Multiple sequence alignment - TraesCS2A01G023000

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 TraesCS2A01G023000 chr2A 100.000 4428 0 0 1 4428 11214312 11218739 0.000000e+00 8178.0
1 TraesCS2A01G023000 chr2A 96.595 2496 80 5 1936 4428 11188822 11191315 0.000000e+00 4133.0
2 TraesCS2A01G023000 chr2A 94.974 975 47 2 920 1893 11140831 11141804 0.000000e+00 1528.0
3 TraesCS2A01G023000 chr2A 93.498 446 20 5 447 886 11140293 11140735 0.000000e+00 654.0
4 TraesCS2A01G023000 chr2A 82.109 531 83 7 984 1507 10911065 10911590 1.130000e-120 444.0
5 TraesCS2A01G023000 chr2A 80.000 120 13 9 439 548 104445129 104445011 1.320000e-10 78.7
6 TraesCS2A01G023000 chr2A 100.000 38 0 0 886 923 11140778 11140815 2.210000e-08 71.3
7 TraesCS2A01G023000 chr2B 92.574 2855 184 21 920 3753 15821100 15823947 0.000000e+00 4072.0
8 TraesCS2A01G023000 chr2B 92.507 2856 183 24 920 3753 15697793 15700639 0.000000e+00 4060.0
9 TraesCS2A01G023000 chr2B 92.712 2511 167 14 920 3419 15759916 15762421 0.000000e+00 3609.0
10 TraesCS2A01G023000 chr2B 91.323 1913 119 26 1849 3753 15683214 15685087 0.000000e+00 2569.0
11 TraesCS2A01G023000 chr2B 91.175 1915 120 29 1849 3753 15745465 15747340 0.000000e+00 2555.0
12 TraesCS2A01G023000 chr2B 92.032 1619 87 22 1849 3464 15905575 15907154 0.000000e+00 2237.0
13 TraesCS2A01G023000 chr2B 93.017 1475 96 4 2285 3753 15807636 15809109 0.000000e+00 2146.0
14 TraesCS2A01G023000 chr2B 91.086 1335 102 15 920 2243 15762652 15763980 0.000000e+00 1790.0
15 TraesCS2A01G023000 chr2B 90.658 942 78 5 920 1857 15681629 15682564 0.000000e+00 1243.0
16 TraesCS2A01G023000 chr2B 90.340 942 81 6 920 1857 15805650 15806585 0.000000e+00 1227.0
17 TraesCS2A01G023000 chr2B 90.340 942 81 6 920 1857 15903990 15904925 0.000000e+00 1227.0
18 TraesCS2A01G023000 chr2B 93.870 522 23 6 374 886 15681012 15681533 0.000000e+00 778.0
19 TraesCS2A01G023000 chr2B 93.870 522 23 6 374 886 15743263 15743784 0.000000e+00 778.0
20 TraesCS2A01G023000 chr2B 93.678 522 24 6 374 886 15805034 15805555 0.000000e+00 773.0
21 TraesCS2A01G023000 chr2B 93.487 522 25 6 374 886 15903374 15903895 0.000000e+00 767.0
22 TraesCS2A01G023000 chr2B 87.195 492 60 3 3938 4428 748500034 748499545 1.390000e-154 556.0
23 TraesCS2A01G023000 chr2B 87.318 481 56 5 3942 4419 195988316 195988794 3.010000e-151 545.0
24 TraesCS2A01G023000 chr2B 89.583 288 20 8 604 885 15697413 15697696 1.510000e-94 357.0
25 TraesCS2A01G023000 chr2B 89.583 288 20 8 604 885 15820720 15821003 1.510000e-94 357.0
26 TraesCS2A01G023000 chr2B 89.236 288 21 8 604 885 15759536 15759819 7.050000e-93 351.0
27 TraesCS2A01G023000 chr2B 97.849 93 2 0 931 1023 15920206 15920298 1.270000e-35 161.0
28 TraesCS2A01G023000 chr2B 100.000 38 0 0 886 923 15697740 15697777 2.210000e-08 71.3
29 TraesCS2A01G023000 chr2B 100.000 38 0 0 886 923 15759863 15759900 2.210000e-08 71.3
30 TraesCS2A01G023000 chr2B 100.000 38 0 0 886 923 15762599 15762636 2.210000e-08 71.3
31 TraesCS2A01G023000 chr2B 100.000 38 0 0 886 923 15821047 15821084 2.210000e-08 71.3
32 TraesCS2A01G023000 chr2B 100.000 36 0 0 886 921 15681576 15681611 2.860000e-07 67.6
33 TraesCS2A01G023000 chr2B 87.500 56 6 1 180 235 759989498 759989552 3.700000e-06 63.9
34 TraesCS2A01G023000 chrUn 91.785 1619 91 22 1849 3464 255037785 255036206 0.000000e+00 2215.0
35 TraesCS2A01G023000 chrUn 90.340 942 81 6 920 1857 354973540 354972605 0.000000e+00 1227.0
36 TraesCS2A01G023000 chrUn 93.306 493 24 6 403 886 354974127 354973635 0.000000e+00 719.0
37 TraesCS2A01G023000 chrUn 90.087 343 22 9 3421 3753 439973634 439973974 6.800000e-118 435.0
38 TraesCS2A01G023000 chr3D 87.730 489 57 3 3942 4428 309797299 309797786 6.430000e-158 568.0
39 TraesCS2A01G023000 chr3D 100.000 31 0 0 204 234 354271626 354271656 1.720000e-04 58.4
40 TraesCS2A01G023000 chr2D 87.347 490 58 4 3942 4428 272990131 272990619 3.870000e-155 558.0
41 TraesCS2A01G023000 chr2D 86.957 483 59 3 3940 4419 515109508 515109027 1.400000e-149 540.0
42 TraesCS2A01G023000 chr2D 82.115 520 79 9 996 1507 10660461 10660974 2.450000e-117 433.0
43 TraesCS2A01G023000 chr5D 87.195 492 57 5 3942 4428 216391789 216392279 5.000000e-154 555.0
44 TraesCS2A01G023000 chr1B 87.449 486 54 6 3945 4428 357374106 357373626 1.800000e-153 553.0
