Multiple sequence alignment - TraesCS3B01G545800

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 TraesCS3B01G545800 chr3B 100.000 3559 0 0 1 3559 782744642 782741084 0.000000e+00 6573.0
1 TraesCS3B01G545800 chr3B 91.765 85 7 0 3475 3559 796846205 796846121 6.240000e-23 119.0
2 TraesCS3B01G545800 chr6A 98.333 2580 35 5 680 3255 428675739 428678314 0.000000e+00 4519.0
3 TraesCS3B01G545800 chr6A 86.579 380 39 9 633 1004 85148629 85149004 3.310000e-110 409.0
4 TraesCS3B01G545800 chr6A 93.567 171 8 3 468 636 607003506 607003337 5.900000e-63 252.0
5 TraesCS3B01G545800 chr5B 92.369 1625 84 17 1086 2692 643981784 643980182 0.000000e+00 2278.0
6 TraesCS3B01G545800 chr5B 95.225 377 17 1 2878 3253 643979586 643979210 2.370000e-166 595.0
7 TraesCS3B01G545800 chr5B 86.345 249 32 1 760 1006 700422585 700422337 1.630000e-68 270.0
8 TraesCS3B01G545800 chr5B 91.099 191 15 2 2690 2880 643979838 643979650 1.270000e-64 257.0
9 TraesCS3B01G545800 chr7D 95.827 1414 43 4 1290 2692 491344289 491342881 0.000000e+00 2270.0
10 TraesCS3B01G545800 chr7D 93.769 642 32 5 638 1276 491345308 491344672 0.000000e+00 957.0
11 TraesCS3B01G545800 chr7D 98.153 379 5 2 2878 3255 491342160 491341783 0.000000e+00 660.0
12 TraesCS3B01G545800 chr7D 97.872 188 4 0 2690 2877 491342414 491342227 3.430000e-85 326.0
13 TraesCS3B01G545800 chr7D 87.963 216 19 7 3264 3477 491325617 491325407 7.630000e-62 248.0
14 TraesCS3B01G545800 chr7D 87.192 203 22 4 17 217 20965214 20965014 9.940000e-56 228.0
15 TraesCS3B01G545800 chr5D 91.220 1640 93 21 1092 2692 513471335 513469708 0.000000e+00 2183.0
16 TraesCS3B01G545800 chr5D 95.491 377 16 1 2878 3253 513469116 513468740 5.080000e-168 601.0
17 TraesCS3B01G545800 chr5D 90.632 427 36 3 670 1092 266077150 266077576 6.670000e-157 564.0
18 TraesCS3B01G545800 chr5D 90.632 427 36 3 670 1092 266077950 266078376 6.670000e-157 564.0
19 TraesCS3B01G545800 chr5D 93.194 191 5 3 2690 2880 513469362 513469180 1.260000e-69 274.0
20 TraesCS3B01G545800 chr5D 94.118 170 9 1 927 1095 496905704 496905535 1.270000e-64 257.0
21 TraesCS3B01G545800 chr5D 88.670 203 20 3 17 217 41590451 41590250 9.870000e-61 244.0
22 TraesCS3B01G545800 chr5D 88.177 203 21 3 17 217 51673933 51673732 4.590000e-59 239.0
23 TraesCS3B01G545800 chr5A 90.074 1622 82 32 1086 2693 641122279 641120723 0.000000e+00 2030.0
24 TraesCS3B01G545800 chr5A 94.430 377 20 1 2878 3253 641120131 641119755 2.380000e-161 579.0
25 TraesCS3B01G545800 chr5A 92.147 191 7 3 2690 2880 641120377 641120195 2.720000e-66 263.0
26 TraesCS3B01G545800 chr1B 95.455 550 23 1 471 1018 476907831 476907282 0.000000e+00 876.0
27 TraesCS3B01G545800 chr1B 91.765 85 7 0 3475 3559 206587269 206587185 6.240000e-23 119.0
28 TraesCS3B01G545800 chr1B 91.765 85 6 1 3475 3559 150536740 150536657 2.240000e-22 117.0
29 TraesCS3B01G545800 chr4D 89.796 441 32 9 665 1095 63785887 63785450 1.440000e-153 553.0
30 TraesCS3B01G545800 chr4D 91.954 87 5 1 3475 3559 341324219 341324305 1.740000e-23 121.0
31 TraesCS3B01G545800 chr3D 89.140 442 34 8 665 1095 91218056 91217618 4.040000e-149 538.0
32 TraesCS3B01G545800 chr4A 93.522 247 13 1 228 471 607875180 607875426 7.260000e-97 364.0
33 TraesCS3B01G545800 chr4A 94.048 168 6 4 466 630 716724536 716724702 5.900000e-63 252.0
34 TraesCS3B01G545800 chr4A 93.064 173 8 4 464 633 680478194 680478365 2.120000e-62 250.0
35 TraesCS3B01G545800 chr7A 92.672 232 16 1 1 232 561170481 561170711 2.050000e-87 333.0
36 TraesCS3B01G545800 chr7A 90.945 254 13 3 228 471 561170817 561171070 2.050000e-87 333.0
37 TraesCS3B01G545800 chr3A 90.945 254 13 2 228 471 717942379 717942126 2.050000e-87 333.0
38 TraesCS3B01G545800 chr3A 92.241 232 17 1 1 232 717942714 717942484 9.530000e-86 327.0
39 TraesCS3B01G545800 chr3A 90.588 85 8 0 3475 3559 336861180 336861096 2.900000e-21 113.0
40 TraesCS3B01G545800 chr2A 91.810 232 18 1 1 232 352995911 352995681 4.430000e-84 322.0
41 TraesCS3B01G545800 chr2A 89.370 254 17 2 228 471 352995575 352995322 9.590000e-81 311.0
42 TraesCS3B01G545800 chr6B 89.862 217 16 6 3264 3478 25579736 25579524 1.260000e-69 274.0
43 TraesCS3B01G545800 chr6B 78.338 337 43 10 1639 1974 637486045 637485738 1.300000e-44 191.0
44 TraesCS3B01G545800 chr6B 98.095 105 2 0 3151 3255 25590717 25590613 2.180000e-42 183.0
45 TraesCS3B01G545800 chr6B 83.929 168 26 1 49 215 319834324 319834157 3.680000e-35 159.0
46 TraesCS3B01G545800 chr6B 94.118 85 5 0 3475 3559 25577686 25577602 2.880000e-26 130.0
47 TraesCS3B01G545800 chr6B 94.118 85 5 0 3475 3559 81984232 81984148 2.880000e-26 130.0
48 TraesCS3B01G545800 chr6B 92.941 85 6 0 3475 3559 579401349 579401433 1.340000e-24 124.0
49 TraesCS3B01G545800 chrUn 94.012 167 9 1 468 633 3248006 3248172 5.900000e-63 252.0
50 TraesCS3B01G545800 chr7B 93.976 166 9 1 469 633 71581027 71581192 2.120000e-62 250.0
51 TraesCS3B01G545800 chr7B 93.976 166 9 1 469 633 71582332 71582497 2.120000e-62 250.0
52 TraesCS3B01G545800 chr1A 92.982 171 9 3 468 636 287583115 287582946 2.740000e-61 246.0
53 TraesCS3B01G545800 chr1A 92.529 174 10 3 465 636 492135389 492135217 2.740000e-61 246.0
54 TraesCS3B01G545800 chr1D 87.192 203 23 3 17 217 473738951 473738750 9.940000e-56 228.0
55 TraesCS3B01G545800 chr1D 93.103 87 4 1 3475 3559 50718379 50718465 3.730000e-25 126.0
56 TraesCS3B01G545800 chr2B 92.079 101 6 2 29 128 743346872 743346773 1.330000e-29 141.0
57 TraesCS3B01G545800 chr2B 80.769 104 9 4 1358 1456 366839893 366839796 1.770000e-08 71.3
