Multiple sequence alignment - TraesCS6D01G251600

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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 TraesCS6D01G251600 chr6D 100.000 4448 0 0 1 4448 355240440 355244887 0.000000e+00 8215.0
1 TraesCS6D01G251600 chr6D 95.392 217 10 0 4150 4366 87093814 87094030 3.290000e-91 346.0
2 TraesCS6D01G251600 chr6D 94.366 71 3 1 3529 3598 162259674 162259604 1.690000e-19 108.0
3 TraesCS6D01G251600 chr6D 86.076 79 6 5 2246 2322 14725167 14725242 3.690000e-11 80.5
4 TraesCS6D01G251600 chr6D 97.727 44 1 0 2256 2299 457543835 457543792 4.770000e-10 76.8
5 TraesCS6D01G251600 chr6D 95.745 47 1 1 2253 2299 18672080 18672125 1.720000e-09 75.0
6 TraesCS6D01G251600 chr6D 95.652 46 1 1 2254 2299 225779222 225779178 6.170000e-09 73.1
7 TraesCS6D01G251600 chr6D 85.075 67 7 2 2256 2319 368756574 368756640 1.030000e-06 65.8
8 TraesCS6D01G251600 chr6B 92.078 1906 78 31 645 2539 522425667 522423824 0.000000e+00 2615.0
9 TraesCS6D01G251600 chr6B 94.703 774 33 3 2764 3529 522423305 522422532 0.000000e+00 1195.0
10 TraesCS6D01G251600 chr6B 89.130 644 41 8 18 655 522509872 522509252 0.000000e+00 774.0
11 TraesCS6D01G251600 chr6B 93.805 226 11 3 2540 2762 522423749 522423524 1.980000e-88 337.0
12 TraesCS6D01G251600 chr6B 90.769 65 5 1 2259 2322 195461861 195461925 7.930000e-13 86.1
13 TraesCS6D01G251600 chr6A 93.613 1691 80 13 1922 3598 486402913 486401237 0.000000e+00 2499.0
14 TraesCS6D01G251600 chr6A 90.042 954 47 18 953 1885 486403835 486402909 0.000000e+00 1192.0
15 TraesCS6D01G251600 chr6A 85.981 535 49 12 18 550 486530965 486530455 2.340000e-152 549.0
16 TraesCS6D01G251600 chr6A 92.557 309 17 4 635 942 486404453 486404150 5.280000e-119 438.0
17 TraesCS6D01G251600 chr5A 92.657 572 35 3 3586 4150 463520424 463520995 0.000000e+00 817.0
18 TraesCS6D01G251600 chr5A 94.091 220 13 0 4150 4369 463521126 463521345 7.130000e-88 335.0
19 TraesCS6D01G251600 chr2B 86.224 784 52 30 3598 4369 787145640 787146379 0.000000e+00 798.0
20 TraesCS6D01G251600 chr1D 91.964 560 34 6 3598 4150 86097231 86097786 0.000000e+00 774.0
21 TraesCS6D01G251600 chr1D 96.512 86 2 1 4363 4448 344561068 344561152 1.670000e-29 141.0
22 TraesCS6D01G251600 chr1D 90.141 71 4 3 3529 3598 39957146 39957214 6.130000e-14 89.8
23 TraesCS6D01G251600 chr1D 95.918 49 2 0 2251 2299 332956536 332956488 3.690000e-11 80.5
24 TraesCS6D01G251600 chr1D 95.745 47 2 0 2261 2307 322033512 322033466 4.770000e-10 76.8
25 TraesCS6D01G251600 chrUn 92.381 525 34 5 3598 4116 73961825 73961301 0.000000e+00 743.0
26 TraesCS6D01G251600 chrUn 100.000 45 0 0 2255 2299 86686272 86686228 2.850000e-12 84.2
27 TraesCS6D01G251600 chrUn 89.394 66 5 1 2259 2322 34213231 34213296 1.030000e-11 82.4
28 TraesCS6D01G251600 chrUn 86.301 73 6 3 2250 2321 29857026 29856957 4.770000e-10 76.8
29 TraesCS6D01G251600 chrUn 100.000 41 0 0 2259 2299 110336346 110336306 4.770000e-10 76.8
30 TraesCS6D01G251600 chrUn 93.878 49 3 0 2251 2299 477580657 477580609 1.720000e-09 75.0
31 TraesCS6D01G251600 chrUn 95.556 45 2 0 2255 2299 303898631 303898587 6.170000e-09 73.1
32 TraesCS6D01G251600 chrUn 93.750 48 3 0 2252 2299 314370566 314370613 6.170000e-09 73.1
33 TraesCS6D01G251600 chrUn 95.556 45 1 1 2255 2299 71312854 71312897 2.220000e-08 71.3
34 TraesCS6D01G251600 chrUn 93.617 47 3 0 2251 2297 95593978 95593932 2.220000e-08 71.3
35 TraesCS6D01G251600 chrUn 91.837 49 4 0 2259 2307 103106024 103105976 7.980000e-08 69.4
36 TraesCS6D01G251600 chr7D 90.731 561 44 4 3598 4150 577983617 577983057 0.000000e+00 741.0
37 TraesCS6D01G251600 chr7D 96.364 220 8 0 4150 4369 577982926 577982707 3.270000e-96 363.0
38 TraesCS6D01G251600 chr7D 100.000 79 0 0 4370 4448 517248965 517248887 3.590000e-31 147.0
39 TraesCS6D01G251600 chr7D 87.838 74 6 3 3526 3598 615440409 615440480 2.850000e-12 84.2
40 TraesCS6D01G251600 chr2D 91.280 539 37 9 3617 4150 562832135 562832668 0.000000e+00 726.0
41 TraesCS6D01G251600 chr2D 95.909 220 8 1 4150 4369 562832799 562833017 5.470000e-94 355.0
42 TraesCS6D01G251600 chr2D 96.552 87 2 1 4363 4448 521538580 521538666 4.640000e-30 143.0
