Multiple sequence alignment - TraesCS7B01G386800

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS7B01G386800 chr7B 100.000 5245 0 0 1 5245 652975709 652970465 0.000000e+00 9686
1 TraesCS7B01G386800 chr7B 96.195 3390 102 8 1863 5245 652439051 652435682 0.000000e+00 5520
2 TraesCS7B01G386800 chr7B 96.722 2990 81 6 1863 4850 652400866 652397892 0.000000e+00 4963
3 TraesCS7B01G386800 chr7B 96.554 1422 46 3 444 1863 652440538 652439118 0.000000e+00 2351
4 TraesCS7B01G386800 chr7B 86.315 1593 161 20 2127 3714 652173502 652171962 0.000000e+00 1681
5 TraesCS7B01G386800 chr7B 97.417 929 23 1 444 1371 652402303 652401375 0.000000e+00 1581
6 TraesCS7B01G386800 chr7B 89.893 1118 98 11 1891 2999 708675342 708674231 0.000000e+00 1424
7 TraesCS7B01G386800 chr7B 91.225 1037 83 4 1863 2891 656302365 656303401 0.000000e+00 1404
8 TraesCS7B01G386800 chr7B 88.914 884 76 10 441 1316 651873722 651872853 0.000000e+00 1070
9 TraesCS7B01G386800 chr7B 84.541 1132 115 21 3167 4287 656303398 656304480 0.000000e+00 1066
10 TraesCS7B01G386800 chr7B 88.980 735 71 5 3923 4656 652254767 652254042 0.000000e+00 900
11 TraesCS7B01G386800 chr7B 90.635 598 47 7 720 1316 652175107 652174518 0.000000e+00 785
12 TraesCS7B01G386800 chr7B 84.829 791 78 21 3513 4287 651872621 651871857 0.000000e+00 758
13 TraesCS7B01G386800 chr7B 97.085 446 10 3 1419 1863 652401376 652400933 0.000000e+00 749
14 TraesCS7B01G386800 chr7B 84.708 497 62 13 3811 4299 708672487 708671997 7.900000e-133 484
15 TraesCS7B01G386800 chr7B 87.775 409 41 4 4579 4984 652254041 652253639 2.210000e-128 470
16 TraesCS7B01G386800 chr7B 88.272 324 35 3 4892 5213 651871786 651871464 8.240000e-103 385
17 TraesCS7B01G386800 chr7B 85.042 361 43 2 4889 5245 656304548 656304901 1.800000e-94 357
18 TraesCS7B01G386800 chr7B 92.788 208 2 2 1 208 652402496 652402302 6.650000e-74 289
19 TraesCS7B01G386800 chr7B 91.827 208 4 2 1 208 652440731 652440537 1.440000e-70 278
20 TraesCS7B01G386800 chr7B 91.018 167 15 0 46 212 722090685 722090519 5.280000e-55 226
21 TraesCS7B01G386800 chr7B 89.157 166 18 0 46 211 652175458 652175293 1.910000e-49 207
22 TraesCS7B01G386800 chr7B 88.889 162 16 2 48 208 656300671 656300831 1.150000e-46 198
23 TraesCS7B01G386800 chr7D 94.899 2137 89 5 1863 3996 584592833 584590714 0.000000e+00 3325
24 TraesCS7B01G386800 chr7D 95.407 1241 54 2 4005 5245 584590734 584589497 0.000000e+00 1973
25 TraesCS7B01G386800 chr7D 88.793 1499 142 14 1595 3087 582679096 582677618 0.000000e+00 1814
26 TraesCS7B01G386800 chr7D 89.652 1208 109 10 1885 3087 582601602 582600406 0.000000e+00 1524
27 TraesCS7B01G386800 chr7D 94.869 877 35 6 444 1316 584604045 584603175 0.000000e+00 1362
28 TraesCS7B01G386800 chr7D 88.868 1042 101 6 2519 3557 583033770 583032741 0.000000e+00 1267
29 TraesCS7B01G386800 chr7D 90.046 874 75 5 447 1316 584276787 584277652 0.000000e+00 1122
30 TraesCS7B01G386800 chr7D 90.168 834 74 3 444 1277 584218069 584217244 0.000000e+00 1079
31 TraesCS7B01G386800 chr7D 89.461 816 71 7 503 1316 582680128 582679326 0.000000e+00 1016
32 TraesCS7B01G386800 chr7D 89.216 816 71 8 503 1316 582603357 582602557 0.000000e+00 1003
33 TraesCS7B01G386800 chr7D 89.276 718 68 7 3901 4614 584280012 584280724 0.000000e+00 891
34 TraesCS7B01G386800 chr7D 91.047 592 46 4 3085 3675 582600102 582599517 0.000000e+00 793
35 TraesCS7B01G386800 chr7D 90.709 592 48 4 3085 3675 582677314 582676729 0.000000e+00 782
36 TraesCS7B01G386800 chr7D 95.584 385 16 1 1480 1863 584593284 584592900 2.680000e-172 616
37 TraesCS7B01G386800 chr7D 85.458 557 61 14 1594 2137 583034298 583033749 3.550000e-156 562
38 TraesCS7B01G386800 chr7D 85.221 521 60 13 3773 4287 586026063 586026572 2.160000e-143 520
39 TraesCS7B01G386800 chr7D 86.040 351 43 3 4887 5232 586115872 586116221 6.410000e-99 372
40 TraesCS7B01G386800 chr7D 90.406 271 22 4 1595 1863 584277882 584278150 2.320000e-93 353
41 TraesCS7B01G386800 chr7D 89.630 270 26 2 1595 1863 582602327 582602059 5.030000e-90 342
42 TraesCS7B01G386800 chr7D 84.726 347 46 4 4887 5228 586122143 586122487 1.810000e-89 340
43 TraesCS7B01G386800 chr7D 88.809 277 20 8 1594 1863 586113307 586113579 3.920000e-86 329
44 TraesCS7B01G386800 chr7D 88.298 282 21 9 1594 1867 586119532 586119809 1.410000e-85 327
45 TraesCS7B01G386800 chr7D 86.477 281 36 2 4283 4563 425263528 425263250 1.830000e-79 307
46 TraesCS7B01G386800 chr7D 96.875 160 5 0 49 208 584604203 584604044 8.660000e-68 268
47 TraesCS7B01G386800 chr7D 95.484 155 7 0 1331 1485 584603047 584602893 1.130000e-61 248
48 TraesCS7B01G386800 chr7D 92.308 104 8 0 1331 1434 582679198 582679095 1.180000e-31 148
