Multiple sequence alignment - TraesCS1B01G097100

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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 TraesCS1B01G097100 chr1B 100.000 3230 0 0 1 3230 101272685 101269456 0.000000e+00 5965
1 TraesCS1B01G097100 chr1B 94.580 1439 65 5 817 2255 101528527 101527102 0.000000e+00 2213
2 TraesCS1B01G097100 chr1B 95.773 757 31 1 2475 3230 400138 399382 0.000000e+00 1219
3 TraesCS1B01G097100 chr1B 98.690 687 9 0 1 687 675325966 675325280 0.000000e+00 1219
4 TraesCS1B01G097100 chr1B 97.368 76 2 0 2180 2255 101239280 101239205 2.620000e-26 130
5 TraesCS1B01G097100 chr1D 94.250 1600 75 8 665 2257 63429952 63428363 0.000000e+00 2429
6 TraesCS1B01G097100 chr1A 90.656 1006 93 1 1250 2255 62009544 62010548 0.000000e+00 1336
7 TraesCS1B01G097100 chr1A 89.430 842 49 11 871 1707 61718726 61717920 0.000000e+00 1026
8 TraesCS1B01G097100 chr1A 91.304 506 44 0 1750 2255 61717925 61717420 0.000000e+00 691
9 TraesCS1B01G097100 chr1A 85.417 192 12 7 686 873 61719965 61719786 5.500000e-43 185
10 TraesCS1B01G097100 chr6A 99.267 682 5 0 1 682 578906490 578905809 0.000000e+00 1232
11 TraesCS1B01G097100 chr3B 99.267 682 5 0 1 682 816308773 816308092 0.000000e+00 1232
12 TraesCS1B01G097100 chr3B 95.515 758 33 1 2474 3230 39480656 39481413 0.000000e+00 1210
13 TraesCS1B01G097100 chr3B 95.157 764 32 5 2471 3230 733395987 733395225 0.000000e+00 1201
14 TraesCS1B01G097100 chr3B 78.788 891 167 18 1361 2240 79560831 79561710 2.160000e-161 579
15 TraesCS1B01G097100 chr3B 78.286 852 165 16 1361 2202 79782309 79783150 6.140000e-147 531
16 TraesCS1B01G097100 chr3B 90.526 190 14 4 2274 2459 103905290 103905101 6.920000e-62 248
17 TraesCS1B01G097100 chr3B 82.353 289 36 9 1065 1347 79560458 79560737 1.500000e-58 237
18 TraesCS1B01G097100 chr6B 96.037 757 28 2 2475 3230 463889342 463888587 0.000000e+00 1230
19 TraesCS1B01G097100 chr6B 95.515 758 33 1 2474 3230 464531196 464531953 0.000000e+00 1210
20 TraesCS1B01G097100 chr6B 90.055 181 15 3 2280 2457 29735299 29735479 6.970000e-57 231
21 TraesCS1B01G097100 chr6B 85.167 209 20 5 2274 2472 708234129 708234336 1.520000e-48 204
22 TraesCS1B01G097100 chr4A 99.122 683 6 0 1 683 656558103 656557421 0.000000e+00 1229
23 TraesCS1B01G097100 chr4A 91.053 190 13 4 2274 2459 524475512 524475323 1.490000e-63 254
24 TraesCS1B01G097100 chr5A 99.120 682 6 0 1 682 453528328 453529009 0.000000e+00 1227
25 TraesCS1B01G097100 chr5A 98.827 682 8 0 1 682 638074290 638074971 0.000000e+00 1216
