G352800 chr3A 83.815 173 23 4 1025 1195 515913607 515913776 3.820000e-35 159.0
25 TraesCS1A01G352800 chr3A 81.347 193 32 4 1003 1193 389129647 389129457 1.780000e-33 154.0
26 TraesCS1A01G352800 chr7D 89.957 468 40 2 88 554 530556227 530555766 6.830000e-167 597.0
27 TraesCS1A01G352800 chr3D 88.687 495 45 5 1 492 327462665 327462179 8.840000e-166 593.0
28 TraesCS1A01G352800 chr3D 84.795 171 25 1 1025 1195 396211794 396211963 1.760000e-38 171.0
29 TraesCS1A01G352800 chr3D 81.347 193 32 4 1003 1193 294350421 294350231 1.780000e-33 154.0
30 TraesCS1A01G352800 chr4D 84.935 385 34 11 1398 1775 264338874 264339241 5.830000e-98 368.0
31 TraesCS1A01G352800 chr4D 96.923 65 2 0 1327 1391 264338758 264338822 3.900000e-20 110.0
32 TraesCS1A01G352800 chr3B 82.227 422 35 11 1574 1959 672763087 672762670 9.890000e-86 327.0
33 TraesCS1A01G352800 chr3B 81.347 193 32 4 1003 1193 388106452 388106262 1.780000e-33 154.0
34 TraesCS1A01G352800 chr3B 94.737 38 1 1 550 586 786143989 786143952 1.430000e-04 58.4
35 TraesCS1A01G352800 chr7B 96.970 33 1 0 554 586 702865987 702866019 5.160000e-04 56.5


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 TraesCS1A01G352800 chr1A 536664336 536668030 3694 True 6824.0 6824 100.000000 1 3695 1 chr1A.!!$R2 3694
1 TraesCS1A01G352800 chr1D 441296632 441299682 3050 False 1044.0 1770 88.322667 698 3695 3 chr1D.!!$F2 2997
2 TraesCS1A01G352800 chr1D 448449459 448450229 770 False 319.0 534 88.926000 1327 2028 2 chr1D.!!$F3 701
3 TraesCS1A01G352800 chr1B 599332414 599336788 4374 False 824.6 1724 88.701250 629 3695 4 chr1B.!!$F1 3066
4 TraesCS1A01G352800 chr2A 754021145 754021696 551 False 791.0 791 92.599000 2 552 1 chr2A.!!$F1 550
5 TraesCS1A01G352800 chr7A 8176278 8176846 568 False 706.0 706 89.180000 1 568 1 chr7A.!!$F2 567
6 TraesCS1A01G352800 chr7A 8055638 8056206 568 False 695.0 695 88.831000 1 568 1 chr7A.!!$F1 567
7 TraesCS1A01G352800 chr6D 71359060 71359608 548 True 619.0 619 87.074000 1 553 1 chr6D.!!$R1 552
8 TraesCS1A01G352800 chr5D 33709068 33709622 554 False 619.0 619 86.918000 1 554 1 chr5D.!!$F1 553
9 TraesCS1A01G352800 chr3A 590369863 590370410 547 True 606.0 606 86.885000 20 559 1 chr3A.!!$R2 539

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
696 705 0.603065 AATCTTGAAGCAAACCCGGC 59.397 50.000 0.0 0.0 0.00 6.13 F
891 918 1.227556 CGATCCCCCAAGGTAAGCG 60.228 63.158 0.0 0.0 36.75 4.68 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2622 2765 0.251653 AGAACCACCCGTAGAGCTCA 60.252 55.0 17.77 0.0 0.00 4.26 R
2849 3014 0.456312 ACGAGTCGAATTCACCGAGC 60.456 55.0 21.50 0.0 36.66 5.03 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
198 203 1.553690 CCACCATCTCCCGTCCTTGT 61.554 60.000 0.00 0.00 0.00 3.16
215 220 1.135315 GTCGCGGTCGTTGCTACTA 59.865 57.895 6.13 0.00 36.96 1.82
242 247 3.563479 GGGTTAGGGATTTGGCTTGAGAA 60.563 47.826 0.00 0.00 0.00 2.87
304 309 3.519913 AGAGAAGAACGGCTAGGGATTTT 59.480 43.478 0.00 0.00 0.00 1.82
364 369 7.979786 ACTCGGGGATCTATTTACATCATAT 57.020 36.000 0.00 0.00 0.00 1.78
400 409 0.675522 AATTAACCTGGACGTGGGCG 60.676 55.000 0.00 0.00 44.93 6.13
406 415 1.597027 CTGGACGTGGGCGAAGTTT 60.597 57.895 0.00 0.00 42.00 2.66
484 493 5.047306 GCAAGTTTAGGGGCTAATTTGAGTT 60.047 40.000 0.00 0.00 29.98 3.01
554 563 7.843490 TGTACCAATAGTGCAATTAACTCTC 57.157 36.000 0.00 0.00 38.23 3.20
555 564 6.533723 TGTACCAATAGTGCAATTAACTCTCG 59.466 38.462 0.00 0.00 38.23 4.04
556 565 4.876107 ACCAATAGTGCAATTAACTCTCGG 59.124 41.667 0.00 0.27 0.00 4.63