43 TraesCS6D01G251600 chr2D 96.552 87 2 1 4363 4448 521556802 521556888 4.640000e-30 143.0
44 TraesCS6D01G251600 chr2D 93.056 72 4 1 3528 3598 551858240 551858169 2.190000e-18 104.0
45 TraesCS6D01G251600 chr4D 90.179 560 45 7 3598 4150 473143032 473143588 0.000000e+00 721.0
46 TraesCS6D01G251600 chr4D 90.161 559 43 8 3601 4150 294007873 294007318 0.000000e+00 717.0
47 TraesCS6D01G251600 chr4D 89.242 567 48 12 3593 4150 400925344 400925906 0.000000e+00 697.0
48 TraesCS6D01G251600 chr4D 96.364 220 8 0 4150 4369 401069555 401069774 3.270000e-96 363.0
49 TraesCS6D01G251600 chr4D 94.170 223 10 1 4150 4369 58385202 58385424 1.980000e-88 337.0
50 TraesCS6D01G251600 chr4D 100.000 79 0 0 4370 4448 301097120 301097198 3.590000e-31 147.0
51 TraesCS6D01G251600 chr4D 90.909 66 5 1 2259 2323 372358073 372358008 2.200000e-13 87.9
52 TraesCS6D01G251600 chr4D 89.231 65 4 2 2259 2323 389209186 389209247 1.330000e-10 78.7
53 TraesCS6D01G251600 chr4D 92.593 54 4 0 2246 2299 498045861 498045914 1.330000e-10 78.7
54 TraesCS6D01G251600 chr3A 90.018 561 47 7 3598 4150 338345018 338345577 0.000000e+00 717.0
55 TraesCS6D01G251600 chr5D 98.182 220 4 0 4150 4369 9500314 9500095 6.980000e-103 385.0
56 TraesCS6D01G251600 chr5D 97.701 87 1 1 4363 4448 218031805 218031891 9.970000e-32 148.0
57 TraesCS6D01G251600 chr5D 91.803 61 4 1 2253 2312 333559562 333559502 2.850000e-12 84.2
58 TraesCS6D01G251600 chr2A 96.364 220 8 0 4150 4369 739183692 739183911 3.270000e-96 363.0
59 TraesCS6D01G251600 chr2A 94.366 71 3 1 3529 3598 468639528 468639458 1.690000e-19 108.0
60 TraesCS6D01G251600 chr2A 91.549 71 5 1 3529 3598 712337670 712337600 3.660000e-16 97.1
61 TraesCS6D01G251600 chr2A 90.141 71 4 1 2252 2322 27422734 27422801 6.130000e-14 89.8
62 TraesCS6D01G251600 chr3D 100.000 80 0 0 4369 4448 219685762 219685841 9.970000e-32 148.0
63 TraesCS6D01G251600 chr3D 100.000 79 0 0 4370 4448 216978983 216979061 3.590000e-31 147.0
64 TraesCS6D01G251600 chr3D 100.000 79 0 0 4370 4448 217007718 217007796 3.590000e-31 147.0
65 TraesCS6D01G251600 chr4A 89.474 76 3 4 2248 2323 91796746 91796816 1.700000e-14 91.6
66 TraesCS6D01G251600 chr4A 90.141 71 4 3 3529 3598 736239131 736239199 6.130000e-14 89.8
67 TraesCS6D01G251600 chr4A 90.141 71 4 3 3529 3598 739239887 739239955 6.130000e-14 89.8
68 TraesCS6D01G251600 chr1A 90.476 63 4 2 2259 2321 1346828 1346768 1.030000e-11 82.4
69 TraesCS6D01G251600 chr1A 89.062 64 3 3 2259 2322 511622725 511622784 4.770000e-10 76.8
70 TraesCS6D01G251600 chr4B 92.593 54 4 0 2246 2299 237272711 237272764 1.330000e-10 78.7
71 TraesCS6D01G251600 chr4B 87.879 66 6 2 2259 2324 124049250 124049313 4.770000e-10 76.8
72 TraesCS6D01G251600 chr4B 88.060 67 5 2 2256 2322 660460891 660460954 4.770000e-10 76.8
73 TraesCS6D01G251600 chr5B 87.143 70 6 2 2259 2327 430469452 430469385 4.770000e-10 76.8
74 TraesCS6D01G251600 chr5B 95.000 40 2 0 4111 4150 453658166 453658205 3.710000e-06 63.9
75 TraesCS6D01G251600 chr1B 86.301 73 6 4 2253 2322 586281824 586281753 4.770000e-10 76.8
76 TraesCS6D01G251600 chr1B 84.416 77 11 1 2247 2323 683996765 683996690 1.720000e-09 75.0


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 TraesCS6D01G251600 chr6D 355240440 355244887 4447 False 8215.000000 8215 100.000000 1 4448 1 chr6D.!!$F4 4447
1 TraesCS6D01G251600 chr6B 522422532 522425667 3135 True 1382.333333 2615 93.528667 645 3529 3 chr6B.!!$R2 2884
2 TraesCS6D01G251600 chr6B 522509252 522509872 620 True 774.000000 774 89.130000 18 655 1 chr6B.!!$R1 637
3 TraesCS6D01G251600 chr6A 486401237 486404453 3216 True 1376.333333 2499 92.070667 635 3598 3 chr6A.!!$R2 2963
4 TraesCS6D01G251600 chr6A 486530455 486530965 510 True 549.000000 549 85.981000 18 550 1 chr6A.!!$R1 532
5 TraesCS6D01G251600 chr5A 463520424 463521345 921 False 576.000000 817 93.374000 3586 4369 2 chr5A.!!$F1 783
6 TraesCS6D01G251600 chr2B 787145640 787146379 739 False 798.000000 798 86.224000 3598 4369 1 chr2B.!!$F1 771
7 TraesCS6D01G251600 chr1D 86097231 86097786 555 False 774.000000 774 91.964000 3598 4150 1 chr1D.!!$F2 552
