Multiple sequence alignment - TraesCS5A01G042700

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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 TraesCS5A01G042700 chr5A 100.000 6263 0 0 954 7216 38724528 38730790 0.000000e+00 11566.0
1 TraesCS5A01G042700 chr5A 100.000 1594 0 0 7762 9355 38731336 38732929 0.000000e+00 2944.0
2 TraesCS5A01G042700 chr5A 100.000 590 0 0 1 590 38723575 38724164 0.000000e+00 1090.0
3 TraesCS5A01G042700 chr5A 92.573 377 28 0 5329 5705 38728810 38729186 8.260000e-150 542.0
4 TraesCS5A01G042700 chr5A 92.573 377 28 0 5236 5612 38728903 38729279 8.260000e-150 542.0
5 TraesCS5A01G042700 chr5A 92.908 282 20 0 5236 5517 38728996 38729277 2.430000e-110 411.0
6 TraesCS5A01G042700 chr5A 92.373 118 9 0 4395 4512 38727936 38728053 1.620000e-37 169.0
7 TraesCS5A01G042700 chr5A 92.373 118 9 0 4362 4479 38727969 38728086 1.620000e-37 169.0
8 TraesCS5A01G042700 chr5A 89.412 85 9 0 4362 4446 38728002 38728086 3.570000e-19 108.0
9 TraesCS5A01G042700 chr5B 95.717 5510 201 19 954 6438 51831313 51836812 0.000000e+00 8835.0
10 TraesCS5A01G042700 chr5B 94.521 1588 69 10 7776 9355 51838165 51839742 0.000000e+00 2435.0
11 TraesCS5A01G042700 chr5B 97.739 752 14 3 6439 7189 51836915 51837664 0.000000e+00 1291.0
12 TraesCS5A01G042700 chr5B 92.573 377 28 0 5329 5705 51835610 51835986 8.260000e-150 542.0
13 TraesCS5A01G042700 chr5B 91.777 377 31 0 5236 5612 51835703 51836079 8.320000e-145 525.0
14 TraesCS5A01G042700 chr5B 93.640 283 18 0 5422 5704 51835610 51835892 3.120000e-114 424.0
15 TraesCS5A01G042700 chr5B 77.070 628 77 31 5 590 51830617 51831219 5.490000e-77 300.0
16 TraesCS5A01G042700 chr5B 93.220 118 8 0 4362 4479 51834770 51834887 3.470000e-39 174.0
17 TraesCS5A01G042700 chr5B 92.373 118 9 0 4395 4512 51834737 51834854 1.620000e-37 169.0
18 TraesCS5A01G042700 chr5B 78.378 111 22 2 4461 4570 51834737 51834846 4.690000e-08 71.3
19 TraesCS5A01G042700 chr5D 96.439 5252 160 11 1193 6438 49105924 49111154 0.000000e+00 8637.0
20 TraesCS5A01G042700 chr5D 95.133 1582 66 6 7780 9355 49112673 49114249 0.000000e+00 2484.0
21 TraesCS5A01G042700 chr5D 98.077 572 10 1 6619 7189 49111403 49111974 0.000000e+00 994.0
22 TraesCS5A01G042700 chr5D 91.597 595 31 8 1 590 49104651 49105231 0.000000e+00 804.0
23 TraesCS5A01G042700 chr5D 92.308 377 29 0 5329 5705 49109953 49110329 3.840000e-148 536.0
24 TraesCS5A01G042700 chr5D 92.308 377 29 0 5236 5612 49110046 49110422 3.840000e-148 536.0
25 TraesCS5A01G042700 chr5D 96.835 158 3 2 6439 6596 49111256 49111411 7.200000e-66 263.0
26 TraesCS5A01G042700 chr5D 90.116 172 9 6 954 1123 49105325 49105490 5.690000e-52 217.0
27 TraesCS5A01G042700 chr5D 91.525 118 10 0 4395 4512 49109086 49109203 7.520000e-36 163.0
28 TraesCS5A01G042700 chr5D 91.525 118 10 0 4362 4479 49109119 49109236 7.520000e-36 163.0
29 TraesCS5A01G042700 chr5D 92.941 85 6 0 4428 4512 49109086 49109170 3.550000e-24 124.0
30 TraesCS5A01G042700 chr5D 90.385 52 5 0 4461 4512 49109086 49109137 1.690000e-07 69.4
31 TraesCS5A01G042700 chr5D 88.889 45 5 0 4362 4406 49109185 49109229 1.000000e-03 56.5
32 TraesCS5A01G042700 chr4B 92.278 259 14 3 1384 1640 510130092 510130346 6.900000e-96 363.0
33 TraesCS5A01G042700 chr1B 91.506 259 16 3 1384 1640 643923765 643924019 1.490000e-92 351.0
34 TraesCS5A01G042700 chr1B 88.973 263 27 2 1384 1646 8402695 8402435 3.260000e-84 324.0
35 TraesCS5A01G042700 chr3B 90.189 265 20 3 1384 1646 761465824 761465564 3.240000e-89 340.0
36 TraesCS5A01G042700 chr3B 88.980 245 21 5 1398 1640 6609151 6609391 1.970000e-76 298.0
37 TraesCS5A01G042700 chr7B 90.347 259 19 4 1384 1640 100428342 100428596 1.510000e-87 335.0
38 TraesCS5A01G042700 chr7B 78.740 254 36 9 8980 9231 711880798 711880561 4.520000e-33 154.0
39 TraesCS5A01G042700 chr7B 78.346 254 37 9 8980 9231 711846444 711846207 2.100000e-31 148.0