563 572 6.381801 AGTGCAATTAACTCTCGGAAAAATG 58.618 36.000 0.00 0.00 0.00 2.32
568 577 9.997482 GCAATTAACTCTCGGAAAAATGTATAA 57.003 29.630 0.00 0.00 0.00 0.98
640 649 8.712285 ACATTTATTTCTTATTTCTCCGACGA 57.288 30.769 0.00 0.00 0.00 4.20
641 650 8.818057 ACATTTATTTCTTATTTCTCCGACGAG 58.182 33.333 0.00 0.00 37.48 4.18
659 668 5.624344 ACGAGAGTATTTCAGAACGAAGA 57.376 39.130 0.00 0.00 46.88 2.87
661 670 5.031578 CGAGAGTATTTCAGAACGAAGAGG 58.968 45.833 0.00 0.00 34.32 3.69
662 671 5.392165 CGAGAGTATTTCAGAACGAAGAGGT 60.392 44.000 0.00 0.00 34.32 3.85
663 672 6.183360 CGAGAGTATTTCAGAACGAAGAGGTA 60.183 42.308 0.00 0.00 34.32 3.08
665 674 8.068892 AGAGTATTTCAGAACGAAGAGGTATT 57.931 34.615 0.00 0.00 34.32 1.89
666 675 9.186837 AGAGTATTTCAGAACGAAGAGGTATTA 57.813 33.333 0.00 0.00 34.32 0.98
696 705 0.603065 AATCTTGAAGCAAACCCGGC 59.397 50.000 0.00 0.00 0.00 6.13
784 798 1.690985 CTCTCCAACCTCCCCTCCC 60.691 68.421 0.00 0.00 0.00 4.30
785 799 2.692741 CTCCAACCTCCCCTCCCC 60.693 72.222 0.00 0.00 0.00 4.81
786 800 3.216371 TCCAACCTCCCCTCCCCT 61.216 66.667 0.00 0.00 0.00 4.79
787 801 2.692741 CCAACCTCCCCTCCCCTC 60.693 72.222 0.00 0.00 0.00 4.30
806 820 3.868200 CTGCCCTCCCAAAAGCCGT 62.868 63.158 0.00 0.00 0.00 5.68
891 918 1.227556 CGATCCCCCAAGGTAAGCG 60.228 63.158 0.00 0.00 36.75 4.68
1131 1158 3.767230 CAGTTCGTCGTGCAGCCG 61.767 66.667 0.00 0.00 0.00 5.52
1237 1275 4.760047 CCCCGCGGTCCTTGTCTG 62.760 72.222 26.12 4.67 0.00 3.51
1239 1277 4.760047 CCGCGGTCCTTGTCTGGG 62.760 72.222 19.50 0.00 0.00 4.45
1244 1282 3.050275 GTCCTTGTCTGGGCGTGC 61.050 66.667 0.00 0.00 0.00 5.34
1292 1330 1.991264 CGATGTGCATGATCTCGATCC 59.009 52.381 0.00 0.00 37.02 3.36
1300 1338 2.808523 TGATCTCGATCCATGCAGTC 57.191 50.000 4.58 0.00 37.02 3.51
1325 1363 4.454678 TGATGCCATCTGTCAAACCTATC 58.545 43.478 6.21 0.00 0.00 2.08
1331 1369 5.353123 GCCATCTGTCAAACCTATCGTTTTA 59.647 40.000 0.00 0.00 42.15 1.52
1391 1430 5.103898 TCAGATAGACAGTGTCCTAGGTCAT 60.104 44.000 19.71 1.16 32.18 3.06
1472 1563 2.516906 TGTGGCTGCTTGATGAATGAA 58.483 42.857 0.00 0.00 0.00 2.57
1473 1564 2.892215 TGTGGCTGCTTGATGAATGAAA 59.108 40.909 0.00 0.00 0.00 2.69
1474 1565 3.512329 TGTGGCTGCTTGATGAATGAAAT 59.488 39.130 0.00 0.00 0.00 2.17
1475 1566 3.863424 GTGGCTGCTTGATGAATGAAATG 59.137 43.478 0.00 0.00 0.00 2.32
1476 1567 2.864343 GGCTGCTTGATGAATGAAATGC 59.136 45.455 0.00 0.00 0.00 3.56
1502 1593 9.251792 CGGTAATACTACATTATGCAAGTGTTA 57.748 33.333 10.02 10.52 0.00 2.41
1525 1616 9.624697 GTTATGATTGAGCAAACTATGAAACAA 57.375 29.630 0.00 0.00 0.00 2.83
1583 1677 2.942804 TCTGCAAGAAATGGAACACCA 58.057 42.857 0.00 0.00 41.50 4.17
1600 1694 3.317993 ACACCAATAGATAAATTGCCGGC 59.682 43.478 22.73 22.73 35.85 6.13
1609 1703 6.992063 AGATAAATTGCCGGCTATTCATAG 57.008 37.500 31.43 0.00 0.00 2.23
1621 1715 7.064728 GCCGGCTATTCATAGAACCTAATTTAG 59.935 40.741 22.15 0.00 32.05 1.85
1638 1732 6.478512 AATTTAGGTTGCCTCTTTGTTTGA 57.521 33.333 0.00 0.00 34.61 2.69
1641 1735 4.590850 AGGTTGCCTCTTTGTTTGATTC 57.409 40.909 0.00 0.00 0.00 2.52
1646 1740 2.552315 GCCTCTTTGTTTGATTCGTGGA 59.448 45.455 0.00 0.00 0.00 4.02
1648 1742 4.321230 GCCTCTTTGTTTGATTCGTGGATT 60.321 41.667 0.00 0.00 0.00 3.01
1651 1745 6.371548 CCTCTTTGTTTGATTCGTGGATTCTA 59.628 38.462 0.00 0.00 0.00 2.10
1700 1796 8.386606 GCATTACTAGAAGTGTTCTGATTGAAG 58.613 37.037 0.00 0.00 40.94 3.02
1737 1834 1.725641 TTCTGAAATGTCGCGATGCT 58.274 45.000 14.06 0.00 0.00 3.79
1741 1838 2.135139 TGAAATGTCGCGATGCTATCC 58.865 47.619 14.06 0.00 0.00 2.59