49 TraesCS7B01G386800 chr7D 91.429 105 9 0 1331 1435 583034396 583034292 1.520000e-30 145
50 TraesCS7B01G386800 chr7D 91.346 104 9 0 1331 1434 582602429 582602326 5.480000e-30 143
51 TraesCS7B01G386800 chr7D 91.346 104 9 0 1331 1434 584277780 584277883 5.480000e-30 143
52 TraesCS7B01G386800 chr7A 89.176 1857 187 11 1884 3732 674682046 674680196 0.000000e+00 2303
53 TraesCS7B01G386800 chr7A 86.257 1659 178 21 2640 4287 675874297 675875916 0.000000e+00 1755
54 TraesCS7B01G386800 chr7A 86.016 1659 182 21 2640 4287 675912172 675913791 0.000000e+00 1733
55 TraesCS7B01G386800 chr7A 88.344 815 82 7 503 1316 674683476 674682674 0.000000e+00 966
56 TraesCS7B01G386800 chr7A 86.116 533 51 9 3768 4287 677446646 677447168 2.130000e-153 553
57 TraesCS7B01G386800 chr7A 85.960 349 44 2 4887 5230 676995720 676996068 8.300000e-98 368
58 TraesCS7B01G386800 chr7A 90.798 163 15 0 46 208 675870793 675870955 8.840000e-53 219
59 TraesCS7B01G386800 chr7A 88.957 163 18 0 46 208 677611466 677611628 8.910000e-48 202
60 TraesCS7B01G386800 chr7A 91.150 113 10 0 96 208 675907782 675907894 2.530000e-33 154
61 TraesCS7B01G386800 chr7A 79.832 238 17 11 4998 5229 675876062 675876274 1.520000e-30 145
62 TraesCS7B01G386800 chr7A 93.333 75 5 0 4892 4966 675875989 675876063 1.540000e-20 111
63 TraesCS7B01G386800 chr2D 87.708 1440 139 17 1595 2999 107837570 107836134 0.000000e+00 1644
64 TraesCS7B01G386800 chr2D 88.710 124 14 0 1428 1551 118372364 118372241 9.100000e-33 152
65 TraesCS7B01G386800 chr2A 97.083 240 7 0 206 445 423177967 423177728 6.320000e-109 405
66 TraesCS7B01G386800 chrUn 96.694 242 8 0 204 445 59805084 59805325 2.270000e-108 403
67 TraesCS7B01G386800 chrUn 94.902 255 10 2 202 455 119206296 119206044 3.810000e-106 396
68 TraesCS7B01G386800 chrUn 79.832 238 17 11 4998 5229 308863682 308863894 1.520000e-30 145
69 TraesCS7B01G386800 chrUn 93.333 75 5 0 4892 4966 308863609 308863683 1.540000e-20 111
70 TraesCS7B01G386800 chr4B 96.341 246 8 1 200 445 21235373 21235129 2.270000e-108 403
71 TraesCS7B01G386800 chr3B 96.694 242 8 0 204 445 798008212 798008453 2.270000e-108 403
72 TraesCS7B01G386800 chr3B 94.882 254 10 2 203 455 396835825 396836076 1.370000e-105 394
73 TraesCS7B01G386800 chr1B 96.694 242 8 0 204 445 641330573 641330332 2.270000e-108 403
74 TraesCS7B01G386800 chr1B 94.862 253 10 2 204 455 229945877 229946127 4.920000e-105 392
75 TraesCS7B01G386800 chr1B 89.552 268 25 3 4626 4890 505094479 505094212 2.340000e-88 337
76 TraesCS7B01G386800 chr1B 87.546 273 32 2 4287 4559 451543541 451543271 1.100000e-81 315
77 TraesCS7B01G386800 chr5B 94.163 257 12 3 190 445 402984644 402984898 6.370000e-104 388
78 TraesCS7B01G386800 chr1A 89.170 277 28 2 4287 4563 430607824 430607550 1.400000e-90 344
79 TraesCS7B01G386800 chr3A 90.189 265 23 3 4629 4890 12408997 12408733 5.030000e-90 342
80 TraesCS7B01G386800 chr6D 90.152 264 23 3 4630 4890 94757181 94757444 1.810000e-89 340
81 TraesCS7B01G386800 chr6D 88.235 119 14 0 1433 1551 464536539 464536657 5.480000e-30 143
82 TraesCS7B01G386800 chr3D 90.189 265 21 5 4630 4890 536423575 536423838 1.810000e-89 340
83 TraesCS7B01G386800 chr3D 86.643 277 35 2 4287 4563 560120386 560120112 6.600000e-79 305
84 TraesCS7B01G386800 chr1D 89.630 270 24 4 4624 4890 401204840 401204572 1.810000e-89 340
85 TraesCS7B01G386800 chr1D 88.235 119 14 0 1432 1550 23328072 23328190 5.480000e-30 143
86 TraesCS7B01G386800 chr1D 87.500 120 15 0 1432 1551 486144864 486144745 7.080000e-29 139
87 TraesCS7B01G386800 chr4D 89.256 121 11 2 1431 1550 129771396 129771515 3.270000e-32 150
88 TraesCS7B01G386800 chr2B 82.390 159 21 6 1432 1585 26820053 26820209 1.190000e-26 132


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 TraesCS7B01G386800 chr7B 652970465 652975709 5244 True 9686.000000 9686 100.000000 1 5245 1 chr7B.!!$R1 5244
1 TraesCS7B01G386800 chr7B 652435682 652440731 5049 True 2716.333333 5520 94.858667 1 5245 3 chr7B.!!$R7 5244
2 TraesCS7B01G386800 chr7B 652397892 652402496 4604 True 1895.500000 4963 96.003000 1 4850 4 chr7B.!!$R6 4849
3 TraesCS7B01G386800 chr7B 708671997 708675342 3345 True 954.000000 1424 87.300500 1891 4299 2 chr7B.!!$R8 2408
4 TraesCS7B01G386800 chr7B 652171962 652175458 3496 True 891.000000 1681 88.702333 46 3714 3 chr7B.!!$R4 3668
5 TraesCS7B01G386800 chr7B 656300671 656304901 4230 False 756.250000 1404 87.424250 48 5245 4 chr7B.!!$F1 5197
6 TraesCS7B01G386800 chr7B 651871464 651873722 2258 True 737.666667 1070 87.338333 441 5213 3 chr7B.!!$R3 4772
7 TraesCS7B01G386800 chr7B 652253639 652254767 1128 True 685.000000 900 88.377500 3923 4984 2 chr7B.!!$R5 1061