8 TraesCS6D01G251600 chrUn 73961301 73961825 524 True 743.000000 743 92.381000 3598 4116 1 chrUn.!!$R2 518
9 TraesCS6D01G251600 chr7D 577982707 577983617 910 True 552.000000 741 93.547500 3598 4369 2 chr7D.!!$R2 771
10 TraesCS6D01G251600 chr2D 562832135 562833017 882 False 540.500000 726 93.594500 3617 4369 2 chr2D.!!$F3 752
11 TraesCS6D01G251600 chr4D 473143032 473143588 556 False 721.000000 721 90.179000 3598 4150 1 chr4D.!!$F6 552
12 TraesCS6D01G251600 chr4D 294007318 294007873 555 True 717.000000 717 90.161000 3601 4150 1 chr4D.!!$R1 549
13 TraesCS6D01G251600 chr4D 400925344 400925906 562 False 697.000000 697 89.242000 3593 4150 1 chr4D.!!$F4 557
14 TraesCS6D01G251600 chr3A 338345018 338345577 559 False 717.000000 717 90.018000 3598 4150 1 chr3A.!!$F1 552

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
43 44 0.326595 TTTGGAGGCGGCATGTCTAA 59.673 50.000 13.08 1.05 27.59 2.10 F
1344 1661 0.306228 TGTGTTTGTTCATCACCGCG 59.694 50.000 0.00 0.00 0.00 6.46 F
1401 1719 1.115326 GGCTTCCTGCTTTGGTGGTT 61.115 55.000 0.00 0.00 42.39 3.67 F
1553 1881 1.541588 GCAATCTCCGCTTGTTTCCTT 59.458 47.619 0.00 0.00 0.00 3.36 F
1687 2017 1.608025 GGTCTCGTCTGCACCATGAAA 60.608 52.381 0.00 0.00 0.00 2.69 F
1880 2212 2.360350 ATGGACGGCTGCTGTTGG 60.360 61.111 16.36 0.00 0.00 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1571 1899 0.461693 GCCACTGATCTCTGCTCCAC 60.462 60.000 0.00 0.0 0.00 4.02 R
3013 3654 0.532573 TCCCGAGTGAACTCTGATGC 59.467 55.000 8.73 0.0 40.75 3.91 R
3101 3742 1.034838 GGTGGTGCTTGGTGTGTTGA 61.035 55.000 0.00 0.0 0.00 3.18 R
3134 3775 1.805945 GCCCCATCGTCGCGATATC 60.806 63.158 14.06 0.0 45.19 1.63 R
3325 3973 2.127708 GAGTACATCCATTCCACCCCT 58.872 52.381 0.00 0.0 0.00 4.79 R
3801 4464 1.137872 CTAAACAGCTCGCATCCCTCT 59.862 52.381 0.00 0.0 0.00 3.69 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
43 44 0.326595 TTTGGAGGCGGCATGTCTAA 59.673 50.000 13.08 1.05 27.59 2.10
47 48 1.202698 GGAGGCGGCATGTCTAATTCT 60.203 52.381 13.08 0.00 27.59 2.40
125 126 1.920574 CGTCTAGATGTCTTGTTGCGG 59.079 52.381 3.59 0.00 0.00 5.69
183 184 3.243643 GTGATGTGTTTTGCTGAAACTGC 59.756 43.478 14.41 9.51 46.25 4.40
204 205 1.671845 GTGTGTTTTGCTACAACCGGA 59.328 47.619 9.46 0.00 0.00 5.14
269 270 2.093921 TGGATTGACGTCGGAAATGCTA 60.094 45.455 11.62 0.00 0.00 3.49
281 282 6.551736 GTCGGAAATGCTACAATGTACAATT 58.448 36.000 0.00 0.00 0.00 2.32
335 338 8.177663 GGAATATCTGTGTTTCTATGTGTGTTG 58.822 37.037 0.00 0.00 0.00 3.33
436 440 3.611674 TGGTCGGCAAGCACGAGA 61.612 61.111 6.00 0.00 41.50 4.04
470 474 2.267324 GAGCAAGAGGAGCCGCTT 59.733 61.111 0.00 0.00 36.54 4.68
542 546 3.935993 AGGTTGACCTGATCCAACG 57.064 52.632 0.97 0.00 46.55 4.10
551 555 1.677820 CCTGATCCAACGGGTGTTACC 60.678 57.143 0.00 0.00 36.28 2.85
592 596 1.606606 GGCGCACTTCTGAAATTTCG 58.393 50.000 10.83 8.39 0.00 3.46
601 605 1.004799 TGAAATTTCGACCGGCCGA 60.005 52.632 30.73 9.45 36.70 5.54
602 606 0.391927 TGAAATTTCGACCGGCCGAT 60.392 50.000 30.73 10.80 38.45 4.18
616 620 2.430921 CGATCGGCGCCTATCACC 60.431 66.667 32.72 13.55 0.00 4.02
626 630 3.553508 GGCGCCTATCACCGTATAAAAGA 60.554 47.826 22.15 0.00 0.00 2.52
630 634 5.175126 CGCCTATCACCGTATAAAAGAACAG 59.825 44.000 0.00 0.00 0.00 3.16
632 636 6.046593 CCTATCACCGTATAAAAGAACAGCA 58.953 40.000 0.00 0.00 0.00 4.41
633 637 6.537301 CCTATCACCGTATAAAAGAACAGCAA 59.463 38.462 0.00 0.00 0.00 3.91
934 939 0.873054 TCGAGCGGTAGAATCGGATC 59.127 55.000 0.00 0.00 37.08 3.36
948 954 0.661552 CGGATCTAACCTTCGAGCGA 59.338 55.000 0.00 0.00 0.00 4.93
1160 1473 6.571344 CGAGATCAGGTGGTATATTGGAGAAG 60.571 46.154 0.00 0.00 0.00 2.85
1207 1520 1.354031 TCTTGGACTATTGCCTTGCCA 59.646 47.619 0.00 0.00 0.00 4.92
1240 1553 3.839432 CTTCGCCTCTCCGTCCCC 61.839 72.222 0.00 0.00 0.00 4.81
1264 1577 2.041405 CCCCAGGTCTCCTCCTCC 60.041 72.222 0.00 0.00 35.37 4.30
1304 1621 3.846588 TCCTTCTCCAAAGCCTCAGTATT 59.153 43.478 0.00 0.00 0.00 1.89
1331 1648 1.673033 CCCTTCGCTCGATCTGTGTTT 60.673 52.381 0.00 0.00 0.00 2.83
1339 1656 3.433274 GCTCGATCTGTGTTTGTTCATCA 59.567 43.478 0.00 0.00 0.00 3.07
1344 1661 0.306228 TGTGTTTGTTCATCACCGCG 59.694 50.000 0.00 0.00 0.00 6.46
