Multiple sequence alignment - TraesCS7B01G155500

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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 TraesCS7B01G155500 chr7B 100.000 6680 0 0 1 6680 209647629 209640950 0.000000e+00 12336.0
1 TraesCS7B01G155500 chr7B 92.422 4104 274 17 1728 5808 206516014 206511925 0.000000e+00 5821.0
2 TraesCS7B01G155500 chr7B 95.672 3304 129 11 3323 6619 209323942 209320646 0.000000e+00 5297.0
3 TraesCS7B01G155500 chr7B 94.031 2178 126 4 1728 3902 209147832 209145656 0.000000e+00 3299.0
4 TraesCS7B01G155500 chr7B 90.888 1273 85 9 4593 5843 209141575 209140312 0.000000e+00 1679.0
5 TraesCS7B01G155500 chr7B 86.111 972 89 24 712 1656 206344417 206343465 0.000000e+00 1005.0
6 TraesCS7B01G155500 chr7B 82.937 715 80 23 933 1629 209148552 209147862 2.060000e-169 606.0
7 TraesCS7B01G155500 chr7B 82.535 710 82 24 940 1629 206516731 206516044 2.680000e-163 586.0
8 TraesCS7B01G155500 chr7B 79.282 724 126 14 3930 4646 206341635 206340929 1.010000e-132 484.0
9 TraesCS7B01G155500 chr7B 73.643 516 105 18 2035 2533 206343737 206343236 3.200000e-38 171.0
10 TraesCS7B01G155500 chr7B 87.075 147 17 2 5164 5310 209139190 209139046 1.490000e-36 165.0
11 TraesCS7B01G155500 chr7B 84.810 158 19 4 2888 3041 206342899 206342743 3.230000e-33 154.0
12 TraesCS7B01G155500 chr7B 92.308 52 4 0 1578 1629 209646019 209645968 2.580000e-09 75.0
13 TraesCS7B01G155500 chr7B 92.308 52 4 0 1611 1662 209646052 209646001 2.580000e-09 75.0
14 TraesCS7B01G155500 chr7D 97.017 5531 124 16 421 5928 234655888 234650376 0.000000e+00 9262.0
15 TraesCS7B01G155500 chr7D 92.615 4130 261 12 1728 5843 234560498 234556399 0.000000e+00 5897.0
16 TraesCS7B01G155500 chr7D 88.411 768 56 15 911 1656 234355469 234354713 0.000000e+00 894.0
17 TraesCS7B01G155500 chr7D 83.757 708 73 20 934 1629 234561205 234560528 3.400000e-177 632.0
18 TraesCS7B01G155500 chr7D 87.990 408 43 5 5929 6333 596879556 596879960 1.690000e-130 477.0
19 TraesCS7B01G155500 chr7D 78.591 724 131 14 3930 4646 234352882 234352176 2.200000e-124 457.0
20 TraesCS7B01G155500 chr7D 90.331 362 16 5 6332 6680 234650387 234650032 2.200000e-124 457.0
21 TraesCS7B01G155500 chr7D 91.901 284 10 7 198 481 234656149 234655879 1.050000e-102 385.0
22 TraesCS7B01G155500 chr7D 83.178 107 18 0 2035 2141 234654918 234654812 1.530000e-16 99.0
23 TraesCS7B01G155500 chr7D 91.304 46 4 0 1611 1656 234654724 234654679 5.590000e-06 63.9
24 TraesCS7B01G155500 chr7A 92.446 4104 277 19 1752 5843 248936760 248940842 0.000000e+00 5830.0
25 TraesCS7B01G155500 chr7A 96.362 3161 109 4 1611 4766 249282567 249279408 0.000000e+00 5195.0
26 TraesCS7B01G155500 chr7A 92.464 1924 126 10 1835 3750 248543605 248541693 0.000000e+00 2732.0
27 TraesCS7B01G155500 chr7A 89.967 1525 87 28 139 1629 249284008 249282516 0.000000e+00 1908.0
28 TraesCS7B01G155500 chr7A 91.046 1329 98 5 3747 5073 248541596 248540287 0.000000e+00 1775.0
29 TraesCS7B01G155500 chr7A 93.033 732 35 5 5091 5809 249278937 249278209 0.000000e+00 1055.0
30 TraesCS7B01G155500 chr7A 86.590 783 70 19 712 1479 247274449 247273687 0.000000e+00 832.0
31 TraesCS7B01G155500 chr7A 80.591 948 120 35 712 1629 248544645 248543732 0.000000e+00 673.0
32 TraesCS7B01G155500 chr7A 82.819 681 73 20 933 1593 248936065 248936721 2.700000e-158 569.0
33 TraesCS7B01G155500 chr7A 93.878 343 13 5 4762 5102 249279317 249278981 1.660000e-140 510.0
34 TraesCS7B01G155500 chr7A 94.737 57 3 0 5752 5808 248535274 248535218 9.230000e-14 89.8
35 TraesCS7B01G155500 chr3B 81.740 701 92 18 931 1622 145509042 145508369 2.720000e-153 553.0
36 TraesCS7B01G155500 chr3B 82.700 237 38 1 5413 5646 145504596 145504360 2.440000e-49 207.0
37 TraesCS7B01G155500 chr6D 88.780 410 37 9 5929 6334 465176257 465175853 1.670000e-135 494.0
38 TraesCS7B01G155500 chr5D 89.421 397 35 7 5941 6333 509837791 509838184 1.670000e-135 494.0
39 TraesCS7B01G155500 chr5D 87.805 410 43 7 5929 6333 389749883 389749476 2.180000e-129 473.0
40 TraesCS7B01G155500 chr4D 88.221 416 40 9 5929 6337 507722080 507721667 7.790000e-134 488.0
41 TraesCS7B01G155500 chr3D 88.670 406 34 7 5929 6333 552765170 552764776 1.010000e-132 484.0
42 TraesCS7B01G155500 chr3D 87.805 410 45 5 5929 6334 454744552 454744144 6.060000e-130 475.0