8 TraesCS7B01G386800 chr7D 584589497 584593284 3787 True 1971.333333 3325 95.296667 1480 5245 3 chr7D.!!$R6 3765
9 TraesCS7B01G386800 chr7D 584217244 584218069 825 True 1079.000000 1079 90.168000 444 1277 1 chr7D.!!$R2 833
10 TraesCS7B01G386800 chr7D 582676729 582680128 3399 True 940.000000 1814 90.317750 503 3675 4 chr7D.!!$R4 3172
11 TraesCS7B01G386800 chr7D 582599517 582603357 3840 True 761.000000 1524 90.178200 503 3675 5 chr7D.!!$R3 3172
12 TraesCS7B01G386800 chr7D 583032741 583034396 1655 True 658.000000 1267 88.585000 1331 3557 3 chr7D.!!$R5 2226
13 TraesCS7B01G386800 chr7D 584276787 584280724 3937 False 627.250000 1122 90.268500 447 4614 4 chr7D.!!$F2 4167
14 TraesCS7B01G386800 chr7D 584602893 584604203 1310 True 626.000000 1362 95.742667 49 1485 3 chr7D.!!$R7 1436
15 TraesCS7B01G386800 chr7D 586026063 586026572 509 False 520.000000 520 85.221000 3773 4287 1 chr7D.!!$F1 514
16 TraesCS7B01G386800 chr7D 586113307 586122487 9180 False 342.000000 372 86.968250 1594 5232 4 chr7D.!!$F3 3638
17 TraesCS7B01G386800 chr7A 675912172 675913791 1619 False 1733.000000 1733 86.016000 2640 4287 1 chr7A.!!$F2 1647
18 TraesCS7B01G386800 chr7A 674680196 674683476 3280 True 1634.500000 2303 88.760000 503 3732 2 chr7A.!!$R1 3229
19 TraesCS7B01G386800 chr7A 675870793 675876274 5481 False 557.500000 1755 87.555000 46 5229 4 chr7A.!!$F6 5183
20 TraesCS7B01G386800 chr7A 677446646 677447168 522 False 553.000000 553 86.116000 3768 4287 1 chr7A.!!$F4 519
21 TraesCS7B01G386800 chr2D 107836134 107837570 1436 True 1644.000000 1644 87.708000 1595 2999 1 chr2D.!!$R1 1404

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
233 234 0.036199 CCGTCCGGGTTTATTGGTCA 60.036 55.0 0.00 0.00 0.00 4.02 F
236 237 1.065647 TCCGGGTTTATTGGTCACCA 58.934 50.0 0.00 0.00 31.50 4.17 F
1471 1768 0.736325 ATAGCGCGCTCGTGTTTTCT 60.736 50.0 40.23 12.72 38.14 2.52 F
2899 5870 0.690762 GTTGGGTCTTAGGCTGGTCA 59.309 55.0 0.00 0.00 0.00 4.02 F
3612 7285 0.108615 GCTAGCGTCTGACACCATGT 60.109 55.0 8.73 0.00 0.00 3.21 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1139 1320 0.734597 CCGGCCAATTTAACGCCAAC 60.735 55.000 2.24 0.00 43.17 3.77 R
1922 2838 1.317613 TCCACTTGACATGTTGGTGC 58.682 50.000 12.86 0.00 0.00 5.01 R
3429 7060 0.107831 TTGTGGTGTCACCTACTGCC 59.892 55.000 22.56 4.83 42.98 4.85 R
3755 8176 0.606401 AAGCAGGTTGGTGGACGATG 60.606 55.000 0.00 0.00 0.00 3.84 R
5142 16662 1.226974 CGACGGACTTCGCCATGAT 60.227 57.895 0.00 0.00 43.89 2.45 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 3.204827 CATGCTAGCCGTGCCCAC 61.205 66.667 13.29 0.00 0.00 4.61
33 34 4.489771 ATGCTAGCCGTGCCCACC 62.490 66.667 13.29 0.00 0.00 4.61
35 36 4.715523 GCTAGCCGTGCCCACCAA 62.716 66.667 2.29 0.00 0.00 3.67
36 37 2.033448 CTAGCCGTGCCCACCAAA 59.967 61.111 0.00 0.00 0.00 3.28
37 38 1.378514 CTAGCCGTGCCCACCAAAT 60.379 57.895 0.00 0.00 0.00 2.32
38 39 0.107410 CTAGCCGTGCCCACCAAATA 60.107 55.000 0.00 0.00 0.00 1.40
39 40 0.107410 TAGCCGTGCCCACCAAATAG 60.107 55.000 0.00 0.00 0.00 1.73
40 41 1.677633 GCCGTGCCCACCAAATAGT 60.678 57.895 0.00 0.00 0.00 2.12
41 42 1.654023 GCCGTGCCCACCAAATAGTC 61.654 60.000 0.00 0.00 0.00 2.59
42 43 1.366111 CCGTGCCCACCAAATAGTCG 61.366 60.000 0.00 0.00 0.00 4.18
43 44 0.390603 CGTGCCCACCAAATAGTCGA 60.391 55.000 0.00 0.00 0.00 4.20
44 45 1.084289 GTGCCCACCAAATAGTCGAC 58.916 55.000 7.70 7.70 0.00 4.20
52 53 4.574828 CCACCAAATAGTCGACCCAAATAG 59.425 45.833 13.01 0.00 0.00 1.73
188 189 5.585047 AGAAGAAAGCGGGTCATGTATTAAC 59.415 40.000 0.00 0.00 0.00 2.01
206 207 9.305555 TGTATTAACAGTGAAGACCTAACTACT 57.694 33.333 0.00 0.00 0.00 2.57
209 210 8.930846 TTAACAGTGAAGACCTAACTACTACT 57.069 34.615 0.00 0.00 0.00 2.57
211 212 7.920160 ACAGTGAAGACCTAACTACTACTAC 57.080 40.000 0.00 0.00 0.00 2.73
212 213 6.883756 ACAGTGAAGACCTAACTACTACTACC 59.116 42.308 0.00 0.00 0.00 3.18
213 214 7.111466 CAGTGAAGACCTAACTACTACTACCT 58.889 42.308 0.00 0.00 0.00 3.08
214 215 7.280652 CAGTGAAGACCTAACTACTACTACCTC 59.719 44.444 0.00 0.00 0.00 3.85
215 216 6.542005 GTGAAGACCTAACTACTACTACCTCC 59.458 46.154 0.00 0.00 0.00 4.30
216 217 5.289083 AGACCTAACTACTACTACCTCCG 57.711 47.826 0.00 0.00 0.00 4.63
217 218 4.719273 AGACCTAACTACTACTACCTCCGT 59.281 45.833 0.00 0.00 0.00 4.69
218 219 5.029807 ACCTAACTACTACTACCTCCGTC 57.970 47.826 0.00 0.00 0.00 4.79
219 220 4.141597 ACCTAACTACTACTACCTCCGTCC 60.142 50.000 0.00 0.00 0.00 4.79
220 221 2.611225 ACTACTACTACCTCCGTCCG 57.389 55.000 0.00 0.00 0.00 4.79
221 222 1.139853 ACTACTACTACCTCCGTCCGG 59.860 57.143 0.00 0.00 0.00 5.14