1401 1719 1.115326 GGCTTCCTGCTTTGGTGGTT 61.115 55.000 0.00 0.00 42.39 3.67
1407 1735 1.747325 CTGCTTTGGTGGTTGGTGGG 61.747 60.000 0.00 0.00 0.00 4.61
1415 1743 4.295199 GGTTGGTGGGGTGGGGTC 62.295 72.222 0.00 0.00 0.00 4.46
1445 1773 2.095263 GTGGGTGTTGTTCATTCATCGG 60.095 50.000 0.00 0.00 0.00 4.18
1553 1881 1.541588 GCAATCTCCGCTTGTTTCCTT 59.458 47.619 0.00 0.00 0.00 3.36
1563 1891 2.423538 GCTTGTTTCCTTGTGTGTCAGT 59.576 45.455 0.00 0.00 0.00 3.41
1571 1899 3.627123 TCCTTGTGTGTCAGTTCATGTTG 59.373 43.478 0.00 0.00 0.00 3.33
1598 1926 2.746362 CAGAGATCAGTGGCTTTGTTCC 59.254 50.000 0.00 0.00 0.00 3.62
1639 1967 9.553064 AAATTATAACTACAGGATGCTTCAGAG 57.447 33.333 1.64 0.00 42.53 3.35
1687 2017 1.608025 GGTCTCGTCTGCACCATGAAA 60.608 52.381 0.00 0.00 0.00 2.69
1764 2094 3.071479 GGAACTCGTGGTATCTTTTGCA 58.929 45.455 0.00 0.00 0.00 4.08
1767 2097 3.067106 ACTCGTGGTATCTTTTGCACTG 58.933 45.455 0.00 0.00 0.00 3.66
1849 2181 3.120199 CGGGTGTCAAGTCTTTGCTATTG 60.120 47.826 0.00 0.00 34.21 1.90
1880 2212 2.360350 ATGGACGGCTGCTGTTGG 60.360 61.111 16.36 0.00 0.00 3.77
2081 2416 4.137543 AGGTTGGTTCTTCTAGCAAGTTG 58.862 43.478 0.00 0.00 36.31 3.16
2355 2690 8.650143 AACATCCTAAGTTACATTCCAAACAT 57.350 30.769 0.00 0.00 0.00 2.71
2426 2761 5.169295 GGACTGATATAATGTTAGGACCGC 58.831 45.833 0.00 0.00 0.00 5.68
2510 2845 2.671177 CGCTGGACACAAAGAGCCG 61.671 63.158 0.00 0.00 0.00 5.52
2514 2849 2.665185 GACACAAAGAGCCGCCGT 60.665 61.111 0.00 0.00 0.00 5.68
2642 3054 6.759497 ACTGGGATATGCTTCAAGTTTAAC 57.241 37.500 0.00 0.00 0.00 2.01
2813 3442 8.797438 AGATTTAGATGTTCCTTTCCAAAGTTC 58.203 33.333 0.00 0.00 34.20 3.01
2832 3461 6.976934 AGTTCCATACTGGTGAATTTGTTT 57.023 33.333 0.00 0.00 39.03 2.83
2841 3470 6.515832 ACTGGTGAATTTGTTTGGATTCTTC 58.484 36.000 0.00 0.00 34.24 2.87
2936 3568 6.166984 TCTTCAACTTGTGAGTCTGATCTT 57.833 37.500 0.00 0.00 37.61 2.40
2952 3584 5.084818 TGATCTTCAGCATCCTTCGTTTA 57.915 39.130 0.00 0.00 0.00 2.01
3325 3973 1.902508 CCCTTCTGCTGTCTTGGTCTA 59.097 52.381 0.00 0.00 0.00 2.59
3328 3976 1.561643 TCTGCTGTCTTGGTCTAGGG 58.438 55.000 0.00 0.00 0.00 3.53
3361 4013 2.332063 ACTCCAGTGTGTTTCCTGTG 57.668 50.000 0.00 0.00 0.00 3.66
3364 4016 3.016736 CTCCAGTGTGTTTCCTGTGTTT 58.983 45.455 0.00 0.00 0.00 2.83
3391 4043 5.602145 ACTGAAACATTTGGGAAGGAAATGA 59.398 36.000 11.21 0.00 41.44 2.57
3543 4196 3.374764 AGACTGACTACACATATGCCCA 58.625 45.455 1.58 0.00 0.00 5.36
3551 4204 0.740149 CACATATGCCCATGCGTTGT 59.260 50.000 1.58 0.00 41.78 3.32
3554 4207 3.020274 ACATATGCCCATGCGTTGTAAA 58.980 40.909 1.58 0.00 41.78 2.01
3566 4219 5.353394 TGCGTTGTAAAGGGAGAGATATT 57.647 39.130 0.00 0.00 31.15 1.28
3801 4464 3.387947 GGCCCCGAGGAGAAACGA 61.388 66.667 0.00 0.00 33.47 3.85
3910 4586 0.999406 CAACGGTGCTTCGATTCGAT 59.001 50.000 9.96 0.00 35.23 3.59
3946 4623 4.607778 CGAAAAGATGCACATCGATGCTAG 60.608 45.833 25.11 15.80 46.28 3.42
4028 4705 1.403679 CGTTTGGAGCTGTTTTGGACA 59.596 47.619 0.00 0.00 36.65 4.02
4112 4789 1.125021 CTCGTCGTTCTGCACAACATC 59.875 52.381 5.67 0.00 0.00 3.06
4196 5004 3.646534 TCTCTCCATGATCCTACTGCAA 58.353 45.455 0.00 0.00 0.00 4.08
4369 5180 1.372997 GACGATACCATGGCGCGAT 60.373 57.895 23.06 0.00 0.00 4.58
4370 5181 1.617755 GACGATACCATGGCGCGATG 61.618 60.000 23.77 23.77 0.00 3.84
4371 5182 1.664649 CGATACCATGGCGCGATGT 60.665 57.895 27.36 18.54 0.00 3.06
4372 5183 0.388006 CGATACCATGGCGCGATGTA 60.388 55.000 27.36 19.83 0.00 2.29
4373 5184 1.790755 GATACCATGGCGCGATGTAA 58.209 50.000 27.36 16.84 0.00 2.41
4374 5185 1.459592 GATACCATGGCGCGATGTAAC 59.540 52.381 27.36 15.64 0.00 2.50
4375 5186 0.872451 TACCATGGCGCGATGTAACG 60.872 55.000 27.36 16.17 0.00 3.18
4384 5195 3.573569 CGATGTAACGCCCGGATAA 57.426 52.632 0.73 0.00 0.00 1.75
4385 5196 2.074547 CGATGTAACGCCCGGATAAT 57.925 50.000 0.73 0.00 0.00 1.28
4386 5197 2.409975 CGATGTAACGCCCGGATAATT 58.590 47.619 0.73 0.00 0.00 1.40
4387 5198 3.577667 CGATGTAACGCCCGGATAATTA 58.422 45.455 0.73 0.00 0.00 1.40
4388 5199 3.611113 CGATGTAACGCCCGGATAATTAG 59.389 47.826 0.73 0.00 0.00 1.73
4389 5200 3.389925 TGTAACGCCCGGATAATTAGG 57.610 47.619 0.73 0.00 0.00 2.69