58 TraesCS3B01G545800 chr2D 85.294 68 7 1 1358 1422 231603535 231603468 2.290000e-07 67.6


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 TraesCS3B01G545800 chr3B 782741084 782744642 3558 True 6573.000000 6573 100.000000 1 3559 1 chr3B.!!$R1 3558
1 TraesCS3B01G545800 chr6A 428675739 428678314 2575 False 4519.000000 4519 98.333000 680 3255 1 chr6A.!!$F2 2575
2 TraesCS3B01G545800 chr5B 643979210 643981784 2574 True 1043.333333 2278 92.897667 1086 3253 3 chr5B.!!$R2 2167
3 TraesCS3B01G545800 chr7D 491341783 491345308 3525 True 1053.250000 2270 96.405250 638 3255 4 chr7D.!!$R3 2617
4 TraesCS3B01G545800 chr5D 513468740 513471335 2595 True 1019.333333 2183 93.301667 1092 3253 3 chr5D.!!$R4 2161
5 TraesCS3B01G545800 chr5D 266077150 266078376 1226 False 564.000000 564 90.632000 670 1092 2 chr5D.!!$F1 422
6 TraesCS3B01G545800 chr5A 641119755 641122279 2524 True 957.333333 2030 92.217000 1086 3253 3 chr5A.!!$R1 2167
7 TraesCS3B01G545800 chr1B 476907282 476907831 549 True 876.000000 876 95.455000 471 1018 1 chr1B.!!$R3 547
8 TraesCS3B01G545800 chr7A 561170481 561171070 589 False 333.000000 333 91.808500 1 471 2 chr7A.!!$F1 470
9 TraesCS3B01G545800 chr3A 717942126 717942714 588 True 330.000000 333 91.593000 1 471 2 chr3A.!!$R2 470
10 TraesCS3B01G545800 chr2A 352995322 352995911 589 True 316.500000 322 90.590000 1 471 2 chr2A.!!$R1 470
11 TraesCS3B01G545800 chr6B 25577602 25579736 2134 True 202.000000 274 91.990000 3264 3559 2 chr6B.!!$R5 295
12 TraesCS3B01G545800 chr7B 71581027 71582497 1470 False 250.000000 250 93.976000 469 633 2 chr7B.!!$F1 164

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
234 235 0.173708 CCACGACTAGCCTCTTCACC 59.826 60.000 0.0 0.0 0.0 4.02 F
581 582 0.178846 TCCTCCCACCATCCCTTCAA 60.179 55.000 0.0 0.0 0.0 2.69 F
668 670 1.135460 GTCCCACTACTTTCGTCCGAG 60.135 57.143 0.0 0.0 0.0 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1925 3460 1.595993 CGGACTTCCTCCTCTTCGCA 61.596 60.000 0.00 0.0 36.8 5.10 R
2272 4022 1.153756 CCTCCCAGGTGCCAAAACT 59.846 57.895 0.00 0.0 0.0 2.66 R
2920 5210 9.462174 CAAAACTTTTAGTGATTGCATACTTCA 57.538 29.630 4.42 0.0 0.0 3.02 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
22 23 1.454111 CTCTCTCACCCCGTCGGAT 60.454 63.158 14.39 0.00 34.64 4.18
24 25 2.036731 TCTCACCCCGTCGGATGT 59.963 61.111 14.39 6.73 34.64 3.06
40 41 0.682532 ATGTCGCTGCCTCTCTCTCA 60.683 55.000 0.00 0.00 0.00 3.27
57 58 4.833938 TCTCTCATCTCTCCCAATCTGATG 59.166 45.833 0.00 0.00 36.73 3.07
113 114 1.410365 GGAGACGGGATCAAGAGGAGA 60.410 57.143 0.00 0.00 0.00 3.71
170 171 2.528564 CTGATTTGGCAGGGAAAGGAA 58.471 47.619 0.00 0.00 32.26 3.36
181 182 2.637872 AGGGAAAGGAATGAACGACAGA 59.362 45.455 0.00 0.00 0.00 3.41
188 189 2.420022 GGAATGAACGACAGATTGGTGG 59.580 50.000 0.00 0.00 0.00 4.61
223 224 1.979155 AGCAGAGCAGCCACGACTA 60.979 57.895 0.00 0.00 34.23 2.59
230 231 1.893786 CAGCCACGACTAGCCTCTT 59.106 57.895 0.00 0.00 0.00 2.85
231 232 0.179124 CAGCCACGACTAGCCTCTTC 60.179 60.000 0.00 0.00 0.00 2.87
232 233 0.612174 AGCCACGACTAGCCTCTTCA 60.612 55.000 0.00 0.00 0.00 3.02
233 234 0.458716 GCCACGACTAGCCTCTTCAC 60.459 60.000 0.00 0.00 0.00 3.18
234 235 0.173708 CCACGACTAGCCTCTTCACC 59.826 60.000 0.00 0.00 0.00 4.02
235 236 0.179161 CACGACTAGCCTCTTCACCG 60.179 60.000 0.00 0.00 0.00 4.94
236 237 0.322277 ACGACTAGCCTCTTCACCGA 60.322 55.000 0.00 0.00 0.00 4.69
237 238 0.378962 CGACTAGCCTCTTCACCGAG 59.621 60.000 0.00 0.00 0.00 4.63
246 247 3.319137 CTCTTCACCGAGGAATGAACA 57.681 47.619 0.00 0.00 31.62 3.18
247 248 3.257393 CTCTTCACCGAGGAATGAACAG 58.743 50.000 0.00 0.00 31.62 3.16
248 249 2.897326 TCTTCACCGAGGAATGAACAGA 59.103 45.455 0.00 0.00 31.62 3.41
249 250 3.056536 TCTTCACCGAGGAATGAACAGAG 60.057 47.826 0.00 0.00 31.62 3.35
250 251 1.550524 TCACCGAGGAATGAACAGAGG 59.449 52.381 0.00 0.00 0.00 3.69
251 252 1.550524 CACCGAGGAATGAACAGAGGA 59.449 52.381 0.00 0.00 0.00 3.71
252 253 2.028112 CACCGAGGAATGAACAGAGGAA 60.028 50.000 0.00 0.00 0.00 3.36
253 254 2.840651 ACCGAGGAATGAACAGAGGAAT 59.159 45.455 0.00 0.00 0.00 3.01
254 255 3.264450 ACCGAGGAATGAACAGAGGAATT 59.736 43.478 0.00 0.00 0.00 2.17
255 256 3.624861 CCGAGGAATGAACAGAGGAATTG 59.375 47.826 0.00 0.00 0.00 2.32
256 257 3.064545 CGAGGAATGAACAGAGGAATTGC 59.935 47.826 0.00 0.00 0.00 3.56
257 258 4.268359 GAGGAATGAACAGAGGAATTGCT 58.732 43.478 0.00 0.00 33.96 3.91
258 259 4.670765 AGGAATGAACAGAGGAATTGCTT 58.329 39.130 0.00 0.00 27.61 3.91
259 260 4.704057 AGGAATGAACAGAGGAATTGCTTC 59.296 41.667 0.00 0.00 27.61 3.86
260 261 4.704057 GGAATGAACAGAGGAATTGCTTCT 59.296 41.667 0.00 0.00 32.37 2.85
261 262 5.163673 GGAATGAACAGAGGAATTGCTTCTC 60.164 44.000 0.00 0.00 29.18 2.87
262 263 4.356405 TGAACAGAGGAATTGCTTCTCA 57.644 40.909 0.00 0.00 29.18 3.27
263 264 4.717877 TGAACAGAGGAATTGCTTCTCAA 58.282 39.130 0.00 0.00 39.32 3.02
264 265 5.132502 TGAACAGAGGAATTGCTTCTCAAA 58.867 37.500 0.00 0.00 38.34 2.69
265 266 5.240183 TGAACAGAGGAATTGCTTCTCAAAG 59.760 40.000 0.00 0.00 38.34 2.77
266 267 4.077822 ACAGAGGAATTGCTTCTCAAAGG 58.922 43.478 0.00 0.00 38.34 3.11
267 268 4.077822 CAGAGGAATTGCTTCTCAAAGGT 58.922 43.478 0.00 0.00 38.34 3.50
268 269 5.221925 ACAGAGGAATTGCTTCTCAAAGGTA 60.222 40.000 0.00 0.00 38.34 3.08
269 270 5.353678 CAGAGGAATTGCTTCTCAAAGGTAG 59.646 44.000 0.00 0.00 38.34 3.18
270 271 5.013599 AGAGGAATTGCTTCTCAAAGGTAGT 59.986 40.000 0.00 0.00 38.34 2.73
271 272 5.006386 AGGAATTGCTTCTCAAAGGTAGTG 58.994 41.667 0.00 0.00 38.34 2.74
