Multiple sequence alignment - TraesCS5B01G062800

Loading Multiple Alignment...

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 TraesCS5B01G062800 chr5B 100.000 4470 0 0 1 4470 70437862 70442331 0.000000e+00 8255.0
1 TraesCS5B01G062800 chr5B 87.389 1015 110 9 2095 3101 70360230 70361234 0.000000e+00 1149.0
2 TraesCS5B01G062800 chr5B 87.190 968 91 17 2097 3054 70497921 70498865 0.000000e+00 1070.0
3 TraesCS5B01G062800 chr5B 89.542 459 45 1 1053 1508 70497059 70497517 3.000000e-161 579.0
4 TraesCS5B01G062800 chr5B 84.829 468 68 1 1044 1508 70356026 70356493 6.770000e-128 468.0
5 TraesCS5B01G062800 chr5B 90.667 300 26 2 3237 3535 71994487 71994785 9.010000e-107 398.0
6 TraesCS5B01G062800 chr5B 91.608 286 24 0 3166 3451 70361245 70361530 3.240000e-106 396.0
7 TraesCS5B01G062800 chr5B 90.333 300 27 2 3237 3535 70500802 70501100 4.190000e-105 392.0
8 TraesCS5B01G062800 chr5B 89.941 169 16 1 3679 3847 70501405 70501572 2.710000e-52 217.0
9 TraesCS5B01G062800 chr5B 89.941 169 16 1 3679 3847 71995084 71995251 2.710000e-52 217.0
10 TraesCS5B01G062800 chr5B 87.368 190 21 3 48 236 598052081 598051894 9.740000e-52 215.0
11 TraesCS5B01G062800 chr5B 83.938 193 31 0 44 236 91465703 91465895 7.640000e-43 185.0
12 TraesCS5B01G062800 chr5B 93.182 44 1 2 1 43 70407962 70408004 3.730000e-06 63.9
13 TraesCS5B01G062800 chr5D 95.586 1835 53 14 291 2100 60219043 60217212 0.000000e+00 2915.0
14 TraesCS5B01G062800 chr5D 98.402 1502 22 1 2095 3596 60217148 60215649 0.000000e+00 2639.0
15 TraesCS5B01G062800 chr5D 98.865 793 8 1 3679 4470 60215650 60214858 0.000000e+00 1413.0
16 TraesCS5B01G062800 chr5D 87.100 969 94 13 2097 3054 60160245 60159297 0.000000e+00 1068.0
17 TraesCS5B01G062800 chr5D 90.909 462 39 1 1053 1511 60183055 60182594 6.350000e-173 617.0
18 TraesCS5B01G062800 chr5D 89.751 361 29 4 3237 3596 60147027 60146674 5.270000e-124 455.0
19 TraesCS5B01G062800 chr5D 96.503 143 5 0 44 186 60219496 60219354 2.080000e-58 237.0
20 TraesCS5B01G062800 chr5D 85.417 192 28 0 44 235 431901034 431900843 2.730000e-47 200.0
21 TraesCS5B01G062800 chr5D 89.209 139 4 3 905 1039 60183251 60183120 3.580000e-36 163.0
22 TraesCS5B01G062800 chr5A 86.613 986 109 11 2477 3451 48772032 48771059 0.000000e+00 1068.0
23 TraesCS5B01G062800 chr5A 87.032 347 36 6 2095 2439 48828137 48827798 2.520000e-102 383.0
24 TraesCS5B01G062800 chr5A 95.833 96 4 0 3588 3683 502684141 502684046 5.990000e-34 156.0
25 TraesCS5B01G062800 chr5A 94.118 34 2 0 13 46 189185674 189185707 8.000000e-03 52.8
26 TraesCS5B01G062800 chr6D 81.654 1270 175 38 1835 3060 348649988 348651243 0.000000e+00 1002.0
27 TraesCS5B01G062800 chr6D 85.207 507 72 1 1052 1555 348649274 348649780 6.630000e-143 518.0
28 TraesCS5B01G062800 chr6D 87.755 147 17 1 45 191 256320734 256320879 2.140000e-38 171.0
29 TraesCS5B01G062800 chr1D 84.529 976 130 12 2095 3060 355073604 355074568 0.000000e+00 946.0
30 TraesCS5B01G062800 chr1D 84.556 518 77 1 1041 1555 355072589 355073106 1.110000e-140 510.0
31 TraesCS5B01G062800 chr1A 84.254 978 131 10 2095 3060 454517561 454518527 0.000000e+00 931.0
32 TraesCS5B01G062800 chr1A 84.749 518 76 1 1041 1555 454516271 454516788 2.380000e-142 516.0
33 TraesCS5B01G062800 chr1A 83.912 317 47 4 446 760 405679011 405678697 2.610000e-77 300.0
34 TraesCS5B01G062800 chr1A 83.938 193 30 1 44 236 99753285 99753094 2.750000e-42 183.0
35 TraesCS5B01G062800 chr6A 84.151 978 130 16 2095 3060 495258361 495257397 0.000000e+00 924.0
36 TraesCS5B01G062800 chr1B 84.173 973 129 15 2095 3054 476873076 476874036 0.000000e+00 920.0
37 TraesCS5B01G062800 chr1B 84.971 519 74 2 1041 1555 476871999 476872517 1.420000e-144 523.0
38 TraesCS5B01G062800 chr1B 90.283 247 24 0 3016 3262 681713951 681714197 1.550000e-84 324.0
39 TraesCS5B01G062800 chr1B 90.741 108 8 2 3595 3702 22433852 22433747 4.660000e-30 143.0
40 TraesCS5B01G062800 chr6B 82.822 978 142 16 2095 3060 531014028 531013065 0.000000e+00 852.0
41 TraesCS5B01G062800 chr6B 78.295 258 52 4 3185 3441 25959327 25959581 3.580000e-36 163.0