45 TraesCS2A01G023000 chr4B 86.842 494 58 6 3940 4428 58239200 58238709 3.010000e-151 545.0
46 TraesCS2A01G023000 chr3A 88.095 84 9 1 436 518 149923889 149923806 1.010000e-16 99.0
47 TraesCS2A01G023000 chr3A 80.198 101 5 10 136 234 472903009 472903096 1.330000e-05 62.1
48 TraesCS2A01G023000 chr3B 82.727 110 13 6 438 543 599081148 599081255 4.720000e-15 93.5
49 TraesCS2A01G023000 chr7D 83.929 56 8 1 179 234 33422913 33422967 8.000000e-03 52.8


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 TraesCS2A01G023000 chr2A 11214312 11218739 4427 False 8178.000000 8178 100.000000 1 4428 1 chr2A.!!$F3 4427
1 TraesCS2A01G023000 chr2A 11188822 11191315 2493 False 4133.000000 4133 96.595000 1936 4428 1 chr2A.!!$F2 2492
2 TraesCS2A01G023000 chr2A 11140293 11141804 1511 False 751.100000 1528 96.157333 447 1893 3 chr2A.!!$F4 1446
3 TraesCS2A01G023000 chr2A 10911065 10911590 525 False 444.000000 444 82.109000 984 1507 1 chr2A.!!$F1 523
4 TraesCS2A01G023000 chr2B 15743263 15747340 4077 False 1666.500000 2555 92.522500 374 3753 2 chr2B.!!$F6 3379
5 TraesCS2A01G023000 chr2B 15820720 15823947 3227 False 1500.100000 4072 94.052333 604 3753 3 chr2B.!!$F9 3149
6 TraesCS2A01G023000 chr2B 15697413 15700639 3226 False 1496.100000 4060 94.030000 604 3753 3 chr2B.!!$F5 3149
7 TraesCS2A01G023000 chr2B 15903374 15907154 3780 False 1410.333333 2237 91.953000 374 3464 3 chr2B.!!$F10 3090
8 TraesCS2A01G023000 chr2B 15805034 15809109 4075 False 1382.000000 2146 92.345000 374 3753 3 chr2B.!!$F8 3379
9 TraesCS2A01G023000 chr2B 15759536 15763980 4444 False 1178.520000 3609 94.606800 604 3419 5 chr2B.!!$F7 2815
10 TraesCS2A01G023000 chr2B 15681012 15685087 4075 False 1164.400000 2569 93.962750 374 3753 4 chr2B.!!$F4 3379
11 TraesCS2A01G023000 chrUn 255036206 255037785 1579 True 2215.000000 2215 91.785000 1849 3464 1 chrUn.!!$R1 1615
12 TraesCS2A01G023000 chrUn 354972605 354974127 1522 True 973.000000 1227 91.823000 403 1857 2 chrUn.!!$R2 1454
13 TraesCS2A01G023000 chr2D 10660461 10660974 513 False 433.000000 433 82.115000 996 1507 1 chr2D.!!$F1 511

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
929 1006 0.537188 AACCGATCGAGCTGGTTCAT 59.463 50.000 18.66 3.62 42.11 2.57 F
1242 1323 1.137872 GTGATGCTTCTCCATCTCGGT 59.862 52.381 0.88 0.00 41.65 4.69 F
2321 3084 0.682209 AGCATGGTGATTGCCAGGAC 60.682 55.000 0.00 0.00 42.37 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2298 3061 0.251253 TGGCAATCACCATGCTCACA 60.251 50.0 0.00 0.00 43.34 3.58 R
3046 3809 1.028330 ACCCATCAATGCTGCAGTCG 61.028 55.0 16.64 1.48 0.00 4.18 R
4120 5941 0.381801 CACCAACACTTGTGCCTGTC 59.618 55.0 0.10 0.00 0.00 3.51 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 9.487790 TCAAAACCATTAATTCATTGTTTCCTC 57.512 29.630 3.16 0.00 0.00 3.71
33 34 8.720562 CAAAACCATTAATTCATTGTTTCCTCC 58.279 33.333 3.16 0.00 0.00 4.30
34 35 6.207691 ACCATTAATTCATTGTTTCCTCCG 57.792 37.500 0.00 0.00 0.00 4.63
35 36 5.949354 ACCATTAATTCATTGTTTCCTCCGA 59.051 36.000 0.00 0.00 0.00 4.55
36 37 6.435904 ACCATTAATTCATTGTTTCCTCCGAA 59.564 34.615 0.00 0.00 0.00 4.30
37 38 7.039363 ACCATTAATTCATTGTTTCCTCCGAAA 60.039 33.333 0.00 0.00 35.59 3.46
38 39 7.816995 CCATTAATTCATTGTTTCCTCCGAAAA 59.183 33.333 0.00 0.00 39.66 2.29
39 40 9.369904 CATTAATTCATTGTTTCCTCCGAAAAT 57.630 29.630 0.00 0.00 39.66 1.82
40 41 8.755696 TTAATTCATTGTTTCCTCCGAAAATG 57.244 30.769 0.00 0.00 39.66 2.32
41 42 5.782893 TTCATTGTTTCCTCCGAAAATGT 57.217 34.783 0.00 0.00 39.66 2.71
42 43 5.371115 TCATTGTTTCCTCCGAAAATGTC 57.629 39.130 0.00 0.00 39.66 3.06
43 44 4.824537 TCATTGTTTCCTCCGAAAATGTCA 59.175 37.500 0.00 0.00 39.66 3.58
44 45 5.476599 TCATTGTTTCCTCCGAAAATGTCAT 59.523 36.000 0.00 0.00 39.66 3.06
45 46 5.782893 TTGTTTCCTCCGAAAATGTCATT 57.217 34.783 0.00 0.00 39.66 2.57
46 47 5.782893 TGTTTCCTCCGAAAATGTCATTT 57.217 34.783 4.91 4.91 39.66 2.32
47 48 6.155475 TGTTTCCTCCGAAAATGTCATTTT 57.845 33.333 20.90 20.90 44.56 1.82
48 49 6.578023 TGTTTCCTCCGAAAATGTCATTTTT 58.422 32.000 21.51 8.39 42.15 1.94
74 75 9.443323 TTGTGTGTAAGTATACATGCAATAACT 57.557 29.630 5.50 0.00 43.60 2.24
86 87 9.955208 ATACATGCAATAACTATTCAACATGTG 57.045 29.630 20.08 0.00 39.49 3.21
87 88 7.829725 ACATGCAATAACTATTCAACATGTGT 58.170 30.769 0.00 0.00 38.70 3.72
88 89 7.756272 ACATGCAATAACTATTCAACATGTGTG 59.244 33.333 0.00 0.09 38.70 3.82