26 TraesCS1B01G097100 chr7B 95.905 757 30 1 2475 3230 673324472 673323716 0.000000e+00 1225
27 TraesCS1B01G097100 chr2B 95.905 757 30 1 2475 3230 57978716 57977960 0.000000e+00 1225
28 TraesCS1B01G097100 chr2B 99.120 682 4 1 1 682 733173617 733174296 0.000000e+00 1225
29 TraesCS1B01G097100 chr2B 98.827 682 8 0 1 682 624284093 624284774 0.000000e+00 1216
30 TraesCS1B01G097100 chr2B 90.404 198 15 4 2266 2459 36506344 36506147 1.150000e-64 257
31 TraesCS1B01G097100 chr3A 98.974 682 7 0 1 682 484649563 484650244 0.000000e+00 1221
32 TraesCS1B01G097100 chr3A 77.441 891 177 18 1361 2239 63389668 63390546 7.990000e-141 510
33 TraesCS1B01G097100 chr3A 90.000 210 19 2 2267 2474 728999547 728999756 1.480000e-68 270
34 TraesCS1B01G097100 chr3A 81.553 309 42 7 1057 1359 63434332 63434631 1.160000e-59 241
35 TraesCS1B01G097100 chr3A 81.230 309 43 6 1057 1359 63389284 63389583 5.390000e-58 235
36 TraesCS1B01G097100 chrUn 95.641 757 31 2 2475 3230 276317721 276316966 0.000000e+00 1214
37 TraesCS1B01G097100 chr5B 95.532 761 30 4 2474 3230 492883692 492882932 0.000000e+00 1214
38 TraesCS1B01G097100 chr3D 79.303 889 166 14 1361 2240 50076286 50077165 9.910000e-170 606
39 TraesCS1B01G097100 chr3D 78.403 889 172 16 1361 2239 50381898 50382776 7.830000e-156 560
40 TraesCS1B01G097100 chr3D 83.045 289 34 7 1065 1347 50075914 50076193 6.920000e-62 248
41 TraesCS1B01G097100 chr7A 91.257 183 13 3 2280 2459 30408349 30408531 2.490000e-61 246
42 TraesCS1B01G097100 chr2A 85.646 209 19 5 2274 2472 585686458 585686665 3.270000e-50 209
43 TraesCS1B01G097100 chr2A 84.091 220 22 11 2267 2474 484033523 484033741 1.970000e-47 200


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 TraesCS1B01G097100 chr1B 101269456 101272685 3229 True 5965.0 5965 100.0000 1 3230 1 chr1B.!!$R3 3229
1 TraesCS1B01G097100 chr1B 101527102 101528527 1425 True 2213.0 2213 94.5800 817 2255 1 chr1B.!!$R4 1438
2 TraesCS1B01G097100 chr1B 399382 400138 756 True 1219.0 1219 95.7730 2475 3230 1 chr1B.!!$R1 755
3 TraesCS1B01G097100 chr1B 675325280 675325966 686 True 1219.0 1219 98.6900 1 687 1 chr1B.!!$R5 686
4 TraesCS1B01G097100 chr1D 63428363 63429952 1589 True 2429.0 2429 94.2500 665 2257 1 chr1D.!!$R1 1592
5 TraesCS1B01G097100 chr1A 62009544 62010548 1004 False 1336.0 1336 90.6560 1250 2255 1 chr1A.!!$F1 1005
6 TraesCS1B01G097100 chr1A 61717420 61719965 2545 True 634.0 1026 88.7170 686 2255 3 chr1A.!!$R1 1569
