Multiple sequence alignment - TraesCS2B01G264100

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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 TraesCS2B01G264100 chr2B 100.000 4373 0 0 1 4373 356597783 356593411 0.000000e+00 8076.0
1 TraesCS2B01G264100 chr2D 92.861 1807 60 28 1 1767 301820435 301818658 0.000000e+00 2558.0
2 TraesCS2B01G264100 chr2D 95.191 1622 34 10 1799 3401 301818661 301817065 0.000000e+00 2523.0
3 TraesCS2B01G264100 chr2D 95.915 563 22 1 3685 4246 446266486 446265924 0.000000e+00 911.0
4 TraesCS2B01G264100 chr2D 86.188 543 69 6 3707 4246 378732070 378732609 2.270000e-162 582.0
5 TraesCS2B01G264100 chr2D 82.308 130 21 2 2210 2338 572734003 572734131 1.290000e-20 111.0
6 TraesCS2B01G264100 chr2A 96.067 1068 33 6 1503 2563 378852915 378851850 0.000000e+00 1731.0
7 TraesCS2B01G264100 chr2A 94.762 1050 30 12 2555 3594 378850911 378849877 0.000000e+00 1611.0
8 TraesCS2B01G264100 chr2A 90.330 1272 47 21 1 1233 378854272 378853038 0.000000e+00 1598.0
9 TraesCS2B01G264100 chr2A 80.292 137 24 3 2204 2338 711970081 711970216 2.780000e-17 100.0
10 TraesCS2B01G264100 chr4D 97.153 562 16 0 3685 4246 110810256 110809695 0.000000e+00 950.0
11 TraesCS2B01G264100 chr4D 83.609 665 89 17 3593 4246 464529425 464528770 1.350000e-169 606.0
12 TraesCS2B01G264100 chr4D 86.347 542 68 6 3709 4246 69844208 69844747 1.750000e-163 586.0
13 TraesCS2B01G264100 chr4D 94.937 79 4 0 3592 3670 110810317 110810239 1.650000e-24 124.0
14 TraesCS2B01G264100 chr3A 95.737 563 24 0 3685 4247 621831669 621831107 0.000000e+00 907.0
15 TraesCS2B01G264100 chr3D 95.560 563 23 2 3685 4246 19795875 19796436 0.000000e+00 900.0
16 TraesCS2B01G264100 chr3D 91.250 80 6 1 3591 3670 19795814 19795892 1.660000e-19 108.0
17 TraesCS2B01G264100 chrUn 93.238 562 37 1 3685 4246 124956404 124955844 0.000000e+00 826.0
18 TraesCS2B01G264100 chrUn 87.342 79 7 3 3592 3670 215033353 215033278 2.170000e-13 87.9
19 TraesCS2B01G264100 chr3B 93.465 505 33 0 3685 4189 786976578 786976074 0.000000e+00 750.0
20 TraesCS2B01G264100 chr3B 95.714 140 5 1 4234 4373 189899216 189899354 1.580000e-54 224.0
21 TraesCS2B01G264100 chr3B 96.324 136 3 2 4239 4373 502954696 502954830 5.690000e-54 222.0
22 TraesCS2B01G264100 chr3B 90.278 72 4 3 3591 3660 666509106 666509036 1.670000e-14 91.6
23 TraesCS2B01G264100 chr6B 84.655 580 69 13 3685 4246 518601186 518600609 1.060000e-155 560.0
24 TraesCS2B01G264100 chr6B 96.947 131 4 0 4243 4373 565413059 565412929 2.050000e-53 220.0
25 TraesCS2B01G264100 chr6B 91.379 58 5 0 3591 3648 518601248 518601191 3.630000e-11 80.5
26 TraesCS2B01G264100 chr7B 83.992 506 75 6 3744 4246 635007941 635008443 8.510000e-132 481.0
27 TraesCS2B01G264100 chr7B 98.450 129 2 0 4245 4373 97889335 97889463 1.220000e-55 228.0
28 TraesCS2B01G264100 chr6A 80.440 455 86 3 3795 4247 106694327 106693874 1.160000e-90 344.0
29 TraesCS2B01G264100 chr5D 77.560 459 81 17 2887 3343 488863884 488864322 1.560000e-64 257.0
30 TraesCS2B01G264100 chr5B 98.473 131 2 0 4243 4373 466289571 466289701 9.460000e-57 231.0
31 TraesCS2B01G264100 chr4B 95.683 139 5 1 4235 4373 512145023 512145160 5.690000e-54 222.0
32 TraesCS2B01G264100 chr4B 95.000 140 4 3 4234 4373 622943584 622943448 2.650000e-52 217.0
33 TraesCS2B01G264100 chr4B 76.205 332 46 26 3595 3918 529337150 529336844 1.270000e-30 145.0
34 TraesCS2B01G264100 chr1D 89.326 178 11 8 4203 4373 188412482 188412658 2.650000e-52 217.0
35 TraesCS2B01G264100 chr4A 90.476 168 7 8 4211 4373 707291851 707292014 3.430000e-51 213.0
36 TraesCS2B01G264100 chr5A 83.173 208 35 0 2887 3094 609871962 609872169 1.610000e-44 191.0


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 TraesCS2B01G264100 chr2B 356593411 356597783 4372 True 8076.000000 8076 100.000000 1 4373 1 chr2B.!!$R1 4372
1 TraesCS2B01G264100 chr2D 301817065 301820435 3370 True 2540.500000 2558 94.026000 1 3401 2 chr2D.!!$R2 3400
2 TraesCS2B01G264100 chr2D 446265924 446266486 562 True 911.000000 911 95.915000 3685 4246 1 chr2D.!!$R1 561
3 TraesCS2B01G264100 chr2D 378732070 378732609 539 False 582.000000 582 86.188000 3707 4246 1 chr2D.!!$F1 539
4 TraesCS2B01G264100 chr2A 378849877 378854272 4395 True 1646.666667 1731 93.719667 1 3594 3 chr2A.!!$R1 3593