43 TraesCS7B01G155500 chr6B 87.805 410 42 8 5929 6333 663798940 663799346 2.180000e-129 473.0


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 TraesCS7B01G155500 chr7B 209640950 209647629 6679 True 4162.000000 12336 94.872000 1 6680 3 chr7B.!!$R6 6679
1 TraesCS7B01G155500 chr7B 209320646 209323942 3296 True 5297.000000 5297 95.672000 3323 6619 1 chr7B.!!$R1 3296
2 TraesCS7B01G155500 chr7B 206511925 206516731 4806 True 3203.500000 5821 87.478500 940 5808 2 chr7B.!!$R3 4868
3 TraesCS7B01G155500 chr7B 209145656 209148552 2896 True 1952.500000 3299 88.484000 933 3902 2 chr7B.!!$R5 2969
4 TraesCS7B01G155500 chr7B 209139046 209141575 2529 True 922.000000 1679 88.981500 4593 5843 2 chr7B.!!$R4 1250
5 TraesCS7B01G155500 chr7B 206340929 206344417 3488 True 453.500000 1005 80.961500 712 4646 4 chr7B.!!$R2 3934
6 TraesCS7B01G155500 chr7D 234556399 234561205 4806 True 3264.500000 5897 88.186000 934 5843 2 chr7D.!!$R2 4909
7 TraesCS7B01G155500 chr7D 234650032 234656149 6117 True 2053.380000 9262 90.746200 198 6680 5 chr7D.!!$R3 6482
8 TraesCS7B01G155500 chr7D 234352176 234355469 3293 True 675.500000 894 83.501000 911 4646 2 chr7D.!!$R1 3735
9 TraesCS7B01G155500 chr7A 248936065 248940842 4777 False 3199.500000 5830 87.632500 933 5843 2 chr7A.!!$F1 4910
10 TraesCS7B01G155500 chr7A 249278209 249284008 5799 True 2167.000000 5195 93.310000 139 5809 4 chr7A.!!$R4 5670
11 TraesCS7B01G155500 chr7A 248540287 248544645 4358 True 1726.666667 2732 88.033667 712 5073 3 chr7A.!!$R3 4361
12 TraesCS7B01G155500 chr7A 247273687 247274449 762 True 832.000000 832 86.590000 712 1479 1 chr7A.!!$R1 767
13 TraesCS7B01G155500 chr3B 145504360 145509042 4682 True 380.000000 553 82.220000 931 5646 2 chr3B.!!$R1 4715

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
293 305 0.171903 CAGGGCCTCAGAATTTTGCG 59.828 55.000 0.95 0.0 0.00 4.85 F
1605 1758 0.032813 AGGATGGCTGGGGAACAATG 60.033 55.000 0.00 0.0 0.00 2.82 F
2028 2207 0.541863 CTACTTTCTGCACCGGGGAT 59.458 55.000 8.67 0.0 0.00 3.85 F
3458 4244 2.238521 GTGCAAAGGATGAGGGTTTCA 58.761 47.619 0.00 0.0 40.85 2.69 F
4213 5108 5.424121 AAATCTGAAAGTCACGAAGTTGG 57.576 39.130 0.00 0.0 33.55 3.77 F
4915 6470 0.249911 GCCTGATATGGACCGTCACC 60.250 60.000 0.00 0.0 0.00 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1619 1772 0.032813 CATTGTTCCCCAGCCATCCT 60.033 55.000 0.00 0.0 0.00 3.24 R
3438 4220 2.229784 CTGAAACCCTCATCCTTTGCAC 59.770 50.000 0.00 0.0 32.14 4.57 R
3495 4290 3.054875 TCTGCAGATTCAAGCATACAGGT 60.055 43.478 13.74 0.0 40.42 4.00 R
4290 5197 1.017387 CTGCCTAGATTTTGGTCGCC 58.983 55.000 0.00 0.0 0.00 5.54 R
5593 7258 0.319555 TCGCACCCGAGAACTTCTTG 60.320 55.000 0.00 0.0 38.82 3.02 R
6495 8243 0.527817 CCACGCGTCCAGAATAGGTC 60.528 60.000 9.86 0.0 0.00 3.85 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
21 22 2.738846 CAGGAGCCGAAATGGATATTCG 59.261 50.000 1.93 1.93 46.86 3.34
29 30 5.591643 CGAAATGGATATTCGGGTTGTAG 57.408 43.478 0.99 0.00 44.36 2.74
30 31 5.294356 CGAAATGGATATTCGGGTTGTAGA 58.706 41.667 0.99 0.00 44.36 2.59
31 32 5.756347 CGAAATGGATATTCGGGTTGTAGAA 59.244 40.000 0.99 0.00 44.36 2.10
32 33 6.259167 CGAAATGGATATTCGGGTTGTAGAAA 59.741 38.462 0.99 0.00 44.36 2.52
33 34 6.937436 AATGGATATTCGGGTTGTAGAAAC 57.063 37.500 0.00 0.00 0.00 2.78
34 35 5.423704 TGGATATTCGGGTTGTAGAAACA 57.576 39.130 0.00 0.00 0.00 2.83
35 36 5.424757 TGGATATTCGGGTTGTAGAAACAG 58.575 41.667 0.00 0.00 36.83 3.16
36 37 5.188163 TGGATATTCGGGTTGTAGAAACAGA 59.812 40.000 0.00 0.00 36.83 3.41
37 38 6.126883 TGGATATTCGGGTTGTAGAAACAGAT 60.127 38.462 0.00 0.00 36.83 2.90
38 39 6.766467 GGATATTCGGGTTGTAGAAACAGATT 59.234 38.462 0.00 0.00 36.83 2.40
39 40 7.282450 GGATATTCGGGTTGTAGAAACAGATTT 59.718 37.037 0.00 0.00 36.83 2.17
40 41 5.682943 TTCGGGTTGTAGAAACAGATTTG 57.317 39.130 0.00 0.00 36.83 2.32
41 42 3.500680 TCGGGTTGTAGAAACAGATTTGC 59.499 43.478 0.00 0.00 36.83 3.68
42 43 3.502211 CGGGTTGTAGAAACAGATTTGCT 59.498 43.478 0.00 0.00 36.83 3.91
43 44 4.023193 CGGGTTGTAGAAACAGATTTGCTT 60.023 41.667 0.00 0.00 36.83 3.91
44 45 5.180492 CGGGTTGTAGAAACAGATTTGCTTA 59.820 40.000 0.00 0.00 36.83 3.09
45 46 6.128007 CGGGTTGTAGAAACAGATTTGCTTAT 60.128 38.462 0.00 0.00 36.83 1.73