89 90 7.213216 TGCAATAACTATTCAACATGTGTGT 57.787 32.000 0.00 0.00 41.28 3.72
90 91 8.329203 TGCAATAACTATTCAACATGTGTGTA 57.671 30.769 0.00 0.00 37.67 2.90
91 92 8.787852 TGCAATAACTATTCAACATGTGTGTAA 58.212 29.630 0.00 0.00 37.67 2.41
92 93 9.619316 GCAATAACTATTCAACATGTGTGTAAA 57.381 29.630 0.00 0.00 37.67 2.01
130 131 9.830975 TGCAATACATACACTATTACATGTTCT 57.169 29.630 2.30 0.00 33.78 3.01
171 172 8.614994 ACAAAAGACGAAATTTTAGTGTGAAG 57.385 30.769 0.00 0.00 0.00 3.02
172 173 8.241367 ACAAAAGACGAAATTTTAGTGTGAAGT 58.759 29.630 0.00 0.00 0.00 3.01
173 174 9.072294 CAAAAGACGAAATTTTAGTGTGAAGTT 57.928 29.630 0.00 0.00 0.00 2.66
174 175 8.614994 AAAGACGAAATTTTAGTGTGAAGTTG 57.385 30.769 0.00 0.00 0.00 3.16
175 176 7.316544 AGACGAAATTTTAGTGTGAAGTTGT 57.683 32.000 0.00 0.00 0.00 3.32
176 177 7.186804 AGACGAAATTTTAGTGTGAAGTTGTG 58.813 34.615 0.00 0.00 0.00 3.33
177 178 6.848451 ACGAAATTTTAGTGTGAAGTTGTGT 58.152 32.000 0.00 0.00 0.00 3.72
178 179 7.309920 ACGAAATTTTAGTGTGAAGTTGTGTT 58.690 30.769 0.00 0.00 0.00 3.32
179 180 7.810759 ACGAAATTTTAGTGTGAAGTTGTGTTT 59.189 29.630 0.00 0.00 0.00 2.83
180 181 8.643752 CGAAATTTTAGTGTGAAGTTGTGTTTT 58.356 29.630 0.00 0.00 0.00 2.43
218 219 9.470399 TTTCTTTTTAGAGGGTAATACCAATCC 57.530 33.333 12.03 0.00 41.02 3.01
219 220 7.580007 TCTTTTTAGAGGGTAATACCAATCCC 58.420 38.462 12.03 0.00 41.02 3.85
220 221 6.911993 TTTTAGAGGGTAATACCAATCCCA 57.088 37.500 12.03 0.00 41.02 4.37
221 222 5.899631 TTAGAGGGTAATACCAATCCCAC 57.100 43.478 12.03 0.00 41.02 4.61
222 223 4.022359 AGAGGGTAATACCAATCCCACT 57.978 45.455 12.03 0.00 41.02 4.00
223 224 5.166013 AGAGGGTAATACCAATCCCACTA 57.834 43.478 12.03 0.00 41.02 2.74
224 225 5.544682 AGAGGGTAATACCAATCCCACTAA 58.455 41.667 12.03 0.00 41.02 2.24
225 226 6.158260 AGAGGGTAATACCAATCCCACTAAT 58.842 40.000 12.03 0.00 41.02 1.73
226 227 6.624021 AGAGGGTAATACCAATCCCACTAATT 59.376 38.462 12.03 0.00 41.02 1.40
227 228 6.849151 AGGGTAATACCAATCCCACTAATTC 58.151 40.000 12.03 0.00 41.02 2.17
228 229 6.391649 AGGGTAATACCAATCCCACTAATTCA 59.608 38.462 12.03 0.00 41.02 2.57
229 230 7.075009 AGGGTAATACCAATCCCACTAATTCAT 59.925 37.037 12.03 0.00 41.02 2.57
230 231 7.728532 GGGTAATACCAATCCCACTAATTCATT 59.271 37.037 12.03 0.00 41.02 2.57
231 232 9.802039 GGTAATACCAATCCCACTAATTCATTA 57.198 33.333 4.24 0.00 38.42 1.90
248 249 8.587952 AATTCATTATTATTTTTACGCCTGCC 57.412 30.769 0.00 0.00 0.00 4.85
249 250 6.701145 TCATTATTATTTTTACGCCTGCCA 57.299 33.333 0.00 0.00 0.00 4.92
250 251 6.500041 TCATTATTATTTTTACGCCTGCCAC 58.500 36.000 0.00 0.00 0.00 5.01
251 252 6.320164 TCATTATTATTTTTACGCCTGCCACT 59.680 34.615 0.00 0.00 0.00 4.00
252 253 7.499563 TCATTATTATTTTTACGCCTGCCACTA 59.500 33.333 0.00 0.00 0.00 2.74
253 254 7.627298 TTATTATTTTTACGCCTGCCACTAA 57.373 32.000 0.00 0.00 0.00 2.24
254 255 6.709018 ATTATTTTTACGCCTGCCACTAAT 57.291 33.333 0.00 0.00 0.00 1.73
255 256 6.518208 TTATTTTTACGCCTGCCACTAATT 57.482 33.333 0.00 0.00 0.00 1.40
256 257 4.428615 TTTTTACGCCTGCCACTAATTC 57.571 40.909 0.00 0.00 0.00 2.17
257 258 2.772077 TTACGCCTGCCACTAATTCA 57.228 45.000 0.00 0.00 0.00 2.57
258 259 3.275617 TTACGCCTGCCACTAATTCAT 57.724 42.857 0.00 0.00 0.00 2.57
259 260 2.128771 ACGCCTGCCACTAATTCATT 57.871 45.000 0.00 0.00 0.00 2.57
260 261 3.275617 ACGCCTGCCACTAATTCATTA 57.724 42.857 0.00 0.00 0.00 1.90
261 262 3.820557 ACGCCTGCCACTAATTCATTAT 58.179 40.909 0.00 0.00 0.00 1.28
262 263 4.207165 ACGCCTGCCACTAATTCATTATT 58.793 39.130 0.00 0.00 0.00 1.40
263 264 5.373222 ACGCCTGCCACTAATTCATTATTA 58.627 37.500 0.00 0.00 0.00 0.98
264 265 5.238650 ACGCCTGCCACTAATTCATTATTAC 59.761 40.000 0.00 0.00 0.00 1.89
265 266 5.470098 CGCCTGCCACTAATTCATTATTACT 59.530 40.000 0.00 0.00 0.00 2.24
266 267 6.017109 CGCCTGCCACTAATTCATTATTACTT 60.017 38.462 0.00 0.00 0.00 2.24
267 268 7.141363 GCCTGCCACTAATTCATTATTACTTG 58.859 38.462 0.00 0.00 0.00 3.16
268 269 7.651808 CCTGCCACTAATTCATTATTACTTGG 58.348 38.462 0.00 0.00 33.52 3.61
269 270 7.502226 CCTGCCACTAATTCATTATTACTTGGA 59.498 37.037 0.00 0.00 32.80 3.53
270 271 8.815565 TGCCACTAATTCATTATTACTTGGAA 57.184 30.769 0.00 0.00 32.80 3.53
271 272 9.420118 TGCCACTAATTCATTATTACTTGGAAT 57.580 29.630 0.00 0.00 32.80 3.01
315 316 9.601810 ATTACATTTCTTTTCCTCTTTAAGGGT 57.398 29.630 0.00 0.00 46.23 4.34