7 TraesCS1B01G097100 chr6A 578905809 578906490 681 True 1232.0 1232 99.2670 1 682 1 chr6A.!!$R1 681
8 TraesCS1B01G097100 chr3B 816308092 816308773 681 True 1232.0 1232 99.2670 1 682 1 chr3B.!!$R3 681
9 TraesCS1B01G097100 chr3B 39480656 39481413 757 False 1210.0 1210 95.5150 2474 3230 1 chr3B.!!$F1 756
10 TraesCS1B01G097100 chr3B 733395225 733395987 762 True 1201.0 1201 95.1570 2471 3230 1 chr3B.!!$R2 759
11 TraesCS1B01G097100 chr3B 79782309 79783150 841 False 531.0 531 78.2860 1361 2202 1 chr3B.!!$F2 841
12 TraesCS1B01G097100 chr3B 79560458 79561710 1252 False 408.0 579 80.5705 1065 2240 2 chr3B.!!$F3 1175
13 TraesCS1B01G097100 chr6B 463888587 463889342 755 True 1230.0 1230 96.0370 2475 3230 1 chr6B.!!$R1 755
14 TraesCS1B01G097100 chr6B 464531196 464531953 757 False 1210.0 1210 95.5150 2474 3230 1 chr6B.!!$F2 756
15 TraesCS1B01G097100 chr4A 656557421 656558103 682 True 1229.0 1229 99.1220 1 683 1 chr4A.!!$R2 682
16 TraesCS1B01G097100 chr5A 453528328 453529009 681 False 1227.0 1227 99.1200 1 682 1 chr5A.!!$F1 681
17 TraesCS1B01G097100 chr5A 638074290 638074971 681 False 1216.0 1216 98.8270 1 682 1 chr5A.!!$F2 681
18 TraesCS1B01G097100 chr7B 673323716 673324472 756 True 1225.0 1225 95.9050 2475 3230 1 chr7B.!!$R1 755
19 TraesCS1B01G097100 chr2B 57977960 57978716 756 True 1225.0 1225 95.9050 2475 3230 1 chr2B.!!$R2 755
20 TraesCS1B01G097100 chr2B 733173617 733174296 679 False 1225.0 1225 99.1200 1 682 1 chr2B.!!$F2 681
21 TraesCS1B01G097100 chr2B 624284093 624284774 681 False 1216.0 1216 98.8270 1 682 1 chr2B.!!$F1 681
22 TraesCS1B01G097100 chr3A 484649563 484650244 681 False 1221.0 1221 98.9740 1 682 1 chr3A.!!$F2 681
23 TraesCS1B01G097100 chr3A 63389284 63390546 1262 False 372.5 510 79.3355 1057 2239 2 chr3A.!!$F4 1182
24 TraesCS1B01G097100 chrUn 276316966 276317721 755 True 1214.0 1214 95.6410 2475 3230 1 chrUn.!!$R1 755
25 TraesCS1B01G097100 chr5B 492882932 492883692 760 True 1214.0 1214 95.5320 2474 3230 1 chr5B.!!$R1 756
26 TraesCS1B01G097100 chr3D 50381898 50382776 878 False 560.0 560 78.4030 1361 2239 1 chr3D.!!$F1 878
27 TraesCS1B01G097100 chr3D 50075914 50077165 1251 False 427.0 606 81.1740 1065 2240 2 chr3D.!!$F2 1175

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
997 2075 1.464608 CAATTCGTCTTGTGCGATGGT 59.535 47.619 0.0 0.0 38.21 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2394 3573 0.03213 GCAGGTTAGCGATCGATGGA 59.968 55.0 21.57 2.84 0.0 3.41 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