4390 5201 2.071540 GTAACGCCCGGATAATTAGGC 58.928 52.381 0.73 3.86 42.18 3.93
4391 5202 0.763035 AACGCCCGGATAATTAGGCT 59.237 50.000 0.73 0.00 43.48 4.58
4392 5203 1.636148 ACGCCCGGATAATTAGGCTA 58.364 50.000 0.73 0.00 43.48 3.93
4393 5204 1.274447 ACGCCCGGATAATTAGGCTAC 59.726 52.381 0.73 0.00 43.48 3.58
4394 5205 1.274167 CGCCCGGATAATTAGGCTACA 59.726 52.381 0.73 0.00 43.48 2.74
4395 5206 2.674177 CGCCCGGATAATTAGGCTACAG 60.674 54.545 0.73 0.00 43.48 2.74
4396 5207 2.302157 GCCCGGATAATTAGGCTACAGT 59.698 50.000 0.73 0.00 42.34 3.55
4397 5208 3.512724 GCCCGGATAATTAGGCTACAGTA 59.487 47.826 0.73 0.00 42.34 2.74
4398 5209 4.020839 GCCCGGATAATTAGGCTACAGTAA 60.021 45.833 0.73 0.00 42.34 2.24
4399 5210 5.511888 GCCCGGATAATTAGGCTACAGTAAA 60.512 44.000 0.73 0.00 42.34 2.01
4400 5211 6.527423 CCCGGATAATTAGGCTACAGTAAAA 58.473 40.000 0.73 0.00 0.00 1.52
4401 5212 6.426025 CCCGGATAATTAGGCTACAGTAAAAC 59.574 42.308 0.73 0.00 0.00 2.43
4402 5213 7.215085 CCGGATAATTAGGCTACAGTAAAACT 58.785 38.462 0.00 0.00 0.00 2.66
4403 5214 7.384387 CCGGATAATTAGGCTACAGTAAAACTC 59.616 40.741 0.00 0.00 0.00 3.01
4404 5215 8.142551 CGGATAATTAGGCTACAGTAAAACTCT 58.857 37.037 0.00 0.00 0.00 3.24
4405 5216 9.478768 GGATAATTAGGCTACAGTAAAACTCTC 57.521 37.037 0.00 0.00 0.00 3.20
4406 5217 9.478768 GATAATTAGGCTACAGTAAAACTCTCC 57.521 37.037 0.00 0.00 0.00 3.71
4407 5218 7.497773 AATTAGGCTACAGTAAAACTCTCCT 57.502 36.000 0.00 0.00 0.00 3.69
4408 5219 8.605325 AATTAGGCTACAGTAAAACTCTCCTA 57.395 34.615 0.00 0.00 0.00 2.94
4409 5220 8.605325 ATTAGGCTACAGTAAAACTCTCCTAA 57.395 34.615 0.00 0.00 37.84 2.69
4410 5221 8.605325 TTAGGCTACAGTAAAACTCTCCTAAT 57.395 34.615 0.00 0.00 31.11 1.73
4411 5222 6.879400 AGGCTACAGTAAAACTCTCCTAATG 58.121 40.000 0.00 0.00 0.00 1.90
4412 5223 6.668283 AGGCTACAGTAAAACTCTCCTAATGA 59.332 38.462 0.00 0.00 0.00 2.57
4413 5224 7.345914 AGGCTACAGTAAAACTCTCCTAATGAT 59.654 37.037 0.00 0.00 0.00 2.45
4414 5225 7.439655 GGCTACAGTAAAACTCTCCTAATGATG 59.560 40.741 0.00 0.00 0.00 3.07
4415 5226 7.042389 GCTACAGTAAAACTCTCCTAATGATGC 60.042 40.741 0.00 0.00 0.00 3.91
4416 5227 6.116126 ACAGTAAAACTCTCCTAATGATGCC 58.884 40.000 0.00 0.00 0.00 4.40
4417 5228 6.115446 CAGTAAAACTCTCCTAATGATGCCA 58.885 40.000 0.00 0.00 0.00 4.92
4418 5229 6.769822 CAGTAAAACTCTCCTAATGATGCCAT 59.230 38.462 0.00 0.00 33.66 4.40
4419 5230 6.769822 AGTAAAACTCTCCTAATGATGCCATG 59.230 38.462 0.00 0.00 32.36 3.66
4420 5231 4.785346 AACTCTCCTAATGATGCCATGT 57.215 40.909 0.00 0.00 32.36 3.21
4421 5232 4.348863 ACTCTCCTAATGATGCCATGTC 57.651 45.455 0.00 0.00 32.36 3.06
4422 5233 3.713248 ACTCTCCTAATGATGCCATGTCA 59.287 43.478 0.00 0.00 32.36 3.58
4423 5234 4.350225 ACTCTCCTAATGATGCCATGTCAT 59.650 41.667 0.00 0.00 37.91 3.06
4424 5235 4.903054 TCTCCTAATGATGCCATGTCATC 58.097 43.478 9.79 9.79 42.33 2.92
4425 5236 4.596212 TCTCCTAATGATGCCATGTCATCT 59.404 41.667 17.00 1.38 42.44 2.90
4426 5237 4.903054 TCCTAATGATGCCATGTCATCTC 58.097 43.478 17.00 0.00 42.44 2.75
4427 5238 4.596212 TCCTAATGATGCCATGTCATCTCT 59.404 41.667 17.00 7.21 42.44 3.10
4428 5239 4.695928 CCTAATGATGCCATGTCATCTCTG 59.304 45.833 17.00 5.70 42.44 3.35
4429 5240 3.859061 ATGATGCCATGTCATCTCTGT 57.141 42.857 17.00 0.00 42.44 3.41
4430 5241 3.639672 TGATGCCATGTCATCTCTGTT 57.360 42.857 17.00 0.00 42.44 3.16
4431 5242 3.959293 TGATGCCATGTCATCTCTGTTT 58.041 40.909 17.00 0.00 42.44 2.83
4432 5243 5.101648 TGATGCCATGTCATCTCTGTTTA 57.898 39.130 17.00 0.00 42.44 2.01
4433 5244 4.877823 TGATGCCATGTCATCTCTGTTTAC 59.122 41.667 17.00 0.00 42.44 2.01
4434 5245 4.558226 TGCCATGTCATCTCTGTTTACT 57.442 40.909 0.00 0.00 0.00 2.24
4435 5246 4.256110 TGCCATGTCATCTCTGTTTACTG 58.744 43.478 0.00 0.00 0.00 2.74
4436 5247 4.256920 GCCATGTCATCTCTGTTTACTGT 58.743 43.478 0.00 0.00 0.00 3.55
4437 5248 4.697352 GCCATGTCATCTCTGTTTACTGTT 59.303 41.667 0.00 0.00 0.00 3.16
4438 5249 5.391310 GCCATGTCATCTCTGTTTACTGTTG 60.391 44.000 0.00 0.00 0.00 3.33
4439 5250 5.391310 CCATGTCATCTCTGTTTACTGTTGC 60.391 44.000 0.00 0.00 0.00 4.17
4440 5251 4.960938 TGTCATCTCTGTTTACTGTTGCT 58.039 39.130 0.00 0.00 0.00 3.91
4441 5252 6.096673 TGTCATCTCTGTTTACTGTTGCTA 57.903 37.500 0.00 0.00 0.00 3.49