318 319 9.601810 ACATTTCTTTTCCTCTTTAAGGGTAAT 57.398 29.630 0.00 0.00 46.23 1.89
326 327 7.357429 TCCTCTTTAAGGGTAATAGTAGTGC 57.643 40.000 0.00 0.00 46.23 4.40
327 328 6.325804 TCCTCTTTAAGGGTAATAGTAGTGCC 59.674 42.308 0.00 0.00 46.23 5.01
328 329 6.099269 CCTCTTTAAGGGTAATAGTAGTGCCA 59.901 42.308 7.05 0.00 42.03 4.92
329 330 6.881570 TCTTTAAGGGTAATAGTAGTGCCAC 58.118 40.000 7.05 0.00 0.00 5.01
330 331 6.670902 TCTTTAAGGGTAATAGTAGTGCCACT 59.329 38.462 1.54 1.54 0.00 4.00
331 332 7.840716 TCTTTAAGGGTAATAGTAGTGCCACTA 59.159 37.037 7.05 0.00 35.54 2.74
332 333 7.976414 TTAAGGGTAATAGTAGTGCCACTAA 57.024 36.000 6.06 0.00 34.77 2.24
333 334 8.557304 TTAAGGGTAATAGTAGTGCCACTAAT 57.443 34.615 9.98 9.98 34.77 1.73
334 335 7.447510 AAGGGTAATAGTAGTGCCACTAATT 57.552 36.000 10.38 8.36 34.77 1.40
335 336 7.063934 AGGGTAATAGTAGTGCCACTAATTC 57.936 40.000 10.38 0.00 34.77 2.17
336 337 6.614087 AGGGTAATAGTAGTGCCACTAATTCA 59.386 38.462 10.38 0.00 34.77 2.57
337 338 7.292591 AGGGTAATAGTAGTGCCACTAATTCAT 59.707 37.037 10.38 0.00 34.77 2.57
338 339 7.937394 GGGTAATAGTAGTGCCACTAATTCATT 59.063 37.037 10.38 7.69 34.77 2.57
339 340 8.989980 GGTAATAGTAGTGCCACTAATTCATTC 58.010 37.037 10.38 0.00 34.77 2.67
340 341 9.542462 GTAATAGTAGTGCCACTAATTCATTCA 57.458 33.333 10.38 0.00 34.77 2.57
342 343 9.632638 AATAGTAGTGCCACTAATTCATTCATT 57.367 29.630 10.38 0.48 34.77 2.57
343 344 7.944729 AGTAGTGCCACTAATTCATTCATTT 57.055 32.000 6.06 0.00 31.62 2.32
344 345 8.353423 AGTAGTGCCACTAATTCATTCATTTT 57.647 30.769 6.06 0.00 31.62 1.82
345 346 8.806146 AGTAGTGCCACTAATTCATTCATTTTT 58.194 29.630 6.06 0.00 31.62 1.94
346 347 7.894376 AGTGCCACTAATTCATTCATTTTTG 57.106 32.000 0.00 0.00 0.00 2.44
347 348 7.669427 AGTGCCACTAATTCATTCATTTTTGA 58.331 30.769 0.00 0.00 0.00 2.69
348 349 8.149647 AGTGCCACTAATTCATTCATTTTTGAA 58.850 29.630 0.00 0.00 36.38 2.69
349 350 8.772705 GTGCCACTAATTCATTCATTTTTGAAA 58.227 29.630 0.00 0.00 35.63 2.69
350 351 8.772705 TGCCACTAATTCATTCATTTTTGAAAC 58.227 29.630 0.00 0.00 35.63 2.78
351 352 8.992073 GCCACTAATTCATTCATTTTTGAAACT 58.008 29.630 0.00 0.00 35.63 2.66
361 362 9.940518 CATTCATTTTTGAAACTTTGTTTTTGC 57.059 25.926 0.00 0.00 0.00 3.68
362 363 7.772721 TCATTTTTGAAACTTTGTTTTTGCG 57.227 28.000 0.00 0.00 0.00 4.85
363 364 7.576236 TCATTTTTGAAACTTTGTTTTTGCGA 58.424 26.923 0.00 0.00 0.00 5.10
364 365 8.070171 TCATTTTTGAAACTTTGTTTTTGCGAA 58.930 25.926 0.00 0.00 0.00 4.70
365 366 8.685536 CATTTTTGAAACTTTGTTTTTGCGAAA 58.314 25.926 0.00 0.00 0.00 3.46
366 367 8.614994 TTTTTGAAACTTTGTTTTTGCGAAAA 57.385 23.077 7.81 7.81 32.53 2.29
367 368 8.788409 TTTTGAAACTTTGTTTTTGCGAAAAT 57.212 23.077 14.84 0.00 37.12 1.82
368 369 8.788409 TTTGAAACTTTGTTTTTGCGAAAATT 57.212 23.077 14.84 4.34 37.12 1.82
369 370 8.428459 TTGAAACTTTGTTTTTGCGAAAATTC 57.572 26.923 14.84 12.87 37.12 2.17
370 371 7.801752 TGAAACTTTGTTTTTGCGAAAATTCT 58.198 26.923 14.84 0.00 37.12 2.40
371 372 8.926710 TGAAACTTTGTTTTTGCGAAAATTCTA 58.073 25.926 14.84 0.00 37.12 2.10
372 373 9.194716 GAAACTTTGTTTTTGCGAAAATTCTAC 57.805 29.630 14.84 3.42 37.12 2.59
432 433 6.034898 GTGCCATTTCTATGTAAATTGTGTGC 59.965 38.462 0.00 0.00 0.00 4.57
504 506 5.532779 GCCACTAATTCATTCTTCCTTAGGG 59.467 44.000 0.00 0.00 0.00 3.53
692 695 2.902486 TGGCCCAAATAATTGCAAGTCA 59.098 40.909 1.02 0.00 35.10 3.41
817 827 5.617087 GCGGTCAGAGAAAGTTCATAAAACC 60.617 44.000 0.00 0.00 0.00 3.27
929 1006 0.537188 AACCGATCGAGCTGGTTCAT 59.463 50.000 18.66 3.62 42.11 2.57
989 1066 6.101150 TGAGCTATACATTAACTTCCCATGGT 59.899 38.462 11.73 0.00 0.00 3.55
1092 1173 1.142870 TGGTTCACTTGGAAGACAGGG 59.857 52.381 0.00 0.00 35.82 4.45
1134 1215 4.489771 CTCCCGCCATCACCACCC 62.490 72.222 0.00 0.00 0.00 4.61
1195 1276 2.887568 CACACATCTCGCTCCGCC 60.888 66.667 0.00 0.00 0.00 6.13
1230 1311 2.125512 GGCCTCGACGTGATGCTT 60.126 61.111 0.00 0.00 38.21 3.91
1242 1323 1.137872 GTGATGCTTCTCCATCTCGGT 59.862 52.381 0.88 0.00 41.65 4.69
1243 1324 2.362397 GTGATGCTTCTCCATCTCGGTA 59.638 50.000 0.88 0.00 41.65 4.02
1553 1634 6.539324 TGTTTTTAATATCTCGGCGTGAAAG 58.461 36.000 16.03 0.88 0.00 2.62
1607 1689 7.154656 GCATAAACTTTTTCCTTTCCAGACAT 58.845 34.615 0.00 0.00 0.00 3.06
1608 1690 7.116805 GCATAAACTTTTTCCTTTCCAGACATG 59.883 37.037 0.00 0.00 0.00 3.21