46 47 7.251281 GGGTTGTAGAAACAGATTTGCTTATC 58.749 38.462 0.00 0.00 36.83 1.75
47 48 7.094377 GGGTTGTAGAAACAGATTTGCTTATCA 60.094 37.037 0.00 0.00 36.83 2.15
48 49 7.750903 GGTTGTAGAAACAGATTTGCTTATCAC 59.249 37.037 2.28 0.00 36.83 3.06
49 50 7.977789 TGTAGAAACAGATTTGCTTATCACA 57.022 32.000 2.28 0.00 0.00 3.58
50 51 8.565896 TGTAGAAACAGATTTGCTTATCACAT 57.434 30.769 2.28 0.00 0.00 3.21
51 52 9.013229 TGTAGAAACAGATTTGCTTATCACATT 57.987 29.630 2.28 0.00 0.00 2.71
52 53 9.846248 GTAGAAACAGATTTGCTTATCACATTT 57.154 29.630 2.28 0.35 0.00 2.32
53 54 8.752766 AGAAACAGATTTGCTTATCACATTTG 57.247 30.769 2.28 0.00 0.00 2.32
54 55 8.579006 AGAAACAGATTTGCTTATCACATTTGA 58.421 29.630 2.28 0.00 35.73 2.69
55 56 9.362539 GAAACAGATTTGCTTATCACATTTGAT 57.637 29.630 0.00 0.00 45.04 2.57
56 57 9.715121 AAACAGATTTGCTTATCACATTTGATT 57.285 25.926 0.00 0.00 39.66 2.57
57 58 9.715121 AACAGATTTGCTTATCACATTTGATTT 57.285 25.926 0.00 0.00 39.66 2.17
58 59 9.146984 ACAGATTTGCTTATCACATTTGATTTG 57.853 29.630 0.00 0.00 39.66 2.32
59 60 8.600625 CAGATTTGCTTATCACATTTGATTTGG 58.399 33.333 0.00 0.00 39.66 3.28
60 61 8.533657 AGATTTGCTTATCACATTTGATTTGGA 58.466 29.630 0.00 0.00 39.66 3.53
61 62 8.712285 ATTTGCTTATCACATTTGATTTGGAG 57.288 30.769 0.00 0.00 39.66 3.86
62 63 6.839124 TGCTTATCACATTTGATTTGGAGT 57.161 33.333 0.00 0.00 39.66 3.85
63 64 6.623486 TGCTTATCACATTTGATTTGGAGTG 58.377 36.000 0.00 0.00 39.66 3.51
64 65 6.209192 TGCTTATCACATTTGATTTGGAGTGT 59.791 34.615 0.00 0.00 39.66 3.55
65 66 7.392953 TGCTTATCACATTTGATTTGGAGTGTA 59.607 33.333 0.00 0.00 39.66 2.90
66 67 7.912250 GCTTATCACATTTGATTTGGAGTGTAG 59.088 37.037 0.00 0.00 39.66 2.74
67 68 8.862325 TTATCACATTTGATTTGGAGTGTAGT 57.138 30.769 0.00 0.00 39.66 2.73
68 69 9.952030 TTATCACATTTGATTTGGAGTGTAGTA 57.048 29.630 0.00 0.00 39.66 1.82
70 71 8.862325 TCACATTTGATTTGGAGTGTAGTATT 57.138 30.769 0.00 0.00 0.00 1.89
71 72 9.295825 TCACATTTGATTTGGAGTGTAGTATTT 57.704 29.630 0.00 0.00 0.00 1.40
72 73 9.345517 CACATTTGATTTGGAGTGTAGTATTTG 57.654 33.333 0.00 0.00 0.00 2.32
73 74 8.028938 ACATTTGATTTGGAGTGTAGTATTTGC 58.971 33.333 0.00 0.00 0.00 3.68
74 75 7.759489 TTTGATTTGGAGTGTAGTATTTGCT 57.241 32.000 0.00 0.00 0.00 3.91
75 76 7.759489 TTGATTTGGAGTGTAGTATTTGCTT 57.241 32.000 0.00 0.00 0.00 3.91
76 77 8.856153 TTGATTTGGAGTGTAGTATTTGCTTA 57.144 30.769 0.00 0.00 0.00 3.09
77 78 9.461312 TTGATTTGGAGTGTAGTATTTGCTTAT 57.539 29.630 0.00 0.00 0.00 1.73
78 79 9.109393 TGATTTGGAGTGTAGTATTTGCTTATC 57.891 33.333 0.00 0.00 0.00 1.75
79 80 9.109393 GATTTGGAGTGTAGTATTTGCTTATCA 57.891 33.333 0.00 0.00 0.00 2.15
80 81 8.492673 TTTGGAGTGTAGTATTTGCTTATCAG 57.507 34.615 0.00 0.00 0.00 2.90
81 82 7.418337 TGGAGTGTAGTATTTGCTTATCAGA 57.582 36.000 0.00 0.00 0.00 3.27
82 83 8.023021 TGGAGTGTAGTATTTGCTTATCAGAT 57.977 34.615 0.00 0.00 0.00 2.90
83 84 8.486210 TGGAGTGTAGTATTTGCTTATCAGATT 58.514 33.333 0.00 0.00 0.00 2.40
84 85 9.331282 GGAGTGTAGTATTTGCTTATCAGATTT 57.669 33.333 0.00 0.00 0.00 2.17
173 174 8.533657 TCATATTTTGTGGAGAAATTTGCTCAT 58.466 29.630 6.72 0.00 34.07 2.90
187 188 3.591196 TGCTCATTGTATTTGTTGGCC 57.409 42.857 0.00 0.00 0.00 5.36
188 189 2.233431 TGCTCATTGTATTTGTTGGCCC 59.767 45.455 0.00 0.00 0.00 5.80
189 190 2.233431 GCTCATTGTATTTGTTGGCCCA 59.767 45.455 0.00 0.00 0.00 5.36
194 195 3.742433 TGTATTTGTTGGCCCAAAGTG 57.258 42.857 12.00 0.00 37.71 3.16
196 197 4.215908 TGTATTTGTTGGCCCAAAGTGTA 58.784 39.130 12.00 0.00 37.71 2.90
252 253 3.884900 CCGAAACCACGGTCCATC 58.115 61.111 0.00 0.00 46.70 3.51
253 254 1.004320 CCGAAACCACGGTCCATCA 60.004 57.895 0.00 0.00 46.70 3.07
254 255 1.296056 CCGAAACCACGGTCCATCAC 61.296 60.000 0.00 0.00 46.70 3.06
255 256 0.601576 CGAAACCACGGTCCATCACA 60.602 55.000 0.00 0.00 0.00 3.58
256 257 0.872388 GAAACCACGGTCCATCACAC 59.128 55.000 0.00 0.00 0.00 3.82
257 258 0.536460 AAACCACGGTCCATCACACC 60.536 55.000 0.00 0.00 0.00 4.16
258 259 2.046314 CCACGGTCCATCACACCC 60.046 66.667 0.00 0.00 0.00 4.61
259 260 2.747022 CACGGTCCATCACACCCA 59.253 61.111 0.00 0.00 0.00 4.51
293 305 0.171903 CAGGGCCTCAGAATTTTGCG 59.828 55.000 0.95 0.00 0.00 4.85
321 333 3.496160 CCCGAGATAAAATCCATTCCGGT 60.496 47.826 0.00 0.00 35.57 5.28
338 350 4.706608 TGGTACGCATGGCCGCAA 62.707 61.111 0.00 0.00 0.00 4.85