1745 1842 3.876274 ATGTCGCGATGCTATCCTATT 57.124 42.857 14.06 0.00 0.00 1.73
1840 1949 1.966451 CTAATTCCATCGCGGGGCC 60.966 63.158 6.13 0.00 34.36 5.80
1895 2025 4.868734 CGTAAGTCCTTAGATTGGAACACC 59.131 45.833 0.00 0.00 39.29 4.16
2053 2185 9.677567 TTAACTAACTTCATCATGTCAAAAAGC 57.322 29.630 0.00 0.00 0.00 3.51
2054 2186 7.516198 ACTAACTTCATCATGTCAAAAAGCT 57.484 32.000 0.00 0.00 0.00 3.74
2063 2195 5.835257 TCATGTCAAAAAGCTCCTTTTCTG 58.165 37.500 3.69 5.34 41.98 3.02
2067 2199 6.877236 TGTCAAAAAGCTCCTTTTCTGATTT 58.123 32.000 3.69 0.00 41.98 2.17
2072 2204 6.721704 AAAGCTCCTTTTCTGATTTTCAGT 57.278 33.333 4.56 0.00 44.58 3.41
2079 2211 9.455847 CTCCTTTTCTGATTTTCAGTAAGTTTG 57.544 33.333 4.56 0.22 44.58 2.93
2080 2212 8.966868 TCCTTTTCTGATTTTCAGTAAGTTTGT 58.033 29.630 4.56 0.00 44.58 2.83
2081 2213 9.586435 CCTTTTCTGATTTTCAGTAAGTTTGTT 57.414 29.630 4.56 0.00 44.58 2.83
2134 2274 8.727910 GGGAAGGTTACTATAAACTTCTGTTTG 58.272 37.037 20.30 0.00 45.01 2.93
2148 2288 6.170506 ACTTCTGTTTGGATTTCATAGCGTA 58.829 36.000 0.00 0.00 0.00 4.42
2176 2316 7.203910 AGAATGTGCTCTAGTTATACCTTTCG 58.796 38.462 0.00 0.00 0.00 3.46
2180 2320 7.478322 TGTGCTCTAGTTATACCTTTCGTAAG 58.522 38.462 0.00 0.00 0.00 2.34
2266 2407 7.865707 ACTTCTTGAATAGTTGTACTTTGCAG 58.134 34.615 0.00 0.00 0.00 4.41
2275 2416 5.650543 AGTTGTACTTTGCAGAAGTTTTGG 58.349 37.500 16.02 0.00 0.00 3.28
2276 2417 5.185056 AGTTGTACTTTGCAGAAGTTTTGGT 59.815 36.000 16.02 0.00 0.00 3.67
2277 2418 4.992688 TGTACTTTGCAGAAGTTTTGGTG 58.007 39.130 16.02 0.00 0.00 4.17
2278 2419 4.702612 TGTACTTTGCAGAAGTTTTGGTGA 59.297 37.500 16.02 0.00 0.00 4.02
2279 2420 4.799564 ACTTTGCAGAAGTTTTGGTGAA 57.200 36.364 8.03 0.00 0.00 3.18
2280 2421 5.343307 ACTTTGCAGAAGTTTTGGTGAAT 57.657 34.783 8.03 0.00 0.00 2.57
2281 2422 6.463995 ACTTTGCAGAAGTTTTGGTGAATA 57.536 33.333 8.03 0.00 0.00 1.75
2282 2423 6.273071 ACTTTGCAGAAGTTTTGGTGAATAC 58.727 36.000 8.03 0.00 0.00 1.89
2283 2424 5.843673 TTGCAGAAGTTTTGGTGAATACA 57.156 34.783 0.00 0.00 0.00 2.29
2285 2426 6.012658 TGCAGAAGTTTTGGTGAATACATC 57.987 37.500 0.00 0.00 0.00 3.06
2289 2430 7.651808 CAGAAGTTTTGGTGAATACATCAAGT 58.348 34.615 0.00 0.00 45.91 3.16
2295 2436 7.757941 TTTGGTGAATACATCAAGTCATCAA 57.242 32.000 0.00 0.00 45.91 2.57
2296 2437 6.741992 TGGTGAATACATCAAGTCATCAAC 57.258 37.500 0.00 0.00 40.50 3.18
2308 2449 9.334947 CATCAAGTCATCAACCTAAATCTACAT 57.665 33.333 0.00 0.00 0.00 2.29
2330 2471 1.275856 TGCAATTTCCTGAACCATGCC 59.724 47.619 0.00 0.00 0.00 4.40
2340 2481 2.237143 CTGAACCATGCCCTAGAACTGA 59.763 50.000 0.00 0.00 0.00 3.41
2352 2493 5.280215 GCCCTAGAACTGAATACCTGCATAT 60.280 44.000 0.00 0.00 0.00 1.78
2353 2494 6.745474 GCCCTAGAACTGAATACCTGCATATT 60.745 42.308 0.00 0.00 0.00 1.28
2354 2495 6.652481 CCCTAGAACTGAATACCTGCATATTG 59.348 42.308 0.00 0.00 0.00 1.90
2356 2497 4.823989 AGAACTGAATACCTGCATATTGCC 59.176 41.667 0.00 0.00 44.23 4.52
2357 2498 3.490348 ACTGAATACCTGCATATTGCCC 58.510 45.455 0.00 0.00 44.23 5.36
2359 2500 4.147321 CTGAATACCTGCATATTGCCCTT 58.853 43.478 0.00 0.00 44.23 3.95
2361 2502 4.141181 TGAATACCTGCATATTGCCCTTCT 60.141 41.667 0.00 0.00 44.23 2.85
2362 2503 5.073008 TGAATACCTGCATATTGCCCTTCTA 59.927 40.000 0.00 0.00 44.23 2.10
2363 2504 5.786121 ATACCTGCATATTGCCCTTCTAT 57.214 39.130 0.00 0.00 44.23 1.98
2364 2505 6.891306 ATACCTGCATATTGCCCTTCTATA 57.109 37.500 0.00 0.00 44.23 1.31
2365 2506 5.171339 ACCTGCATATTGCCCTTCTATAG 57.829 43.478 0.00 0.00 44.23 1.31