5 TraesCS2B01G264100 chr4D 464528770 464529425 655 True 606.000000 606 83.609000 3593 4246 1 chr4D.!!$R1 653
6 TraesCS2B01G264100 chr4D 69844208 69844747 539 False 586.000000 586 86.347000 3709 4246 1 chr4D.!!$F1 537
7 TraesCS2B01G264100 chr4D 110809695 110810317 622 True 537.000000 950 96.045000 3592 4246 2 chr4D.!!$R2 654
8 TraesCS2B01G264100 chr3A 621831107 621831669 562 True 907.000000 907 95.737000 3685 4247 1 chr3A.!!$R1 562
9 TraesCS2B01G264100 chr3D 19795814 19796436 622 False 504.000000 900 93.405000 3591 4246 2 chr3D.!!$F1 655
10 TraesCS2B01G264100 chrUn 124955844 124956404 560 True 826.000000 826 93.238000 3685 4246 1 chrUn.!!$R1 561
11 TraesCS2B01G264100 chr3B 786976074 786976578 504 True 750.000000 750 93.465000 3685 4189 1 chr3B.!!$R2 504
12 TraesCS2B01G264100 chr6B 518600609 518601248 639 True 320.250000 560 88.017000 3591 4246 2 chr6B.!!$R2 655
13 TraesCS2B01G264100 chr7B 635007941 635008443 502 False 481.000000 481 83.992000 3744 4246 1 chr7B.!!$F2 502

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
372 384 0.868406 CCAGGAAACACGTCTGAAGC 59.132 55.0 2.95 0.0 0.00 3.86 F
750 773 1.064825 CACCACAACCCCTAGTTCCT 58.935 55.0 0.00 0.0 36.18 3.36 F
2411 2478 0.518636 CGACAGGCAATGTGGTGAAG 59.481 55.0 0.00 0.0 44.17 3.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2053 2119 0.846693 AGGCAACCTCCTCAACACTT 59.153 50.0 0.0 0.0 37.17 3.16 R
2670 3683 0.948623 TCAGTGTGCGGTCGATTTGG 60.949 55.0 0.0 0.0 0.00 3.28 R
4302 5397 0.107456 CCCTCTCGTTGCTATGCCAT 59.893 55.0 0.0 0.0 0.00 4.40 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
59 60 7.444299 AGATGGTAAATGAAGTGCAAACATTT 58.556 30.769 21.62 21.62 43.48 2.32
60 61 7.599998 AGATGGTAAATGAAGTGCAAACATTTC 59.400 33.333 21.57 15.69 41.32 2.17
71 72 6.989659 AGTGCAAACATTTCATCATCTTCTT 58.010 32.000 0.00 0.00 0.00 2.52
87 88 4.960938 TCTTCTTAGCAAGTGTGTCACAT 58.039 39.130 9.31 0.00 36.74 3.21
102 103 6.363626 GTGTGTCACATAAGTACAGACTTGAG 59.636 42.308 9.31 0.00 39.09 3.02
109 110 7.587757 CACATAAGTACAGACTTGAGCAAAAAC 59.412 37.037 0.00 0.00 45.74 2.43
170 171 2.159327 AGTCAAAGCAGCCAAAATGC 57.841 45.000 0.00 0.00 44.18 3.56
236 237 2.945668 GGTAGCATGACCAACATTCTCC 59.054 50.000 0.00 0.00 39.51 3.71
284 288 1.076024 TGGGCTTTGAAGATTCTGGCT 59.924 47.619 0.00 0.00 0.00 4.75
308 312 4.715713 ACAGTTGAGGATGATGATGATGG 58.284 43.478 0.00 0.00 0.00 3.51
311 315 3.136009 TGAGGATGATGATGATGGTGC 57.864 47.619 0.00 0.00 0.00 5.01
312 316 2.440253 TGAGGATGATGATGATGGTGCA 59.560 45.455 0.00 0.00 0.00 4.57
313 317 3.073946 TGAGGATGATGATGATGGTGCAT 59.926 43.478 0.00 0.00 0.00 3.96
314 318 3.421844 AGGATGATGATGATGGTGCATG 58.578 45.455 0.00 0.00 0.00 4.06
315 319 2.094700 GGATGATGATGATGGTGCATGC 60.095 50.000 11.82 11.82 0.00 4.06
316 320 2.060050 TGATGATGATGGTGCATGCA 57.940 45.000 18.46 18.46 0.00 3.96
318 322 2.227194 GATGATGATGGTGCATGCAGA 58.773 47.619 23.41 11.57 0.00 4.26
319 323 2.358322 TGATGATGGTGCATGCAGAT 57.642 45.000 23.41 16.31 0.00 2.90
320 324 3.495434 TGATGATGGTGCATGCAGATA 57.505 42.857 23.41 10.89 0.00 1.98
321 325 3.143728 TGATGATGGTGCATGCAGATAC 58.856 45.455 23.41 13.67 0.00 2.24
322 326 2.713863 TGATGGTGCATGCAGATACA 57.286 45.000 23.41 17.76 0.00 2.29
371 383 1.512926 CCCAGGAAACACGTCTGAAG 58.487 55.000 2.95 0.00 0.00 3.02
372 384 0.868406 CCAGGAAACACGTCTGAAGC 59.132 55.000 2.95 0.00 0.00 3.86
486 498 4.867608 GGAGGAAGAGAAGAAATGACGAAG 59.132 45.833 0.00 0.00 0.00 3.79
487 499 4.249661 AGGAAGAGAAGAAATGACGAAGC 58.750 43.478 0.00 0.00 0.00 3.86
488 500 4.020662 AGGAAGAGAAGAAATGACGAAGCT 60.021 41.667 0.00 0.00 0.00 3.74
536 548 2.865079 TGTGGCGATTTTGTAGGGAAA 58.135 42.857 0.00 0.00 0.00 3.13
574 586 2.889512 TGAGGAAGCAGTGTAGGAGAA 58.110 47.619 0.00 0.00 0.00 2.87
618 630 5.181433 CCAATTGCTCATCTCATCCATACAG 59.819 44.000 0.00 0.00 0.00 2.74
623 635 1.983691 CATCTCATCCATACAGCCCCT 59.016 52.381 0.00 0.00 0.00 4.79
750 773 1.064825 CACCACAACCCCTAGTTCCT 58.935 55.000 0.00 0.00 36.18 3.36
814 840 5.888161 CAGCCTCCTCATACAAGGTAAAAAT 59.112 40.000 0.00 0.00 37.69 1.82
819 845 9.110502 CCTCCTCATACAAGGTAAAAATCTAAC 57.889 37.037 0.00 0.00 37.69 2.34
909 935 6.150140 AGCACATATTCTTTCCTTGTCTTGAC 59.850 38.462 0.00 0.00 0.00 3.18
927 953 4.866508 TGACCGTGTAATCTTCTTCACT 57.133 40.909 0.00 0.00 0.00 3.41