222 223 0.469917 TACTACTACCTCCGTCCGGG 59.530 60.000 0.00 0.00 35.59 5.73
223 224 1.225704 CTACTACCTCCGTCCGGGT 59.774 63.158 0.00 0.00 39.40 5.28
224 225 0.394899 CTACTACCTCCGTCCGGGTT 60.395 60.000 0.00 0.00 37.07 4.11
225 226 0.039618 TACTACCTCCGTCCGGGTTT 59.960 55.000 0.00 0.00 37.07 3.27
226 227 0.039618 ACTACCTCCGTCCGGGTTTA 59.960 55.000 0.00 0.00 37.07 2.01
227 228 1.342374 ACTACCTCCGTCCGGGTTTAT 60.342 52.381 0.00 0.00 37.07 1.40
228 229 1.758862 CTACCTCCGTCCGGGTTTATT 59.241 52.381 0.00 0.00 37.07 1.40
229 230 0.251073 ACCTCCGTCCGGGTTTATTG 59.749 55.000 0.00 0.00 37.00 1.90
230 231 0.463116 CCTCCGTCCGGGTTTATTGG 60.463 60.000 0.00 0.00 37.00 3.16
231 232 0.251073 CTCCGTCCGGGTTTATTGGT 59.749 55.000 0.00 0.00 37.00 3.67
232 233 0.249955 TCCGTCCGGGTTTATTGGTC 59.750 55.000 0.00 0.00 37.00 4.02
233 234 0.036199 CCGTCCGGGTTTATTGGTCA 60.036 55.000 0.00 0.00 0.00 4.02
234 235 1.081094 CGTCCGGGTTTATTGGTCAC 58.919 55.000 0.00 0.00 0.00 3.67
235 236 1.456296 GTCCGGGTTTATTGGTCACC 58.544 55.000 0.00 0.00 0.00 4.02
236 237 1.065647 TCCGGGTTTATTGGTCACCA 58.934 50.000 0.00 0.00 31.50 4.17
237 238 1.636519 TCCGGGTTTATTGGTCACCAT 59.363 47.619 0.00 0.00 31.53 3.55
238 239 2.041891 TCCGGGTTTATTGGTCACCATT 59.958 45.455 0.00 0.00 31.53 3.16
239 240 2.165437 CCGGGTTTATTGGTCACCATTG 59.835 50.000 0.00 0.00 31.53 2.82
240 241 2.823154 CGGGTTTATTGGTCACCATTGT 59.177 45.455 0.00 0.00 31.53 2.71
241 242 4.011023 CGGGTTTATTGGTCACCATTGTA 58.989 43.478 0.00 0.00 31.53 2.41
242 243 4.642885 CGGGTTTATTGGTCACCATTGTAT 59.357 41.667 0.00 0.00 31.53 2.29
243 244 5.126384 CGGGTTTATTGGTCACCATTGTATT 59.874 40.000 0.00 0.00 31.53 1.89
244 245 6.350612 CGGGTTTATTGGTCACCATTGTATTT 60.351 38.462 0.00 0.00 31.53 1.40
245 246 7.039270 GGGTTTATTGGTCACCATTGTATTTC 58.961 38.462 0.00 0.00 31.53 2.17
246 247 6.750039 GGTTTATTGGTCACCATTGTATTTCG 59.250 38.462 0.00 0.00 31.53 3.46
247 248 7.309920 GTTTATTGGTCACCATTGTATTTCGT 58.690 34.615 0.00 0.00 31.53 3.85
248 249 4.757799 TTGGTCACCATTGTATTTCGTG 57.242 40.909 0.00 0.00 31.53 4.35
249 250 2.486203 TGGTCACCATTGTATTTCGTGC 59.514 45.455 0.00 0.00 0.00 5.34
250 251 2.486203 GGTCACCATTGTATTTCGTGCA 59.514 45.455 0.00 0.00 0.00 4.57
251 252 3.057876 GGTCACCATTGTATTTCGTGCAA 60.058 43.478 0.00 0.00 36.84 4.08
252 253 4.541779 GTCACCATTGTATTTCGTGCAAA 58.458 39.130 0.00 0.00 36.00 3.68
253 254 4.979197 GTCACCATTGTATTTCGTGCAAAA 59.021 37.500 0.00 0.00 36.00 2.44
254 255 5.633182 GTCACCATTGTATTTCGTGCAAAAT 59.367 36.000 2.16 2.16 36.00 1.82
255 256 6.145371 GTCACCATTGTATTTCGTGCAAAATT 59.855 34.615 1.86 0.00 36.00 1.82
256 257 6.703607 TCACCATTGTATTTCGTGCAAAATTT 59.296 30.769 1.86 0.00 36.00 1.82
257 258 7.225538 TCACCATTGTATTTCGTGCAAAATTTT 59.774 29.630 1.86 0.00 36.00 1.82
258 259 7.320797 CACCATTGTATTTCGTGCAAAATTTTG 59.679 33.333 23.74 23.74 36.00 2.44
259 260 7.225538 ACCATTGTATTTCGTGCAAAATTTTGA 59.774 29.630 30.40 14.99 40.55 2.69
260 261 7.530190 CCATTGTATTTCGTGCAAAATTTTGAC 59.470 33.333 30.40 22.55 40.55 3.18
261 262 7.763172 TTGTATTTCGTGCAAAATTTTGACT 57.237 28.000 30.40 13.57 40.55 3.41
262 263 8.858003 TTGTATTTCGTGCAAAATTTTGACTA 57.142 26.923 30.40 15.94 40.55 2.59
263 264 9.469807 TTGTATTTCGTGCAAAATTTTGACTAT 57.530 25.926 30.40 18.59 40.55 2.12
268 269 9.906660 TTTCGTGCAAAATTTTGACTATAGATT 57.093 25.926 30.40 0.00 40.55 2.40
290 291 9.979578 AGATTAAACTAACAAAATGTTCATGCA 57.020 25.926 0.00 0.00 40.22 3.96
293 294 9.539825 TTAAACTAACAAAATGTTCATGCATGT 57.460 25.926 25.43 4.01 40.22 3.21
294 295 7.642071 AACTAACAAAATGTTCATGCATGTC 57.358 32.000 25.43 19.05 40.22 3.06
295 296 6.747125 ACTAACAAAATGTTCATGCATGTCA 58.253 32.000 25.43 23.31 40.22 3.58
296 297 5.910637 AACAAAATGTTCATGCATGTCAC 57.089 34.783 25.43 21.75 35.27 3.67
297 298 4.309099 ACAAAATGTTCATGCATGTCACC 58.691 39.130 25.43 12.41 0.00 4.02
298 299 4.202233 ACAAAATGTTCATGCATGTCACCA 60.202 37.500 25.43 17.03 0.00 4.17
299 300 4.603989 AAATGTTCATGCATGTCACCAA 57.396 36.364 25.43 9.97 0.00 3.67
300 301 4.603989 AATGTTCATGCATGTCACCAAA 57.396 36.364 25.43 9.24 0.00 3.28
301 302 3.367992 TGTTCATGCATGTCACCAAAC 57.632 42.857 25.43 20.02 0.00 2.93
302 303 2.692041 TGTTCATGCATGTCACCAAACA 59.308 40.909 25.43 22.12 0.00 2.83
303 304 3.321396 TGTTCATGCATGTCACCAAACAT 59.679 39.130 25.43 0.00 40.49 2.71
304 305 4.202233 TGTTCATGCATGTCACCAAACATT 60.202 37.500 25.43 0.00 37.78 2.71
305 306 5.010415 TGTTCATGCATGTCACCAAACATTA 59.990 36.000 25.43 4.23 37.78 1.90
306 307 5.918426 TCATGCATGTCACCAAACATTAT 57.082 34.783 25.43 0.00 37.78 1.28
307 308 7.094032 TGTTCATGCATGTCACCAAACATTATA 60.094 33.333 25.43 3.57 37.78 0.98