2367 2508 5.073691 ACCTGCATATTGCCCTTCTATAGTT 59.926 40.000 0.00 0.00 44.23 2.24
2375 2518 3.785887 TGCCCTTCTATAGTTCCAACCAT 59.214 43.478 0.00 0.00 0.00 3.55
2385 2528 6.875972 ATAGTTCCAACCATAAGACTGTCT 57.124 37.500 4.06 4.06 0.00 3.41
2386 2529 5.568620 AGTTCCAACCATAAGACTGTCTT 57.431 39.130 24.80 24.80 40.35 3.01
2387 2530 5.941788 AGTTCCAACCATAAGACTGTCTTT 58.058 37.500 26.33 12.61 37.89 2.52
2417 2560 5.683876 AGCTACTCATCACATTTACCTGT 57.316 39.130 0.00 0.00 0.00 4.00
2463 2606 1.865788 TTCATTGGCCGCAGCTTGAC 61.866 55.000 0.00 0.00 39.73 3.18
2481 2624 7.647318 CAGCTTGACTATTCACTGTATCTGTAG 59.353 40.741 0.00 0.00 0.00 2.74
2567 2710 1.311859 CAAGTGAAGCAGCTGTGGAA 58.688 50.000 16.64 0.00 0.00 3.53
2622 2765 1.448540 CATCGCTCTGTTCGGCCTT 60.449 57.895 0.00 0.00 0.00 4.35
2655 2798 1.805945 GTTCTGCGTCGGCGAGATT 60.806 57.895 16.53 0.00 44.10 2.40
2658 2801 4.435436 TGCGTCGGCGAGATTGCT 62.435 61.111 16.53 0.00 44.10 3.91
2676 2819 2.132089 CTGGCCGGGGTTTCACCTTA 62.132 60.000 2.57 0.00 38.64 2.69
2709 2852 1.743252 CTGAGCGCCTTCCTTCCAC 60.743 63.158 2.29 0.00 0.00 4.02
2803 2947 3.729462 CGTGCGAAGTTTTGGTTTTCTGA 60.729 43.478 0.00 0.00 0.00 3.27
2804 2948 4.170256 GTGCGAAGTTTTGGTTTTCTGAA 58.830 39.130 0.00 0.00 0.00 3.02
2853 3018 2.922779 AAAAAGTACACCCGGCTCG 58.077 52.632 0.00 0.00 0.00 5.03
2855 3020 1.761500 AAAAGTACACCCGGCTCGGT 61.761 55.000 11.85 1.40 46.80 4.69
2861 3026 2.267961 ACCCGGCTCGGTGAATTC 59.732 61.111 11.85 0.00 46.80 2.17
2862 3027 2.890474 CCCGGCTCGGTGAATTCG 60.890 66.667 11.85 0.00 46.80 3.34
2863 3028 2.183300 CCGGCTCGGTGAATTCGA 59.817 61.111 0.04 0.00 42.73 3.71
2864 3029 2.165301 CCGGCTCGGTGAATTCGAC 61.165 63.158 0.04 0.55 42.73 4.20
2905 3070 1.573026 TTGTCGCACGCTTAGTTGAA 58.427 45.000 0.00 0.00 0.00 2.69
2969 3134 1.000060 TGCCTTGCTTGCTTGCTAAAG 60.000 47.619 3.47 0.46 36.41 1.85
2977 3142 0.110295 TGCTTGCTAAAGTCAGGGCA 59.890 50.000 0.00 0.00 35.69 5.36
2978 3143 1.247567 GCTTGCTAAAGTCAGGGCAA 58.752 50.000 0.00 0.00 41.47 4.52
2979 3144 1.613437 GCTTGCTAAAGTCAGGGCAAA 59.387 47.619 0.00 0.00 42.76 3.68
2980 3145 2.232208 GCTTGCTAAAGTCAGGGCAAAT 59.768 45.455 0.00 0.00 42.76 2.32
2981 3146 3.306294 GCTTGCTAAAGTCAGGGCAAATT 60.306 43.478 0.00 0.00 42.76 1.82
2982 3147 4.082245 GCTTGCTAAAGTCAGGGCAAATTA 60.082 41.667 0.00 0.00 42.76 1.40
2983 3148 5.643379 TTGCTAAAGTCAGGGCAAATTAG 57.357 39.130 0.00 0.00 40.91 1.73
2984 3149 4.016444 TGCTAAAGTCAGGGCAAATTAGG 58.984 43.478 0.00 0.00 0.00 2.69
2985 3150 3.181486 GCTAAAGTCAGGGCAAATTAGGC 60.181 47.826 0.00 0.00 0.00 3.93
2986 3151 2.907458 AAGTCAGGGCAAATTAGGCT 57.093 45.000 0.00 0.00 0.00 4.58
2987 3152 2.426842 AGTCAGGGCAAATTAGGCTC 57.573 50.000 0.00 0.00 0.00 4.70
2988 3153 1.918957 AGTCAGGGCAAATTAGGCTCT 59.081 47.619 0.00 0.00 44.64 4.09
2989 3154 2.310052 AGTCAGGGCAAATTAGGCTCTT 59.690 45.455 1.82 0.00 39.61 2.85
2990 3155 2.685388 GTCAGGGCAAATTAGGCTCTTC 59.315 50.000 1.82 0.00 39.61 2.87
2991 3156 2.027385 CAGGGCAAATTAGGCTCTTCC 58.973 52.381 1.82 0.00 39.61 3.46
2992 3157 1.640670 AGGGCAAATTAGGCTCTTCCA 59.359 47.619 0.00 0.00 39.61 3.53
2993 3158 2.027385 GGGCAAATTAGGCTCTTCCAG 58.973 52.381 0.00 0.00 37.29 3.86
3063 3245 3.075882 TGATCTCCCCATTTCACTTGGTT 59.924 43.478 0.00 0.00 31.99 3.67
3064 3246 2.875296 TCTCCCCATTTCACTTGGTTG 58.125 47.619 0.00 0.00 31.99 3.77
3065 3247 2.445145 TCTCCCCATTTCACTTGGTTGA 59.555 45.455 0.00 0.00 31.99 3.18
3066 3248 3.117322 TCTCCCCATTTCACTTGGTTGAA 60.117 43.478 0.00 0.00 33.55 2.69