42 TraesCS5B01G062800 chr6B 95.699 93 4 0 3591 3683 495435811 495435903 2.790000e-32 150.0
43 TraesCS5B01G062800 chr3A 89.450 436 46 0 3016 3451 639175821 639176256 6.530000e-153 551.0
44 TraesCS5B01G062800 chr3A 95.050 101 4 1 3580 3680 36229738 36229837 1.660000e-34 158.0
45 TraesCS5B01G062800 chr7A 86.195 297 38 2 2110 2406 111944073 111943780 7.220000e-83 318.0
46 TraesCS5B01G062800 chr7A 85.099 302 42 1 1052 1350 111944465 111944164 5.620000e-79 305.0
47 TraesCS5B01G062800 chr2B 83.801 321 48 4 446 764 371156813 371156495 7.270000e-78 302.0
48 TraesCS5B01G062800 chr2B 94.792 96 5 0 3594 3689 142245584 142245679 2.790000e-32 150.0
49 TraesCS5B01G062800 chr2A 86.175 217 25 5 44 259 104333043 104332831 3.480000e-56 230.0
50 TraesCS5B01G062800 chr2A 79.184 245 49 2 3198 3441 25038136 25037893 7.690000e-38 169.0
51 TraesCS5B01G062800 chr4D 86.935 199 19 3 44 236 385486577 385486774 2.710000e-52 217.0
52 TraesCS5B01G062800 chr4D 93.458 107 5 2 3594 3700 164649455 164649559 1.660000e-34 158.0
53 TraesCS5B01G062800 chr4D 94.872 39 2 0 13 51 49973002 49973040 1.340000e-05 62.1
54 TraesCS5B01G062800 chr4D 97.143 35 1 0 12 46 353505532 353505566 4.830000e-05 60.2
55 TraesCS5B01G062800 chr2D 84.974 193 28 1 44 236 497909468 497909659 1.270000e-45 195.0
56 TraesCS5B01G062800 chr4A 97.778 90 2 0 3591 3680 590946991 590947080 5.990000e-34 156.0
57 TraesCS5B01G062800 chr4B 95.699 93 4 0 3591 3683 23323107 23323015 2.790000e-32 150.0
58 TraesCS5B01G062800 chr3B 94.845 97 4 1 3588 3684 232569304 232569399 2.790000e-32 150.0
59 TraesCS5B01G062800 chr7D 97.059 34 1 0 13 46 637441979 637441946 1.740000e-04 58.4


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 TraesCS5B01G062800 chr5B 70437862 70442331 4469 False 8255.0 8255 100.0000 1 4470 1 chr5B.!!$F2 4469
1 TraesCS5B01G062800 chr5B 70356026 70361530 5504 False 671.0 1149 87.9420 1044 3451 3 chr5B.!!$F4 2407
2 TraesCS5B01G062800 chr5B 70497059 70501572 4513 False 564.5 1070 89.2515 1053 3847 4 chr5B.!!$F5 2794
3 TraesCS5B01G062800 chr5B 71994487 71995251 764 False 307.5 398 90.3040 3237 3847 2 chr5B.!!$F6 610
4 TraesCS5B01G062800 chr5D 60214858 60219496 4638 True 1801.0 2915 97.3390 44 4470 4 chr5D.!!$R5 4426
5 TraesCS5B01G062800 chr5D 60159297 60160245 948 True 1068.0 1068 87.1000 2097 3054 1 chr5D.!!$R2 957
6 TraesCS5B01G062800 chr5D 60182594 60183251 657 True 390.0 617 90.0590 905 1511 2 chr5D.!!$R4 606
7 TraesCS5B01G062800 chr5A 48771059 48772032 973 True 1068.0 1068 86.6130 2477 3451 1 chr5A.!!$R1 974
8 TraesCS5B01G062800 chr6D 348649274 348651243 1969 False 760.0 1002 83.4305 1052 3060 2 chr6D.!!$F2 2008
9 TraesCS5B01G062800 chr1D 355072589 355074568 1979 False 728.0 946 84.5425 1041 3060 2 chr1D.!!$F1 2019
10 TraesCS5B01G062800 chr1A 454516271 454518527 2256 False 723.5 931 84.5015 1041 3060 2 chr1A.!!$F1 2019
11 TraesCS5B01G062800 chr6A 495257397 495258361 964 True 924.0 924 84.1510 2095 3060 1 chr6A.!!$R1 965
12 TraesCS5B01G062800 chr1B 476871999 476874036 2037 False 721.5 920 84.5720 1041 3054 2 chr1B.!!$F2 2013
13 TraesCS5B01G062800 chr6B 531013065 531014028 963 True 852.0 852 82.8220 2095 3060 1 chr6B.!!$R1 965
14 TraesCS5B01G062800 chr7A 111943780 111944465 685 True 311.5 318 85.6470 1052 2406 2 chr7A.!!$R1 1354

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
275 276 0.531532 GACGACCTGGCAGATCCATG 60.532 60.0 17.94 0.00 45.50 3.66 F
1869 2250 0.108662 GCCTGCCCAAAATTTCTCCG 60.109 55.0 0.00 0.00 0.00 4.63 F
3014 6986 0.834687 TGCAGTCTCTAACCCGGGTT 60.835 55.0 39.38 39.38 41.65 4.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2231 6182 0.992263 CACGATATCACGGTCGAGCG 60.992 60.0 33.08 33.08 40.11 5.03 R
3287 9058 0.810031 ATCGTTGCGATACACCTGGC 60.810 55.0 1.93 0.00 45.13 4.85 R
4073 10094 0.034337 TTGCTTCACACTACCCGGAC 59.966 55.0 0.73 0.00 0.00 4.79 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
32 33 9.767684 TGTTAGAAATTGTGAATTATTGCTACG 57.232 29.630 0.00 0.00 0.00 3.51
33 34 9.769093 GTTAGAAATTGTGAATTATTGCTACGT 57.231 29.630 0.00 0.00 0.00 3.57
36 37 9.769093 AGAAATTGTGAATTATTGCTACGTTAC 57.231 29.630 0.00 0.00 0.00 2.50