342 354 3.892740 TACGCATGGCCGCAACAGT 62.893 57.895 0.00 0.00 0.00 3.55
345 357 2.176546 CATGGCCGCAACAGTTCG 59.823 61.111 0.00 0.00 0.00 3.95
348 360 2.970324 GGCCGCAACAGTTCGTCA 60.970 61.111 0.00 0.00 0.00 4.35
349 361 2.248431 GCCGCAACAGTTCGTCAC 59.752 61.111 4.98 0.00 0.00 3.67
350 362 2.935955 CCGCAACAGTTCGTCACC 59.064 61.111 4.98 0.00 0.00 4.02
351 363 2.604174 CCGCAACAGTTCGTCACCC 61.604 63.158 4.98 0.00 0.00 4.61
352 364 1.885388 CGCAACAGTTCGTCACCCA 60.885 57.895 0.00 0.00 0.00 4.51
353 365 1.831389 CGCAACAGTTCGTCACCCAG 61.831 60.000 0.00 0.00 0.00 4.45
354 366 1.941812 CAACAGTTCGTCACCCAGC 59.058 57.895 0.00 0.00 0.00 4.85
355 367 0.532862 CAACAGTTCGTCACCCAGCT 60.533 55.000 0.00 0.00 0.00 4.24
372 384 3.886550 CTCCCAGCCCACCAAACCC 62.887 68.421 0.00 0.00 0.00 4.11
405 418 3.006728 TCCCCCGACCAGCGAAAT 61.007 61.111 0.00 0.00 44.57 2.17
511 565 1.400530 CGTCTCCTCCCCGCCTAATT 61.401 60.000 0.00 0.00 0.00 1.40
580 634 2.058675 CTGGTGGGTTTCTCTCGGT 58.941 57.895 0.00 0.00 0.00 4.69
581 635 0.396811 CTGGTGGGTTTCTCTCGGTT 59.603 55.000 0.00 0.00 0.00 4.44
623 678 1.138069 TGCTCTTGTGTGTTTCTCCGA 59.862 47.619 0.00 0.00 0.00 4.55
646 701 2.359900 GAATGCTCGGGTTCTTCATGT 58.640 47.619 0.00 0.00 0.00 3.21
706 763 2.969300 TTCCCGGTTGCTTTTCCGCT 62.969 55.000 0.00 0.00 44.63 5.52
879 938 3.625649 TTTTTGGTTTTGCTGGCTTCT 57.374 38.095 0.00 0.00 0.00 2.85
930 992 3.444034 TCTGGTTCAATCTCTAGTCCGTG 59.556 47.826 0.00 0.00 0.00 4.94
931 993 3.427573 TGGTTCAATCTCTAGTCCGTGA 58.572 45.455 0.00 0.00 0.00 4.35
962 1031 5.582665 GGGTTCAGAATTCACTGTACTCATC 59.417 44.000 8.44 0.00 38.14 2.92
1056 1131 2.811317 GACAGCCCGCAGAAGTCG 60.811 66.667 0.00 0.00 0.00 4.18
1493 1610 2.323968 TACTGCTTCTTGTGTGCACA 57.676 45.000 17.42 17.42 39.98 4.57
1503 1620 1.073025 GTGTGCACACCCCATGAGA 59.927 57.895 34.94 0.00 40.85 3.27
1602 1755 0.251742 CAAAGGATGGCTGGGGAACA 60.252 55.000 0.00 0.00 0.00 3.18
1603 1756 0.486879 AAAGGATGGCTGGGGAACAA 59.513 50.000 0.00 0.00 0.00 2.83
1604 1757 0.712380 AAGGATGGCTGGGGAACAAT 59.288 50.000 0.00 0.00 0.00 2.71
1605 1758 0.032813 AGGATGGCTGGGGAACAATG 60.033 55.000 0.00 0.00 0.00 2.82
1606 1759 1.044790 GGATGGCTGGGGAACAATGG 61.045 60.000 0.00 0.00 0.00 3.16
1607 1760 1.679559 GATGGCTGGGGAACAATGGC 61.680 60.000 0.00 0.00 0.00 4.40
1608 1761 3.076916 GGCTGGGGAACAATGGCC 61.077 66.667 0.00 0.00 0.00 5.36
1609 1762 3.451894 GCTGGGGAACAATGGCCG 61.452 66.667 0.00 0.00 0.00 6.13
1610 1763 2.755469 CTGGGGAACAATGGCCGG 60.755 66.667 0.00 0.00 0.00 6.13
1614 1767 3.370231 GGAACAATGGCCGGCGTT 61.370 61.111 22.54 18.86 0.00 4.84
1615 1768 2.126502 GAACAATGGCCGGCGTTG 60.127 61.111 30.28 30.28 0.00 4.10
1616 1769 4.356442 AACAATGGCCGGCGTTGC 62.356 61.111 31.25 16.45 0.00 4.17
1618 1771 4.354939 CAATGGCCGGCGTTGCAA 62.355 61.111 24.31 0.00 0.00 4.08
1619 1772 3.610669 AATGGCCGGCGTTGCAAA 61.611 55.556 22.54 0.00 0.00 3.68
1620 1773 3.572196 AATGGCCGGCGTTGCAAAG 62.572 57.895 22.54 8.11 0.00 2.77
1623 1776 3.747976 GCCGGCGTTGCAAAGGAT 61.748 61.111 12.58 0.00 32.44 3.24
1624 1777 2.179018 CCGGCGTTGCAAAGGATG 59.821 61.111 14.31 0.00 32.44 3.51
1625 1778 2.179018 CGGCGTTGCAAAGGATGG 59.821 61.111 14.31 0.00 32.44 3.51
1626 1779 2.125952 GGCGTTGCAAAGGATGGC 60.126 61.111 14.31 0.10 32.44 4.40
1627 1780 2.639327 GGCGTTGCAAAGGATGGCT 61.639 57.895 14.31 0.00 32.44 4.75
1628 1781 1.444895 GCGTTGCAAAGGATGGCTG 60.445 57.895 14.31 0.00 32.44 4.85
1629 1782 1.213537 CGTTGCAAAGGATGGCTGG 59.786 57.895 0.00 0.00 32.44 4.85
1630 1783 1.593265 GTTGCAAAGGATGGCTGGG 59.407 57.895 0.00 0.00 0.00 4.45
1631 1784 1.610086 TTGCAAAGGATGGCTGGGG 60.610 57.895 0.00 0.00 0.00 4.96
1632 1785 2.091640 TTGCAAAGGATGGCTGGGGA 62.092 55.000 0.00 0.00 0.00 4.81
1633 1786 1.305213 GCAAAGGATGGCTGGGGAA 60.305 57.895 0.00 0.00 0.00 3.97
1691 1847 1.004918 CCGAGAACCCGCAGAAACT 60.005 57.895 0.00 0.00 0.00 2.66
2028 2207 0.541863 CTACTTTCTGCACCGGGGAT 59.458 55.000 8.67 0.00 0.00 3.85
2559 2738 5.222079 TGCTATTGAAAGATATGCGGGTA 57.778 39.130 0.00 0.00 0.00 3.69
2673 2864 2.684655 AAATTGCATGGGGGCGCT 60.685 55.556 7.64 0.00 36.28 5.92
3062 3288 3.657239 ACATATAATGTGGATCAGGCCCA 59.343 43.478 0.00 0.00 43.01 5.36