40 TraesCS5A01G042700 chr7B 77.559 254 39 11 8980 9231 711813627 711813390 4.560000e-28 137.0
41 TraesCS5A01G042700 chr7B 100.000 28 0 0 2557 2584 684401764 684401791 1.700000e-02 52.8
42 TraesCS5A01G042700 chr2B 88.302 265 25 3 1384 1646 371337479 371337219 7.050000e-81 313.0
43 TraesCS5A01G042700 chr2D 80.556 324 53 6 9002 9323 388084571 388084256 3.380000e-59 241.0
44 TraesCS5A01G042700 chr6A 82.143 140 20 4 7022 7158 321885793 321885930 2.130000e-21 115.0
45 TraesCS5A01G042700 chrUn 86.842 76 9 1 9157 9231 480000106 480000031 6.020000e-12 84.2


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 TraesCS5A01G042700 chr5A 38723575 38732929 9354 False 1949.000000 11566 94.690222 1 9355 9 chr5A.!!$F1 9354
1 TraesCS5A01G042700 chr5B 51830617 51839742 9125 False 1476.630000 8835 90.700800 5 9355 10 chr5B.!!$F1 9350
2 TraesCS5A01G042700 chr5D 49104651 49114249 9598 False 1157.453846 8637 92.929077 1 9355 13 chr5D.!!$F1 9354

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
96 101 0.538057 TTTTGCAGCCTCCTCACTGG 60.538 55.000 0.00 0.0 34.38 4.00 F
184 201 1.075896 GGATCACGGGGACTCTCCT 60.076 63.158 0.00 0.0 36.57 3.69 F
1557 1990 1.298859 GAGCCGCTTGATTGTTCCGT 61.299 55.000 0.00 0.0 0.00 4.69 F
2191 2630 1.071699 ACCTATGTTTCTGCACACCGT 59.928 47.619 0.00 0.0 0.00 4.83 F
3551 3997 0.250209 TGCGGTGCATGCCAAATTTT 60.250 45.000 16.68 0.0 31.71 1.82 F
4410 4859 0.533755 CCGGCTGAAATGGCTCTAGG 60.534 60.000 0.00 0.0 0.00 3.02 F
4472 4921 1.377725 AGTCCGGCTGAAATGGCTG 60.378 57.895 0.00 0.0 35.98 4.85 F
5507 5956 1.541147 CTTGAAGCGGCTTTCCAATGA 59.459 47.619 17.51 0.0 0.00 2.57 F
5865 6314 1.604604 TTAGTGTGCCCACAAAGCTC 58.395 50.000 1.17 0.0 44.39 4.09 F
6500 7050 2.026169 AGGTCTCAGACATACGTGAGGA 60.026 50.000 7.24 0.0 40.61 3.71 F
7799 8462 4.018960 ACAGGATTGGTTACTGCTCTGATT 60.019 41.667 0.00 0.0 35.70 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1773 2207 0.482446 AGGACAAACATTCCCCTGCA 59.518 50.000 0.00 0.00 33.01 4.41 R
2092 2526 1.552578 TCTCCTTCGGTTCATTCGGA 58.447 50.000 0.00 0.00 0.00 4.55 R
3068 3514 1.073923 ACCTCCACTCCACCAATCAAC 59.926 52.381 0.00 0.00 0.00 3.18 R
3872 4318 1.134995 CCATGTCGCACTCAAGAGCTA 60.135 52.381 0.00 0.00 0.00 3.32 R
5131 5580 0.036388 TGCTCATCCGTTGGAGTTCC 60.036 55.000 0.00 0.00 34.05 3.62 R
5670 6119 0.108585 TGGAAAGCCGCTTCAAGTCT 59.891 50.000 5.98 0.00 36.79 3.24 R
6265 6715 0.890996 AACCGCTTCTTCCTTGCCTG 60.891 55.000 0.00 0.00 0.00 4.85 R
6477 7027 1.472878 TCACGTATGTCTGAGACCTGC 59.527 52.381 10.52 2.92 0.00 4.85 R
7768 8356 1.149101 AACCAATCCTGTGGAGGTGT 58.851 50.000 0.00 0.00 41.65 4.16 R
8069 8732 1.067199 GTGGCAAGCGCAGAATTTCG 61.067 55.000 11.47 0.00 41.24 3.46 R
9267 9943 2.200899 GCAACGCCAAGAAAATGTTGT 58.799 42.857 5.44 0.00 41.38 3.32 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
80 84 1.405661 GCCTTCGTCCTCCTCGATTTT 60.406 52.381 0.00 0.00 37.18 1.82
94 99 1.831580 GATTTTGCAGCCTCCTCACT 58.168 50.000 0.00 0.00 0.00 3.41
96 101 0.538057 TTTTGCAGCCTCCTCACTGG 60.538 55.000 0.00 0.00 34.38 4.00
102 107 1.489649 CAGCCTCCTCACTGGATCAAT 59.510 52.381 0.00 0.00 45.16 2.57
184 201 1.075896 GGATCACGGGGACTCTCCT 60.076 63.158 0.00 0.00 36.57 3.69
237 254 5.279006 GCCAACTCGTAGATCTTCATCCATA 60.279 44.000 0.00 0.00 33.89 2.74
245 262 8.110271 TCGTAGATCTTCATCCATAGACCTTAT 58.890 37.037 0.00 0.00 0.00 1.73
280 298 9.137459 TCTTCATACAAACACCCAGAATTAAAA 57.863 29.630 0.00 0.00 0.00 1.52
293 314 7.396339 ACCCAGAATTAAAACCTAACTTCATCC 59.604 37.037 0.00 0.00 0.00 3.51
301 322 3.100671 ACCTAACTTCATCCTTCTCGCT 58.899 45.455 0.00 0.00 0.00 4.93
319 352 4.162690 GCCGCCTCCATCTTCGGT 62.163 66.667 0.00 0.00 43.45 4.69
462 495 2.091885 AGCAAGGGAGAGGAACACAAAA 60.092 45.455 0.00 0.00 0.00 2.44
463 496 2.693074 GCAAGGGAGAGGAACACAAAAA 59.307 45.455 0.00 0.00 0.00 1.94