46 47 4.527038 ACGGTCTAATTCCTCTCTTGTGAA 59.473 41.667 0.00 0.00 0.00 3.18
213 214 2.875296 AGTCCTTGGCAAATGCAACTA 58.125 42.857 7.80 0.00 44.36 2.24
450 451 4.700700 AGTAGCAGACGGTTTTACAAAGT 58.299 39.130 0.00 0.00 0.00 2.66
722 727 5.685075 GCAAGTTAGGTAGCCATGACATAGT 60.685 44.000 0.00 0.00 0.00 2.12
804 810 5.298276 AGTCTTTTTGTTCCGCAAGTTGATA 59.702 36.000 7.16 0.00 38.47 2.15
908 1982 5.922053 TCCATCTACGCTAGTACTAACTCA 58.078 41.667 3.76 0.00 37.15 3.41
943 2021 1.672881 GAACCCAAAGATCGATGGCTG 59.327 52.381 0.54 0.00 35.28 4.85
997 2075 1.464608 CAATTCGTCTTGTGCGATGGT 59.535 47.619 0.00 0.00 38.21 3.55
1013 2091 4.260538 GCGATGGTGAATGATTCTTCTGAC 60.261 45.833 6.73 0.00 0.00 3.51
1518 2694 1.677217 GCCTTCTTCACGAGCCTCAAT 60.677 52.381 0.00 0.00 0.00 2.57
1535 2711 0.343372 AATAGCCTGGTGGAGAGGGA 59.657 55.000 0.00 0.00 34.57 4.20
1740 2916 3.391382 CTCGCCCTCCCCTTCGTT 61.391 66.667 0.00 0.00 0.00 3.85
1896 3072 1.519455 CCTCCTCGTCGACATTGGC 60.519 63.158 17.16 0.00 0.00 4.52
1992 3171 2.347490 GTGACCTGCATCGTGGGT 59.653 61.111 0.00 0.00 35.89 4.51
2227 3406 5.762218 GGGATTGTCATGAGAGAAATTCGAT 59.238 40.000 0.00 0.00 30.13 3.59
2302 3481 5.959583 ACCACTATAAAAGGAAGAGAGGG 57.040 43.478 0.00 0.00 0.00 4.30
2303 3482 4.722279 ACCACTATAAAAGGAAGAGAGGGG 59.278 45.833 0.00 0.00 0.00 4.79
2304 3483 4.445019 CCACTATAAAAGGAAGAGAGGGGC 60.445 50.000 0.00 0.00 0.00 5.80
2305 3484 4.164221 CACTATAAAAGGAAGAGAGGGGCA 59.836 45.833 0.00 0.00 0.00 5.36
2306 3485 3.941704 ATAAAAGGAAGAGAGGGGCAG 57.058 47.619 0.00 0.00 0.00 4.85
2307 3486 1.747444 AAAAGGAAGAGAGGGGCAGA 58.253 50.000 0.00 0.00 0.00 4.26
2308 3487 1.978361 AAAGGAAGAGAGGGGCAGAT 58.022 50.000 0.00 0.00 0.00 2.90
2309 3488 1.506025 AAGGAAGAGAGGGGCAGATC 58.494 55.000 0.00 0.00 0.00 2.75
2310 3489 0.399806 AGGAAGAGAGGGGCAGATCC 60.400 60.000 0.00 0.00 0.00 3.36
2311 3490 0.692419 GGAAGAGAGGGGCAGATCCA 60.692 60.000 0.00 0.00 36.21 3.41
2312 3491 1.207791 GAAGAGAGGGGCAGATCCAA 58.792 55.000 0.00 0.00 36.21 3.53
2313 3492 1.561542 GAAGAGAGGGGCAGATCCAAA 59.438 52.381 0.00 0.00 36.21 3.28
2314 3493 0.915364 AGAGAGGGGCAGATCCAAAC 59.085 55.000 0.00 0.00 36.21 2.93
2315 3494 0.620556 GAGAGGGGCAGATCCAAACA 59.379 55.000 0.00 0.00 36.21 2.83
2316 3495 1.004745 GAGAGGGGCAGATCCAAACAA 59.995 52.381 0.00 0.00 36.21 2.83
2317 3496 1.642762 AGAGGGGCAGATCCAAACAAT 59.357 47.619 0.00 0.00 36.21 2.71
2318 3497 2.027385 GAGGGGCAGATCCAAACAATC 58.973 52.381 0.00 0.00 36.21 2.67