3381 4159 5.777850 AATGGTTGGTTAACTTAAGCGTT 57.222 34.783 18.36 18.36 38.93 4.84
3383 4161 4.922719 TGGTTGGTTAACTTAAGCGTTTG 58.077 39.130 5.42 0.00 38.93 2.93
3438 4220 7.985476 ACGTGGTGGATAAAGATTCTTAAATG 58.015 34.615 0.00 0.00 0.00 2.32
3458 4244 2.238521 GTGCAAAGGATGAGGGTTTCA 58.761 47.619 0.00 0.00 40.85 2.69
3495 4290 6.772360 TGCCAATGCTGATGAAACTAAATA 57.228 33.333 0.00 0.00 38.71 1.40
4213 5108 5.424121 AAATCTGAAAGTCACGAAGTTGG 57.576 39.130 0.00 0.00 33.55 3.77
4290 5197 2.171840 CCCAGGATAGTCAGGATACCG 58.828 57.143 0.00 0.00 37.17 4.02
4484 5403 7.067496 TCTTTCTAAAGTGAGAGGACATGTT 57.933 36.000 0.00 0.00 37.31 2.71
4493 5412 6.769512 AGTGAGAGGACATGTTAGCTTTAAA 58.230 36.000 0.00 0.00 0.00 1.52
4910 6465 0.752658 TGACAGCCTGATATGGACCG 59.247 55.000 0.00 0.00 0.00 4.79
4911 6466 0.753262 GACAGCCTGATATGGACCGT 59.247 55.000 0.00 0.00 0.00 4.83
4912 6467 0.753262 ACAGCCTGATATGGACCGTC 59.247 55.000 0.00 0.00 0.00 4.79
4913 6468 0.752658 CAGCCTGATATGGACCGTCA 59.247 55.000 0.00 0.00 0.00 4.35
4914 6469 0.753262 AGCCTGATATGGACCGTCAC 59.247 55.000 0.00 0.00 0.00 3.67
4915 6470 0.249911 GCCTGATATGGACCGTCACC 60.250 60.000 0.00 0.00 0.00 4.02
5159 6814 7.464273 AGACTTGCAATTGGATGGATATCATA 58.536 34.615 15.64 0.00 35.97 2.15
5160 6815 8.114102 AGACTTGCAATTGGATGGATATCATAT 58.886 33.333 15.64 0.00 35.97 1.78
5593 7258 2.170817 GACATCAAGGAAGTCCCCCTAC 59.829 54.545 0.00 0.00 36.42 3.18
5733 7398 7.148103 TGCACAAGTTTGATTATAGCAAGCATA 60.148 33.333 0.00 0.00 0.00 3.14
5857 7523 3.876309 TGCAGGGTAGTCTTTTTCCTT 57.124 42.857 0.00 0.00 0.00 3.36
5861 7527 5.163457 TGCAGGGTAGTCTTTTTCCTTTTTG 60.163 40.000 0.00 0.00 0.00 2.44
5904 7571 2.814336 GTCAACTGGAAAGAATTCGGCT 59.186 45.455 0.00 0.00 36.36 5.52
5946 7613 1.299976 GGAGGCGGACATTTGGTCT 59.700 57.895 0.00 0.00 46.16 3.85
6042 7709 7.519032 TTTCGAAATAAACTTGACCTTCCAT 57.481 32.000 6.47 0.00 0.00 3.41
6043 7710 7.519032 TTCGAAATAAACTTGACCTTCCATT 57.481 32.000 0.00 0.00 0.00 3.16
6044 7711 6.908825 TCGAAATAAACTTGACCTTCCATTG 58.091 36.000 0.00 0.00 0.00 2.82
6045 7712 6.488683 TCGAAATAAACTTGACCTTCCATTGT 59.511 34.615 0.00 0.00 0.00 2.71
6047 7714 7.749126 CGAAATAAACTTGACCTTCCATTGTAC 59.251 37.037 0.00 0.00 0.00 2.90
6050 7717 5.964958 AACTTGACCTTCCATTGTACATG 57.035 39.130 0.00 0.00 0.00 3.21
6052 7719 4.761739 ACTTGACCTTCCATTGTACATGTG 59.238 41.667 9.11 0.00 0.00 3.21
6053 7720 4.632327 TGACCTTCCATTGTACATGTGA 57.368 40.909 9.11 0.00 0.00 3.58
6055 7722 4.285775 TGACCTTCCATTGTACATGTGAGA 59.714 41.667 9.11 0.00 0.00 3.27
6056 7723 5.221823 TGACCTTCCATTGTACATGTGAGAA 60.222 40.000 9.11 0.00 0.00 2.87
6059 7726 6.207417 ACCTTCCATTGTACATGTGAGAAAAG 59.793 38.462 9.11 3.79 0.00 2.27
6062 7729 7.581213 TCCATTGTACATGTGAGAAAAGTTT 57.419 32.000 9.11 0.00 0.00 2.66
6076 7744 9.580916 GTGAGAAAAGTTTCACAAAAAGAAAAC 57.419 29.630 5.63 0.00 42.47 2.43
6274 7942 9.150348 CTTACCTGTTTTGACTTTTTGTTGAAT 57.850 29.630 0.00 0.00 0.00 2.57
6495 8243 9.825972 ATTAATAACAGTTGTTGATTGTTCTCG 57.174 29.630 7.73 0.00 38.84 4.04
6500 8248 4.988540 CAGTTGTTGATTGTTCTCGACCTA 59.011 41.667 0.00 0.00 0.00 3.08
6633 8384 2.486966 GGCTTCGCCTGTCATTGC 59.513 61.111 0.00 0.00 46.69 3.56
6642 8393 2.159653 CGCCTGTCATTGCTACTGTTTC 60.160 50.000 0.00 0.00 0.00 2.78
6644 8395 3.126000 GCCTGTCATTGCTACTGTTTCTC 59.874 47.826 0.00 0.00 0.00 2.87
6669 8420 9.995003 TCTTAGTTGGAATTGTTGCATTTTATT 57.005 25.926 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.738846 CGAATATCCATTTCGGCTCCTG 59.261 50.000 0.00 0.00 41.62 3.86
7 8 5.294356 TCTACAACCCGAATATCCATTTCG 58.706 41.667 0.00 0.00 44.17 3.46
8 9 7.066525 TGTTTCTACAACCCGAATATCCATTTC 59.933 37.037 0.00 0.00 0.00 2.17
9 10 6.887545 TGTTTCTACAACCCGAATATCCATTT 59.112 34.615 0.00 0.00 0.00 2.32
10 11 6.419791 TGTTTCTACAACCCGAATATCCATT 58.580 36.000 0.00 0.00 0.00 3.16
11 12 5.996644 TGTTTCTACAACCCGAATATCCAT 58.003 37.500 0.00 0.00 0.00 3.41
12 13 5.188163 TCTGTTTCTACAACCCGAATATCCA 59.812 40.000 0.00 0.00 32.92 3.41
13 14 5.667466 TCTGTTTCTACAACCCGAATATCC 58.333 41.667 0.00 0.00 32.92 2.59
14 15 7.787725 AATCTGTTTCTACAACCCGAATATC 57.212 36.000 0.00 0.00 32.92 1.63
15 16 7.415206 GCAAATCTGTTTCTACAACCCGAATAT 60.415 37.037 0.00 0.00 32.92 1.28
16 17 6.128117 GCAAATCTGTTTCTACAACCCGAATA 60.128 38.462 0.00 0.00 32.92 1.75