519 562 9.566432 GGAAATCAATAATCAGAGGTGAGTAAT 57.434 33.333 0.00 0.00 36.85 1.89
577 620 2.048127 GCTGTCCGAAACGCTCCT 60.048 61.111 0.00 0.00 0.00 3.69
1057 1106 3.827898 GCTCTCTCCCCGTCACCG 61.828 72.222 0.00 0.00 0.00 4.94
1158 1581 4.441584 ACTGGGCCCCGGGGATTA 62.442 66.667 44.86 25.39 37.50 1.75
1208 1639 2.156098 GGATTACAGCGTGGTTTTGGA 58.844 47.619 0.00 0.00 0.00 3.53
1255 1686 3.749064 TGTGAGCGAGGCGAGGAC 61.749 66.667 0.00 0.00 0.00 3.85
1256 1687 4.838486 GTGAGCGAGGCGAGGACG 62.838 72.222 0.00 0.00 42.93 4.79
1279 1710 3.406764 AGAGAACTTTTGCGATTGCTCT 58.593 40.909 6.47 0.00 43.34 4.09
1379 1811 4.309950 GTGGAAGGGTCACGGCGT 62.310 66.667 6.77 6.77 0.00 5.68
1407 1840 9.020813 GGTTTTTGTTCTGAACTTGAGAAATAC 57.979 33.333 20.18 15.07 31.27 1.89
1408 1841 9.788960 GTTTTTGTTCTGAACTTGAGAAATACT 57.211 29.630 20.18 0.00 31.27 2.12
1417 1850 9.817365 CTGAACTTGAGAAATACTATGTTGTTG 57.183 33.333 0.00 0.00 0.00 3.33
1418 1851 9.337396 TGAACTTGAGAAATACTATGTTGTTGT 57.663 29.630 0.00 0.00 0.00 3.32
1430 1863 4.986054 ATGTTGTTGTTAGTGACCCCTA 57.014 40.909 0.00 0.00 0.00 3.53
1540 1973 1.417890 ACAAAGTGGTCTGACAGGGAG 59.582 52.381 10.38 0.00 0.00 4.30
1557 1990 1.298859 GAGCCGCTTGATTGTTCCGT 61.299 55.000 0.00 0.00 0.00 4.69
1717 2151 3.382832 AGGTGTTCGGAGAGGCGG 61.383 66.667 0.00 0.00 38.43 6.13
1735 2169 1.406069 CGGCAGATTGCTTCCTGTAGT 60.406 52.381 0.67 0.00 44.28 2.73
1756 2190 2.659610 GACCAACCGCAGAGCTCT 59.340 61.111 11.45 11.45 0.00 4.09
1830 2264 2.131183 GATCTATTCGCAGTCTGGCAC 58.869 52.381 1.14 0.00 0.00 5.01
1885 2319 1.888215 CATATCCGCAACATCAGCCT 58.112 50.000 0.00 0.00 0.00 4.58
2056 2490 3.495806 CCTTGAGTTCTCTGGAGCAGTTT 60.496 47.826 1.53 0.00 32.61 2.66
2102 2536 1.439679 GGTCACCACTCCGAATGAAC 58.560 55.000 0.00 0.00 0.00 3.18
2138 2572 3.846360 ACAGTGGCTCGTACTGATAAAC 58.154 45.455 11.65 0.00 46.52 2.01
2150 2584 2.083774 CTGATAAACTGGCGCTTCCAA 58.916 47.619 7.64 0.00 46.01 3.53
2156 2590 1.165270 ACTGGCGCTTCCAAATGTAC 58.835 50.000 7.64 0.00 46.01 2.90
2159 2593 1.644786 GGCGCTTCCAAATGTACGCT 61.645 55.000 7.64 0.00 45.24 5.07
2189 2628 5.699097 TTTTACCTATGTTTCTGCACACC 57.301 39.130 0.00 0.00 0.00 4.16
2190 2629 1.808411 ACCTATGTTTCTGCACACCG 58.192 50.000 0.00 0.00 0.00 4.94
2191 2630 1.071699 ACCTATGTTTCTGCACACCGT 59.928 47.619 0.00 0.00 0.00 4.83
2192 2631 1.732259 CCTATGTTTCTGCACACCGTC 59.268 52.381 0.00 0.00 0.00 4.79
2193 2632 1.732259 CTATGTTTCTGCACACCGTCC 59.268 52.381 0.00 0.00 0.00 4.79
2240 2679 4.632153 TGTTTAGCTTCTGTTCTCTCACC 58.368 43.478 0.00 0.00 0.00 4.02
2496 2935 3.221771 ACTGGCTTACTGCAATGTTTCA 58.778 40.909 0.00 0.00 45.15 2.69
2607 3046 7.926555 GTCTGGTACATACACTATTTATGCTGT 59.073 37.037 0.00 0.00 38.20 4.40
2680 3119 7.880713 TGTCCTTGCACTTATGTGTTAGATTAA 59.119 33.333 10.17 0.00 45.44 1.40
2776 3216 5.176592 GGGTAACTCAGTGAGGTTGAATAC 58.823 45.833 23.79 11.83 33.35 1.89
3006 3452 5.163281 AGTCTGCAATCTGAATGAAGTCT 57.837 39.130 0.73 0.00 0.00 3.24
3061 3507 6.926272 GCAAATTTGGTCCATTTACACTTGTA 59.074 34.615 19.47 0.00 0.00 2.41
3068 3514 8.731275 TGGTCCATTTACACTTGTATCATTAG 57.269 34.615 0.00 0.00 0.00 1.73
3277 3723 3.119173 CCTGTAGGAAGACTGAGAAGCAG 60.119 52.174 0.00 0.00 43.69 4.24
3514 3960 2.240279 ACAGTACGAGCAACTTCTCCT 58.760 47.619 0.00 0.00 0.00 3.69
3551 3997 0.250209 TGCGGTGCATGCCAAATTTT 60.250 45.000 16.68 0.00 31.71 1.82
3620 4066 7.147177 CCATGAAGAATATCTGGGATGGGATAT 60.147 40.741 0.00 0.00 36.91 1.63
3650 4096 4.164981 TCCTGTTATGGACTACTGTGGTT 58.835 43.478 0.00 0.00 0.00 3.67
3872 4318 7.066284 GTCTTTGCAGGTAATATGTGATTCAGT 59.934 37.037 0.00 0.00 0.00 3.41
3956 4402 2.583593 CTCTCCGCCGCTGTTAGC 60.584 66.667 0.00 0.00 38.02 3.09
3961 4407 1.522806 CCGCCGCTGTTAGCCATTA 60.523 57.895 0.00 0.00 38.18 1.90
3970 4416 3.440173 GCTGTTAGCCATTAGTTCTTGCA 59.560 43.478 0.00 0.00 34.48 4.08