1609 1691 6.790232 AAACTTTTTCCTTTCCAGACATGA 57.210 33.333 0.00 0.00 0.00 3.07
1658 1742 6.811170 TGAAGAAAACTGTGGATTGTGAAAAC 59.189 34.615 0.00 0.00 0.00 2.43
1677 1761 9.543018 GTGAAAACTAAAAATTAGATGACGAGG 57.457 33.333 4.24 0.00 0.00 4.63
1708 1797 8.031277 CAGAAGAAAAATAGAAAATGGGTCTGG 58.969 37.037 0.00 0.00 0.00 3.86
1932 2682 7.750229 TGGCTTGAAAATCCATCAGATATAC 57.250 36.000 0.00 0.00 37.15 1.47
1933 2683 7.289310 TGGCTTGAAAATCCATCAGATATACA 58.711 34.615 0.00 0.00 37.15 2.29
1934 2684 7.946219 TGGCTTGAAAATCCATCAGATATACAT 59.054 33.333 0.00 0.00 37.15 2.29
1976 2732 4.283467 TCATACTACTCAACACCAGCAACT 59.717 41.667 0.00 0.00 0.00 3.16
2010 2766 1.255667 GGTCAGGGCTTAGACGGTCA 61.256 60.000 11.27 0.00 35.63 4.02
2021 2777 4.082571 GCTTAGACGGTCACCAGTTAACTA 60.083 45.833 8.04 0.00 0.00 2.24
2032 2788 7.494952 GGTCACCAGTTAACTAATGAATAGACC 59.505 40.741 18.00 16.10 35.47 3.85
2067 2823 8.910351 AGTTAGGATATTCCACATTTCTAAGC 57.090 34.615 0.00 0.00 39.61 3.09
2099 2861 5.417580 TGGGAGCCTGATATTTTGTTGTTAC 59.582 40.000 0.00 0.00 0.00 2.50
2176 2938 3.187637 TCGAGCCTTGTTGGTAATTTTCG 59.812 43.478 0.00 0.00 38.35 3.46
2313 3076 4.765339 CCATCATATGTGAGCATGGTGATT 59.235 41.667 0.00 0.00 38.51 2.57
2321 3084 0.682209 AGCATGGTGATTGCCAGGAC 60.682 55.000 0.00 0.00 42.37 3.85
2436 3199 7.665974 GGAGAATTCTTCCTAAAAGAAGGACAA 59.334 37.037 9.87 0.00 45.49 3.18
3046 3809 3.384532 CCACACCTTGCCATGGCC 61.385 66.667 33.44 16.23 41.09 5.36
3226 3989 6.311735 AGGGAGTAATTTTAAACTCTTGCCA 58.688 36.000 6.16 0.00 41.53 4.92
3250 4013 1.302033 GGCAGGACGCAGGATATGG 60.302 63.158 0.00 0.00 45.17 2.74
3301 4064 5.300539 TGTTGAGCTTATGTTGGCAAACTTA 59.699 36.000 0.00 0.09 37.19 2.24
3307 4070 8.066612 AGCTTATGTTGGCAAACTTAATGTAT 57.933 30.769 11.57 0.00 36.12 2.29
3355 4118 3.753797 GGGTTGAGAGGAAAGACATTGAC 59.246 47.826 0.00 0.00 0.00 3.18
3388 4151 0.970640 TTGGACTAACTGTGCGCCTA 59.029 50.000 4.18 0.00 40.08 3.93
3410 4173 9.011095 GCCTAAAGGAGAAATTACTGTTAGTTT 57.989 33.333 0.00 0.00 37.39 2.66
3423 5232 5.885881 ACTGTTAGTTTCAAAATCACGCAA 58.114 33.333 0.00 0.00 0.00 4.85
3486 5295 6.972328 CGGTATGTTGCTGCTACAAAATAAAT 59.028 34.615 19.85 5.40 32.76 1.40
3590 5399 7.240674 TGCATATGATGTACTTTTCGTTTGAC 58.759 34.615 6.97 0.00 0.00 3.18
3591 5400 7.119116 TGCATATGATGTACTTTTCGTTTGACT 59.881 33.333 6.97 0.00 0.00 3.41
3595 5404 8.603242 ATGATGTACTTTTCGTTTGACTTACT 57.397 30.769 0.00 0.00 0.00 2.24
3598 5413 6.996106 TGTACTTTTCGTTTGACTTACTGTG 58.004 36.000 0.00 0.00 0.00 3.66
3765 5585 6.123651 TGTACCAAACTTTAGCTTTGAAGGA 58.876 36.000 0.00 0.00 31.32 3.36
3780 5600 8.743714 AGCTTTGAAGGAACCTTTATGATTTAG 58.256 33.333 7.56 0.24 36.26 1.85
3799 5619 5.625568 TTAGCTTCCACCTTACCTTATCC 57.374 43.478 0.00 0.00 0.00 2.59
3829 5649 5.339990 CCAGGCAAAATAAAACTATCCACG 58.660 41.667 0.00 0.00 0.00 4.94
3881 5702 3.707102 AGCCTCCCCTATAGATAATTCGC 59.293 47.826 0.00 0.00 0.00 4.70
3943 5764 4.424061 TGCAATGTGATGTTCTTAGTGC 57.576 40.909 0.00 0.00 0.00 4.40
4074 5895 3.376234 CAGTGGAAACTCATATGCACCTG 59.624 47.826 0.00 0.00 38.50 4.00
4076 5897 3.127548 GTGGAAACTCATATGCACCTGTG 59.872 47.826 0.00 0.00 32.43 3.66
4087 5908 8.467963 TCATATGCACCTGTGAAATGATAAAT 57.532 30.769 0.51 0.00 0.00 1.40
4137 5958 1.392589 AAGACAGGCACAAGTGTTGG 58.607 50.000 1.79 0.00 34.12 3.77
4158 5979 3.564225 GGTGGTGATCATATTTTCCCGAC 59.436 47.826 0.00 0.00 0.00 4.79
4179 6000 5.237996 CGACCTCAGGATATCGTTAAGTGTA 59.762 44.000 0.00 0.00 0.00 2.90
4325 6297 5.856126 TTTAGCATGTGTTTAGTTCCTCG 57.144 39.130 0.00 0.00 0.00 4.63
4367 6339 2.019984 ACTTCCTACCATACGACGGAC 58.980 52.381 0.00 0.00 0.00 4.79
4410 6382 7.148641 GTCATCAGTAAGACGGTGATCATAAT 58.851 38.462 0.00 0.00 0.00 1.28
4419 6391 6.173339 AGACGGTGATCATAATGACAACTTT 58.827 36.000 0.00 0.00 0.00 2.66
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 9.487790 GAGGAAACAATGAATTAATGGTTTTGA 57.512 29.630 9.35 0.00 34.49 2.69
7 8 8.720562 GGAGGAAACAATGAATTAATGGTTTTG 58.279 33.333 9.35 0.00 34.49 2.44
8 9 7.602265 CGGAGGAAACAATGAATTAATGGTTTT 59.398 33.333 9.35 0.00 34.49 2.43
9 10 7.039363 TCGGAGGAAACAATGAATTAATGGTTT 60.039 33.333 7.90 7.90 36.57 3.27
10 11 6.435904 TCGGAGGAAACAATGAATTAATGGTT 59.564 34.615 0.00 0.00 0.00 3.67
11 12 5.949354 TCGGAGGAAACAATGAATTAATGGT 59.051 36.000 0.00 0.00 0.00 3.55