37 38 8.905103 AAATTGTGAATTATTGCTACGTTACC 57.095 30.769 0.00 0.00 0.00 2.85
38 39 6.425577 TTGTGAATTATTGCTACGTTACCC 57.574 37.500 0.00 0.00 0.00 3.69
39 40 5.489249 TGTGAATTATTGCTACGTTACCCA 58.511 37.500 0.00 0.00 0.00 4.51
40 41 5.938710 TGTGAATTATTGCTACGTTACCCAA 59.061 36.000 0.00 0.00 0.00 4.12
41 42 6.128227 TGTGAATTATTGCTACGTTACCCAAC 60.128 38.462 0.00 0.00 0.00 3.77
42 43 5.938710 TGAATTATTGCTACGTTACCCAACA 59.061 36.000 0.00 0.00 34.05 3.33
65 66 0.907704 AGTACCTCCATTGGACCGCA 60.908 55.000 0.00 0.00 0.00 5.69
116 117 2.973899 CACGTCCACCAGCTAGCT 59.026 61.111 12.68 12.68 0.00 3.32
144 145 1.117150 GACGGGCCTACATAGACCAA 58.883 55.000 0.84 0.00 0.00 3.67
176 177 4.715523 CCCACATCCAACCGCGGT 62.716 66.667 28.70 28.70 0.00 5.68
197 198 2.041762 AGCCTCCCTGCTCCATCA 59.958 61.111 0.00 0.00 36.75 3.07
198 199 1.617536 AGCCTCCCTGCTCCATCAA 60.618 57.895 0.00 0.00 36.75 2.57
199 200 1.153005 GCCTCCCTGCTCCATCAAG 60.153 63.158 0.00 0.00 0.00 3.02
200 201 1.153005 CCTCCCTGCTCCATCAAGC 60.153 63.158 0.00 0.00 42.82 4.01
201 202 1.523258 CTCCCTGCTCCATCAAGCG 60.523 63.158 0.00 0.00 45.54 4.68
202 203 2.515523 CCCTGCTCCATCAAGCGG 60.516 66.667 0.00 0.00 45.54 5.52
203 204 3.207669 CCTGCTCCATCAAGCGGC 61.208 66.667 0.00 0.00 45.54 6.53
204 205 2.437180 CTGCTCCATCAAGCGGCA 60.437 61.111 1.45 0.00 45.54 5.69
205 206 2.033911 TGCTCCATCAAGCGGCAA 59.966 55.556 1.45 0.00 45.54 4.52
206 207 2.262471 CTGCTCCATCAAGCGGCAAC 62.262 60.000 1.45 0.00 45.54 4.17
207 208 3.056313 GCTCCATCAAGCGGCAACC 62.056 63.158 1.45 0.00 31.56 3.77
228 229 4.624364 CACCACCAGCAGCCGACA 62.624 66.667 0.00 0.00 0.00 4.35
229 230 4.320456 ACCACCAGCAGCCGACAG 62.320 66.667 0.00 0.00 0.00 3.51
230 231 4.320456 CCACCAGCAGCCGACAGT 62.320 66.667 0.00 0.00 0.00 3.55
231 232 3.046087 CACCAGCAGCCGACAGTG 61.046 66.667 0.00 0.00 0.00 3.66
232 233 4.996434 ACCAGCAGCCGACAGTGC 62.996 66.667 0.00 0.00 40.17 4.40
242 243 3.948719 GACAGTGCCCCCACCGAA 61.949 66.667 0.00 0.00 43.09 4.30
243 244 3.485346 GACAGTGCCCCCACCGAAA 62.485 63.158 0.00 0.00 43.09 3.46
244 245 2.203422 CAGTGCCCCCACCGAAAA 60.203 61.111 0.00 0.00 43.09 2.29
245 246 2.203437 AGTGCCCCCACCGAAAAC 60.203 61.111 0.00 0.00 43.09 2.43
246 247 2.519780 GTGCCCCCACCGAAAACA 60.520 61.111 0.00 0.00 35.92 2.83
247 248 2.519780 TGCCCCCACCGAAAACAC 60.520 61.111 0.00 0.00 0.00 3.32
248 249 3.299977 GCCCCCACCGAAAACACC 61.300 66.667 0.00 0.00 0.00 4.16
249 250 2.196229 CCCCCACCGAAAACACCA 59.804 61.111 0.00 0.00 0.00 4.17
250 251 1.901464 CCCCCACCGAAAACACCAG 60.901 63.158 0.00 0.00 0.00 4.00
251 252 2.561037 CCCCACCGAAAACACCAGC 61.561 63.158 0.00 0.00 0.00 4.85
252 253 2.561037 CCCACCGAAAACACCAGCC 61.561 63.158 0.00 0.00 0.00 4.85
253 254 1.826054 CCACCGAAAACACCAGCCA 60.826 57.895 0.00 0.00 0.00 4.75
254 255 1.358759 CACCGAAAACACCAGCCAC 59.641 57.895 0.00 0.00 0.00 5.01
255 256 2.184167 ACCGAAAACACCAGCCACG 61.184 57.895 0.00 0.00 0.00 4.94
256 257 2.637025 CGAAAACACCAGCCACGG 59.363 61.111 0.00 0.00 0.00 4.94
257 258 1.890041 CGAAAACACCAGCCACGGA 60.890 57.895 0.00 0.00 0.00 4.69
258 259 1.652563 GAAAACACCAGCCACGGAC 59.347 57.895 0.00 0.00 0.00 4.79
259 260 2.113131 GAAAACACCAGCCACGGACG 62.113 60.000 0.00 0.00 0.00 4.79
260 261 2.596553 AAAACACCAGCCACGGACGA 62.597 55.000 0.00 0.00 0.00 4.20
261 262 3.802418 AACACCAGCCACGGACGAC 62.802 63.158 0.00 0.00 0.00 4.34
264 265 4.742201 CCAGCCACGGACGACCTG 62.742 72.222 1.72 0.00 0.00 4.00
265 266 4.742201 CAGCCACGGACGACCTGG 62.742 72.222 14.63 14.63 37.45 4.45
268 269 4.742201 CCACGGACGACCTGGCAG 62.742 72.222 7.75 7.75 31.52 4.85
269 270 3.680786 CACGGACGACCTGGCAGA 61.681 66.667 17.94 0.00 0.00 4.26
270 271 2.680352 ACGGACGACCTGGCAGAT 60.680 61.111 17.94 0.00 0.00 2.90
271 272 2.105128 CGGACGACCTGGCAGATC 59.895 66.667 17.94 7.65 0.00 2.75
272 273 2.501610 GGACGACCTGGCAGATCC 59.498 66.667 17.94 13.09 0.00 3.36
273 274 2.359169 GGACGACCTGGCAGATCCA 61.359 63.158 17.94 0.00 44.18 3.41
274 275 1.690219 GGACGACCTGGCAGATCCAT 61.690 60.000 17.94 0.00 45.50 3.41
275 276 0.531532 GACGACCTGGCAGATCCATG 60.532 60.000 17.94 0.00 45.50 3.66