3095 3277 6.301486 TCCTGGATGGATGAATTTATCTGTG 58.699 40.000 9.80 0.00 40.56 3.66
3113 3295 0.751452 TGATGTTTGCCTTGCTTGCA 59.249 45.000 0.00 0.00 36.84 4.08
3125 3307 4.567971 CCTTGCTTGCATACCAAAATCAA 58.432 39.130 0.00 0.00 31.94 2.57
3131 3313 4.822685 TGCATACCAAAATCAAGGCAAT 57.177 36.364 0.00 0.00 0.00 3.56
3132 3314 4.505808 TGCATACCAAAATCAAGGCAATG 58.494 39.130 0.00 0.00 0.00 2.82
3133 3315 4.222366 TGCATACCAAAATCAAGGCAATGA 59.778 37.500 0.00 0.00 0.00 2.57
3134 3316 5.104859 TGCATACCAAAATCAAGGCAATGAT 60.105 36.000 0.49 0.49 41.74 2.45
3154 3356 1.640149 TCTCCCCATTTCATTGCTCCA 59.360 47.619 0.00 0.00 0.00 3.86
3198 3400 2.351418 TGTGTTCTTTTGTCACGCTGAG 59.649 45.455 0.00 0.00 35.20 3.35
3215 3417 7.386573 TCACGCTGAGTTTGTAAATCTTAATCA 59.613 33.333 0.00 0.00 0.00 2.57
3234 3436 4.031418 TCAAAGCGATTGCATAACCATG 57.969 40.909 7.90 0.00 46.23 3.66
3250 4694 2.279741 CCATGTCACCAGTTCATACCG 58.720 52.381 0.00 0.00 0.00 4.02
3258 4702 2.288666 CCAGTTCATACCGGTGATTGG 58.711 52.381 19.93 13.52 31.32 3.16
3260 4704 2.936498 CAGTTCATACCGGTGATTGGTC 59.064 50.000 19.93 8.82 40.96 4.02
3340 4819 3.847602 CTCCCTGCTGCTCTCCCG 61.848 72.222 0.00 0.00 0.00 5.14
3452 4970 2.333462 CCCTCTCCCTCCCCCACTA 61.333 68.421 0.00 0.00 0.00 2.74
3471 4989 0.395312 AAAAACCGAGGAAGAGCCGA 59.605 50.000 0.00 0.00 43.43 5.54
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 3.928992 GTGACATCTGAGCTTCATTTCGA 59.071 43.478 0.00 0.00 0.00 3.71
86 87 1.074775 GGTGGCAATGTCAGTCCCA 59.925 57.895 0.00 0.00 0.00 4.37
92 96 2.983030 GTGGCGGTGGCAATGTCA 60.983 61.111 0.00 0.00 40.46 3.58
184 189 2.893398 GCGACAAGGACGGGAGAT 59.107 61.111 0.00 0.00 0.00 2.75
198 203 0.028505 GATAGTAGCAACGACCGCGA 59.971 55.000 8.23 0.00 41.64 5.87
215 220 2.587307 AGCCAAATCCCTAACCCTTGAT 59.413 45.455 0.00 0.00 0.00 2.57
242 247 2.177594 CTCGACCAAGGCAGCCTTCT 62.178 60.000 24.96 12.20 42.67 2.85
254 259 0.865111 CGCAAATTCACACTCGACCA 59.135 50.000 0.00 0.00 0.00 4.02
364 369 1.587066 ATTTACAGGAACCCCCGCTA 58.413 50.000 0.00 0.00 40.87 4.26
400 409 2.251893 CACGTCGGCTCTAGAAACTTC 58.748 52.381 0.00 0.00 0.00 3.01
520 529 5.163804 TGCACTATTGGTACATAAACTTGCG 60.164 40.000 0.00 0.00 39.30 4.85
614 623 9.806203 TCGTCGGAGAAATAAGAAATAAATGTA 57.194 29.630 0.00 0.00 39.69 2.29
615 624 8.712285 TCGTCGGAGAAATAAGAAATAAATGT 57.288 30.769 0.00 0.00 39.69 2.71
616 625 9.031360 TCTCGTCGGAGAAATAAGAAATAAATG 57.969 33.333 0.00 0.00 46.11 2.32
631 640 3.870274 TCTGAAATACTCTCGTCGGAGA 58.130 45.455 15.00 5.52 46.90 3.71
632 641 4.344448 GTTCTGAAATACTCTCGTCGGAG 58.656 47.826 8.60 8.60 41.89 4.63
633 642 3.181513 CGTTCTGAAATACTCTCGTCGGA 60.182 47.826 0.00 0.00 0.00 4.55
634 643 3.099362 CGTTCTGAAATACTCTCGTCGG 58.901 50.000 0.00 0.00 0.00 4.79
635 644 3.999769 TCGTTCTGAAATACTCTCGTCG 58.000 45.455 0.00 0.00 0.00 5.12
636 645 5.629097 TCTTCGTTCTGAAATACTCTCGTC 58.371 41.667 0.00 0.00 35.79 4.20
637 646 5.392165 CCTCTTCGTTCTGAAATACTCTCGT 60.392 44.000 0.00 0.00 35.79 4.18
638 647 5.031578 CCTCTTCGTTCTGAAATACTCTCG 58.968 45.833 0.00 0.00 35.79 4.04
639 648 5.956642 ACCTCTTCGTTCTGAAATACTCTC 58.043 41.667 0.00 0.00 35.79 3.20
640 649 5.986501 ACCTCTTCGTTCTGAAATACTCT 57.013 39.130 0.00 0.00 35.79 3.24
641 650 9.798994 TTAATACCTCTTCGTTCTGAAATACTC 57.201 33.333 0.00 0.00 35.79 2.59
650 659 7.227910 TGCAAACTTTTAATACCTCTTCGTTCT 59.772 33.333 0.00 0.00 0.00 3.01
655 664 9.914131 AGATTTGCAAACTTTTAATACCTCTTC 57.086 29.630 15.41 2.12 0.00 2.87
661 670 9.797473 GCTTCAAGATTTGCAAACTTTTAATAC 57.203 29.630 15.41 8.15 0.00 1.89