2319 3498 1.358787 AGGGGCAGATCCAAACAATCA 59.641 47.619 0.00 0.00 36.21 2.57
2320 3499 1.478105 GGGGCAGATCCAAACAATCAC 59.522 52.381 0.00 0.00 36.21 3.06
2321 3500 2.170166 GGGCAGATCCAAACAATCACA 58.830 47.619 0.00 0.00 36.21 3.58
2322 3501 2.094545 GGGCAGATCCAAACAATCACAC 60.095 50.000 0.00 0.00 36.21 3.82
2323 3502 2.094545 GGCAGATCCAAACAATCACACC 60.095 50.000 0.00 0.00 34.01 4.16
2324 3503 2.094545 GCAGATCCAAACAATCACACCC 60.095 50.000 0.00 0.00 0.00 4.61
2325 3504 3.156293 CAGATCCAAACAATCACACCCA 58.844 45.455 0.00 0.00 0.00 4.51
2326 3505 3.765511 CAGATCCAAACAATCACACCCAT 59.234 43.478 0.00 0.00 0.00 4.00
2327 3506 4.019174 AGATCCAAACAATCACACCCATC 58.981 43.478 0.00 0.00 0.00 3.51
2328 3507 2.524306 TCCAAACAATCACACCCATCC 58.476 47.619 0.00 0.00 0.00 3.51
2329 3508 2.158400 TCCAAACAATCACACCCATCCA 60.158 45.455 0.00 0.00 0.00 3.41
2330 3509 2.833338 CCAAACAATCACACCCATCCAT 59.167 45.455 0.00 0.00 0.00 3.41
2331 3510 3.261390 CCAAACAATCACACCCATCCATT 59.739 43.478 0.00 0.00 0.00 3.16
2332 3511 4.465660 CCAAACAATCACACCCATCCATTA 59.534 41.667 0.00 0.00 0.00 1.90
2333 3512 5.129155 CCAAACAATCACACCCATCCATTAT 59.871 40.000 0.00 0.00 0.00 1.28
2334 3513 6.275335 CAAACAATCACACCCATCCATTATC 58.725 40.000 0.00 0.00 0.00 1.75
2335 3514 5.128033 ACAATCACACCCATCCATTATCA 57.872 39.130 0.00 0.00 0.00 2.15
2336 3515 5.517924 ACAATCACACCCATCCATTATCAA 58.482 37.500 0.00 0.00 0.00 2.57
2337 3516 5.595542 ACAATCACACCCATCCATTATCAAG 59.404 40.000 0.00 0.00 0.00 3.02
2338 3517 5.651612 ATCACACCCATCCATTATCAAGA 57.348 39.130 0.00 0.00 0.00 3.02
2339 3518 5.651612 TCACACCCATCCATTATCAAGAT 57.348 39.130 0.00 0.00 0.00 2.40
2340 3519 5.624159 TCACACCCATCCATTATCAAGATC 58.376 41.667 0.00 0.00 0.00 2.75
2341 3520 5.370584 TCACACCCATCCATTATCAAGATCT 59.629 40.000 0.00 0.00 0.00 2.75
2342 3521 6.558394 TCACACCCATCCATTATCAAGATCTA 59.442 38.462 0.00 0.00 0.00 1.98
2343 3522 7.072328 TCACACCCATCCATTATCAAGATCTAA 59.928 37.037 0.00 0.00 0.00 2.10
2344 3523 7.886970 CACACCCATCCATTATCAAGATCTAAT 59.113 37.037 0.00 0.00 0.00 1.73
2345 3524 7.886970 ACACCCATCCATTATCAAGATCTAATG 59.113 37.037 8.42 8.42 35.86 1.90
2351 3530 7.756395 CCATTATCAAGATCTAATGGTGCTT 57.244 36.000 20.30 1.18 44.84 3.91
2352 3531 8.853077 CCATTATCAAGATCTAATGGTGCTTA 57.147 34.615 20.30 0.43 44.84 3.09
2353 3532 9.288576 CCATTATCAAGATCTAATGGTGCTTAA 57.711 33.333 20.30 7.50 44.84 1.85
2358 3537 8.668510 TCAAGATCTAATGGTGCTTAATTCTC 57.331 34.615 0.00 0.00 0.00 2.87
2359 3538 7.716998 TCAAGATCTAATGGTGCTTAATTCTCC 59.283 37.037 0.00 0.00 0.00 3.71