996 1026 1.719780 CTAACGACGCCTCTTGTTGTC 59.280 52.381 0.00 0.00 32.80 3.18
1089 1129 5.745476 GCAGAAGCTTCCCAAGATGATCTAT 60.745 44.000 22.81 0.00 37.91 1.98
1098 1138 9.253832 CTTCCCAAGATGATCTATGACTACTAT 57.746 37.037 0.00 0.00 0.00 2.12
1107 1147 2.383442 ATGACTACTATGCCTCCGGT 57.617 50.000 0.00 0.00 0.00 5.28
1140 1180 1.216710 GACGCTCCAGGAGAACAGG 59.783 63.158 21.89 5.59 0.00 4.00
1240 1285 4.143200 TGTTTGTAGAAATGCGTAAGAGCG 60.143 41.667 0.00 0.00 40.67 5.03
1252 1297 3.441163 CGTAAGAGCGCCAACTATACAA 58.559 45.455 2.29 0.00 43.02 2.41
1298 1344 2.625790 CCAACTGAATTTCGGGGTTTCA 59.374 45.455 9.94 0.00 0.00 2.69
1323 1369 6.663953 AGAGTTTGATGTACTACCTTAGAGCA 59.336 38.462 0.00 0.00 0.00 4.26
1351 1397 7.054124 TCTAATTCACCAGAGACAACAAACTT 58.946 34.615 0.00 0.00 0.00 2.66
1399 1446 8.988064 ATTCTGATGTTTCGATATATAGCGTT 57.012 30.769 18.95 2.09 36.36 4.84
1400 1447 8.449085 TTCTGATGTTTCGATATATAGCGTTC 57.551 34.615 18.95 11.34 36.36 3.95
1413 1469 1.160137 AGCGTTCCAAGTCAATCAGC 58.840 50.000 0.00 0.00 0.00 4.26
1562 1620 7.393841 TCCTTTCAGAGCTAGACTTACTAAC 57.606 40.000 0.00 0.00 0.00 2.34
1565 1623 5.453866 TCAGAGCTAGACTTACTAACCCT 57.546 43.478 0.00 0.00 0.00 4.34
1566 1624 6.572182 TCAGAGCTAGACTTACTAACCCTA 57.428 41.667 0.00 0.00 0.00 3.53
1567 1625 6.593807 TCAGAGCTAGACTTACTAACCCTAG 58.406 44.000 0.00 0.00 0.00 3.02
1772 1834 8.358895 TCTGAAATGTCATTTGATTGTGCTTAA 58.641 29.630 15.52 0.00 31.85 1.85
1773 1835 9.146984 CTGAAATGTCATTTGATTGTGCTTAAT 57.853 29.630 15.52 0.00 31.85 1.40
1775 1837 9.749490 GAAATGTCATTTGATTGTGCTTAATTG 57.251 29.630 15.52 0.00 31.47 2.32
1776 1838 9.491675 AAATGTCATTTGATTGTGCTTAATTGA 57.508 25.926 10.05 0.00 0.00 2.57
1777 1839 8.697846 ATGTCATTTGATTGTGCTTAATTGAG 57.302 30.769 0.00 0.00 0.00 3.02
1778 1840 6.587226 TGTCATTTGATTGTGCTTAATTGAGC 59.413 34.615 14.95 14.95 43.00 4.26
1779 1841 6.810182 GTCATTTGATTGTGCTTAATTGAGCT 59.190 34.615 21.34 2.74 43.11 4.09
1780 1842 7.970061 GTCATTTGATTGTGCTTAATTGAGCTA 59.030 33.333 21.34 9.24 43.11 3.32
1781 1843 7.970061 TCATTTGATTGTGCTTAATTGAGCTAC 59.030 33.333 21.34 17.10 43.11 3.58
1782 1844 6.816134 TTGATTGTGCTTAATTGAGCTACA 57.184 33.333 21.34 19.05 43.11 2.74
1783 1845 6.182039 TGATTGTGCTTAATTGAGCTACAC 57.818 37.500 21.34 12.69 43.11 2.90
1784 1846 5.123820 TGATTGTGCTTAATTGAGCTACACC 59.876 40.000 21.34 16.17 43.11 4.16
1785 1847 4.014569 TGTGCTTAATTGAGCTACACCA 57.985 40.909 21.34 8.75 43.11 4.17
1786 1848 4.393834 TGTGCTTAATTGAGCTACACCAA 58.606 39.130 21.34 0.00 43.11 3.67
1803 1865 9.086336 GCTACACCAAAGTATATAACGTTGTAA 57.914 33.333 11.99 0.00 43.54 2.41
1852 1914 3.156293 TGCTGCACATTGTTGACCTAAT 58.844 40.909 0.00 0.00 0.00 1.73
1945 2007 3.591527 TGGTATGTCCATTCAGTCCCTTT 59.408 43.478 0.00 0.00 41.93 3.11
2053 2119 0.541063 TGTCGTCCTGGGCTACTTCA 60.541 55.000 4.52 0.00 0.00 3.02
2213 2280 8.035394 TCATAGTTCATCTCAACTTTGTAGGTC 58.965 37.037 4.43 0.00 36.93 3.85
2345 2412 1.122632 TCAAGAACAGGTACCCGCCA 61.123 55.000 8.74 0.00 0.00 5.69
2355 2422 1.270678 GGTACCCGCCACTCATATTCC 60.271 57.143 0.00 0.00 0.00 3.01
2411 2478 0.518636 CGACAGGCAATGTGGTGAAG 59.481 55.000 0.00 0.00 44.17 3.02
2452 2519 3.125829 AGCAACATAAAGCACATCTGTCG 59.874 43.478 0.00 0.00 0.00 4.35
2460 2527 2.906354 AGCACATCTGTCGGGATTTAC 58.094 47.619 0.00 0.00 0.00 2.01
2473 2540 4.467082 TCGGGATTTACACTAAGCAACCTA 59.533 41.667 0.00 0.00 0.00 3.08
2576 3589 7.412853 CAGGTGCATAATTCATCTTACAGAAC 58.587 38.462 0.00 0.00 0.00 3.01
2622 3635 5.904169 TCTCTGAATTCTCATGGGATCTCTT 59.096 40.000 7.05 0.00 0.00 2.85
2670 3683 0.319555 TAGCTTCATATGTCGCCGGC 60.320 55.000 19.07 19.07 0.00 6.13
2716 3729 6.428295 TGGAAGGTAAACCAAGAAGAAGAAA 58.572 36.000 1.26 0.00 38.89 2.52
2774 3787 9.825972 ATTCGTGTATGAAATTTGTTCTAGTTG 57.174 29.630 0.00 0.00 0.00 3.16
3125 4152 1.686052 CTCTTGTCCTGGGCTAGCTAG 59.314 57.143 16.84 16.84 0.00 3.42
3285 4317 3.200593 GAGCTGACCATGGCGCTG 61.201 66.667 23.58 15.54 31.96 5.18
3394 4426 2.649531 TGGAACCAAATCAAGTCGGT 57.350 45.000 0.00 0.00 0.00 4.69
3395 4427 2.500229 TGGAACCAAATCAAGTCGGTC 58.500 47.619 0.00 0.00 0.00 4.79
3429 4462 1.983972 CCGTATAGCGATCAAGGCTC 58.016 55.000 0.00 0.00 44.77 4.70
3461 4494 1.874562 GCATCGATGCGTGATAATGC 58.125 50.000 32.60 9.62 44.67 3.56