4442 5253 6.521162 TGTCATCTCTGTTTACTGTTGCTAA 58.479 36.000 0.00 0.00 0.00 3.09
4443 5254 6.989759 TGTCATCTCTGTTTACTGTTGCTAAA 59.010 34.615 0.00 0.00 0.00 1.85
4444 5255 7.042051 TGTCATCTCTGTTTACTGTTGCTAAAC 60.042 37.037 0.00 0.00 35.49 2.01
4445 5256 7.171678 GTCATCTCTGTTTACTGTTGCTAAACT 59.828 37.037 6.97 0.00 35.80 2.66
4446 5257 7.385205 TCATCTCTGTTTACTGTTGCTAAACTC 59.615 37.037 6.97 0.00 35.80 3.01
4447 5258 6.817184 TCTCTGTTTACTGTTGCTAAACTCT 58.183 36.000 6.97 0.00 35.80 3.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.641986 GTCGGCGGTCGCAACAAA 61.642 61.111 17.21 0.00 44.11 2.83
3 4 4.147322 CATGTCGGCGGTCGCAAC 62.147 66.667 17.21 13.92 44.11 4.17
5 6 3.657448 AATCATGTCGGCGGTCGCA 62.657 57.895 17.21 0.00 44.11 5.10
7 8 0.446222 AAAAATCATGTCGGCGGTCG 59.554 50.000 7.21 0.00 40.90 4.79
8 9 1.467374 CCAAAAATCATGTCGGCGGTC 60.467 52.381 7.21 1.06 0.00 4.79
9 10 0.525761 CCAAAAATCATGTCGGCGGT 59.474 50.000 7.21 0.00 0.00 5.68
10 11 0.808125 TCCAAAAATCATGTCGGCGG 59.192 50.000 7.21 0.00 0.00 6.13
11 12 1.202177 CCTCCAAAAATCATGTCGGCG 60.202 52.381 0.00 0.00 0.00 6.46
12 13 1.469767 GCCTCCAAAAATCATGTCGGC 60.470 52.381 0.00 0.00 0.00 5.54
13 14 1.202177 CGCCTCCAAAAATCATGTCGG 60.202 52.381 0.00 0.00 0.00 4.79
14 15 1.202177 CCGCCTCCAAAAATCATGTCG 60.202 52.381 0.00 0.00 0.00 4.35
15 16 1.469767 GCCGCCTCCAAAAATCATGTC 60.470 52.381 0.00 0.00 0.00 3.06
16 17 0.532115 GCCGCCTCCAAAAATCATGT 59.468 50.000 0.00 0.00 0.00 3.21
147 148 2.028130 ACATCACGGTTCCAGCAAAAA 58.972 42.857 0.00 0.00 0.00 1.94
148 149 1.336440 CACATCACGGTTCCAGCAAAA 59.664 47.619 0.00 0.00 0.00 2.44
183 184 1.595976 CCGGTTGTAGCAAAACACACG 60.596 52.381 0.00 0.00 0.00 4.49
204 205 0.036010 CCACCGGCAAGAAGACATCT 60.036 55.000 0.00 0.00 41.32 2.90
269 270 4.254402 TGTGCATGCAATTGTACATTGT 57.746 36.364 24.58 0.00 37.31 2.71
281 282 0.312729 CTGTTCAGCTTGTGCATGCA 59.687 50.000 18.46 18.46 42.74 3.96
335 338 1.268437 CGTCGGGATCCTACGAGTTTC 60.268 57.143 26.24 10.24 40.09 2.78
369 372 2.618219 CGCCCTCCGTCCTAGATCG 61.618 68.421 0.00 0.00 0.00 3.69
454 458 0.179062 CATAAGCGGCTCCTCTTGCT 60.179 55.000 1.45 0.00 39.89 3.91
496 500 0.108186 CTCAGCCCGTATGAGTTGCA 60.108 55.000 0.00 0.00 39.48 4.08
542 546 1.143969 CGATTCGCTCGGTAACACCC 61.144 60.000 0.00 0.00 43.82 4.61
575 579 2.721797 CGGTCGAAATTTCAGAAGTGCG 60.722 50.000 17.99 2.42 33.31 5.34
577 581 2.412847 GCCGGTCGAAATTTCAGAAGTG 60.413 50.000 17.99 8.81 0.00 3.16
578 582 1.804748 GCCGGTCGAAATTTCAGAAGT 59.195 47.619 17.99 0.00 0.00 3.01
607 611 5.050295 GCTGTTCTTTTATACGGTGATAGGC 60.050 44.000 0.00 0.00 0.00 3.93
616 620 5.041951 TGGCTTTGCTGTTCTTTTATACG 57.958 39.130 0.00 0.00 0.00 3.06
626 630 3.146066 TCGTCTAATTGGCTTTGCTGTT 58.854 40.909 0.00 0.00 0.00 3.16
630 634 4.142600 ACATTCTCGTCTAATTGGCTTTGC 60.143 41.667 0.00 0.00 0.00 3.68
632 636 4.142600 GCACATTCTCGTCTAATTGGCTTT 60.143 41.667 0.00 0.00 0.00 3.51
633 637 3.375299 GCACATTCTCGTCTAATTGGCTT 59.625 43.478 0.00 0.00 0.00 4.35
934 939 5.391097 CCATCTACTATCGCTCGAAGGTTAG 60.391 48.000 0.00 0.00 0.00 2.34
948 954 7.039644 CCAATTCTACCGTCTTCCATCTACTAT 60.040 40.741 0.00 0.00 0.00 2.12
1132 1439 2.265589 TATACCACCTGATCTCGCGA 57.734 50.000 9.26 9.26 0.00 5.87
1160 1473 3.103911 CCACGCTCCGTTGACGTC 61.104 66.667 9.11 9.11 38.32 4.34
1207 1520 2.476519 GCGAAGAGAGATCGTCGTCTTT 60.477 50.000 13.48 0.00 42.07 2.52
1242 1555 4.748798 AGGAGACCTGGGGGCTGG 62.749 72.222 0.00 0.00 35.63 4.85
1243 1556 3.086600 GAGGAGACCTGGGGGCTG 61.087 72.222 0.00 0.00 31.76 4.85
1244 1557 4.423209 GGAGGAGACCTGGGGGCT 62.423 72.222 0.00 0.00 31.76 5.19
1245 1558 4.423209 AGGAGGAGACCTGGGGGC 62.423 72.222 0.00 0.00 39.01 5.80
1246 1559 2.041405 GAGGAGGAGACCTGGGGG 60.041 72.222 0.00 0.00 40.73 5.40
1304 1621 1.338337 GATCGAGCGAAGGGAGAATCA 59.662 52.381 0.00 0.00 36.25 2.57
1331 1648 1.080093 GAGACCGCGGTGATGAACA 60.080 57.895 39.65 0.00 0.00 3.18
1339 1656 1.445582 GTTTGATCGAGACCGCGGT 60.446 57.895 34.89 34.89 35.37 5.68
1344 1661 2.799540 GCGGCGTTTGATCGAGACC 61.800 63.158 9.37 0.00 0.00 3.85
1465 1793 7.189512 GCACAGTAATTCTAACCTAAAGCATG 58.810 38.462 0.00 0.00 0.00 4.06