308 309 7.585579 TCATGCATGTCACCAAACATTATAT 57.414 32.000 25.43 0.00 37.78 0.86
309 310 8.009622 TCATGCATGTCACCAAACATTATATT 57.990 30.769 25.43 0.00 37.78 1.28
310 311 8.476447 TCATGCATGTCACCAAACATTATATTT 58.524 29.630 25.43 0.00 37.78 1.40
311 312 9.100554 CATGCATGTCACCAAACATTATATTTT 57.899 29.630 18.91 0.00 37.78 1.82
312 313 9.669887 ATGCATGTCACCAAACATTATATTTTT 57.330 25.926 0.00 0.00 37.78 1.94
313 314 8.933807 TGCATGTCACCAAACATTATATTTTTG 58.066 29.630 0.00 0.00 37.78 2.44
314 315 9.149225 GCATGTCACCAAACATTATATTTTTGA 57.851 29.630 0.00 0.00 37.78 2.69
374 375 9.932699 TTTTTCTTGACATGCATTAACATTTTG 57.067 25.926 0.00 0.00 0.00 2.44
375 376 8.659925 TTTCTTGACATGCATTAACATTTTGT 57.340 26.923 0.00 0.00 0.00 2.83
376 377 8.659925 TTCTTGACATGCATTAACATTTTGTT 57.340 26.923 0.00 0.00 43.88 2.83
377 378 9.755804 TTCTTGACATGCATTAACATTTTGTTA 57.244 25.926 0.00 0.00 41.45 2.41
378 379 9.409312 TCTTGACATGCATTAACATTTTGTTAG 57.591 29.630 0.00 0.00 42.93 2.34
379 380 9.195411 CTTGACATGCATTAACATTTTGTTAGT 57.805 29.630 0.00 0.00 42.93 2.24
380 381 9.539825 TTGACATGCATTAACATTTTGTTAGTT 57.460 25.926 0.00 0.00 42.93 2.24
405 406 9.823647 TTAAATCTTTAGTCAAAATTTGGCACA 57.176 25.926 13.11 0.00 37.85 4.57
419 420 3.019799 TGGCACAAACTACAAAAGGGA 57.980 42.857 0.00 0.00 31.92 4.20
420 421 2.691011 TGGCACAAACTACAAAAGGGAC 59.309 45.455 0.00 0.00 31.92 4.46
421 422 2.035449 GGCACAAACTACAAAAGGGACC 59.965 50.000 0.00 0.00 0.00 4.46
422 423 2.956333 GCACAAACTACAAAAGGGACCT 59.044 45.455 0.00 0.00 0.00 3.85
423 424 4.139038 GCACAAACTACAAAAGGGACCTA 58.861 43.478 0.00 0.00 0.00 3.08
424 425 4.765339 GCACAAACTACAAAAGGGACCTAT 59.235 41.667 0.00 0.00 0.00 2.57
425 426 5.941647 GCACAAACTACAAAAGGGACCTATA 59.058 40.000 0.00 0.00 0.00 1.31
426 427 6.431852 GCACAAACTACAAAAGGGACCTATAA 59.568 38.462 0.00 0.00 0.00 0.98
427 428 7.040271 GCACAAACTACAAAAGGGACCTATAAA 60.040 37.037 0.00 0.00 0.00 1.40
428 429 8.294577 CACAAACTACAAAAGGGACCTATAAAC 58.705 37.037 0.00 0.00 0.00 2.01
429 430 7.449395 ACAAACTACAAAAGGGACCTATAAACC 59.551 37.037 0.00 0.00 0.00 3.27
430 431 6.707273 ACTACAAAAGGGACCTATAAACCA 57.293 37.500 0.00 0.00 0.00 3.67
431 432 6.718294 ACTACAAAAGGGACCTATAAACCAG 58.282 40.000 0.00 0.00 0.00 4.00
432 433 4.930696 ACAAAAGGGACCTATAAACCAGG 58.069 43.478 0.00 0.00 39.25 4.45
433 434 4.604490 ACAAAAGGGACCTATAAACCAGGA 59.396 41.667 0.00 0.00 36.61 3.86
434 435 4.857130 AAAGGGACCTATAAACCAGGAC 57.143 45.455 0.00 0.00 36.61 3.85
435 436 2.395619 AGGGACCTATAAACCAGGACG 58.604 52.381 0.00 0.00 36.61 4.79
436 437 1.415289 GGGACCTATAAACCAGGACGG 59.585 57.143 0.00 0.00 42.50 4.79
437 438 2.391678 GGACCTATAAACCAGGACGGA 58.608 52.381 0.00 0.00 38.63 4.69
438 439 2.364647 GGACCTATAAACCAGGACGGAG 59.635 54.545 0.00 0.00 38.63 4.63
439 440 2.364647 GACCTATAAACCAGGACGGAGG 59.635 54.545 0.00 0.00 38.63 4.30
697 704 6.040616 AGTCAGGCGTATTAAGCTATGTTAGT 59.959 38.462 1.69 0.00 34.52 2.24
771 779 9.650371 CAATATATAACGTGGTTGATGTGAAAG 57.350 33.333 0.00 0.00 0.00 2.62
1112 1292 9.357652 GTGAAAGTATAAGTGTATTGTCCGTAA 57.642 33.333 0.00 0.00 0.00 3.18
1165 1346 2.733858 CGTTAAATTGGCCGGTTCATGG 60.734 50.000 1.90 0.00 0.00 3.66
1273 1455 1.862123 CATGCAAGCAGTCGACGTT 59.138 52.632 10.46 2.36 0.00 3.99
1436 1733 6.421202 CCGTTCTTGGCTCTTATGTAATACTC 59.579 42.308 0.00 0.00 0.00 2.59
1471 1768 0.736325 ATAGCGCGCTCGTGTTTTCT 60.736 50.000 40.23 12.72 38.14 2.52
1472 1769 1.614227 TAGCGCGCTCGTGTTTTCTG 61.614 55.000 40.23 0.00 38.14 3.02
1489 1786 6.423905 TGTTTTCTGAGATCTAAGTTTGACCG 59.576 38.462 7.00 0.00 0.00 4.79
1535 1832 6.285990 ACTACGACGGGAGCAAAAATTATAT 58.714 36.000 0.00 0.00 0.00 0.86
1922 2838 6.117911 TGCATACACCTATTCGATTTGTTG 57.882 37.500 0.00 0.00 0.00 3.33
2101 3222 6.912591 GGCTTCGATGTGATACAAATTTTAGG 59.087 38.462 0.00 0.00 0.00 2.69
2179 3305 2.616510 CCTCCCAAGCAGAACCACTAAG 60.617 54.545 0.00 0.00 0.00 2.18
2796 5763 4.734854 CGCAACATTTAGATTACATGTGCC 59.265 41.667 9.11 0.00 31.37 5.01
2899 5870 0.690762 GTTGGGTCTTAGGCTGGTCA 59.309 55.000 0.00 0.00 0.00 4.02
2989 5963 3.439857 TGGGAAAAGAGAGAATGTGGG 57.560 47.619 0.00 0.00 0.00 4.61
3429 7060 0.598065 CCACCTTTTCCTTTGGCTCG 59.402 55.000 0.00 0.00 0.00 5.03
3530 7197 2.342279 CGGCTTCCAACTCCACGA 59.658 61.111 0.00 0.00 0.00 4.35
3575 7242 1.351017 TCTCCACTAGCAACCTTTGGG 59.649 52.381 0.00 0.00 38.88 4.12
3583 7256 3.230990 AACCTTTGGGGCGTTGGC 61.231 61.111 0.00 0.00 39.10 4.52
3612 7285 0.108615 GCTAGCGTCTGACACCATGT 60.109 55.000 8.73 0.00 0.00 3.21
3755 8176 1.887198 TGTCGGACTTCTTCTCACTCC 59.113 52.381 9.88 0.00 0.00 3.85
3878 11902 4.838986 AGTCCTAATTATCATGGTAGCCGT 59.161 41.667 0.00 0.00 0.00 5.68