3462 4495 1.462283 GCATCGATGCGTGATAATGCT 59.538 47.619 32.60 0.00 44.67 3.79
3463 4496 2.667969 GCATCGATGCGTGATAATGCTA 59.332 45.455 32.60 0.00 44.67 3.49
3464 4497 3.482598 GCATCGATGCGTGATAATGCTAC 60.483 47.826 32.60 4.47 44.67 3.58
3465 4498 2.672714 TCGATGCGTGATAATGCTACC 58.327 47.619 0.00 0.00 0.00 3.18
3511 4552 0.799393 TGTGTGTGTGTGTGTTTCCG 59.201 50.000 0.00 0.00 0.00 4.30
3518 4559 1.208535 TGTGTGTGTTTCCGACTTCCT 59.791 47.619 0.00 0.00 0.00 3.36
3546 4587 4.259356 CTGTGATATGGCATGGATCGATT 58.741 43.478 10.98 0.00 0.00 3.34
3548 4589 5.803552 TGTGATATGGCATGGATCGATTAA 58.196 37.500 10.98 0.00 0.00 1.40
3661 4702 9.553064 AGAAGGCAGAATTATAAGTACAAGATG 57.447 33.333 0.00 0.00 0.00 2.90
3662 4703 9.547753 GAAGGCAGAATTATAAGTACAAGATGA 57.452 33.333 0.00 0.00 0.00 2.92
3663 4704 8.894768 AGGCAGAATTATAAGTACAAGATGAC 57.105 34.615 0.00 0.00 0.00 3.06
3664 4705 8.709308 AGGCAGAATTATAAGTACAAGATGACT 58.291 33.333 0.00 0.00 0.00 3.41
3665 4706 9.982651 GGCAGAATTATAAGTACAAGATGACTA 57.017 33.333 0.00 0.00 0.00 2.59
3672 4713 5.615925 AAGTACAAGATGACTATCACCCC 57.384 43.478 0.00 0.00 35.70 4.95
3673 4714 3.637229 AGTACAAGATGACTATCACCCCG 59.363 47.826 0.00 0.00 35.70 5.73
3674 4715 1.139058 ACAAGATGACTATCACCCCGC 59.861 52.381 0.00 0.00 35.70 6.13
3675 4716 1.138859 CAAGATGACTATCACCCCGCA 59.861 52.381 0.00 0.00 35.70 5.69
3676 4717 1.496060 AGATGACTATCACCCCGCAA 58.504 50.000 0.00 0.00 35.70 4.85
3677 4718 1.837439 AGATGACTATCACCCCGCAAA 59.163 47.619 0.00 0.00 35.70 3.68
3678 4719 2.238646 AGATGACTATCACCCCGCAAAA 59.761 45.455 0.00 0.00 35.70 2.44
3679 4720 2.570415 TGACTATCACCCCGCAAAAA 57.430 45.000 0.00 0.00 0.00 1.94
3760 4843 0.321298 AGCCACCAACGACCATACAC 60.321 55.000 0.00 0.00 0.00 2.90
3803 4889 2.500229 CCCAACAGATAACAACACCGT 58.500 47.619 0.00 0.00 0.00 4.83
4099 5192 2.031616 CCGCCATCATGCCGATCT 59.968 61.111 0.00 0.00 29.21 2.75
4118 5211 4.206477 TCTGATCGAATCAAGGCTTTCA 57.794 40.909 0.00 0.00 39.11 2.69
4247 5342 2.353406 GCAAGAGCCATGCAAGATTTGT 60.353 45.455 0.00 0.00 43.29 2.83
4248 5343 3.863400 GCAAGAGCCATGCAAGATTTGTT 60.863 43.478 0.00 0.00 43.29 2.83
4249 5344 3.587797 AGAGCCATGCAAGATTTGTTG 57.412 42.857 0.00 0.00 0.00 3.33
4250 5345 2.232941 AGAGCCATGCAAGATTTGTTGG 59.767 45.455 0.00 0.00 38.38 3.77
4251 5346 1.276989 AGCCATGCAAGATTTGTTGGG 59.723 47.619 0.00 0.00 36.89 4.12
4252 5347 1.676615 GCCATGCAAGATTTGTTGGGG 60.677 52.381 0.00 0.00 36.89 4.96
4253 5348 1.901159 CCATGCAAGATTTGTTGGGGA 59.099 47.619 0.00 0.00 34.48 4.81
4254 5349 2.302445 CCATGCAAGATTTGTTGGGGAA 59.698 45.455 0.00 0.00 34.48 3.97
4255 5350 3.328505 CATGCAAGATTTGTTGGGGAAC 58.671 45.455 0.00 0.00 0.00 3.62
4256 5351 2.392662 TGCAAGATTTGTTGGGGAACA 58.607 42.857 0.00 0.00 0.00 3.18
4257 5352 2.971330 TGCAAGATTTGTTGGGGAACAT 59.029 40.909 0.00 0.00 32.01 2.71
4258 5353 4.155709 TGCAAGATTTGTTGGGGAACATA 58.844 39.130 0.00 0.00 32.01 2.29
4259 5354 4.220382 TGCAAGATTTGTTGGGGAACATAG 59.780 41.667 0.00 0.00 32.01 2.23
4260 5355 4.220602 GCAAGATTTGTTGGGGAACATAGT 59.779 41.667 0.00 0.00 32.01 2.12
4261 5356 5.417580 GCAAGATTTGTTGGGGAACATAGTA 59.582 40.000 0.00 0.00 32.01 1.82
4262 5357 6.071616 GCAAGATTTGTTGGGGAACATAGTAA 60.072 38.462 0.00 0.00 32.01 2.24
4263 5358 7.363793 GCAAGATTTGTTGGGGAACATAGTAAT 60.364 37.037 0.00 0.00 32.01 1.89
4264 5359 8.531146 CAAGATTTGTTGGGGAACATAGTAATT 58.469 33.333 0.00 0.00 32.01 1.40
4265 5360 8.664669 AGATTTGTTGGGGAACATAGTAATTT 57.335 30.769 0.00 0.00 32.01 1.82
4266 5361 8.749354 AGATTTGTTGGGGAACATAGTAATTTC 58.251 33.333 0.00 0.00 32.01 2.17
4267 5362 7.841282 TTTGTTGGGGAACATAGTAATTTCA 57.159 32.000 0.00 0.00 32.01 2.69
4268 5363 7.841282 TTGTTGGGGAACATAGTAATTTCAA 57.159 32.000 0.00 0.00 32.01 2.69
4269 5364 7.841282 TGTTGGGGAACATAGTAATTTCAAA 57.159 32.000 0.00 0.00 0.00 2.69
4270 5365 8.251383 TGTTGGGGAACATAGTAATTTCAAAA 57.749 30.769 0.00 0.00 0.00 2.44
4271 5366 8.705594 TGTTGGGGAACATAGTAATTTCAAAAA 58.294 29.630 0.00 0.00 0.00 1.94
4289 5384 2.325509 AAAAATTCCTACGCACACGC 57.674 45.000 0.00 0.00 45.53 5.34
4290 5385 1.231221 AAAATTCCTACGCACACGCA 58.769 45.000 0.00 0.00 45.53 5.24
4291 5386 1.231221 AAATTCCTACGCACACGCAA 58.769 45.000 0.00 0.00 45.53 4.85
4292 5387 0.796312 AATTCCTACGCACACGCAAG 59.204 50.000 0.00 0.00 45.53 4.01