272 273 4.762251 GGAATTGCTTCTCAAAGGTAGTGT 59.238 41.667 0.00 0.00 38.34 3.55
273 274 5.241728 GGAATTGCTTCTCAAAGGTAGTGTT 59.758 40.000 0.00 0.00 38.34 3.32
274 275 5.695851 ATTGCTTCTCAAAGGTAGTGTTG 57.304 39.130 0.00 0.00 38.34 3.33
275 276 4.415881 TGCTTCTCAAAGGTAGTGTTGA 57.584 40.909 0.00 0.00 32.79 3.18
276 277 4.776349 TGCTTCTCAAAGGTAGTGTTGAA 58.224 39.130 0.00 0.00 33.52 2.69
277 278 5.376625 TGCTTCTCAAAGGTAGTGTTGAAT 58.623 37.500 0.00 0.00 33.52 2.57
278 279 6.530120 TGCTTCTCAAAGGTAGTGTTGAATA 58.470 36.000 0.00 0.00 33.52 1.75
279 280 6.426937 TGCTTCTCAAAGGTAGTGTTGAATAC 59.573 38.462 0.00 0.00 33.52 1.89
280 281 6.128254 GCTTCTCAAAGGTAGTGTTGAATACC 60.128 42.308 0.00 0.00 41.56 2.73
288 289 6.549912 GGTAGTGTTGAATACCTCGTTTTT 57.450 37.500 0.00 0.00 38.74 1.94
310 311 7.414222 TTTTAGGGAGTGTTGTATATCTCGT 57.586 36.000 0.00 0.00 0.00 4.18
311 312 7.414222 TTTAGGGAGTGTTGTATATCTCGTT 57.586 36.000 0.00 0.00 0.00 3.85
312 313 5.263968 AGGGAGTGTTGTATATCTCGTTG 57.736 43.478 0.00 0.00 0.00 4.10
313 314 4.954202 AGGGAGTGTTGTATATCTCGTTGA 59.046 41.667 0.00 0.00 0.00 3.18
314 315 5.421056 AGGGAGTGTTGTATATCTCGTTGAA 59.579 40.000 0.00 0.00 0.00 2.69
315 316 5.519206 GGGAGTGTTGTATATCTCGTTGAAC 59.481 44.000 0.00 0.00 0.00 3.18
316 317 6.097356 GGAGTGTTGTATATCTCGTTGAACA 58.903 40.000 0.00 0.00 0.00 3.18
317 318 6.757010 GGAGTGTTGTATATCTCGTTGAACAT 59.243 38.462 0.00 0.00 0.00 2.71
318 319 7.919091 GGAGTGTTGTATATCTCGTTGAACATA 59.081 37.037 0.00 0.00 0.00 2.29
319 320 8.858003 AGTGTTGTATATCTCGTTGAACATAG 57.142 34.615 0.00 0.00 0.00 2.23
320 321 8.683615 AGTGTTGTATATCTCGTTGAACATAGA 58.316 33.333 0.00 0.00 0.00 1.98
321 322 9.464714 GTGTTGTATATCTCGTTGAACATAGAT 57.535 33.333 12.85 12.85 33.42 1.98
322 323 9.463443 TGTTGTATATCTCGTTGAACATAGATG 57.537 33.333 16.20 0.00 31.38 2.90
323 324 9.678941 GTTGTATATCTCGTTGAACATAGATGA 57.321 33.333 16.20 5.65 31.38 2.92
324 325 9.899226 TTGTATATCTCGTTGAACATAGATGAG 57.101 33.333 16.20 5.25 31.38 2.90
325 326 9.284968 TGTATATCTCGTTGAACATAGATGAGA 57.715 33.333 16.20 9.63 39.14 3.27
328 329 7.943413 ATCTCGTTGAACATAGATGAGATTG 57.057 36.000 8.78 0.00 41.16 2.67
329 330 7.100458 TCTCGTTGAACATAGATGAGATTGA 57.900 36.000 0.00 0.00 32.17 2.57
330 331 7.720442 TCTCGTTGAACATAGATGAGATTGAT 58.280 34.615 0.00 0.00 32.17 2.57
331 332 8.200120 TCTCGTTGAACATAGATGAGATTGATT 58.800 33.333 0.00 0.00 32.17 2.57
332 333 9.468532 CTCGTTGAACATAGATGAGATTGATTA 57.531 33.333 0.00 0.00 0.00 1.75
333 334 9.987272 TCGTTGAACATAGATGAGATTGATTAT 57.013 29.630 0.00 0.00 0.00 1.28
340 341 9.788889 ACATAGATGAGATTGATTATCTTTGCA 57.211 29.630 0.00 0.00 43.75 4.08
343 344 8.749026 AGATGAGATTGATTATCTTTGCAAGT 57.251 30.769 0.00 0.00 43.75 3.16
344 345 8.838365 AGATGAGATTGATTATCTTTGCAAGTC 58.162 33.333 0.00 0.00 43.75 3.01
345 346 8.749026 ATGAGATTGATTATCTTTGCAAGTCT 57.251 30.769 0.00 0.00 43.75 3.24
346 347 7.982224 TGAGATTGATTATCTTTGCAAGTCTG 58.018 34.615 0.00 0.00 43.75 3.51
347 348 7.609146 TGAGATTGATTATCTTTGCAAGTCTGT 59.391 33.333 0.00 0.00 43.75 3.41
348 349 7.759465 AGATTGATTATCTTTGCAAGTCTGTG 58.241 34.615 0.00 0.00 40.84 3.66
349 350 7.609146 AGATTGATTATCTTTGCAAGTCTGTGA 59.391 33.333 0.00 0.00 40.84 3.58
350 351 7.692460 TTGATTATCTTTGCAAGTCTGTGAT 57.308 32.000 0.00 1.52 0.00 3.06
351 352 7.080353 TGATTATCTTTGCAAGTCTGTGATG 57.920 36.000 0.00 0.00 0.00 3.07
352 353 6.656270 TGATTATCTTTGCAAGTCTGTGATGT 59.344 34.615 0.00 0.00 0.00 3.06
353 354 6.882610 TTATCTTTGCAAGTCTGTGATGTT 57.117 33.333 0.00 0.00 0.00 2.71
354 355 4.556942 TCTTTGCAAGTCTGTGATGTTG 57.443 40.909 0.00 0.00 0.00 3.33
355 356 4.198530 TCTTTGCAAGTCTGTGATGTTGA 58.801 39.130 0.00 0.00 0.00 3.18
356 357 4.274214 TCTTTGCAAGTCTGTGATGTTGAG 59.726 41.667 0.00 0.00 0.00 3.02
357 358 2.497138 TGCAAGTCTGTGATGTTGAGG 58.503 47.619 0.00 0.00 0.00 3.86
358 359 2.104622 TGCAAGTCTGTGATGTTGAGGA 59.895 45.455 0.00 0.00 0.00 3.71
359 360 2.481952 GCAAGTCTGTGATGTTGAGGAC 59.518 50.000 0.00 0.00 0.00 3.85
360 361 3.805108 GCAAGTCTGTGATGTTGAGGACT 60.805 47.826 0.00 0.00 35.87 3.85
361 362 4.384056 CAAGTCTGTGATGTTGAGGACTT 58.616 43.478 0.00 0.00 42.36 3.01
362 363 4.000331 AGTCTGTGATGTTGAGGACTTG 58.000 45.455 0.00 0.00 31.14 3.16
363 364 3.070018 GTCTGTGATGTTGAGGACTTGG 58.930 50.000 0.00 0.00 0.00 3.61
364 365 2.038952 TCTGTGATGTTGAGGACTTGGG 59.961 50.000 0.00 0.00 0.00 4.12
365 366 1.073763 TGTGATGTTGAGGACTTGGGG 59.926 52.381 0.00 0.00 0.00 4.96
366 367 1.351017 GTGATGTTGAGGACTTGGGGA 59.649 52.381 0.00 0.00 0.00 4.81
367 368 1.351017 TGATGTTGAGGACTTGGGGAC 59.649 52.381 0.00 0.00 0.00 4.46
368 369 1.630878 GATGTTGAGGACTTGGGGACT 59.369 52.381 0.00 0.00 0.00 3.85
369 370 2.409064 TGTTGAGGACTTGGGGACTA 57.591 50.000 0.00 0.00 0.00 2.59
370 371 2.257207 TGTTGAGGACTTGGGGACTAG 58.743 52.381 0.00 0.00 39.25 2.57
371 372 2.158219 TGTTGAGGACTTGGGGACTAGA 60.158 50.000 0.00 0.00 36.63 2.43
372 373 3.108376 GTTGAGGACTTGGGGACTAGAT 58.892 50.000 0.00 0.00 36.63 1.98
373 374 3.491766 TGAGGACTTGGGGACTAGATT 57.508 47.619 0.00 0.00 36.63 2.40
374 375 3.107601 TGAGGACTTGGGGACTAGATTG 58.892 50.000 0.00 0.00 36.63 2.67
375 376 2.436173 GAGGACTTGGGGACTAGATTGG 59.564 54.545 0.00 0.00 36.63 3.16
376 377 2.197465 GGACTTGGGGACTAGATTGGT 58.803 52.381 0.00 0.00 36.63 3.67
377 378 2.576648 GGACTTGGGGACTAGATTGGTT 59.423 50.000 0.00 0.00 36.63 3.67
378 379 3.778629 GGACTTGGGGACTAGATTGGTTA 59.221 47.826 0.00 0.00 36.63 2.85
379 380 4.383880 GGACTTGGGGACTAGATTGGTTAC 60.384 50.000 0.00 0.00 36.63 2.50