2360 3539 6.226787 AGATCTAATGGTGCTTAATTCTCCG 58.773 40.000 0.00 0.00 0.00 4.63
2361 3540 4.703897 TCTAATGGTGCTTAATTCTCCGG 58.296 43.478 0.00 0.00 0.00 5.14
2362 3541 3.366052 AATGGTGCTTAATTCTCCGGT 57.634 42.857 0.00 0.00 0.00 5.28
2363 3542 2.107950 TGGTGCTTAATTCTCCGGTG 57.892 50.000 0.00 0.00 0.00 4.94
2364 3543 1.349688 TGGTGCTTAATTCTCCGGTGT 59.650 47.619 0.00 0.00 0.00 4.16
2365 3544 2.224670 TGGTGCTTAATTCTCCGGTGTT 60.225 45.455 0.00 0.00 0.00 3.32
2366 3545 2.817844 GGTGCTTAATTCTCCGGTGTTT 59.182 45.455 0.00 0.50 0.00 2.83
2367 3546 4.004982 GGTGCTTAATTCTCCGGTGTTTA 58.995 43.478 0.00 0.00 0.00 2.01
2368 3547 4.456566 GGTGCTTAATTCTCCGGTGTTTAA 59.543 41.667 0.00 7.63 0.00 1.52
2369 3548 5.388111 GTGCTTAATTCTCCGGTGTTTAAC 58.612 41.667 0.00 4.93 0.00 2.01
2370 3549 5.049267 GTGCTTAATTCTCCGGTGTTTAACA 60.049 40.000 0.00 0.00 0.00 2.41
2383 3562 4.030366 GTGTTTAACACTACCAAACACGC 58.970 43.478 19.64 0.00 46.84 5.34
2384 3563 3.688185 TGTTTAACACTACCAAACACGCA 59.312 39.130 0.00 0.00 37.27 5.24
2385 3564 4.335874 TGTTTAACACTACCAAACACGCAT 59.664 37.500 0.00 0.00 37.27 4.73
2386 3565 5.163642 TGTTTAACACTACCAAACACGCATT 60.164 36.000 0.00 0.00 37.27 3.56
2387 3566 6.037940 TGTTTAACACTACCAAACACGCATTA 59.962 34.615 0.00 0.00 37.27 1.90
2388 3567 6.615264 TTAACACTACCAAACACGCATTAA 57.385 33.333 0.00 0.00 0.00 1.40
2389 3568 4.742438 ACACTACCAAACACGCATTAAG 57.258 40.909 0.00 0.00 0.00 1.85
2390 3569 3.058501 ACACTACCAAACACGCATTAAGC 60.059 43.478 0.00 0.00 40.87 3.09
2391 3570 3.188460 CACTACCAAACACGCATTAAGCT 59.812 43.478 0.00 0.00 42.61 3.74
2392 3571 4.390603 CACTACCAAACACGCATTAAGCTA 59.609 41.667 0.00 0.00 42.61 3.32
2393 3572 4.998672 ACTACCAAACACGCATTAAGCTAA 59.001 37.500 0.00 0.00 42.61 3.09
2394 3573 5.646360 ACTACCAAACACGCATTAAGCTAAT 59.354 36.000 0.00 0.00 42.61 1.73
2395 3574 4.981794 ACCAAACACGCATTAAGCTAATC 58.018 39.130 0.00 0.00 42.61 1.75
2396 3575 4.142469 ACCAAACACGCATTAAGCTAATCC 60.142 41.667 0.00 0.00 42.61 3.01
2397 3576 4.142491 CCAAACACGCATTAAGCTAATCCA 60.142 41.667 0.00 0.00 42.61 3.41
2398 3577 5.450412 CCAAACACGCATTAAGCTAATCCAT 60.450 40.000 0.00 0.00 42.61 3.41
2399 3578 5.424121 AACACGCATTAAGCTAATCCATC 57.576 39.130 0.00 0.00 42.61 3.51
2400 3579 3.494626 ACACGCATTAAGCTAATCCATCG 59.505 43.478 0.00 0.00 42.61 3.84
2401 3580 3.740832 CACGCATTAAGCTAATCCATCGA 59.259 43.478 0.00 0.00 42.61 3.59
2402 3581 4.389992 CACGCATTAAGCTAATCCATCGAT 59.610 41.667 0.00 0.00 42.61 3.59