276 277 1.890979 CGACCTGGCAGATCCATGC 60.891 63.158 17.94 0.00 45.50 4.06
282 283 2.520260 GCAGATCCATGCACCCCC 60.520 66.667 2.23 0.00 45.77 5.40
376 584 3.536917 CCCTATCGTGCCGCCTCA 61.537 66.667 0.00 0.00 0.00 3.86
405 613 4.241555 GCCGGATCCCACGCATCT 62.242 66.667 5.05 0.00 0.00 2.90
409 617 1.826024 GGATCCCACGCATCTGAGT 59.174 57.895 0.00 0.00 0.00 3.41
431 639 3.202706 GTCGCGAATCAAGGCCCC 61.203 66.667 12.06 0.00 0.00 5.80
491 699 2.927856 TCCCCGACACAGCCATGT 60.928 61.111 0.00 0.00 41.57 3.21
506 714 1.089481 CATGTTGCGGCGTCCTACAT 61.089 55.000 9.37 8.68 0.00 2.29
507 715 1.089481 ATGTTGCGGCGTCCTACATG 61.089 55.000 9.37 0.00 0.00 3.21
602 810 3.423162 GAGATGAGCAGCTCCGCGT 62.423 63.158 20.16 3.24 37.86 6.01
634 842 3.003173 CGGGAGGAGGAAGTGCCA 61.003 66.667 0.00 0.00 40.02 4.92
635 843 2.370445 CGGGAGGAGGAAGTGCCAT 61.370 63.158 0.00 0.00 40.02 4.40
674 882 2.664851 CTTTGCCTGGCGACGTCA 60.665 61.111 17.16 0.59 0.00 4.35
713 921 1.760875 GAGGGCCGGTGGATCTACA 60.761 63.158 11.67 0.00 0.00 2.74
876 1085 4.958158 TCCGTTCCCCGAACCCCA 62.958 66.667 0.00 0.00 39.14 4.96
880 1089 3.943691 TTCCCCGAACCCCACACG 61.944 66.667 0.00 0.00 0.00 4.49
897 1106 0.620556 ACGAGAACCCTACGTCCCTA 59.379 55.000 0.00 0.00 35.33 3.53
1165 1432 1.477553 GTATGTCACCTACGTCCCCA 58.522 55.000 0.00 0.00 0.00 4.96
1191 1458 5.008217 CCTCTACAAGATCTTCGACGAGATT 59.992 44.000 4.57 0.00 36.54 2.40
1372 1639 1.222113 GCCAACCTCCTCACTAGCC 59.778 63.158 0.00 0.00 0.00 3.93
1375 1642 2.359967 AACCTCCTCACTAGCCGCC 61.360 63.158 0.00 0.00 0.00 6.13
1376 1643 3.905678 CCTCCTCACTAGCCGCCG 61.906 72.222 0.00 0.00 0.00 6.46
1414 1681 3.259633 AAGACCTTCGGCAGCAGGG 62.260 63.158 7.52 0.00 34.94 4.45
1450 1717 1.270907 ACTCGCCAACATCTTCTCCT 58.729 50.000 0.00 0.00 0.00 3.69
1869 2250 0.108662 GCCTGCCCAAAATTTCTCCG 60.109 55.000 0.00 0.00 0.00 4.63
1983 2586 7.400599 ACCGTGAAGACACATATCTAGTTTA 57.599 36.000 0.00 0.00 46.20 2.01
2139 6090 5.124036 TCTCTGAAAACAAGGGGAAGAAA 57.876 39.130 0.00 0.00 0.00 2.52
2231 6182 3.489229 GCCAAGTTTGACTTCACCAAGAC 60.489 47.826 0.00 0.00 36.03 3.01
3008 6980 4.569943 TCTCACAATTGCAGTCTCTAACC 58.430 43.478 5.05 0.00 0.00 2.85
3014 6986 0.834687 TGCAGTCTCTAACCCGGGTT 60.835 55.000 39.38 39.38 41.65 4.11
3475 9246 5.163754 GCCATACAATCGGAATTAGGTATGC 60.164 44.000 0.00 0.00 34.00 3.14
3600 9621 9.747293 GTACTAACTTAGATGTCAAATACTCCC 57.253 37.037 2.65 0.00 0.00 4.30
3601 9622 8.611051 ACTAACTTAGATGTCAAATACTCCCT 57.389 34.615 2.65 0.00 0.00 4.20
3602 9623 8.697292 ACTAACTTAGATGTCAAATACTCCCTC 58.303 37.037 2.65 0.00 0.00 4.30
3603 9624 6.487299 ACTTAGATGTCAAATACTCCCTCC 57.513 41.667 0.00 0.00 0.00 4.30
3604 9625 5.069251 ACTTAGATGTCAAATACTCCCTCCG 59.931 44.000 0.00 0.00 0.00 4.63
3605 9626 3.375699 AGATGTCAAATACTCCCTCCGT 58.624 45.455 0.00 0.00 0.00 4.69
3606 9627 3.775316 AGATGTCAAATACTCCCTCCGTT 59.225 43.478 0.00 0.00 0.00 4.44
3607 9628 3.604875 TGTCAAATACTCCCTCCGTTC 57.395 47.619 0.00 0.00 0.00 3.95
3608 9629 2.235402 TGTCAAATACTCCCTCCGTTCC 59.765 50.000 0.00 0.00 0.00 3.62
3609 9630 2.235402 GTCAAATACTCCCTCCGTTCCA 59.765 50.000 0.00 0.00 0.00 3.53
3610 9631 2.907696 TCAAATACTCCCTCCGTTCCAA 59.092 45.455 0.00 0.00 0.00 3.53
3611 9632 3.328343 TCAAATACTCCCTCCGTTCCAAA 59.672 43.478 0.00 0.00 0.00 3.28
3612 9633 4.076394 CAAATACTCCCTCCGTTCCAAAA 58.924 43.478 0.00 0.00 0.00 2.44
3613 9634 4.586306 AATACTCCCTCCGTTCCAAAAT 57.414 40.909 0.00 0.00 0.00 1.82
3614 9635 5.703730 AATACTCCCTCCGTTCCAAAATA 57.296 39.130 0.00 0.00 0.00 1.40
3615 9636 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
3616 9637 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
3617 9638 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
3618 9639 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
3619 9640 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
3620 9641 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
3621 9642 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
3622 9643 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
3623 9644 4.430007 TCCGTTCCAAAATAGATGACTCG 58.570 43.478 0.00 0.00 0.00 4.18