662 671 9.539825 TGCTTCAAGATTTGCAAACTTTTAATA 57.460 25.926 15.41 4.37 32.12 0.98
663 672 8.436046 TGCTTCAAGATTTGCAAACTTTTAAT 57.564 26.923 15.41 0.00 32.12 1.40
665 674 7.840342 TTGCTTCAAGATTTGCAAACTTTTA 57.160 28.000 15.41 7.82 41.58 1.52
666 675 6.740411 TTGCTTCAAGATTTGCAAACTTTT 57.260 29.167 15.41 6.43 41.58 2.27
784 798 1.000396 CTTTTGGGAGGGCAGGAGG 60.000 63.158 0.00 0.00 0.00 4.30
785 799 1.680314 GCTTTTGGGAGGGCAGGAG 60.680 63.158 0.00 0.00 0.00 3.69
786 800 2.440599 GCTTTTGGGAGGGCAGGA 59.559 61.111 0.00 0.00 0.00 3.86
787 801 2.681421 GGCTTTTGGGAGGGCAGG 60.681 66.667 0.00 0.00 0.00 4.85
806 820 2.158370 GGTTCTTTCTTTGGGAAGGGGA 60.158 50.000 0.00 0.00 35.16 4.81
956 983 2.693017 TCCTGGGAGAGGGAGAGC 59.307 66.667 0.00 0.00 43.06 4.09
960 987 4.465446 CGGCTCCTGGGAGAGGGA 62.465 72.222 19.64 0.00 44.53 4.20
1131 1158 2.432628 CACTTCTCGACGGTGGGC 60.433 66.667 0.00 0.00 0.00 5.36
1246 1284 3.640000 GCAATCGATCCGCCACCG 61.640 66.667 0.00 0.00 0.00 4.94
1292 1330 1.444917 ATGGCATCAGCGACTGCATG 61.445 55.000 0.00 0.00 46.23 4.06
1300 1338 1.089112 TTTGACAGATGGCATCAGCG 58.911 50.000 27.93 17.89 43.41 5.18
1325 1363 4.553429 GCAGTTCCAATCACGAATAAAACG 59.447 41.667 0.00 0.00 0.00 3.60
1331 1369 2.783135 ACAGCAGTTCCAATCACGAAT 58.217 42.857 0.00 0.00 0.00 3.34
1431 1522 2.937591 AGTCAACAAAGATGCAATGCG 58.062 42.857 0.00 0.00 0.00 4.73
1436 1527 2.223782 GCCACAAGTCAACAAAGATGCA 60.224 45.455 0.00 0.00 0.00 3.96
1437 1528 2.035066 AGCCACAAGTCAACAAAGATGC 59.965 45.455 0.00 0.00 0.00 3.91
1472 1563 7.444183 ACTTGCATAATGTAGTATTACCGCATT 59.556 33.333 14.04 14.04 34.62 3.56
1473 1564 6.934645 ACTTGCATAATGTAGTATTACCGCAT 59.065 34.615 0.00 0.00 30.42 4.73
1474 1565 6.201997 CACTTGCATAATGTAGTATTACCGCA 59.798 38.462 0.00 0.00 0.00 5.69
1475 1566 6.202188 ACACTTGCATAATGTAGTATTACCGC 59.798 38.462 0.00 0.00 0.00 5.68
1476 1567 7.709269 ACACTTGCATAATGTAGTATTACCG 57.291 36.000 0.00 0.00 0.00 4.02
1502 1593 8.308931 ACATTGTTTCATAGTTTGCTCAATCAT 58.691 29.630 0.00 0.00 0.00 2.45
1525 1616 4.202141 CGCATCACCCCATTTTCATAACAT 60.202 41.667 0.00 0.00 0.00 2.71
1583 1677 7.944729 ATGAATAGCCGGCAATTTATCTATT 57.055 32.000 31.54 20.06 31.66 1.73
1621 1715 3.243401 ACGAATCAAACAAAGAGGCAACC 60.243 43.478 0.00 0.00 37.17 3.77
1670 1766 7.462571 TCAGAACACTTCTAGTAATGCACTA 57.537 36.000 0.00 0.00 38.11 2.74
1671 1767 6.346477 TCAGAACACTTCTAGTAATGCACT 57.654 37.500 0.00 0.00 38.11 4.40
1672 1768 7.331934 TCAATCAGAACACTTCTAGTAATGCAC 59.668 37.037 0.00 0.00 38.11 4.57
1745 1842 7.465353 TGGCTCATCATTTTCATTCTTGTAA 57.535 32.000 0.00 0.00 0.00 2.41
1840 1949 1.117150 CCAATTGGGAATGAGCCAGG 58.883 55.000 17.36 0.00 40.01 4.45
1872 1981 4.868734 GGTGTTCCAATCTAAGGACTTACG 59.131 45.833 0.00 0.00 34.19 3.18
1895 2025 4.096984 AGAAAAACTCTCAGCCAACACTTG 59.903 41.667 0.00 0.00 0.00 3.16
1903 2033 6.147000 CAGAGAACTTAGAAAAACTCTCAGCC 59.853 42.308 0.00 0.00 35.41 4.85
2039 2171 6.266103 TCAGAAAAGGAGCTTTTTGACATGAT 59.734 34.615 0.00 0.00 42.72 2.45
2084 2216 9.243105 CCCAAAGGAGAAATGAAGAAATAACTA 57.757 33.333 0.00 0.00 33.47 2.24
2085 2217 7.950124 TCCCAAAGGAGAAATGAAGAAATAACT 59.050 33.333 0.00 0.00 37.19 2.24
2109 2241 8.727910 CCAAACAGAAGTTTATAGTAACCTTCC 58.272 37.037 4.15 0.00 45.80 3.46
2120 2252 8.184192 CGCTATGAAATCCAAACAGAAGTTTAT 58.816 33.333 0.00 0.00 45.80 1.40
2123 2255 5.473504 ACGCTATGAAATCCAAACAGAAGTT 59.526 36.000 0.00 0.00 40.40 2.66
2124 2256 5.003804 ACGCTATGAAATCCAAACAGAAGT 58.996 37.500 0.00 0.00 0.00 3.01