17 18 5.335661 GCAAATCTGTTTCTACAACCCGAAT 60.336 40.000 0.00 0.00 32.92 3.34
18 19 4.023536 GCAAATCTGTTTCTACAACCCGAA 60.024 41.667 0.00 0.00 32.92 4.30
19 20 3.500680 GCAAATCTGTTTCTACAACCCGA 59.499 43.478 0.00 0.00 32.92 5.14
20 21 3.502211 AGCAAATCTGTTTCTACAACCCG 59.498 43.478 0.00 0.00 32.92 5.28
21 22 5.453567 AAGCAAATCTGTTTCTACAACCC 57.546 39.130 0.00 0.00 32.92 4.11
22 23 7.750903 GTGATAAGCAAATCTGTTTCTACAACC 59.249 37.037 0.00 0.00 32.92 3.77
23 24 8.289618 TGTGATAAGCAAATCTGTTTCTACAAC 58.710 33.333 0.00 0.00 32.92 3.32
24 25 8.389779 TGTGATAAGCAAATCTGTTTCTACAA 57.610 30.769 0.00 0.00 32.92 2.41
25 26 7.977789 TGTGATAAGCAAATCTGTTTCTACA 57.022 32.000 0.00 0.00 0.00 2.74
26 27 9.846248 AAATGTGATAAGCAAATCTGTTTCTAC 57.154 29.630 0.00 0.00 0.00 2.59
27 28 9.844790 CAAATGTGATAAGCAAATCTGTTTCTA 57.155 29.630 0.00 0.00 0.00 2.10
28 29 8.579006 TCAAATGTGATAAGCAAATCTGTTTCT 58.421 29.630 0.00 0.00 0.00 2.52
29 30 8.746922 TCAAATGTGATAAGCAAATCTGTTTC 57.253 30.769 0.00 0.00 0.00 2.78
30 31 9.715121 AATCAAATGTGATAAGCAAATCTGTTT 57.285 25.926 0.00 0.00 44.02 2.83
31 32 9.715121 AAATCAAATGTGATAAGCAAATCTGTT 57.285 25.926 0.00 0.00 44.02 3.16
32 33 9.146984 CAAATCAAATGTGATAAGCAAATCTGT 57.853 29.630 0.00 0.00 44.02 3.41
33 34 8.600625 CCAAATCAAATGTGATAAGCAAATCTG 58.399 33.333 0.00 0.00 44.02 2.90
34 35 8.533657 TCCAAATCAAATGTGATAAGCAAATCT 58.466 29.630 0.00 0.00 44.02 2.40
35 36 8.706492 TCCAAATCAAATGTGATAAGCAAATC 57.294 30.769 0.00 0.00 44.02 2.17
36 37 8.316214 ACTCCAAATCAAATGTGATAAGCAAAT 58.684 29.630 0.00 0.00 44.02 2.32
37 38 7.599621 CACTCCAAATCAAATGTGATAAGCAAA 59.400 33.333 0.00 0.00 44.02 3.68
38 39 7.092079 CACTCCAAATCAAATGTGATAAGCAA 58.908 34.615 0.00 0.00 44.02 3.91
39 40 6.209192 ACACTCCAAATCAAATGTGATAAGCA 59.791 34.615 0.00 0.00 44.02 3.91
40 41 6.624423 ACACTCCAAATCAAATGTGATAAGC 58.376 36.000 0.00 0.00 44.02 3.09
41 42 8.950210 ACTACACTCCAAATCAAATGTGATAAG 58.050 33.333 0.00 0.00 44.02 1.73
42 43 8.862325 ACTACACTCCAAATCAAATGTGATAA 57.138 30.769 0.00 0.00 44.02 1.75
44 45 9.466497 AATACTACACTCCAAATCAAATGTGAT 57.534 29.630 0.00 0.00 46.91 3.06
45 46 8.862325 AATACTACACTCCAAATCAAATGTGA 57.138 30.769 0.00 0.00 38.41 3.58
46 47 9.345517 CAAATACTACACTCCAAATCAAATGTG 57.654 33.333 0.00 0.00 0.00 3.21
47 48 8.028938 GCAAATACTACACTCCAAATCAAATGT 58.971 33.333 0.00 0.00 0.00 2.71
48 49 8.246180 AGCAAATACTACACTCCAAATCAAATG 58.754 33.333 0.00 0.00 0.00 2.32
49 50 8.353423 AGCAAATACTACACTCCAAATCAAAT 57.647 30.769 0.00 0.00 0.00 2.32
50 51 7.759489 AGCAAATACTACACTCCAAATCAAA 57.241 32.000 0.00 0.00 0.00 2.69
51 52 7.759489 AAGCAAATACTACACTCCAAATCAA 57.241 32.000 0.00 0.00 0.00 2.57
52 53 9.109393 GATAAGCAAATACTACACTCCAAATCA 57.891 33.333 0.00 0.00 0.00 2.57
53 54 9.109393 TGATAAGCAAATACTACACTCCAAATC 57.891 33.333 0.00 0.00 0.00 2.17
54 55 9.113838 CTGATAAGCAAATACTACACTCCAAAT 57.886 33.333 0.00 0.00 0.00 2.32
55 56 8.318412 TCTGATAAGCAAATACTACACTCCAAA 58.682 33.333 0.00 0.00 0.00 3.28
56 57 7.847096 TCTGATAAGCAAATACTACACTCCAA 58.153 34.615 0.00 0.00 0.00 3.53
57 58 7.418337 TCTGATAAGCAAATACTACACTCCA 57.582 36.000 0.00 0.00 0.00 3.86
58 59 8.894768 AATCTGATAAGCAAATACTACACTCC 57.105 34.615 0.00 0.00 0.00 3.85
150 151 8.149647 ACAATGAGCAAATTTCTCCACAAAATA 58.850 29.630 12.27 0.00 0.00 1.40
158 159 8.437742 CAACAAATACAATGAGCAAATTTCTCC 58.562 33.333 12.27 0.00 0.00 3.71
173 174 3.452627 ACACTTTGGGCCAACAAATACAA 59.547 39.130 20.79 0.00 39.39 2.41
248 249 0.463654 CCGGTATGTGGGTGTGATGG 60.464 60.000 0.00 0.00 0.00 3.51
249 250 0.463654 CCCGGTATGTGGGTGTGATG 60.464 60.000 0.00 0.00 42.07 3.07
250 251 1.912220 CCCGGTATGTGGGTGTGAT 59.088 57.895 0.00 0.00 42.07 3.06
251 252 3.394494 CCCGGTATGTGGGTGTGA 58.606 61.111 0.00 0.00 42.07 3.58
288 300 1.193323 TATCTCGGGGGTTACGCAAA 58.807 50.000 1.15 0.00 0.00 3.68
293 305 4.426736 TGGATTTTATCTCGGGGGTTAC 57.573 45.455 0.00 0.00 0.00 2.50
321 333 4.706608 TTGCGGCCATGCGTACCA 62.707 61.111 2.24 0.00 37.81 3.25
338 350 1.367840 GAGCTGGGTGACGAACTGT 59.632 57.895 0.00 0.00 0.00 3.55
342 354 2.525629 TGGGAGCTGGGTGACGAA 60.526 61.111 0.00 0.00 0.00 3.85
345 357 4.416738 GGCTGGGAGCTGGGTGAC 62.417 72.222 0.00 0.00 41.99 3.67