4011 4457 2.414559 GCGTGAATCAAGTTCCACCATG 60.415 50.000 0.00 0.00 35.91 3.66
4158 4604 4.687901 TGGACTTGAAGACATCACTGAA 57.312 40.909 0.00 0.00 37.92 3.02
4296 4745 0.804156 GACTCGCCTAGTTCTGCTGC 60.804 60.000 0.00 0.00 39.07 5.25
4308 4757 2.490903 GTTCTGCTGCAATGGACATTCT 59.509 45.455 3.02 0.00 0.00 2.40
4350 4799 6.016443 CCTCCTGAAATGGCTCAAGATAAATC 60.016 42.308 0.00 0.00 0.00 2.17
4377 4826 9.632638 ATTGGATATTGCTAAAATGACTACAGT 57.367 29.630 0.00 0.00 0.00 3.55
4410 4859 0.533755 CCGGCTGAAATGGCTCTAGG 60.534 60.000 0.00 0.00 0.00 3.02
4417 4866 3.018856 TGAAATGGCTCTAGGTGCAATG 58.981 45.455 10.03 0.00 0.00 2.82
4472 4921 1.377725 AGTCCGGCTGAAATGGCTG 60.378 57.895 0.00 0.00 35.98 4.85
4677 5126 5.499004 TTGTCTTACCTGAGCTTGGTTAT 57.501 39.130 15.92 0.00 38.88 1.89
4683 5132 9.780186 GTCTTACCTGAGCTTGGTTATATTATT 57.220 33.333 15.92 0.00 38.88 1.40
4781 5230 3.465742 TGTATCTGAGGCAGCTGAATC 57.534 47.619 20.43 14.61 0.00 2.52
4878 5327 7.666623 ACAAATACCGACCTTCAAAATCAATT 58.333 30.769 0.00 0.00 0.00 2.32
4896 5345 6.428083 TCAATTAACTCTATGCCCGGAATA 57.572 37.500 0.73 0.00 0.00 1.75
4903 5352 4.951094 ACTCTATGCCCGGAATATCTAGAC 59.049 45.833 0.73 0.00 0.00 2.59
4905 5354 5.519808 TCTATGCCCGGAATATCTAGACAT 58.480 41.667 0.73 0.00 0.00 3.06
4910 5359 5.360999 TGCCCGGAATATCTAGACATATCAG 59.639 44.000 0.73 0.00 0.00 2.90
5360 5809 3.391049 AGAGTCGTACCAAAACTCTTGC 58.609 45.455 8.35 0.00 45.69 4.01
5386 5835 7.716799 AATGCTGTAAACCCTTTGAATATCA 57.283 32.000 0.00 0.00 0.00 2.15
5402 5851 5.477984 TGAATATCAAACAAGGCTTGAAGCT 59.522 36.000 32.50 15.04 41.99 3.74
5403 5852 5.990120 ATATCAAACAAGGCTTGAAGCTT 57.010 34.783 32.50 14.14 41.99 3.74
5507 5956 1.541147 CTTGAAGCGGCTTTCCAATGA 59.459 47.619 17.51 0.00 0.00 2.57
5517 5966 3.401182 GCTTTCCAATGATGTGCCAAAA 58.599 40.909 0.00 0.00 0.00 2.44
5563 6012 7.195374 ACTCTTGATAATGCTGTAAACCCTA 57.805 36.000 0.00 0.00 0.00 3.53
5564 6013 7.048512 ACTCTTGATAATGCTGTAAACCCTAC 58.951 38.462 0.00 0.00 0.00 3.18
5584 6033 5.584649 CCTACGAATATTGAACAAGGCTTGA 59.415 40.000 32.50 11.54 0.00 3.02
5670 6119 7.747155 TGTAAACCCTTTGAATATCGAACAA 57.253 32.000 0.00 0.00 0.00 2.83
5717 6166 6.398234 TGTGCCAAAGAGTAAGCATTTTAA 57.602 33.333 0.00 0.00 37.60 1.52
5771 6220 7.148137 TGCATAGATTTATCACATGCATCATCC 60.148 37.037 19.54 1.43 44.88 3.51
5779 6228 5.319140 TCACATGCATCATCCTTCTTTTG 57.681 39.130 0.00 0.00 0.00 2.44
5810 6259 7.093684 ACAAAGGACTTCTCATCTTACTAGGAC 60.094 40.741 0.00 0.00 0.00 3.85
5845 6294 7.230747 TGATAATGAGGTTCCTTTTGAGAACA 58.769 34.615 6.04 0.00 44.40 3.18
5865 6314 1.604604 TTAGTGTGCCCACAAAGCTC 58.395 50.000 1.17 0.00 44.39 4.09
6084 6533 8.806146 ACTTCAGCTAATAATGTGTGGAAAAAT 58.194 29.630 0.00 0.00 0.00 1.82
6237 6686 2.507484 TCTCTTGCCATGACAGTTTGG 58.493 47.619 0.00 0.04 36.03 3.28
6254 6704 4.780021 AGTTTGGATGACCACTGACTCTAT 59.220 41.667 0.00 0.00 46.80 1.98
6265 6715 5.053145 CCACTGACTCTATCTTTGGCATAC 58.947 45.833 0.00 0.00 0.00 2.39
6408 6858 5.352016 CCGTCCGGTAATTTTGTTATCTTGA 59.648 40.000 0.00 0.00 0.00 3.02
6438 6888 6.049149 ACAATCCCTTCATCAATGTAGTACG 58.951 40.000 0.00 0.00 0.00 3.67
6439 6889 5.871396 ATCCCTTCATCAATGTAGTACGT 57.129 39.130 0.00 0.00 0.00 3.57
6440 6890 6.971726 ATCCCTTCATCAATGTAGTACGTA 57.028 37.500 0.00 0.00 0.00 3.57
6441 6891 6.387041 TCCCTTCATCAATGTAGTACGTAG 57.613 41.667 0.00 0.00 0.00 3.51
6443 6893 6.379133 TCCCTTCATCAATGTAGTACGTAGTT 59.621 38.462 8.48 0.00 37.78 2.24
6500 7050 2.026169 AGGTCTCAGACATACGTGAGGA 60.026 50.000 7.24 0.00 40.61 3.71
6582 7132 7.120923 TGTGGTAGGTGTAGAAGATTATTCC 57.879 40.000 0.00 0.00 0.00 3.01
6617 7167 4.331108 TCTAAAATGGTGTGCTGCATACA 58.669 39.130 26.93 16.72 0.00 2.29
6882 7432 8.100791 TCTTAATTTACACAGGTTGATGCTACT 58.899 33.333 0.00 0.00 0.00 2.57
7020 7570 4.798387 GCCAGCCGAATTGTTATACAAAAG 59.202 41.667 0.00 0.00 41.96 2.27