12 13 6.449635 TCGGAGGAAACAATGAATTAATGG 57.550 37.500 0.00 0.00 0.00 3.16
13 14 8.755696 TTTTCGGAGGAAACAATGAATTAATG 57.244 30.769 0.00 0.00 41.66 1.90
14 15 9.369904 CATTTTCGGAGGAAACAATGAATTAAT 57.630 29.630 0.00 0.00 41.66 1.40
15 16 8.364142 ACATTTTCGGAGGAAACAATGAATTAA 58.636 29.630 7.75 0.00 41.66 1.40
16 17 7.891561 ACATTTTCGGAGGAAACAATGAATTA 58.108 30.769 7.75 0.00 41.66 1.40
17 18 6.758254 ACATTTTCGGAGGAAACAATGAATT 58.242 32.000 7.75 0.00 41.66 2.17
18 19 6.015519 TGACATTTTCGGAGGAAACAATGAAT 60.016 34.615 7.75 0.00 41.66 2.57
19 20 5.300539 TGACATTTTCGGAGGAAACAATGAA 59.699 36.000 7.75 0.00 41.66 2.57
20 21 4.824537 TGACATTTTCGGAGGAAACAATGA 59.175 37.500 7.75 0.00 41.66 2.57
21 22 5.119931 TGACATTTTCGGAGGAAACAATG 57.880 39.130 0.00 0.00 41.66 2.82
22 23 5.982890 ATGACATTTTCGGAGGAAACAAT 57.017 34.783 0.00 0.00 41.66 2.71
23 24 5.782893 AATGACATTTTCGGAGGAAACAA 57.217 34.783 0.00 0.00 41.66 2.83
24 25 5.782893 AAATGACATTTTCGGAGGAAACA 57.217 34.783 7.62 0.00 41.66 2.83
48 49 9.443323 AGTTATTGCATGTATACTTACACACAA 57.557 29.630 4.17 5.60 41.02 3.33
60 61 9.955208 CACATGTTGAATAGTTATTGCATGTAT 57.045 29.630 16.80 0.00 37.65 2.29
61 62 8.955388 ACACATGTTGAATAGTTATTGCATGTA 58.045 29.630 16.80 0.00 37.65 2.29
62 63 7.756272 CACACATGTTGAATAGTTATTGCATGT 59.244 33.333 0.00 14.10 38.79 3.21
63 64 7.756272 ACACACATGTTGAATAGTTATTGCATG 59.244 33.333 12.90 13.33 34.46 4.06
64 65 7.829725 ACACACATGTTGAATAGTTATTGCAT 58.170 30.769 12.90 0.00 34.46 3.96
65 66 7.213216 ACACACATGTTGAATAGTTATTGCA 57.787 32.000 12.90 0.00 34.46 4.08
66 67 9.619316 TTTACACACATGTTGAATAGTTATTGC 57.381 29.630 12.90 0.00 40.48 3.56
104 105 9.830975 AGAACATGTAATAGTGTATGTATTGCA 57.169 29.630 0.00 0.00 37.04 4.08
145 146 9.710979 CTTCACACTAAAATTTCGTCTTTTGTA 57.289 29.630 0.00 0.00 0.00 2.41
146 147 8.241367 ACTTCACACTAAAATTTCGTCTTTTGT 58.759 29.630 0.00 0.00 0.00 2.83
147 148 8.614994 ACTTCACACTAAAATTTCGTCTTTTG 57.385 30.769 0.00 0.00 0.00 2.44
148 149 9.072294 CAACTTCACACTAAAATTTCGTCTTTT 57.928 29.630 0.00 0.00 0.00 2.27
149 150 8.241367 ACAACTTCACACTAAAATTTCGTCTTT 58.759 29.630 0.00 0.00 0.00 2.52
150 151 7.696453 CACAACTTCACACTAAAATTTCGTCTT 59.304 33.333 0.00 0.00 0.00 3.01
151 152 7.148306 ACACAACTTCACACTAAAATTTCGTCT 60.148 33.333 0.00 0.00 0.00 4.18
152 153 6.964934 ACACAACTTCACACTAAAATTTCGTC 59.035 34.615 0.00 0.00 0.00 4.20
153 154 6.848451 ACACAACTTCACACTAAAATTTCGT 58.152 32.000 0.00 0.00 0.00 3.85
154 155 7.734538 AACACAACTTCACACTAAAATTTCG 57.265 32.000 0.00 0.00 0.00 3.46
192 193 9.470399 GGATTGGTATTACCCTCTAAAAAGAAA 57.530 33.333 10.37 0.00 37.50 2.52
193 194 8.057011 GGGATTGGTATTACCCTCTAAAAAGAA 58.943 37.037 10.37 0.00 37.50 2.52
194 195 7.184936 TGGGATTGGTATTACCCTCTAAAAAGA 59.815 37.037 10.37 0.00 42.49 2.52
195 196 7.284716 GTGGGATTGGTATTACCCTCTAAAAAG 59.715 40.741 10.37 0.00 42.49 2.27
196 197 7.036425 AGTGGGATTGGTATTACCCTCTAAAAA 60.036 37.037 10.37 0.00 42.26 1.94
197 198 6.449041 AGTGGGATTGGTATTACCCTCTAAAA 59.551 38.462 10.37 0.00 42.26 1.52
198 199 5.974370 AGTGGGATTGGTATTACCCTCTAAA 59.026 40.000 10.37 0.00 42.26 1.85
199 200 5.544682 AGTGGGATTGGTATTACCCTCTAA 58.455 41.667 10.37 0.00 42.26 2.10
200 201 5.166013 AGTGGGATTGGTATTACCCTCTA 57.834 43.478 10.37 0.00 42.26 2.43
201 202 4.022359 AGTGGGATTGGTATTACCCTCT 57.978 45.455 10.37 0.00 42.49 3.69
202 203 5.899631 TTAGTGGGATTGGTATTACCCTC 57.100 43.478 10.37 7.11 42.49 4.30
203 204 6.391649 TGAATTAGTGGGATTGGTATTACCCT 59.608 38.462 10.37 1.22 42.49 4.34
204 205 6.607019 TGAATTAGTGGGATTGGTATTACCC 58.393 40.000 10.37 0.00 37.50 3.69
205 206 8.706322 AATGAATTAGTGGGATTGGTATTACC 57.294 34.615 5.87 5.87 39.22 2.85
222 223 9.685828 GGCAGGCGTAAAAATAATAATGAATTA 57.314 29.630 0.00 0.00 34.56 1.40
223 224 8.200792 TGGCAGGCGTAAAAATAATAATGAATT 58.799 29.630 0.00 0.00 0.00 2.17
224 225 7.651704 GTGGCAGGCGTAAAAATAATAATGAAT 59.348 33.333 0.00 0.00 0.00 2.57
225 226 6.975772 GTGGCAGGCGTAAAAATAATAATGAA 59.024 34.615 0.00 0.00 0.00 2.57
226 227 6.320164 AGTGGCAGGCGTAAAAATAATAATGA 59.680 34.615 0.00 0.00 0.00 2.57
227 228 6.503524 AGTGGCAGGCGTAAAAATAATAATG 58.496 36.000 0.00 0.00 0.00 1.90
228 229 6.709018 AGTGGCAGGCGTAAAAATAATAAT 57.291 33.333 0.00 0.00 0.00 1.28
229 230 7.627298 TTAGTGGCAGGCGTAAAAATAATAA 57.373 32.000 0.00 0.00 0.00 1.40