4032 14636 8.635983 GTTGTTTTGATTAATCTTTCGGCTAAC 58.364 33.333 16.24 7.86 0.00 2.34
4184 14788 4.025040 TCAGACATGCCAAGATGAAAGT 57.975 40.909 0.00 0.00 0.00 2.66
4241 14845 8.964476 ACTTTAAATGCTACTGCTATACATGT 57.036 30.769 2.69 2.69 40.48 3.21
4313 14917 9.099454 GAGCAAGTACAATAAGCTTATGTAAGT 57.901 33.333 19.53 16.46 35.36 2.24
4392 14996 3.235200 AGCCGGCTACAGAATAAGAGAT 58.765 45.455 31.86 0.00 0.00 2.75
4505 15109 2.038387 ACCGGCTATAAACTTGGCTG 57.962 50.000 0.00 0.00 0.00 4.85
4540 15144 6.802557 GACAACGTCATATAGCCATCAGCTG 61.803 48.000 7.63 7.63 41.68 4.24
4583 16088 1.113517 ATGCAATGATCCCAGCCTGC 61.114 55.000 0.00 0.00 0.00 4.85
4669 16174 7.810759 TGAAAAAGTGTACTTCCAACTTTGTTC 59.189 33.333 8.53 12.47 41.93 3.18
4904 16411 7.556996 ACGGAGAGAGTAATAATACACACTCTT 59.443 37.037 10.80 0.00 45.88 2.85
5092 16612 0.913205 TAGAGAGAGTCCCTCGTGCT 59.087 55.000 0.00 0.00 46.49 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
32 33 5.986004 GACTATTTGGGTCGACTATTTGG 57.014 43.478 16.46 3.72 0.00 3.28
42 43 1.593006 CATGCGTCGACTATTTGGGTC 59.407 52.381 14.70 0.00 0.00 4.46
43 44 1.066430 ACATGCGTCGACTATTTGGGT 60.066 47.619 14.70 0.00 0.00 4.51
44 45 1.651987 ACATGCGTCGACTATTTGGG 58.348 50.000 14.70 0.00 0.00 4.12
139 140 8.146053 TCTCATGGAGTTTCCTATTTCTTGTA 57.854 34.615 0.00 0.00 37.46 2.41
188 189 7.111466 AGGTAGTAGTAGTTAGGTCTTCACTG 58.889 42.308 0.00 0.00 0.00 3.66
206 207 0.039618 AAACCCGGACGGAGGTAGTA 59.960 55.000 13.13 0.00 34.45 1.82
207 208 0.039618 TAAACCCGGACGGAGGTAGT 59.960 55.000 13.13 0.00 34.45 2.73
208 209 1.406903 ATAAACCCGGACGGAGGTAG 58.593 55.000 13.13 0.00 34.45 3.18
209 210 1.481772 CAATAAACCCGGACGGAGGTA 59.518 52.381 13.13 1.24 34.45 3.08
210 211 0.251073 CAATAAACCCGGACGGAGGT 59.749 55.000 13.13 0.00 38.27 3.85
211 212 0.463116 CCAATAAACCCGGACGGAGG 60.463 60.000 13.13 0.00 37.50 4.30
212 213 0.251073 ACCAATAAACCCGGACGGAG 59.749 55.000 13.13 5.04 37.50 4.63
213 214 0.249955 GACCAATAAACCCGGACGGA 59.750 55.000 13.13 0.00 37.50 4.69
214 215 0.036199 TGACCAATAAACCCGGACGG 60.036 55.000 0.73 3.25 37.81 4.79
215 216 1.081094 GTGACCAATAAACCCGGACG 58.919 55.000 0.73 0.00 0.00 4.79
216 217 1.271488 TGGTGACCAATAAACCCGGAC 60.271 52.381 0.00 0.00 32.70 4.79
217 218 1.065647 TGGTGACCAATAAACCCGGA 58.934 50.000 0.00 0.00 32.70 5.14
218 219 2.137810 ATGGTGACCAATAAACCCGG 57.862 50.000 9.06 0.00 36.95 5.73
219 220 2.823154 ACAATGGTGACCAATAAACCCG 59.177 45.455 9.06 0.00 36.95 5.28
220 221 6.538945 AATACAATGGTGACCAATAAACCC 57.461 37.500 9.06 0.00 36.95 4.11
221 222 6.750039 CGAAATACAATGGTGACCAATAAACC 59.250 38.462 9.06 0.00 36.95 3.27
222 223 7.272515 CACGAAATACAATGGTGACCAATAAAC 59.727 37.037 9.06 0.00 36.95 2.01
223 224 7.309177 CACGAAATACAATGGTGACCAATAAA 58.691 34.615 9.06 0.00 36.95 1.40
224 225 6.623986 GCACGAAATACAATGGTGACCAATAA 60.624 38.462 9.06 0.00 36.95 1.40
225 226 5.163703 GCACGAAATACAATGGTGACCAATA 60.164 40.000 9.06 1.91 36.95 1.90
226 227 4.380444 GCACGAAATACAATGGTGACCAAT 60.380 41.667 9.06 0.00 36.95 3.16
227 228 3.057876 GCACGAAATACAATGGTGACCAA 60.058 43.478 9.06 0.00 36.95 3.67
228 229 2.486203 GCACGAAATACAATGGTGACCA 59.514 45.455 6.84 6.84 38.19 4.02
229 230 2.486203 TGCACGAAATACAATGGTGACC 59.514 45.455 0.00 0.00 0.00 4.02
230 231 3.822594 TGCACGAAATACAATGGTGAC 57.177 42.857 0.00 0.00 0.00 3.67
231 232 4.837896 TTTGCACGAAATACAATGGTGA 57.162 36.364 0.00 0.00 0.00 4.02
232 233 6.464895 AATTTTGCACGAAATACAATGGTG 57.535 33.333 0.00 0.00 0.00 4.17
233 234 7.225538 TCAAAATTTTGCACGAAATACAATGGT 59.774 29.630 23.36 0.00 38.05 3.55
234 235 7.530190 GTCAAAATTTTGCACGAAATACAATGG 59.470 33.333 23.36 0.00 38.05 3.16
235 236 8.274939 AGTCAAAATTTTGCACGAAATACAATG 58.725 29.630 23.36 0.00 38.05 2.82
236 237 8.364129 AGTCAAAATTTTGCACGAAATACAAT 57.636 26.923 23.36 1.68 38.05 2.71
237 238 7.763172 AGTCAAAATTTTGCACGAAATACAA 57.237 28.000 23.36 1.76 38.05 2.41
242 243 9.906660 AATCTATAGTCAAAATTTTGCACGAAA 57.093 25.926 23.36 13.75 38.05 3.46
264 265 9.979578 TGCATGAACATTTTGTTAGTTTAATCT 57.020 25.926 0.00 0.00 41.28 2.40
267 268 9.539825 ACATGCATGAACATTTTGTTAGTTTAA 57.460 25.926 32.75 0.00 41.28 1.52
268 269 9.190858 GACATGCATGAACATTTTGTTAGTTTA 57.809 29.630 32.75 0.00 41.28 2.01
269 270 7.710044 TGACATGCATGAACATTTTGTTAGTTT 59.290 29.630 32.75 3.85 41.28 2.66
270 271 7.169645 GTGACATGCATGAACATTTTGTTAGTT 59.830 33.333 32.75 4.26 41.28 2.24
271 272 6.642131 GTGACATGCATGAACATTTTGTTAGT 59.358 34.615 32.75 4.97 41.28 2.24
272 273 6.089820 GGTGACATGCATGAACATTTTGTTAG 59.910 38.462 32.75 1.29 41.28 2.34
273 274 5.925397 GGTGACATGCATGAACATTTTGTTA 59.075 36.000 32.75 2.51 41.28 2.41