7799 8462 4.018960 ACAGGATTGGTTACTGCTCTGATT 60.019 41.667 0.00 0.00 35.70 2.57
8011 8674 5.688823 TGTTGCTAAATTGAATGACGTCTG 58.311 37.500 17.92 0.00 0.00 3.51
8069 8732 3.683365 AATTTGCTTGGGATGTGTTCC 57.317 42.857 0.00 0.00 44.62 3.62
8093 8756 2.665008 TTCTGCGCTTGCCACTGACT 62.665 55.000 9.73 0.00 38.03 3.41
8096 8759 2.546494 GCGCTTGCCACTGACTGTT 61.546 57.895 0.00 0.00 0.00 3.16
8139 8803 5.256474 AGCACAAATAGCCAGTACTCAAAT 58.744 37.500 0.00 0.00 0.00 2.32
8181 8845 5.105106 TGAGAGTGCCCGTAGAATAATTTCA 60.105 40.000 0.00 0.00 34.08 2.69
8317 8983 9.204570 TCTTTTACTCATTCACTTGCTAACTAC 57.795 33.333 0.00 0.00 0.00 2.73
8562 9233 6.219417 AGCATAGCCATATCATCAGTAGAC 57.781 41.667 0.00 0.00 0.00 2.59
8591 9262 5.781210 TGAAGTGGCAAATCATTGTGTTA 57.219 34.783 0.00 0.00 38.85 2.41
8650 9321 3.637229 TCGTTGGGTTAGAATTTTTGCCA 59.363 39.130 0.00 0.00 0.00 4.92
8675 9346 7.386299 CAGAGTTGGACAGCATATATAGGTTTC 59.614 40.741 0.00 0.00 0.00 2.78
8853 9524 3.192422 CCGATTGGTTTAGCAATGGTTCA 59.808 43.478 11.50 0.00 0.00 3.18
8854 9525 4.165779 CGATTGGTTTAGCAATGGTTCAC 58.834 43.478 11.50 0.00 0.00 3.18
8877 9548 8.944138 TCACAGTCCCCTCATTCATTTTATATA 58.056 33.333 0.00 0.00 0.00 0.86
8882 9553 9.620259 GTCCCCTCATTCATTTTATATATCTCC 57.380 37.037 0.00 0.00 0.00 3.71
8883 9554 9.350306 TCCCCTCATTCATTTTATATATCTCCA 57.650 33.333 0.00 0.00 0.00 3.86
8999 9670 0.319297 GACTAGTTGAACGCCCGTGT 60.319 55.000 0.00 0.00 0.00 4.49
9024 9695 6.947733 TGTTGCCATGGGAGGATATAAAATAG 59.052 38.462 15.13 0.00 0.00 1.73
9064 9736 7.397221 TCAGATGATGGAAGTACTCAATGTTT 58.603 34.615 0.00 0.00 0.00 2.83
9081 9753 5.789643 ATGTTTGATGTGCTTACTTTGGT 57.210 34.783 0.00 0.00 0.00 3.67
9084 9756 5.590663 TGTTTGATGTGCTTACTTTGGTGTA 59.409 36.000 0.00 0.00 0.00 2.90
9085 9757 6.264292 TGTTTGATGTGCTTACTTTGGTGTAT 59.736 34.615 0.00 0.00 0.00 2.29
9086 9758 5.878332 TGATGTGCTTACTTTGGTGTATG 57.122 39.130 0.00 0.00 0.00 2.39
9164 9836 4.883083 AGAAGTGTTACGAGATTGAAGCA 58.117 39.130 0.00 0.00 0.00 3.91
9243 9918 8.747538 ACTTTAGTGACAAGACCATTACTTTT 57.252 30.769 0.00 0.00 0.00 2.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 5.393352 GGGTTTCGATTTGGGGTATTTGTAC 60.393 44.000 0.00 0.00 0.00 2.90
80 84 2.203832 TCCAGTGAGGAGGCTGCA 60.204 61.111 9.23 0.00 43.07 4.41
96 101 0.181350 AGGTGGGAAGCGGATTGATC 59.819 55.000 0.00 0.00 0.00 2.92
102 107 1.601419 CGAGTAAGGTGGGAAGCGGA 61.601 60.000 0.00 0.00 0.00 5.54
237 254 5.157770 TGAAGAGGGTGGATATAAGGTCT 57.842 43.478 0.00 0.00 0.00 3.85
245 262 5.338871 GGTGTTTGTATGAAGAGGGTGGATA 60.339 44.000 0.00 0.00 0.00 2.59
280 298 3.100671 AGCGAGAAGGATGAAGTTAGGT 58.899 45.455 0.00 0.00 0.00 3.08
301 322 4.161295 CCGAAGATGGAGGCGGCA 62.161 66.667 13.08 0.00 37.08 5.69
314 347 1.673626 GGGTAGAACGCATGAACCGAA 60.674 52.381 0.00 0.00 0.00 4.30
319 352 3.071479 GAGTTTGGGTAGAACGCATGAA 58.929 45.455 0.00 0.00 40.81 2.57
366 399 2.933495 TGACGACGAGTTAGGGATTG 57.067 50.000 0.00 0.00 0.00 2.67
391 424 4.131088 GACGGTGGGGACGAGAGC 62.131 72.222 0.00 0.00 34.93 4.09
421 454 1.958205 CTCTGAATCCCGCGATGGC 60.958 63.158 8.23 0.00 35.87 4.40
425 458 1.141881 GCTTCTCTGAATCCCGCGA 59.858 57.895 8.23 0.00 0.00 5.87
429 462 1.561542 TCCCTTGCTTCTCTGAATCCC 59.438 52.381 0.00 0.00 0.00 3.85
462 495 7.615365 TGGGCAGAACATGAAGTTTCTATAATT 59.385 33.333 0.00 0.00 41.51 1.40
463 496 7.118723 TGGGCAGAACATGAAGTTTCTATAAT 58.881 34.615 0.00 0.00 41.51 1.28
481 524 2.673775 TGATTTCCAAACTGGGCAGA 57.326 45.000 0.00 0.00 38.32 4.26
519 562 6.598850 TCATCATCATGATCGGAAGAACAAAA 59.401 34.615 4.86 0.00 46.17 2.44
1151 1202 1.230324 GCGCAAGAGACATAATCCCC 58.770 55.000 0.30 0.00 43.02 4.81
1182 1613 1.202830 ACCACGCTGTAATCCAAACCA 60.203 47.619 0.00 0.00 0.00 3.67
1186 1617 2.294791 CCAAAACCACGCTGTAATCCAA 59.705 45.455 0.00 0.00 0.00 3.53