3624 9645 4.158949 TCCGTTCCAAAATAGATGACTCGA 59.841 41.667 0.00 0.00 0.00 4.04
3625 9646 4.267928 CCGTTCCAAAATAGATGACTCGAC 59.732 45.833 0.00 0.00 0.00 4.20
3626 9647 5.103000 CGTTCCAAAATAGATGACTCGACT 58.897 41.667 0.00 0.00 0.00 4.18
3627 9648 5.577164 CGTTCCAAAATAGATGACTCGACTT 59.423 40.000 0.00 0.00 0.00 3.01
3628 9649 6.090898 CGTTCCAAAATAGATGACTCGACTTT 59.909 38.462 0.00 0.00 0.00 2.66
3629 9650 6.968131 TCCAAAATAGATGACTCGACTTTG 57.032 37.500 0.00 0.00 0.00 2.77
3630 9651 6.464222 TCCAAAATAGATGACTCGACTTTGT 58.536 36.000 0.00 0.00 0.00 2.83
3631 9652 7.608153 TCCAAAATAGATGACTCGACTTTGTA 58.392 34.615 0.00 0.00 0.00 2.41
3632 9653 7.544566 TCCAAAATAGATGACTCGACTTTGTAC 59.455 37.037 0.00 0.00 0.00 2.90
3633 9654 7.545965 CCAAAATAGATGACTCGACTTTGTACT 59.454 37.037 0.00 0.00 0.00 2.73
3634 9655 9.569167 CAAAATAGATGACTCGACTTTGTACTA 57.431 33.333 0.00 0.00 0.00 1.82
3636 9657 9.570488 AAATAGATGACTCGACTTTGTACTAAC 57.430 33.333 0.00 0.00 0.00 2.34
3637 9658 6.821031 AGATGACTCGACTTTGTACTAACT 57.179 37.500 0.00 0.00 0.00 2.24
3638 9659 7.216973 AGATGACTCGACTTTGTACTAACTT 57.783 36.000 0.00 0.00 0.00 2.66
3639 9660 7.659186 AGATGACTCGACTTTGTACTAACTTT 58.341 34.615 0.00 0.00 0.00 2.66
3640 9661 8.790718 AGATGACTCGACTTTGTACTAACTTTA 58.209 33.333 0.00 0.00 0.00 1.85
3641 9662 9.403110 GATGACTCGACTTTGTACTAACTTTAA 57.597 33.333 0.00 0.00 0.00 1.52
3642 9663 9.924650 ATGACTCGACTTTGTACTAACTTTAAT 57.075 29.630 0.00 0.00 0.00 1.40
3654 9675 9.850198 TGTACTAACTTTAATACAAAGTTGGGT 57.150 29.630 21.95 19.76 46.38 4.51
3656 9677 8.983702 ACTAACTTTAATACAAAGTTGGGTCA 57.016 30.769 21.95 6.46 46.38 4.02
3657 9678 9.582648 ACTAACTTTAATACAAAGTTGGGTCAT 57.417 29.630 21.95 6.17 46.38 3.06
3659 9680 8.706322 AACTTTAATACAAAGTTGGGTCATCT 57.294 30.769 12.88 0.00 45.58 2.90
3660 9681 9.802039 AACTTTAATACAAAGTTGGGTCATCTA 57.198 29.630 12.88 0.00 45.58 1.98
3661 9682 9.975218 ACTTTAATACAAAGTTGGGTCATCTAT 57.025 29.630 0.00 0.00 37.18 1.98
3666 9687 6.345096 ACAAAGTTGGGTCATCTATTTTGG 57.655 37.500 0.00 0.00 0.00 3.28
3667 9688 6.074648 ACAAAGTTGGGTCATCTATTTTGGA 58.925 36.000 0.00 0.00 0.00 3.53
3668 9689 6.553100 ACAAAGTTGGGTCATCTATTTTGGAA 59.447 34.615 0.00 0.00 0.00 3.53
3669 9690 6.590234 AAGTTGGGTCATCTATTTTGGAAC 57.410 37.500 0.00 0.00 0.00 3.62
3670 9691 5.640147 AGTTGGGTCATCTATTTTGGAACA 58.360 37.500 0.00 0.00 0.00 3.18
3671 9692 5.711976 AGTTGGGTCATCTATTTTGGAACAG 59.288 40.000 0.00 0.00 42.39 3.16
3672 9693 5.512942 TGGGTCATCTATTTTGGAACAGA 57.487 39.130 0.00 0.00 42.39 3.41
3673 9694 5.500234 TGGGTCATCTATTTTGGAACAGAG 58.500 41.667 0.00 0.00 42.39 3.35
3674 9695 4.884164 GGGTCATCTATTTTGGAACAGAGG 59.116 45.833 0.00 0.00 42.39 3.69
3675 9696 4.884164 GGTCATCTATTTTGGAACAGAGGG 59.116 45.833 0.00 0.00 42.39 4.30
3676 9697 5.339200 GGTCATCTATTTTGGAACAGAGGGA 60.339 44.000 0.00 0.00 42.39 4.20
3677 9698 5.819901 GTCATCTATTTTGGAACAGAGGGAG 59.180 44.000 0.00 0.00 42.39 4.30
3678 9699 5.488919 TCATCTATTTTGGAACAGAGGGAGT 59.511 40.000 0.00 0.00 42.39 3.85
4013 10034 5.473931 GACATATCTCCATTATGCACTCGT 58.526 41.667 0.00 0.00 31.54 4.18
4020 10041 5.753438 TCTCCATTATGCACTCGTATGAAAC 59.247 40.000 0.00 0.00 0.00 2.78
4082 10103 0.688487 TTTGGGAACTGTCCGGGTAG 59.312 55.000 0.00 2.53 46.04 3.18
4404 10426 1.468985 CTCTGACCAGTCATCGAGGT 58.531 55.000 0.04 0.00 39.13 3.85
4439 10461 2.749865 CCGCCACATAGTGTTGCCG 61.750 63.158 1.25 0.00 35.83 5.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 9.767684 CGTAGCAATAATTCACAATTTCTAACA 57.232 29.630 0.00 0.00 32.38 2.41
7 8 9.769093 ACGTAGCAATAATTCACAATTTCTAAC 57.231 29.630 0.00 0.00 32.38 2.34
10 11 9.769093 GTAACGTAGCAATAATTCACAATTTCT 57.231 29.630 0.00 0.00 32.38 2.52
11 12 9.006215 GGTAACGTAGCAATAATTCACAATTTC 57.994 33.333 0.00 0.00 32.38 2.17
12 13 7.971722 GGGTAACGTAGCAATAATTCACAATTT 59.028 33.333 0.00 0.00 37.60 1.82
13 14 7.121463 TGGGTAACGTAGCAATAATTCACAATT 59.879 33.333 0.00 0.00 37.60 2.32
14 15 6.600032 TGGGTAACGTAGCAATAATTCACAAT 59.400 34.615 0.00 0.00 37.60 2.71
15 16 5.938710 TGGGTAACGTAGCAATAATTCACAA 59.061 36.000 0.00 0.00 37.60 3.33