380 381 4.436079 ACTTGGGGACTAGATTGGTTACT 58.564 43.478 0.00 0.00 36.63 2.24
381 382 4.225267 ACTTGGGGACTAGATTGGTTACTG 59.775 45.833 0.00 0.00 36.63 2.74
382 383 4.069312 TGGGGACTAGATTGGTTACTGA 57.931 45.455 0.00 0.00 0.00 3.41
383 384 4.431378 TGGGGACTAGATTGGTTACTGAA 58.569 43.478 0.00 0.00 0.00 3.02
384 385 5.036916 TGGGGACTAGATTGGTTACTGAAT 58.963 41.667 0.00 0.00 0.00 2.57
385 386 5.491078 TGGGGACTAGATTGGTTACTGAATT 59.509 40.000 0.00 0.00 0.00 2.17
386 387 6.011981 TGGGGACTAGATTGGTTACTGAATTT 60.012 38.462 0.00 0.00 0.00 1.82
387 388 6.890268 GGGGACTAGATTGGTTACTGAATTTT 59.110 38.462 0.00 0.00 0.00 1.82
388 389 7.067129 GGGGACTAGATTGGTTACTGAATTTTC 59.933 40.741 0.00 0.00 0.00 2.29
389 390 7.067129 GGGACTAGATTGGTTACTGAATTTTCC 59.933 40.741 0.00 0.00 0.00 3.13
390 391 7.201617 GGACTAGATTGGTTACTGAATTTTCCG 60.202 40.741 0.00 0.00 0.00 4.30
391 392 5.310720 AGATTGGTTACTGAATTTTCCGC 57.689 39.130 0.00 0.00 0.00 5.54
392 393 5.010282 AGATTGGTTACTGAATTTTCCGCT 58.990 37.500 0.00 0.00 0.00 5.52
393 394 6.177610 AGATTGGTTACTGAATTTTCCGCTA 58.822 36.000 0.00 0.00 0.00 4.26
394 395 6.828785 AGATTGGTTACTGAATTTTCCGCTAT 59.171 34.615 0.00 0.00 0.00 2.97
395 396 7.990886 AGATTGGTTACTGAATTTTCCGCTATA 59.009 33.333 0.00 0.00 0.00 1.31
396 397 7.548196 TTGGTTACTGAATTTTCCGCTATAG 57.452 36.000 0.00 0.00 0.00 1.31
397 398 6.053005 TGGTTACTGAATTTTCCGCTATAGG 58.947 40.000 1.04 0.00 0.00 2.57
398 399 6.053650 GGTTACTGAATTTTCCGCTATAGGT 58.946 40.000 1.04 0.00 0.00 3.08
399 400 7.147689 TGGTTACTGAATTTTCCGCTATAGGTA 60.148 37.037 1.04 0.00 0.00 3.08
400 401 7.876582 GGTTACTGAATTTTCCGCTATAGGTAT 59.123 37.037 1.04 0.00 0.00 2.73
401 402 9.918630 GTTACTGAATTTTCCGCTATAGGTATA 57.081 33.333 1.04 0.00 0.00 1.47
406 407 9.542462 TGAATTTTCCGCTATAGGTATATATGC 57.458 33.333 1.04 0.00 0.00 3.14
407 408 9.765795 GAATTTTCCGCTATAGGTATATATGCT 57.234 33.333 1.04 0.00 0.00 3.79
409 410 8.942338 TTTTCCGCTATAGGTATATATGCTTG 57.058 34.615 1.04 0.00 0.00 4.01
410 411 7.891498 TTCCGCTATAGGTATATATGCTTGA 57.109 36.000 1.04 0.00 0.00 3.02
411 412 8.478775 TTCCGCTATAGGTATATATGCTTGAT 57.521 34.615 1.04 0.00 0.00 2.57
412 413 8.112016 TCCGCTATAGGTATATATGCTTGATC 57.888 38.462 1.04 0.00 0.00 2.92
413 414 7.945109 TCCGCTATAGGTATATATGCTTGATCT 59.055 37.037 1.04 0.00 0.00 2.75
414 415 8.026026 CCGCTATAGGTATATATGCTTGATCTG 58.974 40.741 1.04 0.00 0.00 2.90
415 416 8.572185 CGCTATAGGTATATATGCTTGATCTGT 58.428 37.037 1.04 0.00 0.00 3.41
416 417 9.689976 GCTATAGGTATATATGCTTGATCTGTG 57.310 37.037 1.04 0.00 0.00 3.66
419 420 6.169094 AGGTATATATGCTTGATCTGTGTGC 58.831 40.000 0.62 0.00 0.00 4.57
420 421 6.013898 AGGTATATATGCTTGATCTGTGTGCT 60.014 38.462 0.62 0.00 0.00 4.40
421 422 6.652481 GGTATATATGCTTGATCTGTGTGCTT 59.348 38.462 0.62 0.00 0.00 3.91
422 423 7.819415 GGTATATATGCTTGATCTGTGTGCTTA 59.181 37.037 0.62 0.00 0.00 3.09
423 424 9.376075 GTATATATGCTTGATCTGTGTGCTTAT 57.624 33.333 0.00 0.00 0.00 1.73
424 425 4.895224 ATGCTTGATCTGTGTGCTTATG 57.105 40.909 0.00 0.00 0.00 1.90
425 426 3.678289 TGCTTGATCTGTGTGCTTATGT 58.322 40.909 0.00 0.00 0.00 2.29
426 427 3.686241 TGCTTGATCTGTGTGCTTATGTC 59.314 43.478 0.00 0.00 0.00 3.06
427 428 3.242220 GCTTGATCTGTGTGCTTATGTCG 60.242 47.826 0.00 0.00 0.00 4.35
428 429 3.866883 TGATCTGTGTGCTTATGTCGA 57.133 42.857 0.00 0.00 0.00 4.20
429 430 4.391405 TGATCTGTGTGCTTATGTCGAT 57.609 40.909 0.00 0.00 0.00 3.59
430 431 4.363138 TGATCTGTGTGCTTATGTCGATC 58.637 43.478 0.00 0.00 0.00 3.69
431 432 2.797491 TCTGTGTGCTTATGTCGATCG 58.203 47.619 9.36 9.36 0.00 3.69
432 433 2.422127 TCTGTGTGCTTATGTCGATCGA 59.578 45.455 15.15 15.15 0.00 3.59
433 434 3.066760 TCTGTGTGCTTATGTCGATCGAT 59.933 43.478 22.50 8.91 0.00 3.59
434 435 4.274950 TCTGTGTGCTTATGTCGATCGATA 59.725 41.667 22.50 19.72 0.00 2.92
435 436 4.927422 TGTGTGCTTATGTCGATCGATAA 58.073 39.130 22.50 15.18 0.00 1.75
436 437 5.528870 TGTGTGCTTATGTCGATCGATAAT 58.471 37.500 22.50 19.26 0.00 1.28
437 438 5.402270 TGTGTGCTTATGTCGATCGATAATG 59.598 40.000 22.50 13.28 0.00 1.90
438 439 5.629435 GTGTGCTTATGTCGATCGATAATGA 59.371 40.000 22.50 13.45 0.00 2.57
439 440 6.309009 GTGTGCTTATGTCGATCGATAATGAT 59.691 38.462 22.50 6.00 0.00 2.45
440 441 7.484959 GTGTGCTTATGTCGATCGATAATGATA 59.515 37.037 22.50 4.95 0.00 2.15
441 442 7.484959 TGTGCTTATGTCGATCGATAATGATAC 59.515 37.037 22.50 15.75 0.00 2.24
442 443 7.484959 GTGCTTATGTCGATCGATAATGATACA 59.515 37.037 22.50 12.60 0.00 2.29
443 444 7.698130 TGCTTATGTCGATCGATAATGATACAG 59.302 37.037 22.50 8.96 0.00 2.74
444 445 7.910683 GCTTATGTCGATCGATAATGATACAGA 59.089 37.037 22.50 6.81 0.00 3.41
445 446 9.943163 CTTATGTCGATCGATAATGATACAGAT 57.057 33.333 22.50 1.82 0.00 2.90
448 449 9.645059 ATGTCGATCGATAATGATACAGATTTT 57.355 29.630 22.50 0.00 0.00 1.82
449 450 8.915654 TGTCGATCGATAATGATACAGATTTTG 58.084 33.333 22.50 0.00 0.00 2.44
450 451 8.376203 GTCGATCGATAATGATACAGATTTTGG 58.624 37.037 22.50 0.00 0.00 3.28
451 452 8.088365 TCGATCGATAATGATACAGATTTTGGT 58.912 33.333 15.15 0.00 0.00 3.67
452 453 8.164790 CGATCGATAATGATACAGATTTTGGTG 58.835 37.037 10.26 0.00 0.00 4.17
453 454 9.208022 GATCGATAATGATACAGATTTTGGTGA 57.792 33.333 0.00 0.00 0.00 4.02
454 455 9.730705 ATCGATAATGATACAGATTTTGGTGAT 57.269 29.630 0.00 0.00 0.00 3.06
459 460 8.806429 AATGATACAGATTTTGGTGATACACA 57.194 30.769 0.00 0.00 35.86 3.72
460 461 8.806429 ATGATACAGATTTTGGTGATACACAA 57.194 30.769 0.00 0.00 35.86 3.33
461 462 8.806429 TGATACAGATTTTGGTGATACACAAT 57.194 30.769 0.00 0.00 35.86 2.71