274 275 4.751098 GGTGACATGCATGAACATTTTGTT 59.249 37.500 32.75 6.24 44.37 2.83
275 276 4.202233 TGGTGACATGCATGAACATTTTGT 60.202 37.500 32.75 8.74 33.40 2.83
276 277 4.308265 TGGTGACATGCATGAACATTTTG 58.692 39.130 32.75 5.04 33.40 2.44
277 278 4.603989 TGGTGACATGCATGAACATTTT 57.396 36.364 32.75 8.66 33.40 1.82
278 279 4.603989 TTGGTGACATGCATGAACATTT 57.396 36.364 32.75 9.47 42.32 2.32
279 280 4.202233 TGTTTGGTGACATGCATGAACATT 60.202 37.500 32.75 10.28 42.32 2.71
280 281 3.321396 TGTTTGGTGACATGCATGAACAT 59.679 39.130 32.75 10.70 42.32 2.71
281 282 2.692041 TGTTTGGTGACATGCATGAACA 59.308 40.909 32.75 25.17 42.32 3.18
282 283 3.367992 TGTTTGGTGACATGCATGAAC 57.632 42.857 32.75 26.11 42.32 3.18
283 284 4.603989 AATGTTTGGTGACATGCATGAA 57.396 36.364 32.75 17.28 40.03 2.57
284 285 5.918426 ATAATGTTTGGTGACATGCATGA 57.082 34.783 32.75 9.00 40.03 3.07
285 286 8.651391 AAATATAATGTTTGGTGACATGCATG 57.349 30.769 25.09 25.09 40.03 4.06
286 287 9.669887 AAAAATATAATGTTTGGTGACATGCAT 57.330 25.926 0.00 0.00 40.03 3.96
287 288 8.933807 CAAAAATATAATGTTTGGTGACATGCA 58.066 29.630 0.00 0.00 40.03 3.96
288 289 9.149225 TCAAAAATATAATGTTTGGTGACATGC 57.851 29.630 0.00 0.00 40.03 4.06
348 349 9.932699 CAAAATGTTAATGCATGTCAAGAAAAA 57.067 25.926 0.00 0.00 0.00 1.94
349 350 9.107177 ACAAAATGTTAATGCATGTCAAGAAAA 57.893 25.926 0.00 0.00 0.00 2.29
350 351 8.659925 ACAAAATGTTAATGCATGTCAAGAAA 57.340 26.923 0.00 0.00 0.00 2.52
351 352 8.659925 AACAAAATGTTAATGCATGTCAAGAA 57.340 26.923 0.00 0.00 39.09 2.52
352 353 9.409312 CTAACAAAATGTTAATGCATGTCAAGA 57.591 29.630 0.00 0.00 41.70 3.02
353 354 9.195411 ACTAACAAAATGTTAATGCATGTCAAG 57.805 29.630 0.00 0.00 41.70 3.02
354 355 9.539825 AACTAACAAAATGTTAATGCATGTCAA 57.460 25.926 0.00 0.00 41.70 3.18
379 380 9.823647 TGTGCCAAATTTTGACTAAAGATTTAA 57.176 25.926 10.72 0.00 0.00 1.52
380 381 9.823647 TTGTGCCAAATTTTGACTAAAGATTTA 57.176 25.926 10.72 0.00 0.00 1.40
381 382 8.729805 TTGTGCCAAATTTTGACTAAAGATTT 57.270 26.923 10.72 0.00 0.00 2.17
382 383 8.611757 GTTTGTGCCAAATTTTGACTAAAGATT 58.388 29.630 10.72 0.00 0.00 2.40
383 384 7.986889 AGTTTGTGCCAAATTTTGACTAAAGAT 59.013 29.630 10.72 0.00 0.00 2.40
384 385 7.327214 AGTTTGTGCCAAATTTTGACTAAAGA 58.673 30.769 10.72 0.00 0.00 2.52
385 386 7.538303 AGTTTGTGCCAAATTTTGACTAAAG 57.462 32.000 10.72 0.00 0.00 1.85
386 387 8.035394 TGTAGTTTGTGCCAAATTTTGACTAAA 58.965 29.630 10.72 2.25 0.00 1.85
387 388 7.548097 TGTAGTTTGTGCCAAATTTTGACTAA 58.452 30.769 10.72 2.90 0.00 2.24
388 389 7.101652 TGTAGTTTGTGCCAAATTTTGACTA 57.898 32.000 10.72 6.41 0.00 2.59
389 390 5.971763 TGTAGTTTGTGCCAAATTTTGACT 58.028 33.333 10.72 7.29 0.00 3.41
390 391 6.654793 TTGTAGTTTGTGCCAAATTTTGAC 57.345 33.333 10.72 0.00 0.00 3.18
391 392 7.148340 CCTTTTGTAGTTTGTGCCAAATTTTGA 60.148 33.333 10.72 0.00 0.00 2.69
392 393 6.966066 CCTTTTGTAGTTTGTGCCAAATTTTG 59.034 34.615 1.99 1.99 0.00 2.44
393 394 6.094742 CCCTTTTGTAGTTTGTGCCAAATTTT 59.905 34.615 4.07 0.00 0.00 1.82
394 395 5.588246 CCCTTTTGTAGTTTGTGCCAAATTT 59.412 36.000 4.07 0.00 0.00 1.82
395 396 5.104735 TCCCTTTTGTAGTTTGTGCCAAATT 60.105 36.000 4.07 3.14 0.00 1.82
396 397 4.407296 TCCCTTTTGTAGTTTGTGCCAAAT 59.593 37.500 4.07 0.00 0.00 2.32
397 398 3.769844 TCCCTTTTGTAGTTTGTGCCAAA 59.230 39.130 0.00 0.00 0.00 3.28
398 399 3.131400 GTCCCTTTTGTAGTTTGTGCCAA 59.869 43.478 0.00 0.00 0.00 4.52
399 400 2.691011 GTCCCTTTTGTAGTTTGTGCCA 59.309 45.455 0.00 0.00 0.00 4.92
400 401 2.035449 GGTCCCTTTTGTAGTTTGTGCC 59.965 50.000 0.00 0.00 0.00 5.01
401 402 2.956333 AGGTCCCTTTTGTAGTTTGTGC 59.044 45.455 0.00 0.00 0.00 4.57
402 403 7.989416 TTATAGGTCCCTTTTGTAGTTTGTG 57.011 36.000 0.00 0.00 0.00 3.33
403 404 7.449395 GGTTTATAGGTCCCTTTTGTAGTTTGT 59.551 37.037 0.00 0.00 0.00 2.83
404 405 7.449086 TGGTTTATAGGTCCCTTTTGTAGTTTG 59.551 37.037 0.00 0.00 0.00 2.93
405 406 7.528675 TGGTTTATAGGTCCCTTTTGTAGTTT 58.471 34.615 0.00 0.00 0.00 2.66
406 407 7.093965 TGGTTTATAGGTCCCTTTTGTAGTT 57.906 36.000 0.00 0.00 0.00 2.24
407 408 6.296836 CCTGGTTTATAGGTCCCTTTTGTAGT 60.297 42.308 0.00 0.00 0.00 2.73
408 409 6.069847 TCCTGGTTTATAGGTCCCTTTTGTAG 60.070 42.308 0.00 0.00 36.67 2.74
409 410 5.791664 TCCTGGTTTATAGGTCCCTTTTGTA 59.208 40.000 0.00 0.00 36.67 2.41
410 411 4.604490 TCCTGGTTTATAGGTCCCTTTTGT 59.396 41.667 0.00 0.00 36.67 2.83
411 412 4.948004 GTCCTGGTTTATAGGTCCCTTTTG 59.052 45.833 0.00 0.00 36.67 2.44
412 413 4.324022 CGTCCTGGTTTATAGGTCCCTTTT 60.324 45.833 0.00 0.00 36.67 2.27
413 414 3.199289 CGTCCTGGTTTATAGGTCCCTTT 59.801 47.826 0.00 0.00 36.67 3.11
414 415 2.770232 CGTCCTGGTTTATAGGTCCCTT 59.230 50.000 0.00 0.00 36.67 3.95