16 17 5.489249 TGGGTAACGTAGCAATAATTCACA 58.511 37.500 0.00 0.00 37.60 3.58
17 18 6.128227 TGTTGGGTAACGTAGCAATAATTCAC 60.128 38.462 0.00 0.00 39.71 3.18
18 19 5.938710 TGTTGGGTAACGTAGCAATAATTCA 59.061 36.000 0.00 0.00 39.71 2.57
19 20 6.425577 TGTTGGGTAACGTAGCAATAATTC 57.574 37.500 0.00 0.00 39.71 2.17
20 21 6.349528 GGTTGTTGGGTAACGTAGCAATAATT 60.350 38.462 0.00 0.00 39.71 1.40
21 22 5.124297 GGTTGTTGGGTAACGTAGCAATAAT 59.876 40.000 0.00 0.00 39.71 1.28
22 23 4.455190 GGTTGTTGGGTAACGTAGCAATAA 59.545 41.667 0.00 0.00 39.71 1.40
23 24 4.002316 GGTTGTTGGGTAACGTAGCAATA 58.998 43.478 0.00 0.00 39.71 1.90
24 25 2.815503 GGTTGTTGGGTAACGTAGCAAT 59.184 45.455 0.00 0.00 39.71 3.56
25 26 2.220313 GGTTGTTGGGTAACGTAGCAA 58.780 47.619 0.00 0.00 39.71 3.91
26 27 1.140452 TGGTTGTTGGGTAACGTAGCA 59.860 47.619 0.00 0.00 39.71 3.49
27 28 1.802365 CTGGTTGTTGGGTAACGTAGC 59.198 52.381 0.00 0.00 39.71 3.58
28 29 3.116079 ACTGGTTGTTGGGTAACGTAG 57.884 47.619 0.00 0.00 39.71 3.51
29 30 3.244044 GGTACTGGTTGTTGGGTAACGTA 60.244 47.826 0.00 0.00 39.71 3.57
30 31 2.485302 GGTACTGGTTGTTGGGTAACGT 60.485 50.000 0.00 0.00 39.71 3.99
31 32 2.145536 GGTACTGGTTGTTGGGTAACG 58.854 52.381 0.00 0.00 39.71 3.18
32 33 3.405831 GAGGTACTGGTTGTTGGGTAAC 58.594 50.000 0.00 0.00 41.55 2.50
33 34 2.372837 GGAGGTACTGGTTGTTGGGTAA 59.627 50.000 0.00 0.00 41.55 2.85
34 35 1.980036 GGAGGTACTGGTTGTTGGGTA 59.020 52.381 0.00 0.00 41.55 3.69
35 36 0.769247 GGAGGTACTGGTTGTTGGGT 59.231 55.000 0.00 0.00 41.55 4.51
36 37 0.768622 TGGAGGTACTGGTTGTTGGG 59.231 55.000 0.00 0.00 41.55 4.12
37 38 2.819608 CAATGGAGGTACTGGTTGTTGG 59.180 50.000 0.00 0.00 41.55 3.77
38 39 2.819608 CCAATGGAGGTACTGGTTGTTG 59.180 50.000 0.00 0.00 41.55 3.33
39 40 2.714250 TCCAATGGAGGTACTGGTTGTT 59.286 45.455 0.00 0.00 41.55 2.83
40 41 2.039879 GTCCAATGGAGGTACTGGTTGT 59.960 50.000 0.27 0.00 41.55 3.32
41 42 2.618045 GGTCCAATGGAGGTACTGGTTG 60.618 54.545 0.27 0.00 41.55 3.77
42 43 1.633945 GGTCCAATGGAGGTACTGGTT 59.366 52.381 0.27 0.00 41.55 3.67
65 66 3.460672 CTCGCTGTGTGGTGGGTGT 62.461 63.158 0.00 0.00 0.00 4.16
93 94 2.260869 GCTGGTGGACGTGCACAAT 61.261 57.895 35.92 3.58 0.00 2.71
144 145 1.852157 TGGGGTGCAGGACCTGATT 60.852 57.895 26.25 0.00 45.33 2.57
186 187 3.207669 GCCGCTTGATGGAGCAGG 61.208 66.667 0.00 1.42 42.83 4.85
187 188 2.042259 TTGCCGCTTGATGGAGCAG 61.042 57.895 0.00 0.00 42.83 4.24
188 189 2.033911 TTGCCGCTTGATGGAGCA 59.966 55.556 0.00 0.00 42.83 4.26
189 190 2.486966 GTTGCCGCTTGATGGAGC 59.513 61.111 0.00 0.00 39.29 4.70
190 191 2.753966 CGGTTGCCGCTTGATGGAG 61.754 63.158 0.00 0.00 41.17 3.86
191 192 2.745884 CGGTTGCCGCTTGATGGA 60.746 61.111 0.00 0.00 41.17 3.41
192 193 3.814268 CCGGTTGCCGCTTGATGG 61.814 66.667 1.51 0.00 46.86 3.51
193 194 3.814268 CCCGGTTGCCGCTTGATG 61.814 66.667 0.00 0.00 46.86 3.07
211 212 4.624364 TGTCGGCTGCTGGTGGTG 62.624 66.667 8.89 0.00 0.00 4.17
212 213 4.320456 CTGTCGGCTGCTGGTGGT 62.320 66.667 8.89 0.00 0.00 4.16
213 214 4.320456 ACTGTCGGCTGCTGGTGG 62.320 66.667 8.89 1.65 0.00 4.61
214 215 3.046087 CACTGTCGGCTGCTGGTG 61.046 66.667 8.89 5.34 0.00 4.17
215 216 4.996434 GCACTGTCGGCTGCTGGT 62.996 66.667 8.89 0.00 0.00 4.00
225 226 2.969300 TTTTCGGTGGGGGCACTGTC 62.969 60.000 0.00 0.00 33.40 3.51
226 227 3.063197 TTTTCGGTGGGGGCACTGT 62.063 57.895 0.00 0.00 33.40 3.55
227 228 2.203422 TTTTCGGTGGGGGCACTG 60.203 61.111 0.00 0.00 0.00 3.66
228 229 2.203437 GTTTTCGGTGGGGGCACT 60.203 61.111 0.00 0.00 0.00 4.40
229 230 2.519780 TGTTTTCGGTGGGGGCAC 60.520 61.111 0.00 0.00 0.00 5.01
230 231 2.519780 GTGTTTTCGGTGGGGGCA 60.520 61.111 0.00 0.00 0.00 5.36
231 232 3.299977 GGTGTTTTCGGTGGGGGC 61.300 66.667 0.00 0.00 0.00 5.80
232 233 1.901464 CTGGTGTTTTCGGTGGGGG 60.901 63.158 0.00 0.00 0.00 5.40
233 234 2.561037 GCTGGTGTTTTCGGTGGGG 61.561 63.158 0.00 0.00 0.00 4.96
234 235 2.561037 GGCTGGTGTTTTCGGTGGG 61.561 63.158 0.00 0.00 0.00 4.61
235 236 1.826054 TGGCTGGTGTTTTCGGTGG 60.826 57.895 0.00 0.00 0.00 4.61
236 237 1.358759 GTGGCTGGTGTTTTCGGTG 59.641 57.895 0.00 0.00 0.00 4.94
237 238 2.184167 CGTGGCTGGTGTTTTCGGT 61.184 57.895 0.00 0.00 0.00 4.69