230 231 7.811117 ATTAGTGGCAGGCGTAAAAATAATA 57.189 32.000 0.00 0.00 0.00 0.98
231 232 6.709018 ATTAGTGGCAGGCGTAAAAATAAT 57.291 33.333 0.00 0.00 0.00 1.28
232 233 6.151312 TGAATTAGTGGCAGGCGTAAAAATAA 59.849 34.615 0.00 0.00 0.00 1.40
233 234 5.648526 TGAATTAGTGGCAGGCGTAAAAATA 59.351 36.000 0.00 0.00 0.00 1.40
234 235 4.461081 TGAATTAGTGGCAGGCGTAAAAAT 59.539 37.500 0.00 0.00 0.00 1.82
235 236 3.821600 TGAATTAGTGGCAGGCGTAAAAA 59.178 39.130 0.00 0.00 0.00 1.94
236 237 3.413327 TGAATTAGTGGCAGGCGTAAAA 58.587 40.909 0.00 0.00 0.00 1.52
237 238 3.060736 TGAATTAGTGGCAGGCGTAAA 57.939 42.857 0.00 0.00 0.00 2.01
238 239 2.772077 TGAATTAGTGGCAGGCGTAA 57.228 45.000 0.00 0.00 0.00 3.18
239 240 3.275617 AATGAATTAGTGGCAGGCGTA 57.724 42.857 0.00 0.00 0.00 4.42
240 241 2.128771 AATGAATTAGTGGCAGGCGT 57.871 45.000 0.00 0.00 0.00 5.68
241 242 4.836125 AATAATGAATTAGTGGCAGGCG 57.164 40.909 0.00 0.00 0.00 5.52
242 243 6.884280 AGTAATAATGAATTAGTGGCAGGC 57.116 37.500 0.00 0.00 33.29 4.85
243 244 7.502226 TCCAAGTAATAATGAATTAGTGGCAGG 59.498 37.037 0.00 0.00 36.85 4.85
244 245 8.450578 TCCAAGTAATAATGAATTAGTGGCAG 57.549 34.615 0.00 0.00 36.85 4.85
245 246 8.815565 TTCCAAGTAATAATGAATTAGTGGCA 57.184 30.769 0.00 0.00 36.85 4.92
303 304 6.099269 TGGCACTACTATTACCCTTAAAGAGG 59.901 42.308 0.00 0.00 45.86 3.69
304 305 6.985059 GTGGCACTACTATTACCCTTAAAGAG 59.015 42.308 11.13 0.00 0.00 2.85
305 306 6.670902 AGTGGCACTACTATTACCCTTAAAGA 59.329 38.462 20.61 0.00 0.00 2.52
306 307 6.885922 AGTGGCACTACTATTACCCTTAAAG 58.114 40.000 20.61 0.00 0.00 1.85
307 308 6.879367 AGTGGCACTACTATTACCCTTAAA 57.121 37.500 20.61 0.00 0.00 1.52
308 309 7.976414 TTAGTGGCACTACTATTACCCTTAA 57.024 36.000 26.21 6.70 33.47 1.85
309 310 8.557304 AATTAGTGGCACTACTATTACCCTTA 57.443 34.615 26.21 8.19 33.47 2.69
310 311 7.126726 TGAATTAGTGGCACTACTATTACCCTT 59.873 37.037 26.21 4.21 33.47 3.95
311 312 6.614087 TGAATTAGTGGCACTACTATTACCCT 59.386 38.462 26.21 4.93 33.47 4.34
312 313 6.823497 TGAATTAGTGGCACTACTATTACCC 58.177 40.000 26.21 12.75 33.47 3.69
313 314 8.904099 AATGAATTAGTGGCACTACTATTACC 57.096 34.615 26.21 13.34 33.47 2.85
314 315 9.542462 TGAATGAATTAGTGGCACTACTATTAC 57.458 33.333 26.21 16.44 33.47 1.89
316 317 9.632638 AATGAATGAATTAGTGGCACTACTATT 57.367 29.630 26.21 22.38 33.47 1.73
317 318 9.632638 AAATGAATGAATTAGTGGCACTACTAT 57.367 29.630 26.21 15.55 33.47 2.12
318 319 9.461312 AAAATGAATGAATTAGTGGCACTACTA 57.539 29.630 26.21 13.88 28.93 1.82
319 320 7.944729 AAATGAATGAATTAGTGGCACTACT 57.055 32.000 26.21 18.63 28.93 2.57
320 321 8.863049 CAAAAATGAATGAATTAGTGGCACTAC 58.137 33.333 26.21 15.66 28.93 2.73
321 322 8.801299 TCAAAAATGAATGAATTAGTGGCACTA 58.199 29.630 22.96 22.96 0.00 2.74
322 323 7.669427 TCAAAAATGAATGAATTAGTGGCACT 58.331 30.769 25.34 25.34 0.00 4.40
323 324 7.887996 TCAAAAATGAATGAATTAGTGGCAC 57.112 32.000 10.29 10.29 0.00 5.01
324 325 8.772705 GTTTCAAAAATGAATGAATTAGTGGCA 58.227 29.630 0.00 0.00 35.63 4.92
325 326 8.992073 AGTTTCAAAAATGAATGAATTAGTGGC 58.008 29.630 0.00 0.00 35.63 5.01
335 336 9.940518 GCAAAAACAAAGTTTCAAAAATGAATG 57.059 25.926 0.00 0.00 0.00 2.67
336 337 8.848528 CGCAAAAACAAAGTTTCAAAAATGAAT 58.151 25.926 0.00 0.00 0.00 2.57
337 338 8.070171 TCGCAAAAACAAAGTTTCAAAAATGAA 58.930 25.926 0.00 0.00 0.00 2.57
338 339 7.576236 TCGCAAAAACAAAGTTTCAAAAATGA 58.424 26.923 0.00 0.00 0.00 2.57
339 340 7.772721 TCGCAAAAACAAAGTTTCAAAAATG 57.227 28.000 0.00 0.00 0.00 2.32
340 341 8.788409 TTTCGCAAAAACAAAGTTTCAAAAAT 57.212 23.077 0.00 0.00 0.00 1.82
341 342 8.614994 TTTTCGCAAAAACAAAGTTTCAAAAA 57.385 23.077 0.00 0.00 29.44 1.94
342 343 8.788409 ATTTTCGCAAAAACAAAGTTTCAAAA 57.212 23.077 0.00 0.00 37.20 2.44
343 344 8.788409 AATTTTCGCAAAAACAAAGTTTCAAA 57.212 23.077 0.00 0.00 37.20 2.69
344 345 8.286097 AGAATTTTCGCAAAAACAAAGTTTCAA 58.714 25.926 0.00 0.00 37.20 2.69
345 346 7.801752 AGAATTTTCGCAAAAACAAAGTTTCA 58.198 26.923 0.00 0.00 37.20 2.69
346 347 9.194716 GTAGAATTTTCGCAAAAACAAAGTTTC 57.805 29.630 0.00 0.00 37.20 2.78
347 348 8.931775 AGTAGAATTTTCGCAAAAACAAAGTTT 58.068 25.926 0.00 0.00 37.20 2.66
348 349 8.474006 AGTAGAATTTTCGCAAAAACAAAGTT 57.526 26.923 0.00 0.00 37.20 2.66
349 350 9.744468 ATAGTAGAATTTTCGCAAAAACAAAGT 57.256 25.926 0.00 0.00 37.20 2.66
406 407 7.315142 CACACAATTTACATAGAAATGGCACT 58.685 34.615 0.00 0.00 37.43 4.40