462 463 9.898152 TGATACAGATTTTGGTGATACACAATA 57.102 29.630 0.00 0.00 35.86 1.90
466 467 9.859427 ACAGATTTTGGTGATACACAATATTTG 57.141 29.630 0.00 0.00 35.86 2.32
467 468 9.859427 CAGATTTTGGTGATACACAATATTTGT 57.141 29.630 0.00 7.92 46.75 2.83
506 507 0.390124 TCAGTTGGTAGGTCGCGTTT 59.610 50.000 5.77 0.00 0.00 3.60
509 510 0.664166 GTTGGTAGGTCGCGTTTCGA 60.664 55.000 5.77 0.00 46.29 3.71
581 582 0.178846 TCCTCCCACCATCCCTTCAA 60.179 55.000 0.00 0.00 0.00 2.69
668 670 1.135460 GTCCCACTACTTTCGTCCGAG 60.135 57.143 0.00 0.00 0.00 4.63
700 703 2.751688 TTTTTCGTCCCCTCCCCG 59.248 61.111 0.00 0.00 0.00 5.73
1925 3460 1.698532 GTCCAGGGCTCATCATCATCT 59.301 52.381 0.00 0.00 0.00 2.90
2272 4022 5.187186 GGAGAGGTCTACATCCAAACTGTTA 59.813 44.000 0.00 0.00 0.00 2.41
2528 4278 1.810151 TGAGAGCGTGGTAAAATTGGC 59.190 47.619 0.00 0.00 0.00 4.52
2721 4943 4.798574 CACTTGTTTATTTCCTGGTGAGC 58.201 43.478 0.00 0.00 0.00 4.26
2816 5038 4.000988 CTGTTAAGTTAGGTCCGCACAAT 58.999 43.478 0.00 0.00 0.00 2.71
3279 5569 3.185880 ACTCAGTTGTCTTAGCCCCTA 57.814 47.619 0.00 0.00 0.00 3.53
3316 5606 8.472007 TTTTCTCTTTAATGTTTAGGCTTCCA 57.528 30.769 0.00 0.00 0.00 3.53
3352 5642 9.099454 AGTATAGTAACACTGAGCAAATTAAGC 57.901 33.333 0.00 0.00 0.00 3.09
3400 5690 1.181786 GGTGTGAGAGAGAGGGTGAG 58.818 60.000 0.00 0.00 0.00 3.51
3401 5691 1.272203 GGTGTGAGAGAGAGGGTGAGA 60.272 57.143 0.00 0.00 0.00 3.27
3402 5692 2.520069 GTGTGAGAGAGAGGGTGAGAA 58.480 52.381 0.00 0.00 0.00 2.87
3403 5693 2.894126 GTGTGAGAGAGAGGGTGAGAAA 59.106 50.000 0.00 0.00 0.00 2.52
3404 5694 3.056891 GTGTGAGAGAGAGGGTGAGAAAG 60.057 52.174 0.00 0.00 0.00 2.62
3405 5695 3.181428 TGTGAGAGAGAGGGTGAGAAAGA 60.181 47.826 0.00 0.00 0.00 2.52
3406 5696 3.443681 GTGAGAGAGAGGGTGAGAAAGAG 59.556 52.174 0.00 0.00 0.00 2.85
3407 5697 3.332187 TGAGAGAGAGGGTGAGAAAGAGA 59.668 47.826 0.00 0.00 0.00 3.10
3408 5698 3.947834 GAGAGAGAGGGTGAGAAAGAGAG 59.052 52.174 0.00 0.00 0.00 3.20
3409 5699 3.023832 GAGAGAGGGTGAGAAAGAGAGG 58.976 54.545 0.00 0.00 0.00 3.69
3410 5700 2.107366 GAGAGGGTGAGAAAGAGAGGG 58.893 57.143 0.00 0.00 0.00 4.30
3411 5701 1.719378 AGAGGGTGAGAAAGAGAGGGA 59.281 52.381 0.00 0.00 0.00 4.20
3412 5702 2.107366 GAGGGTGAGAAAGAGAGGGAG 58.893 57.143 0.00 0.00 0.00 4.30
3413 5703 1.719378 AGGGTGAGAAAGAGAGGGAGA 59.281 52.381 0.00 0.00 0.00 3.71
3414 5704 2.107366 GGGTGAGAAAGAGAGGGAGAG 58.893 57.143 0.00 0.00 0.00 3.20
3415 5705 2.107366 GGTGAGAAAGAGAGGGAGAGG 58.893 57.143 0.00 0.00 0.00 3.69
3416 5706 2.107366 GTGAGAAAGAGAGGGAGAGGG 58.893 57.143 0.00 0.00 0.00 4.30
3417 5707 1.007721 TGAGAAAGAGAGGGAGAGGGG 59.992 57.143 0.00 0.00 0.00 4.79
3418 5708 1.289530 GAGAAAGAGAGGGAGAGGGGA 59.710 57.143 0.00 0.00 0.00 4.81
3419 5709 1.290732 AGAAAGAGAGGGAGAGGGGAG 59.709 57.143 0.00 0.00 0.00 4.30
3420 5710 0.341609 AAAGAGAGGGAGAGGGGAGG 59.658 60.000 0.00 0.00 0.00 4.30
3421 5711 1.598856 AAGAGAGGGAGAGGGGAGGG 61.599 65.000 0.00 0.00 0.00 4.30
3422 5712 3.039526 AGAGGGAGAGGGGAGGGG 61.040 72.222 0.00 0.00 0.00 4.79
3423 5713 3.369388 GAGGGAGAGGGGAGGGGT 61.369 72.222 0.00 0.00 0.00 4.95
3424 5714 3.700350 AGGGAGAGGGGAGGGGTG 61.700 72.222 0.00 0.00 0.00 4.61
3425 5715 4.026357 GGGAGAGGGGAGGGGTGT 62.026 72.222 0.00 0.00 0.00 4.16
3426 5716 2.689034 GGAGAGGGGAGGGGTGTG 60.689 72.222 0.00 0.00 0.00 3.82
3427 5717 2.450243 GAGAGGGGAGGGGTGTGA 59.550 66.667 0.00 0.00 0.00 3.58
3428 5718 1.687493 GAGAGGGGAGGGGTGTGAG 60.687 68.421 0.00 0.00 0.00 3.51
3429 5719 2.169590 GAGAGGGGAGGGGTGTGAGA 62.170 65.000 0.00 0.00 0.00 3.27
3430 5720 1.687493 GAGGGGAGGGGTGTGAGAG 60.687 68.421 0.00 0.00 0.00 3.20
3431 5721 2.169590 GAGGGGAGGGGTGTGAGAGA 62.170 65.000 0.00 0.00 0.00 3.10
3432 5722 1.687493 GGGGAGGGGTGTGAGAGAG 60.687 68.421 0.00 0.00 0.00 3.20
3433 5723 1.388531 GGGAGGGGTGTGAGAGAGA 59.611 63.158 0.00 0.00 0.00 3.10
3434 5724 0.686112 GGGAGGGGTGTGAGAGAGAG 60.686 65.000 0.00 0.00 0.00 3.20
3435 5725 0.686112 GGAGGGGTGTGAGAGAGAGG 60.686 65.000 0.00 0.00 0.00 3.69
3436 5726 0.686112 GAGGGGTGTGAGAGAGAGGG 60.686 65.000 0.00 0.00 0.00 4.30
3437 5727 1.079438 GGGGTGTGAGAGAGAGGGT 59.921 63.158 0.00 0.00 0.00 4.34
3438 5728 1.261238 GGGGTGTGAGAGAGAGGGTG 61.261 65.000 0.00 0.00 0.00 4.61
3439 5729 1.261238 GGGTGTGAGAGAGAGGGTGG 61.261 65.000 0.00 0.00 0.00 4.61
3453 5743 2.907042 GAGGGTGGGAAAGAGAGAAAGA 59.093 50.000 0.00 0.00 0.00 2.52
3483 7652 2.093235 GGGAGAGAGAAGTGGACAATGG 60.093 54.545 0.00 0.00 0.00 3.16
3498 7667 0.031994 AATGGTTGCTTCAACACCGC 59.968 50.000 11.22 0.00 45.11 5.68
3512 7681 0.810031 CACCGCTGTGGGTATACTGC 60.810 60.000 12.58 0.00 44.64 4.40
3521 7690 1.138069 TGGGTATACTGCCATGTGACG 59.862 52.381 2.25 0.00 0.00 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 0.682532 ATGAGAGAGAGGCAGCGACA 60.683 55.000 0.00 0.00 0.00 4.35
24 25 0.106769 AGATGAGAGAGAGGCAGCGA 60.107 55.000 0.00 0.00 0.00 4.93
40 41 1.347050 CGCCATCAGATTGGGAGAGAT 59.653 52.381 0.00 0.00 37.24 2.75
57 58 3.866582 CCTCCTCCCATCACCGCC 61.867 72.222 0.00 0.00 0.00 6.13
113 114 3.134458 GTTGACACTGCTACTTGCTTCT 58.866 45.455 0.00 0.00 43.37 2.85
151 152 2.692709 TTCCTTTCCCTGCCAAATCA 57.307 45.000 0.00 0.00 0.00 2.57
170 171 1.453155 GCCACCAATCTGTCGTTCAT 58.547 50.000 0.00 0.00 0.00 2.57
181 182 2.114670 CGAATCAGCCGCCACCAAT 61.115 57.895 0.00 0.00 0.00 3.16
204 205 2.218037 TAGTCGTGGCTGCTCTGCTG 62.218 60.000 0.00 0.00 0.00 4.41
230 231 1.550524 CCTCTGTTCATTCCTCGGTGA 59.449 52.381 0.00 0.00 0.00 4.02
231 232 1.550524 TCCTCTGTTCATTCCTCGGTG 59.449 52.381 0.00 0.00 0.00 4.94