238 239 2.637025 CGTGGCTGGTGTTTTCGG 59.363 61.111 0.00 0.00 0.00 4.30
239 240 1.890041 TCCGTGGCTGGTGTTTTCG 60.890 57.895 0.00 0.00 0.00 3.46
240 241 1.652563 GTCCGTGGCTGGTGTTTTC 59.347 57.895 0.00 0.00 0.00 2.29
241 242 2.184167 CGTCCGTGGCTGGTGTTTT 61.184 57.895 0.00 0.00 0.00 2.43
242 243 2.590575 CGTCCGTGGCTGGTGTTT 60.591 61.111 0.00 0.00 0.00 2.83
243 244 3.542676 TCGTCCGTGGCTGGTGTT 61.543 61.111 0.00 0.00 0.00 3.32
244 245 4.295119 GTCGTCCGTGGCTGGTGT 62.295 66.667 0.00 0.00 0.00 4.16
247 248 4.742201 CAGGTCGTCCGTGGCTGG 62.742 72.222 0.00 0.00 39.05 4.85
248 249 4.742201 CCAGGTCGTCCGTGGCTG 62.742 72.222 4.77 0.00 39.05 4.85
251 252 4.742201 CTGCCAGGTCGTCCGTGG 62.742 72.222 11.04 11.04 39.05 4.94
252 253 2.890847 GATCTGCCAGGTCGTCCGTG 62.891 65.000 0.00 0.00 39.05 4.94
253 254 2.680352 ATCTGCCAGGTCGTCCGT 60.680 61.111 0.00 0.00 39.05 4.69
254 255 2.105128 GATCTGCCAGGTCGTCCG 59.895 66.667 0.00 0.00 39.05 4.79
255 256 2.359169 TGGATCTGCCAGGTCGTCC 61.359 63.158 0.00 0.00 43.33 4.79
256 257 3.298958 TGGATCTGCCAGGTCGTC 58.701 61.111 0.00 0.00 43.33 4.20
264 265 2.520260 GGGGTGCATGGATCTGCC 60.520 66.667 0.00 0.00 41.58 4.85
265 266 2.520260 GGGGGTGCATGGATCTGC 60.520 66.667 0.00 0.09 42.62 4.26
288 289 2.895372 GGAGTACCCAATGCGCGG 60.895 66.667 8.83 0.00 34.14 6.46
376 584 3.438615 ATCCGGCGCTAGAGGGAGT 62.439 63.158 7.64 0.00 30.92 3.85
405 613 0.039888 TGATTCGCGACGACAACTCA 60.040 50.000 9.15 0.44 34.89 3.41
409 617 1.623081 GCCTTGATTCGCGACGACAA 61.623 55.000 9.15 14.37 34.89 3.18
491 699 1.739929 CACATGTAGGACGCCGCAA 60.740 57.895 0.00 0.00 0.00 4.85
506 714 3.385384 CGAGAGCAGGGAGGCACA 61.385 66.667 0.00 0.00 35.83 4.57
507 715 2.650116 TTCGAGAGCAGGGAGGCAC 61.650 63.158 0.00 0.00 35.83 5.01
602 810 1.600636 CCCGTTTGAGCTCCAGCAA 60.601 57.895 12.15 0.00 45.16 3.91
682 890 4.214327 CCCTCTTCCTCTCGCCGC 62.214 72.222 0.00 0.00 0.00 6.53
685 893 4.214327 CGGCCCTCTTCCTCTCGC 62.214 72.222 0.00 0.00 0.00 5.03
690 898 3.642741 ATCCACCGGCCCTCTTCCT 62.643 63.158 0.00 0.00 0.00 3.36
713 921 2.502692 GAAACCTAGCCGCCGTCAGT 62.503 60.000 0.00 0.00 0.00 3.41
764 973 0.249447 TGTTGGTGTCACGAGAGCTG 60.249 55.000 0.00 0.00 0.00 4.24
876 1085 1.246737 GGGACGTAGGGTTCTCGTGT 61.247 60.000 0.00 0.00 37.92 4.49
880 1089 1.397672 GGTAGGGACGTAGGGTTCTC 58.602 60.000 0.00 0.00 0.00 2.87
897 1106 5.511716 GGTTCGAAATTTAAATGTTGGGGGT 60.512 40.000 0.00 0.00 0.00 4.95
1165 1432 2.356382 CGTCGAAGATCTTGTAGAGGCT 59.644 50.000 14.00 0.00 40.67 4.58
1372 1639 2.798501 CGTTGTCATGGTAGCGGCG 61.799 63.158 0.51 0.51 0.00 6.46
1375 1642 1.742900 CGCTCGTTGTCATGGTAGCG 61.743 60.000 0.00 0.00 45.48 4.26
1376 1643 1.421410 CCGCTCGTTGTCATGGTAGC 61.421 60.000 0.00 0.00 0.00 3.58
1869 2250 2.918712 ATGTAGCCAGGTCATACAGC 57.081 50.000 7.22 0.00 33.24 4.40
1983 2586 6.716628 AGATATGTGTGGTCATGTCAGTTTTT 59.283 34.615 0.00 0.00 38.04 1.94
2129 6080 1.563410 CAGGCTCTGATTTCTTCCCCT 59.437 52.381 0.00 0.00 32.44 4.79
2139 6090 6.373774 CACACTTTTTAATCTCAGGCTCTGAT 59.626 38.462 5.50 0.00 39.92 2.90
2231 6182 0.992263 CACGATATCACGGTCGAGCG 60.992 60.000 33.08 33.08 40.11 5.03
3287 9058 0.810031 ATCGTTGCGATACACCTGGC 60.810 55.000 1.93 0.00 45.13 4.85
3475 9246 9.702726 CACAATTCTTGGTACATAACGATAAAG 57.297 33.333 0.00 0.00 39.30 1.85
3595 9616 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
3596 9617 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
3597 9618 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
3598 9619 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
3599 9620 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
3600 9621 4.504461 CGAGTCATCTATTTTGGAACGGAG 59.496 45.833 0.00 0.00 0.00 4.63
3601 9622 4.158949 TCGAGTCATCTATTTTGGAACGGA 59.841 41.667 0.00 0.00 0.00 4.69
3602 9623 4.267928 GTCGAGTCATCTATTTTGGAACGG 59.732 45.833 0.00 0.00 0.00 4.44
3603 9624 5.103000 AGTCGAGTCATCTATTTTGGAACG 58.897 41.667 0.00 0.00 0.00 3.95
3604 9625 6.969828 AAGTCGAGTCATCTATTTTGGAAC 57.030 37.500 0.00 0.00 0.00 3.62
3605 9626 6.934645 ACAAAGTCGAGTCATCTATTTTGGAA 59.065 34.615 0.00 0.00 0.00 3.53