1255 1686 2.726066 GCAATCGCAAAAGTTCTCTCCG 60.726 50.000 0.00 0.00 38.36 4.63
1256 1687 2.485814 AGCAATCGCAAAAGTTCTCTCC 59.514 45.455 0.00 0.00 42.27 3.71
1279 1710 1.568612 GACCACCGTCACGTCTACGA 61.569 60.000 18.77 0.00 42.90 3.43
1375 1807 0.658897 TCAGAACAAAAACCGACGCC 59.341 50.000 0.00 0.00 0.00 5.68
1379 1811 4.938832 TCTCAAGTTCAGAACAAAAACCGA 59.061 37.500 15.85 0.26 0.00 4.69
1407 1840 4.906618 AGGGGTCACTAACAACAACATAG 58.093 43.478 0.00 0.00 0.00 2.23
1408 1841 4.986054 AGGGGTCACTAACAACAACATA 57.014 40.909 0.00 0.00 0.00 2.29
1409 1842 3.876309 AGGGGTCACTAACAACAACAT 57.124 42.857 0.00 0.00 0.00 2.71
1414 1847 3.343941 TGCATAGGGGTCACTAACAAC 57.656 47.619 0.00 0.00 0.00 3.32
1417 1850 4.338400 GGAAATTGCATAGGGGTCACTAAC 59.662 45.833 0.00 0.00 0.00 2.34
1418 1851 4.229582 AGGAAATTGCATAGGGGTCACTAA 59.770 41.667 0.00 0.00 0.00 2.24
1420 1853 2.582636 AGGAAATTGCATAGGGGTCACT 59.417 45.455 0.00 0.00 0.00 3.41
1430 1863 2.232941 CCTGCTCACAAGGAAATTGCAT 59.767 45.455 0.00 0.00 43.15 3.96
1540 1973 1.154225 CACGGAACAATCAAGCGGC 60.154 57.895 0.00 0.00 0.00 6.53
1557 1990 4.624364 CACCACTGCAGGCCGACA 62.624 66.667 19.93 0.00 0.00 4.35
1683 2117 1.599047 CTGGTCAATCAGAGCCCGT 59.401 57.895 0.00 0.00 44.10 5.28
1717 2151 2.012673 CCACTACAGGAAGCAATCTGC 58.987 52.381 0.00 0.00 45.46 4.26
1773 2207 0.482446 AGGACAAACATTCCCCTGCA 59.518 50.000 0.00 0.00 33.01 4.41
1835 2269 5.549347 TGTCCCATTTTGACCATTTGAATG 58.451 37.500 0.00 0.00 36.17 2.67
1885 2319 7.392953 TCATTCACATACATACAGCCTTCAAAA 59.607 33.333 0.00 0.00 0.00 2.44
2056 2490 4.219070 CCAGCAGAATTCCATTGTGAAAGA 59.781 41.667 0.65 0.00 35.73 2.52
2092 2526 1.552578 TCTCCTTCGGTTCATTCGGA 58.447 50.000 0.00 0.00 0.00 4.55
2102 2536 3.786635 CCACTGTCTTATTCTCCTTCGG 58.213 50.000 0.00 0.00 0.00 4.30
2189 2628 1.805945 GTAGACAAGCGGCTGGACG 60.806 63.158 12.25 0.00 0.00 4.79
2190 2629 1.448013 GGTAGACAAGCGGCTGGAC 60.448 63.158 12.25 4.86 0.00 4.02
2191 2630 1.605058 GAGGTAGACAAGCGGCTGGA 61.605 60.000 12.25 0.00 0.00 3.86
2192 2631 1.153549 GAGGTAGACAAGCGGCTGG 60.154 63.158 1.81 1.89 0.00 4.85
2193 2632 1.153549 GGAGGTAGACAAGCGGCTG 60.154 63.158 1.81 0.10 0.00 4.85
2240 2679 0.459078 TCATCGCTTGAGAGAGCCTG 59.541 55.000 0.00 0.00 39.51 4.85
2378 2817 4.874970 ACAAGACATGGTTTTGATTGCTC 58.125 39.130 11.50 0.00 32.93 4.26
2496 2935 6.891908 AGACCTGCCATTATGTAACTTGAATT 59.108 34.615 0.00 0.00 0.00 2.17
2607 3046 4.594970 TCAAGAGGTCTTCACAAAACCAA 58.405 39.130 0.00 0.00 35.43 3.67
2680 3119 3.345414 TCAAACGGTTTACAAGTGGTGT 58.655 40.909 5.69 0.00 44.82 4.16
2829 3269 9.778741 AACTTACAGATAGAAGTTTCATTGACA 57.221 29.630 0.00 0.00 41.93 3.58
3006 3452 9.751542 CAACATGGTAAACCTACAATAAAAACA 57.248 29.630 0.00 0.00 36.82 2.83
3068 3514 1.073923 ACCTCCACTCCACCAATCAAC 59.926 52.381 0.00 0.00 0.00 3.18
3277 3723 3.420828 GAGTTTCGATTTTGCAGCTAGC 58.579 45.455 6.62 6.62 45.96 3.42
3514 3960 1.667236 CAGTTGACTGAACAGCCACA 58.333 50.000 5.19 0.00 46.59 4.17
3551 3997 7.452562 TGCCAAACTGCTGATAATATATCAGA 58.547 34.615 24.46 12.51 46.25 3.27
3589 4035 6.768641 TCCCAGATATTCTTCATGGATTCA 57.231 37.500 0.00 0.00 32.55 2.57
3620 4066 7.344612 ACAGTAGTCCATAACAGGATCATACAA 59.655 37.037 0.00 0.00 40.42 2.41
3650 4096 8.054572 TGAATGGTGATTTCTCTTAATCCATGA 58.945 33.333 0.00 0.00 34.34 3.07
3827 4273 4.631234 AGACATGGAGGTATAAGAACCCA 58.369 43.478 0.00 0.00 40.71 4.51
3840 4286 5.824624 ACATATTACCTGCAAAGACATGGAG 59.175 40.000 0.00 0.00 38.38 3.86
3872 4318 1.134995 CCATGTCGCACTCAAGAGCTA 60.135 52.381 0.00 0.00 0.00 3.32
3949 4395 5.627499 TTGCAAGAACTAATGGCTAACAG 57.373 39.130 0.00 0.00 0.00 3.16
3956 4402 7.712264 TTTTTGTCATTGCAAGAACTAATGG 57.288 32.000 4.94 0.00 33.70 3.16
3961 4407 7.439056 CCAACTATTTTTGTCATTGCAAGAACT 59.561 33.333 4.94 0.00 0.00 3.01
3970 4416 4.038642 ACGCCACCAACTATTTTTGTCATT 59.961 37.500 0.00 0.00 0.00 2.57