1553 1881 2.682352 CCACAACATGAACTGACACACA 59.318 45.455 0.00 0.00 0.00 3.72
1563 1891 3.008266 TGATCTCTGCTCCACAACATGAA 59.992 43.478 0.00 0.00 0.00 2.57
1571 1899 0.461693 GCCACTGATCTCTGCTCCAC 60.462 60.000 0.00 0.00 0.00 4.02
1598 1926 6.968904 AGTTATAATTTCATCAACTGCGCAAG 59.031 34.615 13.05 8.51 43.44 4.01
1639 1967 4.803098 TCTGTAACTAGAACTGGAAGGC 57.197 45.455 0.00 0.00 39.30 4.35
1641 1969 8.552034 CAAACTTTCTGTAACTAGAACTGGAAG 58.448 37.037 17.88 17.88 36.48 3.46
1648 1976 6.921857 CGAGACCAAACTTTCTGTAACTAGAA 59.078 38.462 0.00 0.00 35.02 2.10
1687 2017 2.358247 GCCACACCGATTCCGTGT 60.358 61.111 5.15 5.15 32.96 4.49
1764 2094 2.281070 CTTCCACACGCAGCCAGT 60.281 61.111 0.00 0.00 0.00 4.00
1767 2097 3.605749 TAGCCTTCCACACGCAGCC 62.606 63.158 0.00 0.00 0.00 4.85
1849 2181 1.079503 GTCCATCGAACAGAGCCAAC 58.920 55.000 0.00 0.00 0.00 3.77
1880 2212 2.658807 AGAAGTGGAAACCCCTGTTC 57.341 50.000 0.00 0.00 32.15 3.18
1885 2217 3.704566 AGACAAAAAGAAGTGGAAACCCC 59.295 43.478 0.00 0.00 0.00 4.95
2204 2539 2.461945 CCACGCTGCATGCTGAGAG 61.462 63.158 29.50 22.56 40.11 3.20
2355 2690 4.668636 CACCATAGTTTAAGGTTTGGGGA 58.331 43.478 0.00 0.00 32.15 4.81
2426 2761 8.915871 AATCATATTCACTGACGAAATTTTGG 57.084 30.769 10.22 0.00 0.00 3.28
2642 3054 8.687824 ATGCTAACCTGTAATTTGAAAAATCG 57.312 30.769 0.00 0.00 0.00 3.34
2656 3068 7.951591 ACAATTAAACTTCAATGCTAACCTGT 58.048 30.769 0.00 0.00 0.00 4.00
2782 3411 6.095860 TGGAAAGGAACATCTAAATCTGCATG 59.904 38.462 0.00 0.00 0.00 4.06
2795 3424 6.209391 CAGTATGGAACTTTGGAAAGGAACAT 59.791 38.462 4.23 6.90 40.31 2.71
2813 3442 7.309990 AGAATCCAAACAAATTCACCAGTATGG 60.310 37.037 0.00 0.00 44.51 2.74
2832 3461 6.813293 TCAAGGTAGATGATGAAGAATCCA 57.187 37.500 0.00 0.00 34.00 3.41
2936 3568 4.002906 AGTGTTAAACGAAGGATGCTGA 57.997 40.909 0.00 0.00 0.00 4.26
2952 3584 5.846203 ACTAAATGCTGCATTTCAAGTGTT 58.154 33.333 35.84 17.84 42.19 3.32
3008 3649 2.001159 GAGTGAACTCTGATGCTGCTG 58.999 52.381 0.00 0.00 39.81 4.41
3009 3650 1.403914 CGAGTGAACTCTGATGCTGCT 60.404 52.381 8.73 0.00 40.75 4.24
3010 3651 0.997932 CGAGTGAACTCTGATGCTGC 59.002 55.000 8.73 0.00 40.75 5.25
3011 3652 1.638133 CCGAGTGAACTCTGATGCTG 58.362 55.000 8.73 0.00 40.75 4.41
3012 3653 0.534412 CCCGAGTGAACTCTGATGCT 59.466 55.000 8.73 0.00 40.75 3.79
3013 3654 0.532573 TCCCGAGTGAACTCTGATGC 59.467 55.000 8.73 0.00 40.75 3.91
3014 3655 2.996621 GTTTCCCGAGTGAACTCTGATG 59.003 50.000 8.73 0.00 40.75 3.07
3015 3656 2.900546 AGTTTCCCGAGTGAACTCTGAT 59.099 45.455 8.73 0.00 40.75 2.90
3016 3657 2.035961 CAGTTTCCCGAGTGAACTCTGA 59.964 50.000 8.73 2.79 40.75 3.27
3101 3742 1.034838 GGTGGTGCTTGGTGTGTTGA 61.035 55.000 0.00 0.00 0.00 3.18
3106 3747 3.103213 AGGGGTGGTGCTTGGTGT 61.103 61.111 0.00 0.00 0.00 4.16
3134 3775 1.805945 GCCCCATCGTCGCGATATC 60.806 63.158 14.06 0.00 45.19 1.63
3325 3973 2.127708 GAGTACATCCATTCCACCCCT 58.872 52.381 0.00 0.00 0.00 4.79
3361 4013 7.269316 TCCTTCCCAAATGTTTCAGTTTAAAC 58.731 34.615 10.47 10.47 39.35 2.01
3364 4016 7.425224 TTTCCTTCCCAAATGTTTCAGTTTA 57.575 32.000 0.00 0.00 0.00 2.01
3543 4196 3.914426 ATCTCTCCCTTTACAACGCAT 57.086 42.857 0.00 0.00 0.00 4.73
3554 4207 7.451877 TGCTTCTCGTAATAAATATCTCTCCCT 59.548 37.037 0.00 0.00 0.00 4.20
3566 4219 3.444742 TCTCCCGTTGCTTCTCGTAATAA 59.555 43.478 0.00 0.00 0.00 1.40
3801 4464 1.137872 CTAAACAGCTCGCATCCCTCT 59.862 52.381 0.00 0.00 0.00 3.69
3910 4586 4.625742 GCATCTTTTCGTGTAGAGCTTACA 59.374 41.667 0.00 0.00 0.00 2.41
3946 4623 1.160329 CGATCGCCTGAATGGAACCC 61.160 60.000 0.26 0.00 38.35 4.11
4028 4705 4.219033 GTGCGACGAATCTGACAAAATTT 58.781 39.130 0.00 0.00 0.00 1.82
4112 4789 0.738389 ACAGGAAACTTGCAACACGG 59.262 50.000 0.00 0.00 40.21 4.94
4238 5046 1.300620 CGTCGGTGGCAGAGAACAA 60.301 57.895 0.00 0.00 0.00 2.83
4275 5086 1.960689 GTAGTGGGATGAGAGAGAGGC 59.039 57.143 0.00 0.00 0.00 4.70
4369 5180 2.548493 GCCTAATTATCCGGGCGTTACA 60.548 50.000 0.00 0.00 35.08 2.41
4370 5181 2.071540 GCCTAATTATCCGGGCGTTAC 58.928 52.381 0.00 0.00 35.08 2.50
4371 5182 2.460757 GCCTAATTATCCGGGCGTTA 57.539 50.000 0.00 0.00 35.08 3.18