3606 9627 6.464222 ACAAAGTCGAGTCATCTATTTTGGA 58.536 36.000 0.00 0.00 0.00 3.53
3607 9628 6.727824 ACAAAGTCGAGTCATCTATTTTGG 57.272 37.500 0.00 0.00 0.00 3.28
3608 9629 8.467402 AGTACAAAGTCGAGTCATCTATTTTG 57.533 34.615 0.00 0.00 0.00 2.44
3610 9631 9.570488 GTTAGTACAAAGTCGAGTCATCTATTT 57.430 33.333 0.00 0.00 0.00 1.40
3611 9632 8.958506 AGTTAGTACAAAGTCGAGTCATCTATT 58.041 33.333 0.00 0.00 0.00 1.73
3612 9633 8.508883 AGTTAGTACAAAGTCGAGTCATCTAT 57.491 34.615 0.00 0.00 0.00 1.98
3613 9634 7.918536 AGTTAGTACAAAGTCGAGTCATCTA 57.081 36.000 0.00 0.00 0.00 1.98
3614 9635 6.821031 AGTTAGTACAAAGTCGAGTCATCT 57.179 37.500 0.00 0.00 0.00 2.90
3615 9636 7.870588 AAAGTTAGTACAAAGTCGAGTCATC 57.129 36.000 0.00 0.00 0.00 2.92
3616 9637 9.924650 ATTAAAGTTAGTACAAAGTCGAGTCAT 57.075 29.630 0.00 0.00 0.00 3.06
3628 9649 9.850198 ACCCAACTTTGTATTAAAGTTAGTACA 57.150 29.630 15.03 3.15 45.57 2.90
3631 9652 8.983702 TGACCCAACTTTGTATTAAAGTTAGT 57.016 30.769 15.03 14.80 45.57 2.24
3633 9654 9.802039 AGATGACCCAACTTTGTATTAAAGTTA 57.198 29.630 15.03 3.25 45.57 2.24
3635 9656 9.975218 ATAGATGACCCAACTTTGTATTAAAGT 57.025 29.630 0.00 0.00 41.82 2.66
3640 9661 8.531146 CCAAAATAGATGACCCAACTTTGTATT 58.469 33.333 0.00 0.00 0.00 1.89
3641 9662 7.893302 TCCAAAATAGATGACCCAACTTTGTAT 59.107 33.333 0.00 0.00 0.00 2.29
3642 9663 7.235079 TCCAAAATAGATGACCCAACTTTGTA 58.765 34.615 0.00 0.00 0.00 2.41
3643 9664 6.074648 TCCAAAATAGATGACCCAACTTTGT 58.925 36.000 0.00 0.00 0.00 2.83
3644 9665 6.588719 TCCAAAATAGATGACCCAACTTTG 57.411 37.500 0.00 0.00 0.00 2.77
3645 9666 6.553100 TGTTCCAAAATAGATGACCCAACTTT 59.447 34.615 0.00 0.00 0.00 2.66
3646 9667 6.074648 TGTTCCAAAATAGATGACCCAACTT 58.925 36.000 0.00 0.00 0.00 2.66
3647 9668 5.640147 TGTTCCAAAATAGATGACCCAACT 58.360 37.500 0.00 0.00 0.00 3.16
3648 9669 5.710099 TCTGTTCCAAAATAGATGACCCAAC 59.290 40.000 0.00 0.00 28.72 3.77
3649 9670 5.886609 TCTGTTCCAAAATAGATGACCCAA 58.113 37.500 0.00 0.00 28.72 4.12
3650 9671 5.500234 CTCTGTTCCAAAATAGATGACCCA 58.500 41.667 0.00 0.00 32.88 4.51
3651 9672 4.884164 CCTCTGTTCCAAAATAGATGACCC 59.116 45.833 0.00 0.00 32.88 4.46
3652 9673 4.884164 CCCTCTGTTCCAAAATAGATGACC 59.116 45.833 0.00 0.00 32.88 4.02
3653 9674 5.745227 TCCCTCTGTTCCAAAATAGATGAC 58.255 41.667 0.00 0.00 32.88 3.06
3654 9675 5.488919 ACTCCCTCTGTTCCAAAATAGATGA 59.511 40.000 0.00 0.00 32.88 2.92
3655 9676 5.749462 ACTCCCTCTGTTCCAAAATAGATG 58.251 41.667 0.00 0.00 32.88 2.90
3656 9677 7.570607 AGATACTCCCTCTGTTCCAAAATAGAT 59.429 37.037 0.00 0.00 32.88 1.98
3657 9678 6.903534 AGATACTCCCTCTGTTCCAAAATAGA 59.096 38.462 0.00 0.00 32.42 1.98
3658 9679 7.130681 AGATACTCCCTCTGTTCCAAAATAG 57.869 40.000 0.00 0.00 0.00 1.73
3659 9680 8.798975 ATAGATACTCCCTCTGTTCCAAAATA 57.201 34.615 0.00 0.00 0.00 1.40
3660 9681 7.698163 ATAGATACTCCCTCTGTTCCAAAAT 57.302 36.000 0.00 0.00 0.00 1.82
3661 9682 7.510675 AATAGATACTCCCTCTGTTCCAAAA 57.489 36.000 0.00 0.00 0.00 2.44
3662 9683 7.510675 AAATAGATACTCCCTCTGTTCCAAA 57.489 36.000 0.00 0.00 0.00 3.28
3663 9684 7.182026 TCAAAATAGATACTCCCTCTGTTCCAA 59.818 37.037 0.00 0.00 0.00 3.53
3664 9685 6.672218 TCAAAATAGATACTCCCTCTGTTCCA 59.328 38.462 0.00 0.00 0.00 3.53
3665 9686 7.125792 TCAAAATAGATACTCCCTCTGTTCC 57.874 40.000 0.00 0.00 0.00 3.62
3666 9687 9.103861 CTTTCAAAATAGATACTCCCTCTGTTC 57.896 37.037 0.00 0.00 0.00 3.18
3667 9688 8.606830 ACTTTCAAAATAGATACTCCCTCTGTT 58.393 33.333 0.00 0.00 0.00 3.16
3668 9689 8.152023 ACTTTCAAAATAGATACTCCCTCTGT 57.848 34.615 0.00 0.00 0.00 3.41
3678 9699 9.120538 GCCACCAAGATACTTTCAAAATAGATA 57.879 33.333 0.00 0.00 0.00 1.98
4073 10094 0.034337 TTGCTTCACACTACCCGGAC 59.966 55.000 0.73 0.00 0.00 4.79
4082 10103 6.864342 TCCTATACTAAGAGTTGCTTCACAC 58.136 40.000 0.00 0.00 38.05 3.82
4215 10236 2.002586 CACACCTTTGCAGAGATACCG 58.997 52.381 5.68 0.00 0.00 4.02
4404 10426 2.750712 GGCGGATACAAGTTAAAAGCCA 59.249 45.455 0.00 0.00 41.46 4.75
4439 10461 7.519008 GCCACACAGTCAATTAGCTAACATATC 60.519 40.741 8.70 0.00 0.00 1.63


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

AutoCloner maintained by Alex Coulton.