2125 2257 5.551760 ACGCTATGAAATCCAAACAGAAG 57.448 39.130 0.00 0.00 0.00 2.85
2134 2274 7.118390 AGCACATTCTATTACGCTATGAAATCC 59.882 37.037 0.00 0.00 0.00 3.01
2142 2282 6.879276 ACTAGAGCACATTCTATTACGCTA 57.121 37.500 0.00 0.00 0.00 4.26
2143 2283 5.776173 ACTAGAGCACATTCTATTACGCT 57.224 39.130 0.00 0.00 0.00 5.07
2254 2395 5.184096 TCACCAAAACTTCTGCAAAGTACAA 59.816 36.000 12.60 0.00 0.00 2.41
2266 2407 7.648142 TGACTTGATGTATTCACCAAAACTTC 58.352 34.615 0.00 0.00 32.84 3.01
2275 2416 6.992063 AGGTTGATGACTTGATGTATTCAC 57.008 37.500 0.00 0.00 32.84 3.18
2276 2417 9.685276 ATTTAGGTTGATGACTTGATGTATTCA 57.315 29.630 0.00 0.00 0.00 2.57
2278 2419 9.911788 AGATTTAGGTTGATGACTTGATGTATT 57.088 29.630 0.00 0.00 0.00 1.89
2280 2421 9.817809 GTAGATTTAGGTTGATGACTTGATGTA 57.182 33.333 0.00 0.00 0.00 2.29
2281 2422 8.321353 TGTAGATTTAGGTTGATGACTTGATGT 58.679 33.333 0.00 0.00 0.00 3.06
2282 2423 8.722480 TGTAGATTTAGGTTGATGACTTGATG 57.278 34.615 0.00 0.00 0.00 3.07
2289 2430 9.797642 ATTGCATATGTAGATTTAGGTTGATGA 57.202 29.630 4.29 0.00 0.00 2.92
2295 2436 9.071276 CAGGAAATTGCATATGTAGATTTAGGT 57.929 33.333 4.29 0.00 0.00 3.08
2296 2437 9.288576 TCAGGAAATTGCATATGTAGATTTAGG 57.711 33.333 4.29 3.63 0.00 2.69
2305 2446 5.682990 GCATGGTTCAGGAAATTGCATATGT 60.683 40.000 4.29 0.00 0.00 2.29
2308 2449 3.132646 GGCATGGTTCAGGAAATTGCATA 59.867 43.478 0.00 0.00 0.00 3.14
2330 2471 6.148480 GCAATATGCAGGTATTCAGTTCTAGG 59.852 42.308 0.00 0.00 44.26 3.02
2352 2493 3.589735 TGGTTGGAACTATAGAAGGGCAA 59.410 43.478 6.78 0.00 0.00 4.52
2353 2494 3.186283 TGGTTGGAACTATAGAAGGGCA 58.814 45.455 6.78 0.00 0.00 5.36
2354 2495 3.926058 TGGTTGGAACTATAGAAGGGC 57.074 47.619 6.78 0.00 0.00 5.19
2356 2497 7.928706 CAGTCTTATGGTTGGAACTATAGAAGG 59.071 40.741 6.78 0.00 34.49 3.46
2357 2498 8.478877 ACAGTCTTATGGTTGGAACTATAGAAG 58.521 37.037 6.78 0.00 34.49 2.85
2359 2500 7.839705 AGACAGTCTTATGGTTGGAACTATAGA 59.160 37.037 6.78 0.00 34.49 1.98
2361 2502 7.973048 AGACAGTCTTATGGTTGGAACTATA 57.027 36.000 0.00 0.00 32.12 1.31
2362 2503 6.875972 AGACAGTCTTATGGTTGGAACTAT 57.124 37.500 0.00 0.00 34.34 2.12
2363 2504 6.681729 AAGACAGTCTTATGGTTGGAACTA 57.318 37.500 14.58 0.00 34.42 2.24
2364 2505 5.568620 AAGACAGTCTTATGGTTGGAACT 57.431 39.130 14.58 0.00 34.42 3.01
2365 2506 7.739498 TTAAAGACAGTCTTATGGTTGGAAC 57.261 36.000 16.46 0.00 35.27 3.62
2367 2508 7.040686 GCTTTTAAAGACAGTCTTATGGTTGGA 60.041 37.037 16.46 0.00 35.27 3.53
2375 2518 8.804204 AGTAGCTAGCTTTTAAAGACAGTCTTA 58.196 33.333 24.88 0.00 35.27 2.10
2385 2528 8.792830 AATGTGATGAGTAGCTAGCTTTTAAA 57.207 30.769 24.88 0.15 0.00 1.52
2386 2529 8.792830 AAATGTGATGAGTAGCTAGCTTTTAA 57.207 30.769 24.88 7.45 0.00 1.52
2387 2530 9.314321 GTAAATGTGATGAGTAGCTAGCTTTTA 57.686 33.333 24.88 13.81 0.00 1.52
2463 2606 6.915300 GTCAGTGCTACAGATACAGTGAATAG 59.085 42.308 0.00 0.00 43.38 1.73
2481 2624 3.689224 GACATGCATGTGTCAGTGC 57.311 52.632 35.92 16.20 46.04 4.40
2523 2666 0.914644 CCTCCTTCCAGAATGCCTCA 59.085 55.000 0.00 0.00 31.97 3.86
2567 2710 4.275936 CCACGTTCAGATCTTTCCTGTTTT 59.724 41.667 0.00 0.00 33.57 2.43
2622 2765 0.251653 AGAACCACCCGTAGAGCTCA 60.252 55.000 17.77 0.00 0.00 4.26
2655 2798 4.966787 GTGAAACCCCGGCCAGCA 62.967 66.667 2.24 0.00 0.00 4.41
2676 2819 2.214181 CTCAGACGCTGTAGCCCGTT 62.214 60.000 6.72 0.00 37.87 4.44
2709 2852 0.924363 CGATCGCGTGAAGGTACTCG 60.924 60.000 5.77 2.53 38.49 4.18
2847 3012 1.140407 GAGTCGAATTCACCGAGCCG 61.140 60.000 6.22 0.00 36.66 5.52