2403 3582 4.627467 ACGCATTAAGCTAATCCATCGATC 59.373 41.667 0.00 0.00 42.61 3.69
2404 3583 4.259570 CGCATTAAGCTAATCCATCGATCG 60.260 45.833 9.36 9.36 42.61 3.69
2405 3584 4.493220 GCATTAAGCTAATCCATCGATCGC 60.493 45.833 11.09 0.00 41.15 4.58
2406 3585 4.521130 TTAAGCTAATCCATCGATCGCT 57.479 40.909 11.09 0.00 36.98 4.93
2407 3586 5.638596 TTAAGCTAATCCATCGATCGCTA 57.361 39.130 11.09 0.00 35.36 4.26
2408 3587 4.521130 AAGCTAATCCATCGATCGCTAA 57.479 40.909 11.09 0.00 35.36 3.09
2409 3588 3.839293 AGCTAATCCATCGATCGCTAAC 58.161 45.455 11.09 0.00 34.93 2.34
2410 3589 2.924290 GCTAATCCATCGATCGCTAACC 59.076 50.000 11.09 0.00 0.00 2.85
2411 3590 3.367498 GCTAATCCATCGATCGCTAACCT 60.367 47.826 11.09 0.00 0.00 3.50
2412 3591 2.732412 ATCCATCGATCGCTAACCTG 57.268 50.000 11.09 0.88 0.00 4.00
2413 3592 0.032130 TCCATCGATCGCTAACCTGC 59.968 55.000 11.09 0.00 0.00 4.85
2414 3593 0.946221 CCATCGATCGCTAACCTGCC 60.946 60.000 11.09 0.00 0.00 4.85
2415 3594 0.946221 CATCGATCGCTAACCTGCCC 60.946 60.000 11.09 0.00 0.00 5.36
2416 3595 1.115930 ATCGATCGCTAACCTGCCCT 61.116 55.000 11.09 0.00 0.00 5.19
2417 3596 1.592669 CGATCGCTAACCTGCCCTG 60.593 63.158 0.26 0.00 0.00 4.45
2418 3597 1.889573 GATCGCTAACCTGCCCTGC 60.890 63.158 0.00 0.00 0.00 4.85
2419 3598 3.406595 ATCGCTAACCTGCCCTGCC 62.407 63.158 0.00 0.00 0.00 4.85
2420 3599 4.101448 CGCTAACCTGCCCTGCCT 62.101 66.667 0.00 0.00 0.00 4.75
2421 3600 2.356667 GCTAACCTGCCCTGCCTT 59.643 61.111 0.00 0.00 0.00 4.35
2422 3601 1.607612 GCTAACCTGCCCTGCCTTA 59.392 57.895 0.00 0.00 0.00 2.69
2423 3602 0.034477 GCTAACCTGCCCTGCCTTAA 60.034 55.000 0.00 0.00 0.00 1.85
2424 3603 1.615919 GCTAACCTGCCCTGCCTTAAA 60.616 52.381 0.00 0.00 0.00 1.52
2425 3604 2.802719 CTAACCTGCCCTGCCTTAAAA 58.197 47.619 0.00 0.00 0.00 1.52
2426 3605 1.338107 AACCTGCCCTGCCTTAAAAC 58.662 50.000 0.00 0.00 0.00 2.43
2427 3606 0.187361 ACCTGCCCTGCCTTAAAACA 59.813 50.000 0.00 0.00 0.00 2.83
2428 3607 1.337118 CCTGCCCTGCCTTAAAACAA 58.663 50.000 0.00 0.00 0.00 2.83
2429 3608 1.691434 CCTGCCCTGCCTTAAAACAAA 59.309 47.619 0.00 0.00 0.00 2.83
2430 3609 2.103941 CCTGCCCTGCCTTAAAACAAAA 59.896 45.455 0.00 0.00 0.00 2.44
2431 3610 3.432890 CCTGCCCTGCCTTAAAACAAAAA 60.433 43.478 0.00 0.00 0.00 1.94
2432 3611 3.536570 TGCCCTGCCTTAAAACAAAAAC 58.463 40.909 0.00 0.00 0.00 2.43
2433 3612 2.875933 GCCCTGCCTTAAAACAAAAACC 59.124 45.455 0.00 0.00 0.00 3.27
2434 3613 3.127589 CCCTGCCTTAAAACAAAAACCG 58.872 45.455 0.00 0.00 0.00 4.44