232 233 1.938585 TCCTCTGTTCATTCCTCGGT 58.061 50.000 0.00 0.00 0.00 4.69
233 234 3.550437 ATTCCTCTGTTCATTCCTCGG 57.450 47.619 0.00 0.00 0.00 4.63
234 235 3.064545 GCAATTCCTCTGTTCATTCCTCG 59.935 47.826 0.00 0.00 0.00 4.63
235 236 4.268359 AGCAATTCCTCTGTTCATTCCTC 58.732 43.478 0.00 0.00 0.00 3.71
236 237 4.313020 AGCAATTCCTCTGTTCATTCCT 57.687 40.909 0.00 0.00 0.00 3.36
237 238 4.704057 AGAAGCAATTCCTCTGTTCATTCC 59.296 41.667 0.00 0.00 0.00 3.01
238 239 5.413833 TGAGAAGCAATTCCTCTGTTCATTC 59.586 40.000 0.00 0.00 0.00 2.67
239 240 5.319453 TGAGAAGCAATTCCTCTGTTCATT 58.681 37.500 0.00 0.00 0.00 2.57
240 241 4.914983 TGAGAAGCAATTCCTCTGTTCAT 58.085 39.130 0.00 0.00 0.00 2.57
241 242 4.356405 TGAGAAGCAATTCCTCTGTTCA 57.644 40.909 0.00 0.00 0.00 3.18
242 243 5.335504 CCTTTGAGAAGCAATTCCTCTGTTC 60.336 44.000 0.00 0.00 36.15 3.18
243 244 4.522022 CCTTTGAGAAGCAATTCCTCTGTT 59.478 41.667 0.00 0.00 36.15 3.16
244 245 4.077822 CCTTTGAGAAGCAATTCCTCTGT 58.922 43.478 0.00 0.00 36.15 3.41
245 246 4.077822 ACCTTTGAGAAGCAATTCCTCTG 58.922 43.478 0.00 0.00 36.15 3.35
246 247 4.379302 ACCTTTGAGAAGCAATTCCTCT 57.621 40.909 0.00 0.00 36.15 3.69
247 248 5.123027 CACTACCTTTGAGAAGCAATTCCTC 59.877 44.000 0.00 0.00 36.15 3.71
248 249 5.006386 CACTACCTTTGAGAAGCAATTCCT 58.994 41.667 0.00 0.00 36.15 3.36
249 250 4.762251 ACACTACCTTTGAGAAGCAATTCC 59.238 41.667 0.00 0.00 36.15 3.01
250 251 5.948992 ACACTACCTTTGAGAAGCAATTC 57.051 39.130 0.00 0.00 36.15 2.17
251 252 5.827797 TCAACACTACCTTTGAGAAGCAATT 59.172 36.000 0.00 0.00 36.15 2.32
252 253 5.376625 TCAACACTACCTTTGAGAAGCAAT 58.623 37.500 0.00 0.00 36.15 3.56
253 254 4.776349 TCAACACTACCTTTGAGAAGCAA 58.224 39.130 0.00 0.00 33.88 3.91
254 255 4.415881 TCAACACTACCTTTGAGAAGCA 57.584 40.909 0.00 0.00 0.00 3.91
255 256 5.948992 ATTCAACACTACCTTTGAGAAGC 57.051 39.130 0.00 0.00 33.36 3.86
256 257 7.162082 AGGTATTCAACACTACCTTTGAGAAG 58.838 38.462 0.00 0.00 44.20 2.85
257 258 7.074653 AGGTATTCAACACTACCTTTGAGAA 57.925 36.000 0.00 0.00 44.20 2.87
258 259 6.571731 CGAGGTATTCAACACTACCTTTGAGA 60.572 42.308 2.98 0.00 46.07 3.27
259 260 5.577164 CGAGGTATTCAACACTACCTTTGAG 59.423 44.000 2.98 0.00 46.07 3.02
260 261 5.011329 ACGAGGTATTCAACACTACCTTTGA 59.989 40.000 2.98 0.00 46.07 2.69
261 262 5.235516 ACGAGGTATTCAACACTACCTTTG 58.764 41.667 2.98 2.61 46.07 2.77
262 263 5.479124 ACGAGGTATTCAACACTACCTTT 57.521 39.130 2.98 0.00 46.07 3.11
263 264 5.479124 AACGAGGTATTCAACACTACCTT 57.521 39.130 2.98 0.00 46.07 3.50
265 266 6.549912 AAAAACGAGGTATTCAACACTACC 57.450 37.500 0.00 0.00 38.13 3.18
285 286 7.844009 ACGAGATATACAACACTCCCTAAAAA 58.156 34.615 0.00 0.00 0.00 1.94
286 287 7.414222 ACGAGATATACAACACTCCCTAAAA 57.586 36.000 0.00 0.00 0.00 1.52
287 288 7.123098 TCAACGAGATATACAACACTCCCTAAA 59.877 37.037 0.00 0.00 0.00 1.85
288 289 6.604396 TCAACGAGATATACAACACTCCCTAA 59.396 38.462 0.00 0.00 0.00 2.69
289 290 6.124340 TCAACGAGATATACAACACTCCCTA 58.876 40.000 0.00 0.00 0.00 3.53
290 291 4.954202 TCAACGAGATATACAACACTCCCT 59.046 41.667 0.00 0.00 0.00 4.20
291 292 5.258456 TCAACGAGATATACAACACTCCC 57.742 43.478 0.00 0.00 0.00 4.30
292 293 6.097356 TGTTCAACGAGATATACAACACTCC 58.903 40.000 0.00 0.00 0.00 3.85
293 294 7.757097 ATGTTCAACGAGATATACAACACTC 57.243 36.000 0.00 0.00 0.00 3.51
294 295 8.683615 TCTATGTTCAACGAGATATACAACACT 58.316 33.333 0.00 0.00 0.00 3.55
295 296 8.851960 TCTATGTTCAACGAGATATACAACAC 57.148 34.615 0.00 0.00 0.00 3.32
296 297 9.463443 CATCTATGTTCAACGAGATATACAACA 57.537 33.333 4.79 0.00 0.00 3.33
297 298 9.678941 TCATCTATGTTCAACGAGATATACAAC 57.321 33.333 4.79 0.00 0.00 3.32
298 299 9.899226 CTCATCTATGTTCAACGAGATATACAA 57.101 33.333 4.79 0.00 0.00 2.41
299 300 9.284968 TCTCATCTATGTTCAACGAGATATACA 57.715 33.333 4.79 0.00 0.00 2.29
302 303 9.636879 CAATCTCATCTATGTTCAACGAGATAT 57.363 33.333 4.79 0.00 37.68 1.63
303 304 8.850156 TCAATCTCATCTATGTTCAACGAGATA 58.150 33.333 4.79 0.00 37.68 1.98
304 305 7.720442 TCAATCTCATCTATGTTCAACGAGAT 58.280 34.615 0.00 0.00 39.73 2.75
305 306 7.100458 TCAATCTCATCTATGTTCAACGAGA 57.900 36.000 0.00 0.00 32.98 4.04
306 307 7.943413 ATCAATCTCATCTATGTTCAACGAG 57.057 36.000 0.00 0.00 0.00 4.18
307 308 9.987272 ATAATCAATCTCATCTATGTTCAACGA 57.013 29.630 0.00 0.00 0.00 3.85
314 315 9.788889 TGCAAAGATAATCAATCTCATCTATGT 57.211 29.630 0.00 0.00 44.56 2.29
335 336 3.316029 CCTCAACATCACAGACTTGCAAA 59.684 43.478 0.00 0.00 0.00 3.68
336 337 2.880268 CCTCAACATCACAGACTTGCAA 59.120 45.455 0.00 0.00 0.00 4.08
337 338 2.104622 TCCTCAACATCACAGACTTGCA 59.895 45.455 0.00 0.00 0.00 4.08
338 339 2.481952 GTCCTCAACATCACAGACTTGC 59.518 50.000 0.00 0.00 0.00 4.01
339 340 4.000331 AGTCCTCAACATCACAGACTTG 58.000 45.455 0.00 0.00 30.65 3.16
340 341 4.384056 CAAGTCCTCAACATCACAGACTT 58.616 43.478 0.00 0.00 43.41 3.01
341 342 3.244353 CCAAGTCCTCAACATCACAGACT 60.244 47.826 0.00 0.00 36.17 3.24
342 343 3.070018 CCAAGTCCTCAACATCACAGAC 58.930 50.000 0.00 0.00 0.00 3.51
343 344 2.038952 CCCAAGTCCTCAACATCACAGA 59.961 50.000 0.00 0.00 0.00 3.41
344 345 2.430465 CCCAAGTCCTCAACATCACAG 58.570 52.381 0.00 0.00 0.00 3.66
345 346 1.073763 CCCCAAGTCCTCAACATCACA 59.926 52.381 0.00 0.00 0.00 3.58
346 347 1.351017 TCCCCAAGTCCTCAACATCAC 59.649 52.381 0.00 0.00 0.00 3.06
347 348 1.351017 GTCCCCAAGTCCTCAACATCA 59.649 52.381 0.00 0.00 0.00 3.07
348 349 1.630878 AGTCCCCAAGTCCTCAACATC 59.369 52.381 0.00 0.00 0.00 3.06
349 350 1.747444 AGTCCCCAAGTCCTCAACAT 58.253 50.000 0.00 0.00 0.00 2.71