408 409 6.098679 GCACACAATTTACATAGAAATGGCA 58.901 36.000 0.00 0.00 37.43 4.92
466 468 0.253894 AGTGGCGTTGGTATTACCCC 59.746 55.000 10.37 4.86 37.50 4.95
692 695 5.603596 TCTCAGTGCAGCAAAATCAAAATT 58.396 33.333 0.00 0.00 0.00 1.82
753 759 1.766461 CAAGGGACCGGCTAGGGAT 60.766 63.158 0.00 0.00 46.96 3.85
800 810 8.161699 TGGTTACAGGTTTTATGAACTTTCTC 57.838 34.615 0.00 0.00 0.00 2.87
817 827 4.086706 AGTCTTTGGGTCTTGGTTACAG 57.913 45.455 0.00 0.00 0.00 2.74
929 1006 0.167908 CTGCGGCGCAATTGTTCTTA 59.832 50.000 35.41 8.64 38.41 2.10
1092 1173 1.068954 CCTTCTCGCTGTTGCCTTTTC 60.069 52.381 0.00 0.00 35.36 2.29
1134 1215 3.274586 CCGATGATGGGCAGTGCG 61.275 66.667 9.45 0.00 0.00 5.34
1195 1276 4.845580 ATGCTTCCTGGCGAGGCG 62.846 66.667 10.42 4.74 46.35 5.52
1217 1298 0.817654 ATGGAGAAGCATCACGTCGA 59.182 50.000 0.00 0.00 0.00 4.20
1230 1311 1.381928 GCACGGTACCGAGATGGAGA 61.382 60.000 39.52 0.00 42.00 3.71
1658 1742 6.816640 TGGTCACCTCGTCATCTAATTTTTAG 59.183 38.462 0.00 0.00 0.00 1.85
1677 1761 7.814587 CCCATTTTCTATTTTTCTTCTGGTCAC 59.185 37.037 0.00 0.00 0.00 3.67
1780 1869 8.461222 TCTATGGTCAGCTTTTCATACAAATTG 58.539 33.333 0.00 0.00 0.00 2.32
1789 1878 5.587443 CACATGATCTATGGTCAGCTTTTCA 59.413 40.000 0.00 0.00 41.25 2.69
1841 1930 5.823045 ACTGAGTTGGTTTCGAGATTTCTTT 59.177 36.000 0.00 0.00 0.00 2.52
1931 2681 2.955614 CGTTTCCACGTTCCTCTATGT 58.044 47.619 0.00 0.00 41.84 2.29
1976 2732 4.896482 GCCCTGACCTCTCTTTTCTAGATA 59.104 45.833 0.00 0.00 30.92 1.98
2010 2766 7.913789 TGTGGTCTATTCATTAGTTAACTGGT 58.086 34.615 18.56 3.63 0.00 4.00
2021 2777 6.814954 ACTAGTGGATGTGGTCTATTCATT 57.185 37.500 0.00 0.00 0.00 2.57
2032 2788 7.155328 GTGGAATATCCTAACTAGTGGATGTG 58.845 42.308 20.09 0.00 42.46 3.21
2109 2871 1.269102 GGGACGTCGTATCTGATGGTG 60.269 57.143 9.92 0.00 0.00 4.17
2176 2938 4.965762 GTGGTAAGTTTGTGAAAACGCTAC 59.034 41.667 0.00 0.00 37.71 3.58
2298 3061 0.251253 TGGCAATCACCATGCTCACA 60.251 50.000 0.00 0.00 43.34 3.58
2313 3076 2.656069 GGCCTCGTTAGTCCTGGCA 61.656 63.158 0.00 0.00 44.85 4.92
2559 3322 5.517655 GGCCCATCTATACCTTAGTCTCTCT 60.518 48.000 0.00 0.00 0.00 3.10
3046 3809 1.028330 ACCCATCAATGCTGCAGTCG 61.028 55.000 16.64 1.48 0.00 4.18
3169 3932 1.028868 GCACATCACTGCCTTCCTCC 61.029 60.000 0.00 0.00 0.00 4.30
3226 3989 4.473520 CTGCGTCCTGCCCCGAAT 62.474 66.667 0.00 0.00 45.60 3.34
3301 4064 5.586243 CAGTTCCCAGTCGAAATGATACATT 59.414 40.000 0.55 0.00 39.57 2.71
3307 4070 1.610624 GGCAGTTCCCAGTCGAAATGA 60.611 52.381 3.21 0.00 39.57 2.57
3355 4118 1.156736 GTCCAAACACCTCCGTCATG 58.843 55.000 0.00 0.00 0.00 3.07
3410 4173 2.224549 CCGGTTACTTGCGTGATTTTGA 59.775 45.455 0.00 0.00 0.00 2.69
3423 5232 6.550108 TGCTTAGAAGATCTTATCCGGTTACT 59.450 38.462 8.25 0.39 0.00 2.24
3458 5267 1.006832 GTAGCAGCAACATACCGGTG 58.993 55.000 19.93 3.36 0.00 4.94
3486 5295 5.945784 ACTGCTTTTATGGCTAGAATTGACA 59.054 36.000 0.00 0.00 0.00 3.58
3745 5565 5.069119 AGGTTCCTTCAAAGCTAAAGTTTGG 59.931 40.000 0.00 0.00 35.32 3.28
3765 5585 6.775594 GGTGGAAGCTAAATCATAAAGGTT 57.224 37.500 0.00 0.00 33.89 3.50
3780 5600 4.505324 AAGGATAAGGTAAGGTGGAAGC 57.495 45.455 0.00 0.00 0.00 3.86
3799 5619 6.544928 AGTTTTATTTTGCCTGGGGATAAG 57.455 37.500 0.00 0.00 0.00 1.73
3829 5649 5.702670 TCAATGGACTGAGTTGAAAGATGTC 59.297 40.000 0.00 0.00 0.00 3.06
3881 5702 7.740805 AGGCTTATATTCCCTTAGTTTCAGAG 58.259 38.462 0.00 0.00 0.00 3.35
3892 5713 5.222213 CCCAGAATGAAGGCTTATATTCCCT 60.222 44.000 22.80 10.66 39.69 4.20
3984 5805 9.130661 TGAACTCTCATTTATGAAAGTGGAAAA 57.869 29.630 0.00 0.00 37.12 2.29
4087 5908 5.671941 AGGCCAGGAACCTATATTATACCA 58.328 41.667 5.01 0.00 35.10 3.25
4120 5941 0.381801 CACCAACACTTGTGCCTGTC 59.618 55.000 0.10 0.00 0.00 3.51
4137 5958 3.564225 GGTCGGGAAAATATGATCACCAC 59.436 47.826 0.00 0.00 0.00 4.16
4158 5979 7.658261 TCATTACACTTAACGATATCCTGAGG 58.342 38.462 0.00 0.00 0.00 3.86
4179 6000 9.725019 TCTCAATGTTGTTTCAGTACTATCATT 57.275 29.630 0.00 0.00 0.00 2.57
4198 6170 7.044641 CGTTCTTCTAACGTCATACTCTCAATG 60.045 40.741 2.28 0.00 38.69 2.82
4325 6297 5.241949 AGTGACTACGATAATCTCATGGTCC 59.758 44.000 0.00 0.00 0.00 4.46
4367 6339 0.744281 ACGTTTGAGCAACCCCAAAG 59.256 50.000 0.00 0.00 33.52 2.77


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

AutoCloner maintained by Alex Coulton.