4011 4457 4.455606 CTCCTGATGAGGGGTCAAAATAC 58.544 47.826 0.00 0.00 40.25 1.89
4132 4578 3.565482 GTGATGTCTTCAAGTCCAAAGCA 59.435 43.478 0.00 0.00 35.70 3.91
4296 4745 4.559153 GGGTGTTTCAAGAATGTCCATTG 58.441 43.478 0.00 0.00 0.00 2.82
4350 4799 9.888878 CTGTAGTCATTTTAGCAATATCCAATG 57.111 33.333 0.00 0.00 0.00 2.82
4377 4826 0.037590 AGCCGGACTGGTTATTGCAA 59.962 50.000 5.05 0.00 41.21 4.08
4410 4859 2.690778 GCCGGACTGGTCATTGCAC 61.691 63.158 5.05 0.00 41.21 4.57
4472 4921 3.131396 CCGGACTGGTTATTGCATCTAC 58.869 50.000 0.00 0.00 0.00 2.59
4642 5091 8.579850 TCAGGTAAGACAAAATGCAATAGAAT 57.420 30.769 0.00 0.00 0.00 2.40
4683 5132 6.299141 TGCATGCAAATTAAAGGGGTTAAAA 58.701 32.000 20.30 0.00 35.33 1.52
4767 5216 0.179065 CATCCGATTCAGCTGCCTCA 60.179 55.000 9.47 0.00 0.00 3.86
4781 5230 3.620374 CACCTCATCAAAACTCTCATCCG 59.380 47.826 0.00 0.00 0.00 4.18
4813 5262 0.390998 GAAGCTGAGCCAGTCTCCAC 60.391 60.000 0.00 0.00 41.18 4.02
4878 5327 6.602406 GTCTAGATATTCCGGGCATAGAGTTA 59.398 42.308 0.00 0.00 0.00 2.24
4896 5345 3.161067 AGCCACGCTGATATGTCTAGAT 58.839 45.455 0.00 0.00 37.57 1.98
4903 5352 1.998315 GCAGATAGCCACGCTGATATG 59.002 52.381 0.00 0.00 40.10 1.78
4905 5354 1.000171 CTGCAGATAGCCACGCTGATA 60.000 52.381 8.42 0.00 44.83 2.15
4910 5359 3.275338 GCCTGCAGATAGCCACGC 61.275 66.667 17.39 3.06 44.83 5.34
5020 5469 3.560481 TCGTCGATGTTTTTAGGCACAAA 59.440 39.130 4.21 0.00 0.00 2.83
5078 5527 8.244113 CACAGTTGTTCCTTAACTTTCTCTTTT 58.756 33.333 0.00 0.00 36.29 2.27
5131 5580 0.036388 TGCTCATCCGTTGGAGTTCC 60.036 55.000 0.00 0.00 34.05 3.62
5282 5731 6.567687 TCAAGCCTTGTTCGATATTCAAAA 57.432 33.333 4.04 0.00 0.00 2.44
5360 5809 8.902806 TGATATTCAAAGGGTTTACAGCATTAG 58.097 33.333 0.00 0.00 0.00 1.73
5386 5835 3.068732 GGAAGAAGCTTCAAGCCTTGTTT 59.931 43.478 27.57 10.12 43.77 2.83
5402 5851 2.601240 TGGCACATCATTGGGAAGAA 57.399 45.000 0.00 0.00 0.00 2.52
5403 5852 2.601240 TTGGCACATCATTGGGAAGA 57.399 45.000 0.00 0.00 39.30 2.87
5517 5966 0.251653 TGGTACGACTCTTGGAGGCT 60.252 55.000 0.00 0.00 35.13 4.58
5563 6012 5.619981 GCTTCAAGCCTTGTTCAATATTCGT 60.620 40.000 4.04 0.00 34.48 3.85
5564 6013 4.795278 GCTTCAAGCCTTGTTCAATATTCG 59.205 41.667 4.04 0.00 34.48 3.34
5584 6033 0.250901 ACATCACTGGAAAGCCGCTT 60.251 50.000 0.00 0.00 36.79 4.68
5670 6119 0.108585 TGGAAAGCCGCTTCAAGTCT 59.891 50.000 5.98 0.00 36.79 3.24
5717 6166 1.642762 AGGGGATGAAGCAAACAGGAT 59.357 47.619 0.00 0.00 0.00 3.24
5771 6220 6.768381 AGAAGTCCTTTGTCCTACAAAAGAAG 59.232 38.462 6.67 0.00 46.15 2.85
5779 6228 5.669164 AGATGAGAAGTCCTTTGTCCTAC 57.331 43.478 0.00 0.00 0.00 3.18
5810 6259 2.487934 CCTCATTATCAACCAGAGGCG 58.512 52.381 0.00 0.00 39.39 5.52
5865 6314 8.560576 TGTTCTTATTCTTTCTTTTCTTTGCG 57.439 30.769 0.00 0.00 0.00 4.85
6038 6487 6.934645 TGAAGTTGAAAGAATACTCCGAACAT 59.065 34.615 0.00 0.00 0.00 2.71
6039 6488 6.285224 TGAAGTTGAAAGAATACTCCGAACA 58.715 36.000 0.00 0.00 0.00 3.18
6084 6533 4.250464 CAGATGTACCTTTAACTTGCGGA 58.750 43.478 0.00 0.00 0.00 5.54
6123 6572 4.024302 GCAGCTAACAGGTTTCGTAACTTT 60.024 41.667 4.86 0.00 34.59 2.66
6159 6608 5.584649 CGATTGGGTAATTTTCAGTAGCTCA 59.415 40.000 0.00 0.00 0.00 4.26
6237 6686 5.355596 CCAAAGATAGAGTCAGTGGTCATC 58.644 45.833 0.00 0.00 31.64 2.92
6254 6704 1.354031 TCCTTGCCTGTATGCCAAAGA 59.646 47.619 0.00 0.00 0.00 2.52
6265 6715 0.890996 AACCGCTTCTTCCTTGCCTG 60.891 55.000 0.00 0.00 0.00 4.85
6387 6837 9.015367 TGATTTCAAGATAACAAAATTACCGGA 57.985 29.630 9.46 0.00 0.00 5.14
6408 6858 7.248743 ACATTGATGAAGGGATTGTTGATTT 57.751 32.000 0.00 0.00 0.00 2.17
6477 7027 1.472878 TCACGTATGTCTGAGACCTGC 59.527 52.381 10.52 2.92 0.00 4.85
6500 7050 7.809238 TCCAATTCCACTCTTCTCATATTGAT 58.191 34.615 0.00 0.00 0.00 2.57
6582 7132 8.562892 CACACCATTTTAGATAAAGGCAGATAG 58.437 37.037 0.00 0.00 0.00 2.08