4293 5388 0.037697 ATTCCTACGCACACGCAAGA 60.038 50.000 0.00 0.00 45.53 3.02
4294 5389 0.037697 TTCCTACGCACACGCAAGAT 60.038 50.000 0.00 0.00 45.53 2.40
4295 5390 0.037697 TCCTACGCACACGCAAGATT 60.038 50.000 0.00 0.00 45.53 2.40
4296 5391 1.202817 TCCTACGCACACGCAAGATTA 59.797 47.619 0.00 0.00 45.53 1.75
4297 5392 2.159156 TCCTACGCACACGCAAGATTAT 60.159 45.455 0.00 0.00 45.53 1.28
4298 5393 2.033747 CCTACGCACACGCAAGATTATG 60.034 50.000 0.00 0.00 45.53 1.90
4299 5394 0.726827 ACGCACACGCAAGATTATGG 59.273 50.000 0.00 0.00 45.53 2.74
4300 5395 0.726827 CGCACACGCAAGATTATGGT 59.273 50.000 0.00 0.00 43.62 3.55
4301 5396 1.529622 CGCACACGCAAGATTATGGTG 60.530 52.381 0.00 0.00 43.62 4.17
4302 5397 1.737236 GCACACGCAAGATTATGGTGA 59.263 47.619 0.00 0.00 43.62 4.02
4303 5398 2.355756 GCACACGCAAGATTATGGTGAT 59.644 45.455 0.00 0.00 43.62 3.06
4304 5399 3.789791 GCACACGCAAGATTATGGTGATG 60.790 47.826 0.00 0.00 43.62 3.07
4305 5400 2.945008 ACACGCAAGATTATGGTGATGG 59.055 45.455 0.00 0.00 43.62 3.51
4306 5401 1.949525 ACGCAAGATTATGGTGATGGC 59.050 47.619 0.00 0.00 43.62 4.40
4307 5402 1.948834 CGCAAGATTATGGTGATGGCA 59.051 47.619 0.00 0.00 43.02 4.92
4308 5403 2.555325 CGCAAGATTATGGTGATGGCAT 59.445 45.455 0.00 0.00 43.02 4.40
4309 5404 3.752747 CGCAAGATTATGGTGATGGCATA 59.247 43.478 0.00 0.00 43.02 3.14
4310 5405 4.142752 CGCAAGATTATGGTGATGGCATAG 60.143 45.833 0.00 0.00 43.02 2.23
4311 5406 4.380233 GCAAGATTATGGTGATGGCATAGC 60.380 45.833 0.00 0.00 0.00 2.97
4312 5407 4.645863 AGATTATGGTGATGGCATAGCA 57.354 40.909 0.00 5.67 0.00 3.49
4313 5408 4.989277 AGATTATGGTGATGGCATAGCAA 58.011 39.130 0.00 0.00 0.00 3.91
4314 5409 4.763793 AGATTATGGTGATGGCATAGCAAC 59.236 41.667 0.00 0.00 31.55 4.17
4315 5410 1.311859 ATGGTGATGGCATAGCAACG 58.688 50.000 0.00 0.00 34.34 4.10
4316 5411 0.251634 TGGTGATGGCATAGCAACGA 59.748 50.000 0.00 0.00 34.34 3.85
4317 5412 0.940126 GGTGATGGCATAGCAACGAG 59.060 55.000 0.00 0.00 0.00 4.18
4318 5413 1.473257 GGTGATGGCATAGCAACGAGA 60.473 52.381 0.00 0.00 0.00 4.04
4319 5414 1.863454 GTGATGGCATAGCAACGAGAG 59.137 52.381 0.00 0.00 0.00 3.20
4320 5415 1.202568 TGATGGCATAGCAACGAGAGG 60.203 52.381 0.00 0.00 0.00 3.69
4321 5416 0.107456 ATGGCATAGCAACGAGAGGG 59.893 55.000 0.00 0.00 0.00 4.30
4322 5417 1.227674 GGCATAGCAACGAGAGGGG 60.228 63.158 0.00 0.00 0.00 4.79
4323 5418 1.686325 GGCATAGCAACGAGAGGGGA 61.686 60.000 0.00 0.00 0.00 4.81
4324 5419 0.249657 GCATAGCAACGAGAGGGGAG 60.250 60.000 0.00 0.00 0.00 4.30
4325 5420 1.403814 CATAGCAACGAGAGGGGAGA 58.596 55.000 0.00 0.00 0.00 3.71
4326 5421 1.339610 CATAGCAACGAGAGGGGAGAG 59.660 57.143 0.00 0.00 0.00 3.20
4327 5422 0.331954 TAGCAACGAGAGGGGAGAGT 59.668 55.000 0.00 0.00 0.00 3.24
4328 5423 1.216710 GCAACGAGAGGGGAGAGTG 59.783 63.158 0.00 0.00 0.00 3.51
4329 5424 1.536943 GCAACGAGAGGGGAGAGTGT 61.537 60.000 0.00 0.00 0.00 3.55
4330 5425 0.969894 CAACGAGAGGGGAGAGTGTT 59.030 55.000 0.00 0.00 0.00 3.32
4331 5426 0.969894 AACGAGAGGGGAGAGTGTTG 59.030 55.000 0.00 0.00 0.00 3.33
4332 5427 0.178958 ACGAGAGGGGAGAGTGTTGT 60.179 55.000 0.00 0.00 0.00 3.32
4333 5428 0.528470 CGAGAGGGGAGAGTGTTGTC 59.472 60.000 0.00 0.00 0.00 3.18
4334 5429 0.899019 GAGAGGGGAGAGTGTTGTCC 59.101 60.000 0.00 0.00 36.03 4.02
4335 5430 0.191064 AGAGGGGAGAGTGTTGTCCA 59.809 55.000 0.00 0.00 38.50 4.02
4336 5431 0.321996 GAGGGGAGAGTGTTGTCCAC 59.678 60.000 0.00 0.00 40.47 4.02
4337 5432 1.472662 AGGGGAGAGTGTTGTCCACG 61.473 60.000 0.00 0.00 44.77 4.94
4339 5434 4.748514 AGGGGAGAGTGTTGTCCACGTA 62.749 54.545 0.00 0.00 44.77 3.57
4344 5439 3.206090 GTGTTGTCCACGTACCCTC 57.794 57.895 0.00 0.00 33.61 4.30
4345 5440 0.665369 GTGTTGTCCACGTACCCTCG 60.665 60.000 0.00 0.00 33.61 4.63
4346 5441 1.108727 TGTTGTCCACGTACCCTCGT 61.109 55.000 0.00 0.00 45.10 4.18
4347 5442 0.881118 GTTGTCCACGTACCCTCGTA 59.119 55.000 0.00 0.00 42.27 3.43
4348 5443 1.135575 GTTGTCCACGTACCCTCGTAG 60.136 57.143 0.00 0.00 42.27 3.51
4349 5444 0.324614 TGTCCACGTACCCTCGTAGA 59.675 55.000 0.00 0.00 42.27 2.59
4350 5445 0.729690 GTCCACGTACCCTCGTAGAC 59.270 60.000 0.00 2.79 42.50 2.59
4351 5446 0.392998 TCCACGTACCCTCGTAGACC 60.393 60.000 0.00 0.00 42.27 3.85
4352 5447 1.709147 CCACGTACCCTCGTAGACCG 61.709 65.000 0.00 0.00 42.27 4.79