2848 3013 1.140407 CGAGTCGAATTCACCGAGCC 61.140 60.000 6.73 0.00 36.66 4.70
2849 3014 0.456312 ACGAGTCGAATTCACCGAGC 60.456 55.000 21.50 0.00 36.66 5.03
2850 3015 1.536149 GACGAGTCGAATTCACCGAG 58.464 55.000 21.50 0.00 36.66 4.63
2851 3016 3.689224 GACGAGTCGAATTCACCGA 57.311 52.632 21.50 0.00 0.00 4.69
2862 3027 5.670149 TTATTAGACCTCATCGACGAGTC 57.330 43.478 7.83 5.29 0.00 3.36
2863 3028 6.636562 AATTATTAGACCTCATCGACGAGT 57.363 37.500 7.83 0.00 0.00 4.18
2864 3029 6.918569 ACAAATTATTAGACCTCATCGACGAG 59.081 38.462 0.44 0.44 0.00 4.18
2905 3070 3.201487 TCATCTGTCCAGGCTTCAATCAT 59.799 43.478 0.00 0.00 0.00 2.45
2969 3134 2.426842 AGAGCCTAATTTGCCCTGAC 57.573 50.000 0.00 0.00 0.00 3.51
2986 3151 8.640063 TTCATTTCATCATTTCTTCTGGAAGA 57.360 30.769 8.74 8.74 44.94 2.87
2987 3152 9.871238 AATTCATTTCATCATTTCTTCTGGAAG 57.129 29.630 4.13 4.13 39.71 3.46
2989 3154 9.647797 CAAATTCATTTCATCATTTCTTCTGGA 57.352 29.630 0.00 0.00 0.00 3.86
2990 3155 9.647797 TCAAATTCATTTCATCATTTCTTCTGG 57.352 29.630 0.00 0.00 0.00 3.86
3095 3277 2.088950 ATGCAAGCAAGGCAAACATC 57.911 45.000 0.00 0.00 45.60 3.06
3113 3295 6.041296 GGAGATCATTGCCTTGATTTTGGTAT 59.959 38.462 0.00 0.00 36.48 2.73
3125 3307 2.245546 TGAAATGGGGAGATCATTGCCT 59.754 45.455 0.00 0.00 35.31 4.75
3131 3313 3.559069 GAGCAATGAAATGGGGAGATCA 58.441 45.455 0.00 0.00 0.00 2.92
3132 3314 2.889678 GGAGCAATGAAATGGGGAGATC 59.110 50.000 0.00 0.00 0.00 2.75
3133 3315 2.245546 TGGAGCAATGAAATGGGGAGAT 59.754 45.455 0.00 0.00 0.00 2.75
3134 3316 1.640149 TGGAGCAATGAAATGGGGAGA 59.360 47.619 0.00 0.00 0.00 3.71
3179 3381 2.627945 ACTCAGCGTGACAAAAGAACA 58.372 42.857 0.00 0.00 0.00 3.18
3180 3382 3.675467 AACTCAGCGTGACAAAAGAAC 57.325 42.857 0.00 0.00 0.00 3.01
3182 3384 3.006940 ACAAACTCAGCGTGACAAAAGA 58.993 40.909 0.00 0.00 0.00 2.52
3183 3385 3.405170 ACAAACTCAGCGTGACAAAAG 57.595 42.857 0.00 0.00 0.00 2.27
3187 3389 4.377021 AGATTTACAAACTCAGCGTGACA 58.623 39.130 0.00 0.00 0.00 3.58
3188 3390 4.992381 AGATTTACAAACTCAGCGTGAC 57.008 40.909 0.00 0.00 0.00 3.67
3189 3391 7.386573 TGATTAAGATTTACAAACTCAGCGTGA 59.613 33.333 0.00 0.00 0.00 4.35
3215 3417 3.443329 TGACATGGTTATGCAATCGCTTT 59.557 39.130 0.00 0.00 37.85 3.51
3229 3431 2.354704 CGGTATGAACTGGTGACATGGT 60.355 50.000 0.00 0.00 41.51 3.55
3250 4694 1.878953 ACAACTGTCGACCAATCACC 58.121 50.000 14.12 0.00 0.00 4.02
3256 4700 0.598158 GGCGTTACAACTGTCGACCA 60.598 55.000 14.12 0.01 0.00 4.02
3258 4702 1.611592 CCGGCGTTACAACTGTCGAC 61.612 60.000 9.11 9.11 34.34 4.20
3260 4704 1.662446 ACCGGCGTTACAACTGTCG 60.662 57.895 6.01 4.69 33.03 4.35
3321 4800 2.433994 GGGAGAGCAGCAGGGAGAG 61.434 68.421 0.00 0.00 0.00 3.20
3323 4802 3.847602 CGGGAGAGCAGCAGGGAG 61.848 72.222 0.00 0.00 0.00 4.30
3396 4904 1.154469 GGCTTTACTCGTGCGCAAC 60.154 57.895 14.00 5.69 0.00 4.17
3406 4914 0.541998 GGTGGCTTTGGGGCTTTACT 60.542 55.000 0.00 0.00 41.48 2.24
3408 4916 1.605165 CGGTGGCTTTGGGGCTTTA 60.605 57.895 0.00 0.00 41.48 1.85
3435 4953 0.044244 TTTAGTGGGGGAGGGAGAGG 59.956 60.000 0.00 0.00 0.00 3.69
3436 4954 1.966845 TTTTAGTGGGGGAGGGAGAG 58.033 55.000 0.00 0.00 0.00 3.20
3439 4957 1.078115 GGTTTTTAGTGGGGGAGGGA 58.922 55.000 0.00 0.00 0.00 4.20
3452 4970 0.395312 TCGGCTCTTCCTCGGTTTTT 59.605 50.000 0.00 0.00 0.00 1.94
3471 4989 0.882474 GTCGATCGGCTACCTATGCT 59.118 55.000 13.54 0.00 0.00 3.79
3598 5145 3.461773 GAGTAGCAGGAGGGCGCA 61.462 66.667 10.83 0.00 39.27 6.09


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

AutoCloner maintained by Alex Coulton.