6882 7432 2.147958 CTTGCTAAACCACCACGCTTA 58.852 47.619 0.00 0.00 0.00 3.09
6891 7441 7.716799 ATGGTTGATAAATCTTGCTAAACCA 57.283 32.000 10.82 10.82 46.99 3.67
7020 7570 3.681593 TGTGGCCCTCAACAGTAATTAC 58.318 45.455 7.57 7.57 0.00 1.89
7761 8349 5.256474 CAATCCTGTGGAGGTGTAGATTTT 58.744 41.667 0.00 0.00 40.76 1.82
7762 8350 4.324563 CCAATCCTGTGGAGGTGTAGATTT 60.325 45.833 0.00 0.00 41.65 2.17
7763 8351 3.200825 CCAATCCTGTGGAGGTGTAGATT 59.799 47.826 0.00 0.00 41.65 2.40
7764 8352 2.774234 CCAATCCTGTGGAGGTGTAGAT 59.226 50.000 0.00 0.00 41.65 1.98
7765 8353 2.187958 CCAATCCTGTGGAGGTGTAGA 58.812 52.381 0.00 0.00 41.65 2.59
7766 8354 1.909302 ACCAATCCTGTGGAGGTGTAG 59.091 52.381 0.00 0.00 41.65 2.74
7767 8355 2.038863 ACCAATCCTGTGGAGGTGTA 57.961 50.000 0.00 0.00 41.65 2.90
7768 8356 1.149101 AACCAATCCTGTGGAGGTGT 58.851 50.000 0.00 0.00 41.65 4.16
7769 8357 2.305927 AGTAACCAATCCTGTGGAGGTG 59.694 50.000 0.00 0.00 41.65 4.00
7770 8358 2.305927 CAGTAACCAATCCTGTGGAGGT 59.694 50.000 0.00 0.00 41.65 3.85
7771 8359 2.941415 GCAGTAACCAATCCTGTGGAGG 60.941 54.545 0.00 0.00 41.65 4.30
7772 8360 2.026822 AGCAGTAACCAATCCTGTGGAG 60.027 50.000 0.00 0.00 41.65 3.86
7773 8361 1.985159 AGCAGTAACCAATCCTGTGGA 59.015 47.619 0.00 0.00 41.65 4.02
7774 8362 2.026822 AGAGCAGTAACCAATCCTGTGG 60.027 50.000 0.00 0.00 44.92 4.17
7775 8363 3.005554 CAGAGCAGTAACCAATCCTGTG 58.994 50.000 0.00 0.00 0.00 3.66
7776 8364 2.906389 TCAGAGCAGTAACCAATCCTGT 59.094 45.455 0.00 0.00 0.00 4.00
7777 8365 3.616956 TCAGAGCAGTAACCAATCCTG 57.383 47.619 0.00 0.00 0.00 3.86
7799 8462 4.090761 AGAAGAATGAAGGTTCACAGCA 57.909 40.909 0.00 0.00 40.49 4.41
7864 8527 9.463443 GCTGTCAATTGTTTTGTAGTTTATTCT 57.537 29.630 5.13 0.00 0.00 2.40
7872 8535 5.437289 TCCAGCTGTCAATTGTTTTGTAG 57.563 39.130 13.81 0.00 0.00 2.74
7917 8580 5.537300 TCAAAGTGGATAGCAGGAGTATC 57.463 43.478 0.00 0.00 0.00 2.24
7930 8593 4.724399 TCTTGTTGGCTAATCAAAGTGGA 58.276 39.130 0.00 0.00 0.00 4.02
8011 8674 8.261908 CACGACAAAGAAAATCAATGAGAAAAC 58.738 33.333 0.00 0.00 0.00 2.43
8069 8732 1.067199 GTGGCAAGCGCAGAATTTCG 61.067 55.000 11.47 0.00 41.24 3.46
8159 8823 5.353394 TGAAATTATTCTACGGGCACTCT 57.647 39.130 0.00 0.00 36.48 3.24
8254 8918 3.937814 TGGCACAAACAACTATCTCGAT 58.062 40.909 0.00 0.00 31.92 3.59
8301 8967 3.679980 CAGCACGTAGTTAGCAAGTGAAT 59.320 43.478 0.00 0.00 41.61 2.57
8317 8983 1.868997 CACCTAAACAGCCAGCACG 59.131 57.895 0.00 0.00 0.00 5.34
8545 9216 7.658982 TCAAAGAATGTCTACTGATGATATGGC 59.341 37.037 0.00 0.00 0.00 4.40
8562 9233 6.425721 ACAATGATTTGCCACTTCAAAGAATG 59.574 34.615 0.00 0.00 39.06 2.67
8591 9262 5.465935 CAAATTTAGGGCACACAATAACGT 58.534 37.500 0.00 0.00 0.00 3.99
8650 9321 7.071196 TGAAACCTATATATGCTGTCCAACTCT 59.929 37.037 0.00 0.00 0.00 3.24
8670 9341 7.042523 GCATTTGCAGTTCCATATAATGAAACC 60.043 37.037 6.23 0.00 41.59 3.27
8675 9346 6.741109 TGAGCATTTGCAGTTCCATATAATG 58.259 36.000 5.20 0.00 45.16 1.90
8853 9524 9.965902 GATATATAAAATGAATGAGGGGACTGT 57.034 33.333 0.00 0.00 44.43 3.55
8881 9552 6.881065 TGGAGTTAAACTGATCTCAGAAATGG 59.119 38.462 13.94 0.00 46.59 3.16
8882 9553 7.912056 TGGAGTTAAACTGATCTCAGAAATG 57.088 36.000 13.94 0.00 46.59 2.32
8966 9637 7.806487 CGTTCAACTAGTCTCTGTAATAACACA 59.194 37.037 0.00 0.00 0.00 3.72
8967 9638 7.201333 GCGTTCAACTAGTCTCTGTAATAACAC 60.201 40.741 0.00 0.00 0.00 3.32
9042 9713 7.615582 TCAAACATTGAGTACTTCCATCATC 57.384 36.000 0.00 0.00 34.08 2.92
9045 9716 7.246311 CACATCAAACATTGAGTACTTCCATC 58.754 38.462 0.00 0.00 43.98 3.51
9064 9736 5.555966 TCATACACCAAAGTAAGCACATCA 58.444 37.500 0.00 0.00 0.00 3.07
9217 9892 8.747538 AAAGTAATGGTCTTGTCACTAAAGTT 57.252 30.769 0.00 0.00 0.00 2.66
9267 9943 2.200899 GCAACGCCAAGAAAATGTTGT 58.799 42.857 5.44 0.00 41.38 3.32


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

AutoCloner maintained by Alex Coulton.