415 416 2.395619 CGTCCTGGTTTATAGGTCCCT 58.604 52.381 0.00 0.00 36.67 4.20
416 417 1.415289 CCGTCCTGGTTTATAGGTCCC 59.585 57.143 0.00 0.00 36.67 4.46
417 418 2.364647 CTCCGTCCTGGTTTATAGGTCC 59.635 54.545 0.00 0.00 39.52 4.46
418 419 2.364647 CCTCCGTCCTGGTTTATAGGTC 59.635 54.545 0.00 0.00 39.52 3.85
419 420 2.292719 ACCTCCGTCCTGGTTTATAGGT 60.293 50.000 0.00 0.00 35.62 3.08
420 421 2.395619 ACCTCCGTCCTGGTTTATAGG 58.604 52.381 0.00 0.00 39.52 2.57
421 422 4.213513 ACTACCTCCGTCCTGGTTTATAG 58.786 47.826 0.00 0.00 39.52 1.31
422 423 4.255510 ACTACCTCCGTCCTGGTTTATA 57.744 45.455 0.00 0.00 39.52 0.98
423 424 3.111741 ACTACCTCCGTCCTGGTTTAT 57.888 47.619 0.00 0.00 39.52 1.40
424 425 2.610438 ACTACCTCCGTCCTGGTTTA 57.390 50.000 0.00 0.00 39.52 2.01
425 426 2.610438 TACTACCTCCGTCCTGGTTT 57.390 50.000 0.00 0.00 39.52 3.27
426 427 2.842645 ATACTACCTCCGTCCTGGTT 57.157 50.000 0.00 0.00 39.52 3.67
427 428 3.396946 TCATATACTACCTCCGTCCTGGT 59.603 47.826 0.00 0.00 39.52 4.00
428 429 4.011023 CTCATATACTACCTCCGTCCTGG 58.989 52.174 0.00 0.00 40.09 4.45
429 430 4.653868 ACTCATATACTACCTCCGTCCTG 58.346 47.826 0.00 0.00 0.00 3.86
430 431 4.997545 ACTCATATACTACCTCCGTCCT 57.002 45.455 0.00 0.00 0.00 3.85
431 432 5.184711 CCTACTCATATACTACCTCCGTCC 58.815 50.000 0.00 0.00 0.00 4.79
432 433 5.803552 ACCTACTCATATACTACCTCCGTC 58.196 45.833 0.00 0.00 0.00 4.79
433 434 5.839517 ACCTACTCATATACTACCTCCGT 57.160 43.478 0.00 0.00 0.00 4.69
434 435 6.236409 TCAACCTACTCATATACTACCTCCG 58.764 44.000 0.00 0.00 0.00 4.63
435 436 7.460071 TCTCAACCTACTCATATACTACCTCC 58.540 42.308 0.00 0.00 0.00 4.30
436 437 7.120138 GCTCTCAACCTACTCATATACTACCTC 59.880 44.444 0.00 0.00 0.00 3.85
437 438 6.943718 GCTCTCAACCTACTCATATACTACCT 59.056 42.308 0.00 0.00 0.00 3.08
438 439 6.151480 GGCTCTCAACCTACTCATATACTACC 59.849 46.154 0.00 0.00 0.00 3.18
439 440 6.151480 GGGCTCTCAACCTACTCATATACTAC 59.849 46.154 0.00 0.00 0.00 2.73
513 519 6.764308 TCATTTTCTCATCCTCCATCAAAC 57.236 37.500 0.00 0.00 0.00 2.93
697 704 5.560722 TTGGATGTGGACTAAAAGACAGA 57.439 39.130 0.00 0.00 0.00 3.41
706 713 4.020218 CAGAACCTCTTTGGATGTGGACTA 60.020 45.833 0.00 0.00 39.71 2.59
1005 1185 8.908786 TTGCAGAGAGATTCTTTTCTAAAGAA 57.091 30.769 14.77 14.77 40.17 2.52
1010 1190 8.939201 CACTATTGCAGAGAGATTCTTTTCTA 57.061 34.615 4.81 0.00 32.41 2.10
1032 1212 2.094494 CACGATGACAACTAGGAGCACT 60.094 50.000 0.00 0.00 0.00 4.40
1042 1222 3.799755 GGCGGCCACGATGACAAC 61.800 66.667 15.62 0.00 44.60 3.32
1139 1320 0.734597 CCGGCCAATTTAACGCCAAC 60.735 55.000 2.24 0.00 43.17 3.77
1273 1455 3.056179 TGTGTGCAAAGAGTATCCGATGA 60.056 43.478 0.00 0.00 33.66 2.92
1417 1714 5.307196 GGAGGGAGTATTACATAAGAGCCAA 59.693 44.000 0.00 0.00 0.00 4.52
1436 1733 3.189287 GCGCTATATTGTGAAATGGAGGG 59.811 47.826 0.00 0.00 0.00 4.30
1471 1768 8.842358 AAATTTACGGTCAAACTTAGATCTCA 57.158 30.769 0.00 0.00 0.00 3.27
1489 1786 5.406477 AGTCGGTCTCGTTGGTTAAATTTAC 59.594 40.000 0.00 0.00 37.69 2.01
1535 1832 9.219603 CTTCTTGAGGTAATACAAATTCAGTGA 57.780 33.333 0.00 0.00 0.00 3.41
1793 2267 3.229552 GTCTGTCGAGCATTTTTCAAGC 58.770 45.455 0.00 0.00 0.00 4.01
1922 2838 1.317613 TCCACTTGACATGTTGGTGC 58.682 50.000 12.86 0.00 0.00 5.01
2101 3222 3.262420 ACATCATTGTACGGTTCTGCTC 58.738 45.455 0.00 0.00 33.16 4.26
2552 3689 6.965500 GGATATCTATATTACACGGTGACACG 59.035 42.308 16.29 0.00 40.31 4.49
2899 5870 9.209048 TGATACCGCTTATTATACTCCCATTAT 57.791 33.333 0.00 0.00 0.00 1.28
3224 6853 4.994907 ACAGTAATACGTGGCATCACTA 57.005 40.909 0.00 0.00 41.53 2.74
3429 7060 0.107831 TTGTGGTGTCACCTACTGCC 59.892 55.000 22.56 4.83 42.98 4.85
3543 7210 6.899393 TGCTAGTGGAGACAAATTTGAATT 57.101 33.333 24.64 9.09 46.06 2.17
3755 8176 0.606401 AAGCAGGTTGGTGGACGATG 60.606 55.000 0.00 0.00 0.00 3.84
3878 11902 6.686630 TCATACATGTGCACATACATATCGA 58.313 36.000 30.92 21.01 39.17 3.59
4032 14636 2.665519 GCACATGCAAGAACGTGGTTAG 60.666 50.000 0.00 0.00 41.59 2.34
4184 14788 0.821711 CGCCCCACTTGTTCTGGAAA 60.822 55.000 0.00 0.00 0.00 3.13
4241 14845 7.801716 AGCAACAACAACAATCTTAGACTAA 57.198 32.000 0.00 0.00 0.00 2.24
4540 15144 4.752101 CAGAGCATGGTTAATAGTACAGCC 59.248 45.833 0.00 0.00 0.00 4.85
4583 16088 9.932207 AAGGGGTAATTTATTTTTAAGAAACGG 57.068 29.630 0.00 0.00 0.00 4.44
4669 16174 8.726988 TCAAACTTTAAGATAATTTGACCCTCG 58.273 33.333 0.00 0.00 35.05 4.63
4775 16282 7.966204 ACAACGTTTATGCCATCAAATTAGTAC 59.034 33.333 0.00 0.00 0.00 2.73
5132 16652 4.856801 GCCATGATGCCCGACGGT 62.857 66.667 13.94 0.00 0.00 4.83
5142 16662 1.226974 CGACGGACTTCGCCATGAT 60.227 57.895 0.00 0.00 43.89 2.45


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

AutoCloner maintained by Alex Coulton.