4353 5448 1.021390 CACGTACCCTCGTAGACCGT 61.021 60.000 0.00 0.00 42.27 4.83
4354 5449 0.535335 ACGTACCCTCGTAGACCGTA 59.465 55.000 0.00 0.00 42.35 4.02
4355 5450 1.066430 ACGTACCCTCGTAGACCGTAA 60.066 52.381 0.00 0.00 42.35 3.18
4356 5451 1.594862 CGTACCCTCGTAGACCGTAAG 59.405 57.143 0.00 0.00 37.94 2.34
4357 5452 1.332065 GTACCCTCGTAGACCGTAAGC 59.668 57.143 0.00 0.00 37.94 3.09
4358 5453 1.354506 CCCTCGTAGACCGTAAGCG 59.645 63.158 0.00 0.00 37.94 4.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 1.538047 TCTTCAATGCCACCTTCAGC 58.462 50.000 0.00 0.00 0.00 4.26
59 60 5.798132 ACACACTTGCTAAGAAGATGATGA 58.202 37.500 3.37 0.00 0.00 2.92
60 61 5.640783 TGACACACTTGCTAAGAAGATGATG 59.359 40.000 3.37 0.00 0.00 3.07
61 62 5.641209 GTGACACACTTGCTAAGAAGATGAT 59.359 40.000 0.00 0.00 0.00 2.45
71 72 6.015772 TCTGTACTTATGTGACACACTTGCTA 60.016 38.462 11.22 0.00 35.11 3.49
87 88 5.813672 ACGTTTTTGCTCAAGTCTGTACTTA 59.186 36.000 0.00 0.00 44.28 2.24
102 103 2.029124 CAGCTGGACAAAACGTTTTTGC 59.971 45.455 23.14 19.43 32.93 3.68
170 171 4.380867 GCCTAACCCATGTCAATGTTTCAG 60.381 45.833 0.00 0.00 31.27 3.02
218 219 2.885135 TGGAGAATGTTGGTCATGCT 57.115 45.000 0.00 0.00 44.58 3.79
265 269 1.475682 CAGCCAGAATCTTCAAAGCCC 59.524 52.381 0.00 0.00 0.00 5.19
284 288 5.365619 CATCATCATCATCCTCAACTGTCA 58.634 41.667 0.00 0.00 0.00 3.58
308 312 4.627611 AGACAATTGTATCTGCATGCAC 57.372 40.909 18.46 7.77 0.00 4.57
311 315 6.432607 AGACAAGACAATTGTATCTGCATG 57.567 37.500 11.95 5.70 31.96 4.06
312 316 5.587844 GGAGACAAGACAATTGTATCTGCAT 59.412 40.000 11.95 1.79 39.72 3.96
313 317 4.937620 GGAGACAAGACAATTGTATCTGCA 59.062 41.667 11.95 0.00 39.72 4.41
314 318 4.937620 TGGAGACAAGACAATTGTATCTGC 59.062 41.667 11.95 16.21 39.72 4.26
371 383 2.663188 GATCGATCAGGGGTGCGC 60.663 66.667 20.52 0.00 0.00 6.09
372 384 0.250038 ATTGATCGATCAGGGGTGCG 60.250 55.000 25.95 0.00 38.19 5.34
462 474 3.119459 TCGTCATTTCTTCTCTTCCTCCG 60.119 47.826 0.00 0.00 0.00 4.63
463 475 4.457834 TCGTCATTTCTTCTCTTCCTCC 57.542 45.455 0.00 0.00 0.00 4.30
486 498 3.068729 GCGGAAAATGCCCTCCAGC 62.069 63.158 0.00 0.00 0.00 4.85
487 499 2.764314 CGCGGAAAATGCCCTCCAG 61.764 63.158 0.00 0.00 0.00 3.86
488 500 2.749839 CGCGGAAAATGCCCTCCA 60.750 61.111 0.00 0.00 0.00 3.86
536 548 0.038744 CATCCACTTGCAACCCTCCT 59.961 55.000 0.00 0.00 0.00 3.69
574 586 3.003763 GTGGGAAGAGAGGGCGGT 61.004 66.667 0.00 0.00 0.00 5.68
618 630 1.138661 CAGTTGAGAGAGATGAGGGGC 59.861 57.143 0.00 0.00 0.00 5.80
623 635 5.417754 AATTGAGCAGTTGAGAGAGATGA 57.582 39.130 0.00 0.00 0.00 2.92
750 773 1.208165 GCTGAGGGGAAGGGAAGGAA 61.208 60.000 0.00 0.00 0.00 3.36
814 840 8.579006 TGGTAAATTACTCTGAAACTCGTTAGA 58.421 33.333 2.96 0.00 0.00 2.10
819 845 6.164176 ACCTGGTAAATTACTCTGAAACTCG 58.836 40.000 0.00 0.00 0.00 4.18
899 925 5.230942 AGAAGATTACACGGTCAAGACAAG 58.769 41.667 2.29 0.00 0.00 3.16
909 935 5.721232 ACCTTAGTGAAGAAGATTACACGG 58.279 41.667 0.00 0.00 38.15 4.94
981 1011 2.433868 TACAGACAACAAGAGGCGTC 57.566 50.000 0.00 0.00 0.00 5.19
996 1026 3.695556 TGTGCAAATCACCATCCATACAG 59.304 43.478 0.00 0.00 45.03 2.74
1107 1147 3.371063 GTCCACTCGTCCTCGGCA 61.371 66.667 0.00 0.00 37.69 5.69
1240 1285 3.930848 ACGTTAGCAGTTGTATAGTTGGC 59.069 43.478 0.00 0.00 0.00 4.52
1246 1291 5.981315 GGAGCATAACGTTAGCAGTTGTATA 59.019 40.000 22.80 0.00 33.42 1.47
1247 1292 4.809426 GGAGCATAACGTTAGCAGTTGTAT 59.191 41.667 22.80 8.25 33.42 2.29
1252 1297 2.159085 GGAGGAGCATAACGTTAGCAGT 60.159 50.000 22.80 12.15 0.00 4.40
1298 1344 6.663953 TGCTCTAAGGTAGTACATCAAACTCT 59.336 38.462 2.06 0.00 0.00 3.24
1323 1369 6.114187 TGTTGTCTCTGGTGAATTAGATGT 57.886 37.500 0.00 0.00 0.00 3.06
1351 1397 9.997482 GAATCGTCCTGTTTAATTATTGCTTAA 57.003 29.630 0.00 0.00 0.00 1.85
1367 1413 3.511699 TCGAAACATCAGAATCGTCCTG 58.488 45.455 0.00 0.00 36.70 3.86
1399 1446 3.490439 TGACAAGCTGATTGACTTGGA 57.510 42.857 13.20 0.00 46.03 3.53
1400 1447 3.504906 ACATGACAAGCTGATTGACTTGG 59.495 43.478 20.75 9.43 46.03 3.61
1413 1469 5.621197 TTTCCGGAACATTACATGACAAG 57.379 39.130 18.64 0.00 0.00 3.16
1463 1519 7.483580 ACTTGATAGCTGTTCCTAAACTAGT 57.516 36.000 0.00 0.00 36.30 2.57
1562 1620 6.781014 TGATGGGTAAATCAGTAGTACTAGGG 59.219 42.308 1.87 0.00 32.75 3.53
1565 1623 9.209048 ACAATGATGGGTAAATCAGTAGTACTA 57.791 33.333 1.57 0.00 39.84 1.82