4372 5183 3.317449 GCCTAATTATCCGGGCGTT 57.683 52.632 0.00 0.00 35.08 4.84
4375 5186 2.302157 ACTGTAGCCTAATTATCCGGGC 59.698 50.000 0.00 5.52 44.38 6.13
4376 5187 5.733620 TTACTGTAGCCTAATTATCCGGG 57.266 43.478 0.00 0.00 0.00 5.73
4377 5188 7.215085 AGTTTTACTGTAGCCTAATTATCCGG 58.785 38.462 0.00 0.00 0.00 5.14
4378 5189 8.142551 AGAGTTTTACTGTAGCCTAATTATCCG 58.857 37.037 0.00 0.00 0.00 4.18
4379 5190 9.478768 GAGAGTTTTACTGTAGCCTAATTATCC 57.521 37.037 0.00 0.00 0.00 2.59
4380 5191 9.478768 GGAGAGTTTTACTGTAGCCTAATTATC 57.521 37.037 0.00 0.00 0.00 1.75
4381 5192 9.214962 AGGAGAGTTTTACTGTAGCCTAATTAT 57.785 33.333 0.00 0.00 0.00 1.28
4382 5193 8.605325 AGGAGAGTTTTACTGTAGCCTAATTA 57.395 34.615 0.00 0.00 0.00 1.40
4383 5194 7.497773 AGGAGAGTTTTACTGTAGCCTAATT 57.502 36.000 0.00 0.00 0.00 1.40
4384 5195 8.605325 TTAGGAGAGTTTTACTGTAGCCTAAT 57.395 34.615 0.00 0.00 32.31 1.73
4385 5196 8.475639 CATTAGGAGAGTTTTACTGTAGCCTAA 58.524 37.037 0.00 0.00 39.11 2.69
4386 5197 7.837689 TCATTAGGAGAGTTTTACTGTAGCCTA 59.162 37.037 0.00 0.00 0.00 3.93
4387 5198 6.668283 TCATTAGGAGAGTTTTACTGTAGCCT 59.332 38.462 0.00 0.00 0.00 4.58
4388 5199 6.875076 TCATTAGGAGAGTTTTACTGTAGCC 58.125 40.000 0.00 0.00 0.00 3.93
4389 5200 7.042389 GCATCATTAGGAGAGTTTTACTGTAGC 60.042 40.741 0.00 0.00 0.00 3.58
4390 5201 7.439655 GGCATCATTAGGAGAGTTTTACTGTAG 59.560 40.741 0.00 0.00 0.00 2.74
4391 5202 7.093068 TGGCATCATTAGGAGAGTTTTACTGTA 60.093 37.037 0.00 0.00 0.00 2.74
4392 5203 6.116126 GGCATCATTAGGAGAGTTTTACTGT 58.884 40.000 0.00 0.00 0.00 3.55
4393 5204 6.115446 TGGCATCATTAGGAGAGTTTTACTG 58.885 40.000 0.00 0.00 0.00 2.74
4394 5205 6.313519 TGGCATCATTAGGAGAGTTTTACT 57.686 37.500 0.00 0.00 0.00 2.24
4395 5206 6.543831 ACATGGCATCATTAGGAGAGTTTTAC 59.456 38.462 0.00 0.00 0.00 2.01
4396 5207 6.662755 ACATGGCATCATTAGGAGAGTTTTA 58.337 36.000 0.00 0.00 0.00 1.52
4397 5208 5.513233 ACATGGCATCATTAGGAGAGTTTT 58.487 37.500 0.00 0.00 0.00 2.43
4398 5209 5.121380 ACATGGCATCATTAGGAGAGTTT 57.879 39.130 0.00 0.00 0.00 2.66
4399 5210 4.164796 TGACATGGCATCATTAGGAGAGTT 59.835 41.667 0.00 0.00 0.00 3.01
4400 5211 3.713248 TGACATGGCATCATTAGGAGAGT 59.287 43.478 0.00 0.00 0.00 3.24
4401 5212 4.347360 TGACATGGCATCATTAGGAGAG 57.653 45.455 0.00 0.00 0.00 3.20
4402 5213 4.596212 AGATGACATGGCATCATTAGGAGA 59.404 41.667 36.86 0.00 45.52 3.71
4403 5214 4.907809 AGATGACATGGCATCATTAGGAG 58.092 43.478 36.86 0.00 45.52 3.69
4404 5215 4.596212 AGAGATGACATGGCATCATTAGGA 59.404 41.667 36.86 0.00 45.52 2.94
4405 5216 4.695928 CAGAGATGACATGGCATCATTAGG 59.304 45.833 36.86 20.26 45.52 2.69
4406 5217 5.306394 ACAGAGATGACATGGCATCATTAG 58.694 41.667 36.86 25.94 45.52 1.73
4407 5218 5.300411 ACAGAGATGACATGGCATCATTA 57.700 39.130 36.86 0.00 45.52 1.90
4408 5219 4.166246 ACAGAGATGACATGGCATCATT 57.834 40.909 36.86 23.99 45.52 2.57
4409 5220 3.859061 ACAGAGATGACATGGCATCAT 57.141 42.857 36.86 24.78 45.52 2.45
4410 5221 3.639672 AACAGAGATGACATGGCATCA 57.360 42.857 36.86 15.04 45.52 3.07
4411 5222 5.007430 CAGTAAACAGAGATGACATGGCATC 59.993 44.000 30.85 30.85 43.88 3.91
4412 5223 4.880120 CAGTAAACAGAGATGACATGGCAT 59.120 41.667 15.73 15.73 0.00 4.40
4413 5224 4.256110 CAGTAAACAGAGATGACATGGCA 58.744 43.478 2.18 2.18 0.00 4.92
4414 5225 4.256920 ACAGTAAACAGAGATGACATGGC 58.743 43.478 0.00 0.00 0.00 4.40
4415 5226 5.391310 GCAACAGTAAACAGAGATGACATGG 60.391 44.000 0.00 0.00 0.00 3.66
4416 5227 5.410746 AGCAACAGTAAACAGAGATGACATG 59.589 40.000 0.00 0.00 0.00 3.21
4417 5228 5.555017 AGCAACAGTAAACAGAGATGACAT 58.445 37.500 0.00 0.00 0.00 3.06
4418 5229 4.960938 AGCAACAGTAAACAGAGATGACA 58.039 39.130 0.00 0.00 0.00 3.58
4419 5230 7.171678 AGTTTAGCAACAGTAAACAGAGATGAC 59.828 37.037 7.90 0.00 41.10 3.06
4420 5231 7.217200 AGTTTAGCAACAGTAAACAGAGATGA 58.783 34.615 7.90 0.00 41.10 2.92
4421 5232 7.386299 AGAGTTTAGCAACAGTAAACAGAGATG 59.614 37.037 7.90 0.00 41.10 2.90
4422 5233 7.445945 AGAGTTTAGCAACAGTAAACAGAGAT 58.554 34.615 7.90 0.00 41.10 2.75
4423 5234 6.817184 AGAGTTTAGCAACAGTAAACAGAGA 58.183 36.000 7.90 0.00 41.10 3.10


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

AutoCloner maintained by Alex Coulton.