350 351 2.158219 TCTAGTCCCCAAGTCCTCAACA 60.158 50.000 0.00 0.00 0.00 3.33
351 352 2.537143 TCTAGTCCCCAAGTCCTCAAC 58.463 52.381 0.00 0.00 0.00 3.18
352 353 3.491766 ATCTAGTCCCCAAGTCCTCAA 57.508 47.619 0.00 0.00 0.00 3.02
353 354 3.107601 CAATCTAGTCCCCAAGTCCTCA 58.892 50.000 0.00 0.00 0.00 3.86
354 355 2.436173 CCAATCTAGTCCCCAAGTCCTC 59.564 54.545 0.00 0.00 0.00 3.71
355 356 2.225908 ACCAATCTAGTCCCCAAGTCCT 60.226 50.000 0.00 0.00 0.00 3.85
356 357 2.197465 ACCAATCTAGTCCCCAAGTCC 58.803 52.381 0.00 0.00 0.00 3.85
357 358 4.470304 AGTAACCAATCTAGTCCCCAAGTC 59.530 45.833 0.00 0.00 0.00 3.01
358 359 4.225267 CAGTAACCAATCTAGTCCCCAAGT 59.775 45.833 0.00 0.00 0.00 3.16
359 360 4.469945 TCAGTAACCAATCTAGTCCCCAAG 59.530 45.833 0.00 0.00 0.00 3.61
360 361 4.431378 TCAGTAACCAATCTAGTCCCCAA 58.569 43.478 0.00 0.00 0.00 4.12
361 362 4.069312 TCAGTAACCAATCTAGTCCCCA 57.931 45.455 0.00 0.00 0.00 4.96
362 363 5.632034 ATTCAGTAACCAATCTAGTCCCC 57.368 43.478 0.00 0.00 0.00 4.81
363 364 7.067129 GGAAAATTCAGTAACCAATCTAGTCCC 59.933 40.741 0.00 0.00 0.00 4.46
364 365 7.201617 CGGAAAATTCAGTAACCAATCTAGTCC 60.202 40.741 0.00 0.00 0.00 3.85
365 366 7.676572 GCGGAAAATTCAGTAACCAATCTAGTC 60.677 40.741 0.00 0.00 0.00 2.59
366 367 6.093633 GCGGAAAATTCAGTAACCAATCTAGT 59.906 38.462 0.00 0.00 0.00 2.57
367 368 6.316390 AGCGGAAAATTCAGTAACCAATCTAG 59.684 38.462 0.00 0.00 0.00 2.43
368 369 6.177610 AGCGGAAAATTCAGTAACCAATCTA 58.822 36.000 0.00 0.00 0.00 1.98
369 370 5.010282 AGCGGAAAATTCAGTAACCAATCT 58.990 37.500 0.00 0.00 0.00 2.40
370 371 5.310720 AGCGGAAAATTCAGTAACCAATC 57.689 39.130 0.00 0.00 0.00 2.67
371 372 7.228706 CCTATAGCGGAAAATTCAGTAACCAAT 59.771 37.037 0.00 0.00 0.00 3.16
372 373 6.540914 CCTATAGCGGAAAATTCAGTAACCAA 59.459 38.462 0.00 0.00 0.00 3.67
373 374 6.053005 CCTATAGCGGAAAATTCAGTAACCA 58.947 40.000 0.00 0.00 0.00 3.67
374 375 6.053650 ACCTATAGCGGAAAATTCAGTAACC 58.946 40.000 0.00 0.00 0.00 2.85
375 376 8.828688 ATACCTATAGCGGAAAATTCAGTAAC 57.171 34.615 0.00 0.00 0.00 2.50
380 381 9.542462 GCATATATACCTATAGCGGAAAATTCA 57.458 33.333 0.00 0.00 0.00 2.57
381 382 9.765795 AGCATATATACCTATAGCGGAAAATTC 57.234 33.333 0.00 0.00 0.00 2.17
383 384 9.547753 CAAGCATATATACCTATAGCGGAAAAT 57.452 33.333 0.00 0.00 0.00 1.82
384 385 8.755028 TCAAGCATATATACCTATAGCGGAAAA 58.245 33.333 0.00 0.00 0.00 2.29
385 386 8.301252 TCAAGCATATATACCTATAGCGGAAA 57.699 34.615 0.00 0.00 0.00 3.13
386 387 7.891498 TCAAGCATATATACCTATAGCGGAA 57.109 36.000 0.00 0.00 0.00 4.30
387 388 7.945109 AGATCAAGCATATATACCTATAGCGGA 59.055 37.037 0.00 0.00 0.00 5.54
388 389 8.026026 CAGATCAAGCATATATACCTATAGCGG 58.974 40.741 0.00 0.00 0.00 5.52
389 390 8.572185 ACAGATCAAGCATATATACCTATAGCG 58.428 37.037 0.00 0.00 0.00 4.26
390 391 9.689976 CACAGATCAAGCATATATACCTATAGC 57.310 37.037 0.00 0.00 0.00 2.97
393 394 7.984050 GCACACAGATCAAGCATATATACCTAT 59.016 37.037 0.00 0.00 0.00 2.57
394 395 7.179160 AGCACACAGATCAAGCATATATACCTA 59.821 37.037 0.00 0.00 0.00 3.08
395 396 6.013898 AGCACACAGATCAAGCATATATACCT 60.014 38.462 0.00 0.00 0.00 3.08
396 397 6.169094 AGCACACAGATCAAGCATATATACC 58.831 40.000 0.00 0.00 0.00 2.73
397 398 7.664082 AAGCACACAGATCAAGCATATATAC 57.336 36.000 0.00 0.00 0.00 1.47
398 399 9.374838 CATAAGCACACAGATCAAGCATATATA 57.625 33.333 0.00 0.00 0.00 0.86
399 400 7.881751 ACATAAGCACACAGATCAAGCATATAT 59.118 33.333 0.00 0.00 0.00 0.86
400 401 7.219322 ACATAAGCACACAGATCAAGCATATA 58.781 34.615 0.00 0.00 0.00 0.86
401 402 6.060136 ACATAAGCACACAGATCAAGCATAT 58.940 36.000 0.00 0.00 0.00 1.78
402 403 5.430886 ACATAAGCACACAGATCAAGCATA 58.569 37.500 0.00 0.00 0.00 3.14
403 404 4.267536 ACATAAGCACACAGATCAAGCAT 58.732 39.130 0.00 0.00 0.00 3.79
404 405 3.678289 ACATAAGCACACAGATCAAGCA 58.322 40.909 0.00 0.00 0.00 3.91
405 406 3.242220 CGACATAAGCACACAGATCAAGC 60.242 47.826 0.00 0.00 0.00 4.01
406 407 4.176271 TCGACATAAGCACACAGATCAAG 58.824 43.478 0.00 0.00 0.00 3.02
407 408 4.186856 TCGACATAAGCACACAGATCAA 57.813 40.909 0.00 0.00 0.00 2.57
408 409 3.866883 TCGACATAAGCACACAGATCA 57.133 42.857 0.00 0.00 0.00 2.92
409 410 3.423536 CGATCGACATAAGCACACAGATC 59.576 47.826 10.26 0.00 0.00 2.75
410 411 3.066760 TCGATCGACATAAGCACACAGAT 59.933 43.478 15.15 0.00 0.00 2.90
411 412 2.422127 TCGATCGACATAAGCACACAGA 59.578 45.455 15.15 0.00 0.00 3.41
412 413 2.797491 TCGATCGACATAAGCACACAG 58.203 47.619 15.15 0.00 0.00 3.66
413 414 2.931512 TCGATCGACATAAGCACACA 57.068 45.000 15.15 0.00 0.00 3.72
414 415 5.629435 TCATTATCGATCGACATAAGCACAC 59.371 40.000 22.06 0.00 0.00 3.82
415 416 5.768317 TCATTATCGATCGACATAAGCACA 58.232 37.500 22.06 0.00 0.00 4.57
416 417 6.877556 ATCATTATCGATCGACATAAGCAC 57.122 37.500 22.06 0.00 0.00 4.40
417 418 7.535139 TGTATCATTATCGATCGACATAAGCA 58.465 34.615 22.06 10.07 0.00 3.91
418 419 7.910683 TCTGTATCATTATCGATCGACATAAGC 59.089 37.037 22.06 7.60 0.00 3.09
419 420 9.943163 ATCTGTATCATTATCGATCGACATAAG 57.057 33.333 22.06 9.83 0.00 1.73
422 423 9.645059 AAAATCTGTATCATTATCGATCGACAT 57.355 29.630 22.06 12.83 0.00 3.06
423 424 8.915654 CAAAATCTGTATCATTATCGATCGACA 58.084 33.333 22.06 5.77 0.00 4.35
424 425 8.376203 CCAAAATCTGTATCATTATCGATCGAC 58.624 37.037 22.06 6.15 0.00 4.20
425 426 8.088365 ACCAAAATCTGTATCATTATCGATCGA 58.912 33.333 21.86 21.86 0.00 3.59
426 427 8.164790 CACCAAAATCTGTATCATTATCGATCG 58.835 37.037 9.36 9.36 0.00 3.69
427 428 9.208022 TCACCAAAATCTGTATCATTATCGATC 57.792 33.333 0.00 0.00 0.00 3.69
428 429 9.730705 ATCACCAAAATCTGTATCATTATCGAT 57.269 29.630 2.16 2.16 0.00 3.59