1566 1624 8.090788 ACAATGATGGGTAAATCAGTAGTACT 57.909 34.615 0.00 0.00 39.84 2.73
1567 1625 8.732746 AACAATGATGGGTAAATCAGTAGTAC 57.267 34.615 0.00 0.00 39.84 2.73
1772 1834 8.202137 ACGTTATATACTTTGGTGTAGCTCAAT 58.798 33.333 0.00 0.00 0.00 2.57
1773 1835 7.549839 ACGTTATATACTTTGGTGTAGCTCAA 58.450 34.615 0.00 0.00 0.00 3.02
1775 1837 7.490402 ACAACGTTATATACTTTGGTGTAGCTC 59.510 37.037 0.00 0.00 39.58 4.09
1776 1838 7.325694 ACAACGTTATATACTTTGGTGTAGCT 58.674 34.615 0.00 0.00 39.58 3.32
1777 1839 7.529880 ACAACGTTATATACTTTGGTGTAGC 57.470 36.000 0.00 0.00 39.58 3.58
1780 1842 9.709495 TTCTTACAACGTTATATACTTTGGTGT 57.291 29.630 0.00 0.00 39.58 4.16
1796 1858 7.651704 AGGAACCATTTCAAAATTCTTACAACG 59.348 33.333 0.00 0.00 32.80 4.10
1803 1865 5.813513 AGCAGGAACCATTTCAAAATTCT 57.186 34.783 0.00 0.00 32.80 2.40
1945 2007 5.921962 ATATCCGTAGATATTCTGCTGCA 57.078 39.130 0.88 0.88 42.00 4.41
2053 2119 0.846693 AGGCAACCTCCTCAACACTT 59.153 50.000 0.00 0.00 37.17 3.16
2213 2280 3.665190 GACCACCTTCCTGTCTTTGTAG 58.335 50.000 0.00 0.00 0.00 2.74
2355 2422 7.284820 TGCACCATCATATATGATTCTATGGG 58.715 38.462 25.59 22.34 44.70 4.00
2411 2478 6.128200 TGTTGCTTCAGTGTATCATTGTCATC 60.128 38.462 0.00 0.00 0.00 2.92
2452 2519 5.742063 AGTAGGTTGCTTAGTGTAAATCCC 58.258 41.667 0.00 0.00 0.00 3.85
2460 2527 2.484264 GCCACAAGTAGGTTGCTTAGTG 59.516 50.000 0.00 0.00 40.15 2.74
2473 2540 1.696063 ACAAATCTGCAGCCACAAGT 58.304 45.000 9.47 0.00 0.00 3.16
2576 3589 5.410746 AGAGACATGCAGAGTTTGTATTGTG 59.589 40.000 0.00 0.00 28.74 3.33
2582 3595 3.323115 TCAGAGAGACATGCAGAGTTTGT 59.677 43.478 0.00 0.00 0.00 2.83
2670 3683 0.948623 TCAGTGTGCGGTCGATTTGG 60.949 55.000 0.00 0.00 0.00 3.28
2716 3729 8.336801 AGTTGTCAAGTTCAAGTAAGACTTTT 57.663 30.769 0.00 0.00 36.03 2.27
2774 3787 1.294659 CTTCAGTTCAGAGCCACGGC 61.295 60.000 0.00 0.00 42.33 5.68
3128 4155 1.002366 ACTTGCTGAATTCGCTAGCG 58.998 50.000 30.91 30.91 40.24 4.26
3417 4449 1.472276 CGTACGTGAGCCTTGATCGC 61.472 60.000 7.22 0.00 0.00 4.58
3446 4479 2.677199 AGGTAGCATTATCACGCATCG 58.323 47.619 0.00 0.00 0.00 3.84
3458 4491 9.914834 TCCAAAATTAATTACACTAGGTAGCAT 57.085 29.630 0.01 0.00 32.49 3.79
3459 4492 9.169592 GTCCAAAATTAATTACACTAGGTAGCA 57.830 33.333 0.01 0.00 32.49 3.49
3460 4493 8.333186 CGTCCAAAATTAATTACACTAGGTAGC 58.667 37.037 0.01 0.00 32.49 3.58
3461 4494 8.823818 CCGTCCAAAATTAATTACACTAGGTAG 58.176 37.037 0.01 0.00 32.49 3.18
3462 4495 7.769970 CCCGTCCAAAATTAATTACACTAGGTA 59.230 37.037 0.01 0.00 0.00 3.08
3463 4496 6.600427 CCCGTCCAAAATTAATTACACTAGGT 59.400 38.462 0.01 0.00 0.00 3.08
3464 4497 6.824704 TCCCGTCCAAAATTAATTACACTAGG 59.175 38.462 0.01 2.47 0.00 3.02
3465 4498 7.852971 TCCCGTCCAAAATTAATTACACTAG 57.147 36.000 0.01 0.00 0.00 2.57
3511 4552 5.053145 CCATATCACAGCACTTAGGAAGTC 58.947 45.833 0.00 0.00 40.46 3.01
3518 4559 3.136260 TCCATGCCATATCACAGCACTTA 59.864 43.478 0.00 0.00 39.77 2.24
3618 4659 5.303589 TGCCTTCTATAAAGCTATGGTACGT 59.696 40.000 0.00 0.00 0.00 3.57
3652 4693 3.799232 GCGGGGTGATAGTCATCTTGTAC 60.799 52.174 0.00 0.00 31.93 2.90
3653 4694 2.364324 GCGGGGTGATAGTCATCTTGTA 59.636 50.000 0.00 0.00 31.93 2.41
3654 4695 1.139058 GCGGGGTGATAGTCATCTTGT 59.861 52.381 0.00 0.00 31.93 3.16
3655 4696 1.138859 TGCGGGGTGATAGTCATCTTG 59.861 52.381 0.00 0.00 31.93 3.02
3656 4697 1.496060 TGCGGGGTGATAGTCATCTT 58.504 50.000 0.00 0.00 31.93 2.40
3657 4698 1.496060 TTGCGGGGTGATAGTCATCT 58.504 50.000 0.00 0.00 31.93 2.90
3658 4699 2.325583 TTTGCGGGGTGATAGTCATC 57.674 50.000 0.00 0.00 0.00 2.92
3659 4700 2.799126 TTTTGCGGGGTGATAGTCAT 57.201 45.000 0.00 0.00 0.00 3.06
3660 4701 2.570415 TTTTTGCGGGGTGATAGTCA 57.430 45.000 0.00 0.00 0.00 3.41
3678 4719 9.003658 CAAGTGATAGTCATCTTGTACCTTTTT 57.996 33.333 11.02 0.00 34.20 1.94
3679 4720 7.119846 GCAAGTGATAGTCATCTTGTACCTTTT 59.880 37.037 16.24 0.00 37.58 2.27
3680 4721 6.595716 GCAAGTGATAGTCATCTTGTACCTTT 59.404 38.462 16.24 0.00 37.58 3.11
3681 4722 6.070538 AGCAAGTGATAGTCATCTTGTACCTT 60.071 38.462 16.24 0.00 37.58 3.50
3682 4723 5.423610 AGCAAGTGATAGTCATCTTGTACCT 59.576 40.000 16.24 8.26 37.58 3.08
3683 4724 5.521735 CAGCAAGTGATAGTCATCTTGTACC 59.478 44.000 16.24 6.94 37.58 3.34
3703 4744 0.249114 TACACTCGTTGTTCGCAGCA 60.249 50.000 0.00 0.00 39.91 4.41