351 363 3.512154 TTTGGTGGGCTGGGAGCTG 62.512 63.158 0.00 0.00 41.99 4.24
352 364 3.185203 TTTGGTGGGCTGGGAGCT 61.185 61.111 0.00 0.00 41.99 4.09
353 365 2.991540 GTTTGGTGGGCTGGGAGC 60.992 66.667 0.00 0.00 41.46 4.70
354 366 2.283173 GGTTTGGTGGGCTGGGAG 60.283 66.667 0.00 0.00 0.00 4.30
355 367 3.909651 GGGTTTGGTGGGCTGGGA 61.910 66.667 0.00 0.00 0.00 4.37
405 418 3.075005 CGAAAGGGAGGGAGGCGA 61.075 66.667 0.00 0.00 0.00 5.54
449 462 1.303398 AAGAGGACTCGACCGAGCA 60.303 57.895 18.13 0.00 45.54 4.26
599 654 0.040958 GAAACACACAAGAGCAGCGG 60.041 55.000 0.00 0.00 0.00 5.52
603 658 1.138069 TCGGAGAAACACACAAGAGCA 59.862 47.619 0.00 0.00 0.00 4.26
609 664 0.460722 TTCCGTCGGAGAAACACACA 59.539 50.000 14.79 0.00 39.69 3.72
623 678 0.391263 GAAGAACCCGAGCATTCCGT 60.391 55.000 0.00 0.00 0.00 4.69
646 701 0.601841 GGAAAACTCCGCCGTCAAGA 60.602 55.000 0.00 0.00 0.00 3.02
729 787 0.527113 TCGAACATTCCGGTAGCGAA 59.473 50.000 17.33 8.68 0.00 4.70
780 838 4.384846 CGAAAAATCCGAGAACGAGAGAAA 59.615 41.667 0.00 0.00 42.66 2.52
783 841 2.599082 CCGAAAAATCCGAGAACGAGAG 59.401 50.000 0.00 0.00 42.66 3.20
794 853 3.503827 AGCGAAAATCCCGAAAAATCC 57.496 42.857 0.00 0.00 0.00 3.01
930 992 5.928264 CAGTGAATTCTGAACCCCAAAAATC 59.072 40.000 7.05 0.00 37.61 2.17
931 993 5.366477 ACAGTGAATTCTGAACCCCAAAAAT 59.634 36.000 7.05 0.00 38.63 1.82
962 1031 5.987347 TGGAAACTAGTAAGAAACAACGAGG 59.013 40.000 0.00 0.00 0.00 4.63
1493 1610 1.203237 AGTCACTGAGTCTCATGGGGT 60.203 52.381 2.22 0.00 0.00 4.95
1503 1620 0.600557 CTTCGCTCCAGTCACTGAGT 59.399 55.000 6.30 0.00 32.44 3.41
1602 1755 3.572196 CTTTGCAACGCCGGCCATT 62.572 57.895 23.46 13.36 0.00 3.16
1603 1756 4.054825 CTTTGCAACGCCGGCCAT 62.055 61.111 23.46 6.41 0.00 4.40
1606 1759 3.747976 ATCCTTTGCAACGCCGGC 61.748 61.111 19.07 19.07 0.00 6.13
1607 1760 2.179018 CATCCTTTGCAACGCCGG 59.821 61.111 0.00 0.00 0.00 6.13
1608 1761 2.179018 CCATCCTTTGCAACGCCG 59.821 61.111 0.00 0.00 0.00 6.46
1609 1762 2.125952 GCCATCCTTTGCAACGCC 60.126 61.111 0.00 0.00 0.00 5.68
1610 1763 1.444895 CAGCCATCCTTTGCAACGC 60.445 57.895 0.00 0.00 0.00 4.84
1611 1764 1.213537 CCAGCCATCCTTTGCAACG 59.786 57.895 0.00 0.00 0.00 4.10
1612 1765 1.593265 CCCAGCCATCCTTTGCAAC 59.407 57.895 0.00 0.00 0.00 4.17
1613 1766 1.610086 CCCCAGCCATCCTTTGCAA 60.610 57.895 0.00 0.00 0.00 4.08
1614 1767 2.037687 CCCCAGCCATCCTTTGCA 59.962 61.111 0.00 0.00 0.00 4.08
1615 1768 1.305213 TTCCCCAGCCATCCTTTGC 60.305 57.895 0.00 0.00 0.00 3.68
1616 1769 0.251742 TGTTCCCCAGCCATCCTTTG 60.252 55.000 0.00 0.00 0.00 2.77
1617 1770 0.486879 TTGTTCCCCAGCCATCCTTT 59.513 50.000 0.00 0.00 0.00 3.11
1618 1771 0.712380 ATTGTTCCCCAGCCATCCTT 59.288 50.000 0.00 0.00 0.00 3.36
1619 1772 0.032813 CATTGTTCCCCAGCCATCCT 60.033 55.000 0.00 0.00 0.00 3.24
1620 1773 1.044790 CCATTGTTCCCCAGCCATCC 61.045 60.000 0.00 0.00 0.00 3.51
1621 1774 1.679559 GCCATTGTTCCCCAGCCATC 61.680 60.000 0.00 0.00 0.00 3.51
1622 1775 1.686800 GCCATTGTTCCCCAGCCAT 60.687 57.895 0.00 0.00 0.00 4.40
1623 1776 2.283821 GCCATTGTTCCCCAGCCA 60.284 61.111 0.00 0.00 0.00 4.75
1624 1777 3.076916 GGCCATTGTTCCCCAGCC 61.077 66.667 0.00 0.00 0.00 4.85
1625 1778 2.283821 TGGCCATTGTTCCCCAGC 60.284 61.111 0.00 0.00 0.00 4.85
1626 1779 2.353610 GCTGGCCATTGTTCCCCAG 61.354 63.158 5.51 0.00 45.93 4.45
1627 1780 2.283821 GCTGGCCATTGTTCCCCA 60.284 61.111 5.51 0.00 0.00 4.96
1628 1781 1.266867 AATGCTGGCCATTGTTCCCC 61.267 55.000 5.51 0.00 42.44 4.81
1629 1782 2.289840 AATGCTGGCCATTGTTCCC 58.710 52.632 5.51 0.00 42.44 3.97
1691 1847 3.407967 GAAGGTCCATGGGCGGGA 61.408 66.667 13.02 0.00 0.00 5.14
2028 2207 3.561143 CGGATTTTCCATGTCCCCATTA 58.439 45.455 0.00 0.00 35.91 1.90
2559 2738 2.427095 GCCCTTGAACTGCGGATTAAAT 59.573 45.455 0.00 0.00 0.00 1.40
2673 2864 3.863681 GCCAATTGCACGAAACTCA 57.136 47.368 0.00 0.00 40.77 3.41
3062 3288 4.873010 AGATCTCACTATACCACACCTGT 58.127 43.478 0.00 0.00 0.00 4.00
3072 3298 7.181305 AGCTAGCTGGTACTAGATCTCACTATA 59.819 40.741 18.57 0.00 41.92 1.31
3356 4133 6.575267 ACGCTTAAGTTAACCAACCATTTTT 58.425 32.000 4.02 0.00 35.05 1.94
3438 4220 2.229784 CTGAAACCCTCATCCTTTGCAC 59.770 50.000 0.00 0.00 32.14 4.57
3495 4290 3.054875 TCTGCAGATTCAAGCATACAGGT 60.055 43.478 13.74 0.00 40.42 4.00
4213 5108 0.610687 ACTAGGTGCAGCTTCCTGAC 59.389 55.000 25.47 0.00 41.77 3.51