433 434 9.898152 TGTGTATCACCAAAATCTGTATCATTA 57.102 29.630 0.00 0.00 32.73 1.90
434 435 8.806429 TGTGTATCACCAAAATCTGTATCATT 57.194 30.769 0.00 0.00 32.73 2.57
435 436 8.806429 TTGTGTATCACCAAAATCTGTATCAT 57.194 30.769 0.00 0.00 32.73 2.45
436 437 8.806429 ATTGTGTATCACCAAAATCTGTATCA 57.194 30.769 0.00 0.00 32.73 2.15
440 441 9.859427 CAAATATTGTGTATCACCAAAATCTGT 57.141 29.630 0.00 0.00 32.73 3.41
441 442 9.859427 ACAAATATTGTGTATCACCAAAATCTG 57.141 29.630 0.00 0.00 43.48 2.90
463 464 9.475620 TGAGACATTAGGAGTAGAGATAACAAA 57.524 33.333 0.00 0.00 0.00 2.83
464 465 9.126151 CTGAGACATTAGGAGTAGAGATAACAA 57.874 37.037 0.00 0.00 0.00 2.83
465 466 8.275758 ACTGAGACATTAGGAGTAGAGATAACA 58.724 37.037 0.00 0.00 0.00 2.41
466 467 8.685838 ACTGAGACATTAGGAGTAGAGATAAC 57.314 38.462 0.00 0.00 0.00 1.89
467 468 9.126151 CAACTGAGACATTAGGAGTAGAGATAA 57.874 37.037 0.00 0.00 0.00 1.75
506 507 3.747529 GGTGGGACGAAAATAAAACTCGA 59.252 43.478 0.00 0.00 36.45 4.04
509 510 4.517832 GTGAGGTGGGACGAAAATAAAACT 59.482 41.667 0.00 0.00 0.00 2.66
581 582 3.799963 GGTTTTCTTTGATTTTTCGCGGT 59.200 39.130 6.13 0.00 0.00 5.68
1925 3460 1.595993 CGGACTTCCTCCTCTTCGCA 61.596 60.000 0.00 0.00 36.80 5.10
2272 4022 1.153756 CCTCCCAGGTGCCAAAACT 59.846 57.895 0.00 0.00 0.00 2.66
2920 5210 9.462174 CAAAACTTTTAGTGATTGCATACTTCA 57.538 29.630 4.42 0.00 0.00 3.02
3256 5546 2.038557 GGGGCTAAGACAACTGAGTTCA 59.961 50.000 0.00 0.00 0.00 3.18
3257 5547 2.303311 AGGGGCTAAGACAACTGAGTTC 59.697 50.000 0.00 0.00 0.00 3.01
3258 5548 2.339769 AGGGGCTAAGACAACTGAGTT 58.660 47.619 0.00 0.00 0.00 3.01
3259 5549 2.031495 AGGGGCTAAGACAACTGAGT 57.969 50.000 0.00 0.00 0.00 3.41
3260 5550 5.871396 TTATAGGGGCTAAGACAACTGAG 57.129 43.478 0.00 0.00 0.00 3.35
3261 5551 5.130477 CCTTTATAGGGGCTAAGACAACTGA 59.870 44.000 0.00 0.00 37.94 3.41
3262 5552 5.104485 ACCTTTATAGGGGCTAAGACAACTG 60.104 44.000 4.12 0.00 46.58 3.16
3400 5690 1.691163 CCTCCCCTCTCCCTCTCTTTC 60.691 61.905 0.00 0.00 0.00 2.62
3401 5691 0.341609 CCTCCCCTCTCCCTCTCTTT 59.658 60.000 0.00 0.00 0.00 2.52
3402 5692 1.598856 CCCTCCCCTCTCCCTCTCTT 61.599 65.000 0.00 0.00 0.00 2.85
3403 5693 2.018086 CCCTCCCCTCTCCCTCTCT 61.018 68.421 0.00 0.00 0.00 3.10
3404 5694 2.612251 CCCTCCCCTCTCCCTCTC 59.388 72.222 0.00 0.00 0.00 3.20
3405 5695 3.039526 CCCCTCCCCTCTCCCTCT 61.040 72.222 0.00 0.00 0.00 3.69
3406 5696 3.369388 ACCCCTCCCCTCTCCCTC 61.369 72.222 0.00 0.00 0.00 4.30
3407 5697 3.700350 CACCCCTCCCCTCTCCCT 61.700 72.222 0.00 0.00 0.00 4.20
3408 5698 4.026357 ACACCCCTCCCCTCTCCC 62.026 72.222 0.00 0.00 0.00 4.30
3409 5699 2.689034 CACACCCCTCCCCTCTCC 60.689 72.222 0.00 0.00 0.00 3.71
3410 5700 1.687493 CTCACACCCCTCCCCTCTC 60.687 68.421 0.00 0.00 0.00 3.20
3411 5701 2.174876 CTCTCACACCCCTCCCCTCT 62.175 65.000 0.00 0.00 0.00 3.69
3412 5702 1.687493 CTCTCACACCCCTCCCCTC 60.687 68.421 0.00 0.00 0.00 4.30
3413 5703 2.174876 CTCTCTCACACCCCTCCCCT 62.175 65.000 0.00 0.00 0.00 4.79
3414 5704 1.687493 CTCTCTCACACCCCTCCCC 60.687 68.421 0.00 0.00 0.00 4.81
3415 5705 0.686112 CTCTCTCTCACACCCCTCCC 60.686 65.000 0.00 0.00 0.00 4.30
3416 5706 0.686112 CCTCTCTCTCACACCCCTCC 60.686 65.000 0.00 0.00 0.00 4.30
3417 5707 0.686112 CCCTCTCTCTCACACCCCTC 60.686 65.000 0.00 0.00 0.00 4.30
3418 5708 1.390125 CCCTCTCTCTCACACCCCT 59.610 63.158 0.00 0.00 0.00 4.79
3419 5709 1.079438 ACCCTCTCTCTCACACCCC 59.921 63.158 0.00 0.00 0.00 4.95
3420 5710 1.261238 CCACCCTCTCTCTCACACCC 61.261 65.000 0.00 0.00 0.00 4.61
3421 5711 1.261238 CCCACCCTCTCTCTCACACC 61.261 65.000 0.00 0.00 0.00 4.16
3422 5712 0.251832 TCCCACCCTCTCTCTCACAC 60.252 60.000 0.00 0.00 0.00 3.82
3423 5713 0.487325 TTCCCACCCTCTCTCTCACA 59.513 55.000 0.00 0.00 0.00 3.58
3424 5714 1.552792 CTTTCCCACCCTCTCTCTCAC 59.447 57.143 0.00 0.00 0.00 3.51
3425 5715 1.433199 TCTTTCCCACCCTCTCTCTCA 59.567 52.381 0.00 0.00 0.00 3.27
3426 5716 2.107366 CTCTTTCCCACCCTCTCTCTC 58.893 57.143 0.00 0.00 0.00 3.20
3427 5717 1.719378 TCTCTTTCCCACCCTCTCTCT 59.281 52.381 0.00 0.00 0.00 3.10
3428 5718 2.107366 CTCTCTTTCCCACCCTCTCTC 58.893 57.143 0.00 0.00 0.00 3.20
3429 5719 1.719378 TCTCTCTTTCCCACCCTCTCT 59.281 52.381 0.00 0.00 0.00 3.10
3430 5720 2.239681 TCTCTCTTTCCCACCCTCTC 57.760 55.000 0.00 0.00 0.00 3.20
3431 5721 2.723530 TTCTCTCTTTCCCACCCTCT 57.276 50.000 0.00 0.00 0.00 3.69
3432 5722 2.907042 TCTTTCTCTCTTTCCCACCCTC 59.093 50.000 0.00 0.00 0.00 4.30
3433 5723 2.909662 CTCTTTCTCTCTTTCCCACCCT 59.090 50.000 0.00 0.00 0.00 4.34
3434 5724 2.616765 GCTCTTTCTCTCTTTCCCACCC 60.617 54.545 0.00 0.00 0.00 4.61
3435 5725 2.705730 GCTCTTTCTCTCTTTCCCACC 58.294 52.381 0.00 0.00 0.00 4.61
3436 5726 2.028930 TCGCTCTTTCTCTCTTTCCCAC 60.029 50.000 0.00 0.00 0.00 4.61
3437 5727 2.232452 CTCGCTCTTTCTCTCTTTCCCA 59.768 50.000 0.00 0.00 0.00 4.37
3438 5728 2.418060 CCTCGCTCTTTCTCTCTTTCCC 60.418 54.545 0.00 0.00 0.00 3.97
3439 5729 2.418060 CCCTCGCTCTTTCTCTCTTTCC 60.418 54.545 0.00 0.00 0.00 3.13
3453 5743 2.043450 CTCTCTCCCACCCTCGCT 60.043 66.667 0.00 0.00 0.00 4.93
3483 7652 0.592247 CACAGCGGTGTTGAAGCAAC 60.592 55.000 19.29 3.47 43.78 4.17
3498 7667 2.170397 TCACATGGCAGTATACCCACAG 59.830 50.000 3.27 2.96 33.17 3.66
3503 7672 2.545952 CCTCGTCACATGGCAGTATACC 60.546 54.545 0.00 0.00 0.00 2.73
3512 7681 2.168521 ACAATACTCCCTCGTCACATGG 59.831 50.000 0.00 0.00 0.00 3.66
3521 7690 4.902448 AGGGTCTATGAACAATACTCCCTC 59.098 45.833 0.00 0.00 35.55 4.30


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

AutoCloner maintained by Alex Coulton.