3760 4843 0.385974 GCGCTTGTGCTTTGTAGTGG 60.386 55.000 0.00 0.00 36.97 4.00
3913 5003 1.776662 TCCTCGGATCGGATCAAGTT 58.223 50.000 18.99 0.00 0.00 2.66
4099 5192 3.009723 GGTGAAAGCCTTGATTCGATCA 58.990 45.455 0.00 0.00 37.55 2.92
4118 5211 0.464916 GTTGGTTGTTGTCTCCGGGT 60.465 55.000 0.00 0.00 0.00 5.28
4176 5271 1.230281 ATTCCCCTCCTTGGAGGCA 60.230 57.895 26.16 14.15 40.95 4.75
4270 5365 2.325509 GCGTGTGCGTAGGAATTTTT 57.674 45.000 0.00 0.00 40.81 1.94
4282 5377 1.737236 TCACCATAATCTTGCGTGTGC 59.263 47.619 0.00 0.00 43.20 4.57
4283 5378 3.242837 CCATCACCATAATCTTGCGTGTG 60.243 47.826 0.00 0.00 0.00 3.82
4284 5379 2.945008 CCATCACCATAATCTTGCGTGT 59.055 45.455 0.00 0.00 0.00 4.49
4285 5380 2.287188 GCCATCACCATAATCTTGCGTG 60.287 50.000 0.00 0.00 0.00 5.34
4286 5381 1.949525 GCCATCACCATAATCTTGCGT 59.050 47.619 0.00 0.00 0.00 5.24
4287 5382 1.948834 TGCCATCACCATAATCTTGCG 59.051 47.619 0.00 0.00 0.00 4.85
4288 5383 4.380233 GCTATGCCATCACCATAATCTTGC 60.380 45.833 0.00 0.00 0.00 4.01
4289 5384 4.763279 TGCTATGCCATCACCATAATCTTG 59.237 41.667 0.00 0.00 0.00 3.02
4290 5385 4.989277 TGCTATGCCATCACCATAATCTT 58.011 39.130 0.00 0.00 0.00 2.40
4291 5386 4.645863 TGCTATGCCATCACCATAATCT 57.354 40.909 0.00 0.00 0.00 2.40
4292 5387 4.378770 CGTTGCTATGCCATCACCATAATC 60.379 45.833 0.00 0.00 0.00 1.75
4293 5388 3.503363 CGTTGCTATGCCATCACCATAAT 59.497 43.478 0.00 0.00 0.00 1.28
4294 5389 2.877786 CGTTGCTATGCCATCACCATAA 59.122 45.455 0.00 0.00 0.00 1.90
4295 5390 2.103941 TCGTTGCTATGCCATCACCATA 59.896 45.455 0.00 0.00 0.00 2.74
4296 5391 1.134128 TCGTTGCTATGCCATCACCAT 60.134 47.619 0.00 0.00 0.00 3.55
4297 5392 0.251634 TCGTTGCTATGCCATCACCA 59.748 50.000 0.00 0.00 0.00 4.17
4298 5393 0.940126 CTCGTTGCTATGCCATCACC 59.060 55.000 0.00 0.00 0.00 4.02
4299 5394 1.863454 CTCTCGTTGCTATGCCATCAC 59.137 52.381 0.00 0.00 0.00 3.06
4300 5395 1.202568 CCTCTCGTTGCTATGCCATCA 60.203 52.381 0.00 0.00 0.00 3.07
4301 5396 1.506493 CCTCTCGTTGCTATGCCATC 58.494 55.000 0.00 0.00 0.00 3.51
4302 5397 0.107456 CCCTCTCGTTGCTATGCCAT 59.893 55.000 0.00 0.00 0.00 4.40
4303 5398 1.522092 CCCTCTCGTTGCTATGCCA 59.478 57.895 0.00 0.00 0.00 4.92
4304 5399 1.227674 CCCCTCTCGTTGCTATGCC 60.228 63.158 0.00 0.00 0.00 4.40
4305 5400 0.249657 CTCCCCTCTCGTTGCTATGC 60.250 60.000 0.00 0.00 0.00 3.14
4306 5401 1.339610 CTCTCCCCTCTCGTTGCTATG 59.660 57.143 0.00 0.00 0.00 2.23
4307 5402 1.063567 ACTCTCCCCTCTCGTTGCTAT 60.064 52.381 0.00 0.00 0.00 2.97
4308 5403 0.331954 ACTCTCCCCTCTCGTTGCTA 59.668 55.000 0.00 0.00 0.00 3.49
4309 5404 1.077625 ACTCTCCCCTCTCGTTGCT 59.922 57.895 0.00 0.00 0.00 3.91
4310 5405 1.216710 CACTCTCCCCTCTCGTTGC 59.783 63.158 0.00 0.00 0.00 4.17
4311 5406 0.969894 AACACTCTCCCCTCTCGTTG 59.030 55.000 0.00 0.00 0.00 4.10
4312 5407 0.969894 CAACACTCTCCCCTCTCGTT 59.030 55.000 0.00 0.00 0.00 3.85
4313 5408 0.178958 ACAACACTCTCCCCTCTCGT 60.179 55.000 0.00 0.00 0.00 4.18
4314 5409 0.528470 GACAACACTCTCCCCTCTCG 59.472 60.000 0.00 0.00 0.00 4.04
4315 5410 0.899019 GGACAACACTCTCCCCTCTC 59.101 60.000 0.00 0.00 0.00 3.20
4316 5411 0.191064 TGGACAACACTCTCCCCTCT 59.809 55.000 0.00 0.00 0.00 3.69
4317 5412 0.321996 GTGGACAACACTCTCCCCTC 59.678 60.000 0.00 0.00 46.72 4.30
4318 5413 2.453242 GTGGACAACACTCTCCCCT 58.547 57.895 0.00 0.00 46.72 4.79
4326 5421 0.665369 CGAGGGTACGTGGACAACAC 60.665 60.000 0.00 0.00 46.78 3.32
4327 5422 1.108727 ACGAGGGTACGTGGACAACA 61.109 55.000 0.00 0.00 44.84 3.33
4328 5423 0.881118 TACGAGGGTACGTGGACAAC 59.119 55.000 0.00 0.00 46.02 3.32
4329 5424 1.167851 CTACGAGGGTACGTGGACAA 58.832 55.000 0.00 0.00 44.98 3.18
4330 5425 0.324614 TCTACGAGGGTACGTGGACA 59.675 55.000 0.00 0.00 45.53 4.02
4331 5426 3.159298 TCTACGAGGGTACGTGGAC 57.841 57.895 0.00 0.00 45.53 4.02
4333 5428 2.101700 GGTCTACGAGGGTACGTGG 58.898 63.158 0.00 0.00 46.02 4.94
4351 5446 1.254570 GTCATAACGCTTCCGCTTACG 59.745 52.381 0.00 0.00 38.22 3.18
4352 5447 2.264813 TGTCATAACGCTTCCGCTTAC 58.735 47.619 0.00 0.00 38.22 2.34
4353 5448 2.658373 TGTCATAACGCTTCCGCTTA 57.342 45.000 0.00 0.00 38.22 3.09
4354 5449 3.525619 TGTCATAACGCTTCCGCTT 57.474 47.368 0.00 0.00 38.22 4.68


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

AutoCloner maintained by Alex Coulton.