4290 5197 1.017387 CTGCCTAGATTTTGGTCGCC 58.983 55.000 0.00 0.00 0.00 5.54
4318 5234 4.687948 CACTATGATCATCCAGCTTTACCG 59.312 45.833 12.53 0.00 0.00 4.02
4484 5403 7.281774 CCTGCATGAAGAATCTCTTTAAAGCTA 59.718 37.037 10.51 1.26 36.73 3.32
4493 5412 2.158986 CGGTCCTGCATGAAGAATCTCT 60.159 50.000 0.74 0.00 0.00 3.10
4910 6465 1.600916 GGCACAGGGTTCTGGTGAC 60.601 63.158 0.00 0.00 44.99 3.67
4911 6466 2.075566 TGGCACAGGGTTCTGGTGA 61.076 57.895 0.00 0.00 44.99 4.02
4912 6467 2.515398 TGGCACAGGGTTCTGGTG 59.485 61.111 0.00 0.00 44.99 4.17
5593 7258 0.319555 TCGCACCCGAGAACTTCTTG 60.320 55.000 0.00 0.00 38.82 3.02
5648 7313 3.379452 GCTAGGCTCCCAGATATACCAT 58.621 50.000 0.00 0.00 0.00 3.55
5649 7314 2.559931 GGCTAGGCTCCCAGATATACCA 60.560 54.545 9.46 0.00 0.00 3.25
5652 7317 2.559931 GGTGGCTAGGCTCCCAGATATA 60.560 54.545 23.22 0.00 0.00 0.86
5733 7398 5.102953 TCTATCTACACTTGGCAATTGCT 57.897 39.130 28.42 11.34 41.70 3.91
5834 7500 4.082125 AGGAAAAAGACTACCCTGCAATG 58.918 43.478 0.00 0.00 0.00 2.82
5857 7523 3.493877 CCTGCAATCAATTCGCAACAAAA 59.506 39.130 0.00 0.00 34.75 2.44
5861 7527 1.067635 ACCCTGCAATCAATTCGCAAC 60.068 47.619 0.00 0.00 34.75 4.17
5904 7571 4.994852 GTGAACATCTGCCTAACAACACTA 59.005 41.667 0.00 0.00 0.00 2.74
5946 7613 7.079700 CCATATAGGGTGTATATGTCCCCATA 58.920 42.308 9.92 5.63 41.95 2.74
6021 7688 6.677913 ACAATGGAAGGTCAAGTTTATTTCG 58.322 36.000 0.00 0.00 0.00 3.46
6022 7689 8.573035 TGTACAATGGAAGGTCAAGTTTATTTC 58.427 33.333 0.00 0.00 0.00 2.17
6023 7690 8.472007 TGTACAATGGAAGGTCAAGTTTATTT 57.528 30.769 0.00 0.00 0.00 1.40
6024 7691 8.522830 CATGTACAATGGAAGGTCAAGTTTATT 58.477 33.333 0.00 0.00 0.00 1.40
6025 7692 7.669722 ACATGTACAATGGAAGGTCAAGTTTAT 59.330 33.333 0.00 0.00 0.00 1.40
6027 7694 5.833131 ACATGTACAATGGAAGGTCAAGTTT 59.167 36.000 0.00 0.00 0.00 2.66
6030 7697 5.003160 TCACATGTACAATGGAAGGTCAAG 58.997 41.667 0.00 0.00 0.00 3.02
6031 7698 4.979335 TCACATGTACAATGGAAGGTCAA 58.021 39.130 0.00 0.00 0.00 3.18
6033 7700 4.832248 TCTCACATGTACAATGGAAGGTC 58.168 43.478 0.00 0.00 0.00 3.85
6034 7701 4.908601 TCTCACATGTACAATGGAAGGT 57.091 40.909 0.00 0.00 0.00 3.50
6035 7702 6.207417 ACTTTTCTCACATGTACAATGGAAGG 59.793 38.462 0.00 7.18 0.00 3.46
6036 7703 7.206981 ACTTTTCTCACATGTACAATGGAAG 57.793 36.000 0.00 7.26 0.00 3.46
6038 7705 7.284261 TGAAACTTTTCTCACATGTACAATGGA 59.716 33.333 0.00 0.00 38.02 3.41
6039 7706 7.379529 GTGAAACTTTTCTCACATGTACAATGG 59.620 37.037 0.00 0.00 41.35 3.16
6042 7709 7.384439 TGTGAAACTTTTCTCACATGTACAA 57.616 32.000 0.00 0.00 45.31 2.41
6043 7710 6.993786 TGTGAAACTTTTCTCACATGTACA 57.006 33.333 0.00 0.00 45.31 2.90
6050 7717 9.580916 GTTTTCTTTTTGTGAAACTTTTCTCAC 57.419 29.630 6.07 0.00 39.51 3.51
6052 7719 8.227791 GGGTTTTCTTTTTGTGAAACTTTTCTC 58.772 33.333 3.48 0.70 38.02 2.87
6053 7720 7.174253 GGGGTTTTCTTTTTGTGAAACTTTTCT 59.826 33.333 3.48 0.00 38.02 2.52
6055 7722 6.207810 GGGGGTTTTCTTTTTGTGAAACTTTT 59.792 34.615 0.00 0.00 38.04 2.27
6056 7723 5.708230 GGGGGTTTTCTTTTTGTGAAACTTT 59.292 36.000 0.00 0.00 38.04 2.66
6167 7835 3.481112 AAACAACGTTGACTTCACACC 57.519 42.857 33.66 0.00 0.00 4.16
6209 7877 9.946165 AATAAACTTGACTTACTTTTGCACTAC 57.054 29.630 0.00 0.00 0.00 2.73
6288 7956 7.093727 CCTGGTTGTAGATACACCCTATATGAG 60.094 44.444 7.91 0.00 39.28 2.90
6289 7957 6.724441 CCTGGTTGTAGATACACCCTATATGA 59.276 42.308 7.91 0.00 39.28 2.15
6291 7959 6.871035 TCCTGGTTGTAGATACACCCTATAT 58.129 40.000 7.91 0.00 39.28 0.86
6292 7960 6.283948 TCCTGGTTGTAGATACACCCTATA 57.716 41.667 7.91 0.00 39.28 1.31
6296 7964 3.370209 GGTTCCTGGTTGTAGATACACCC 60.370 52.174 0.00 0.00 39.02 4.61
6297 7965 3.262405 TGGTTCCTGGTTGTAGATACACC 59.738 47.826 0.00 0.00 35.64 4.16
6483 8231 5.186992 TCCAGAATAGGTCGAGAACAATCAA 59.813 40.000 0.00 0.00 0.00 2.57
6495 8243 0.527817 CCACGCGTCCAGAATAGGTC 60.528 60.000 9.86 0.00 0.00 3.85
6500 8248 2.158957 ACATAATCCACGCGTCCAGAAT 60.159 45.455 9.86 2.18 0.00 2.40
6623 8374 4.573900 AGAGAAACAGTAGCAATGACAGG 58.426 43.478 0.00 0.00 0.00 4.00
6633 8384 8.608844 ACAATTCCAACTAAGAGAAACAGTAG 57.391 34.615 0.00 0.00 0.00 2.57
6642 8393 7.951530 AAAATGCAACAATTCCAACTAAGAG 57.048 32.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.