2435 3614 2.542178 CCTGCCTTAAAACAAAAACCGC 59.458 45.455 0.00 0.00 0.00 5.68
2436 3615 3.453424 CTGCCTTAAAACAAAAACCGCT 58.547 40.909 0.00 0.00 0.00 5.52
2437 3616 3.190874 TGCCTTAAAACAAAAACCGCTG 58.809 40.909 0.00 0.00 0.00 5.18
2438 3617 2.033236 GCCTTAAAACAAAAACCGCTGC 60.033 45.455 0.00 0.00 0.00 5.25
2439 3618 2.542178 CCTTAAAACAAAAACCGCTGCC 59.458 45.455 0.00 0.00 0.00 4.85
2440 3619 2.226602 TAAAACAAAAACCGCTGCCC 57.773 45.000 0.00 0.00 0.00 5.36
2441 3620 0.808060 AAAACAAAAACCGCTGCCCG 60.808 50.000 0.00 0.00 0.00 6.13
2442 3621 3.783478 AACAAAAACCGCTGCCCGC 62.783 57.895 0.00 0.00 35.03 6.13
2443 3622 4.277593 CAAAAACCGCTGCCCGCA 62.278 61.111 0.00 0.00 39.08 5.69
2444 3623 4.279043 AAAAACCGCTGCCCGCAC 62.279 61.111 0.00 0.00 39.08 5.34
2459 3638 4.039357 CACGACCGCACGACCTCT 62.039 66.667 6.49 0.00 37.03 3.69
2460 3639 3.735029 ACGACCGCACGACCTCTC 61.735 66.667 6.49 0.00 37.03 3.20
2461 3640 4.813526 CGACCGCACGACCTCTCG 62.814 72.222 0.00 0.00 46.06 4.04
2467 3646 3.461773 CACGACCTCTCGCCCCAT 61.462 66.667 0.00 0.00 44.33 4.00
2468 3647 3.148279 ACGACCTCTCGCCCCATC 61.148 66.667 0.00 0.00 44.33 3.51
2469 3648 3.917760 CGACCTCTCGCCCCATCC 61.918 72.222 0.00 0.00 31.91 3.51
2470 3649 2.444895 GACCTCTCGCCCCATCCT 60.445 66.667 0.00 0.00 0.00 3.24
2471 3650 2.444895 ACCTCTCGCCCCATCCTC 60.445 66.667 0.00 0.00 0.00 3.71
2472 3651 3.237741 CCTCTCGCCCCATCCTCC 61.238 72.222 0.00 0.00 0.00 4.30
2662 3841 1.671845 GTAACCGACTTTGTGCAACCA 59.328 47.619 0.00 0.00 34.36 3.67
2929 4112 2.593725 CTACCCGAGATCCGCCGA 60.594 66.667 0.00 0.00 36.84 5.54
2965 4148 5.069516 ACATTGGTGCTTTCATTGAGAGTTT 59.930 36.000 6.13 0.00 0.00 2.66
2966 4149 6.265196 ACATTGGTGCTTTCATTGAGAGTTTA 59.735 34.615 6.13 0.00 0.00 2.01
3134 4317 1.594862 CGGGTCATCAAAAGCGATCTC 59.405 52.381 0.00 0.00 0.00 2.75
3186 4369 0.033109 TCCGATGGAGCTCTCTTCCA 60.033 55.000 14.64 3.54 37.99 3.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
213 214 6.268387 AGTGATTCAACCCAAATGATTTCTGT 59.732 34.615 0.00 0.00 0.00 3.41
450 451 4.087907 TCAAATGGTCTTGATGGCAATGA 58.912 39.130 0.00 0.00 32.68 2.57
658 661 8.826710 CAATGAAAGATAATAAGCGTTCCTACA 58.173 33.333 0.00 0.00 29.77 2.74
696 699 2.092914 GTCATGGCTACCTAACTTGCCT 60.093 50.000 0.00 0.00 45.11 4.75
804 810 9.612620 CTTGACTTCTCTTAATAACGCATTTTT 57.387 29.630 0.00 0.00 0.00 1.94
815 821 9.583765 GTTTATACCGACTTGACTTCTCTTAAT 57.416 33.333 0.00 0.00 0.00 1.40
908 1982 1.032014 GGTTCAATGTGGTGTGCACT 58.968 50.000 19.41 0.00 0.00 4.40
943 2021 3.198872 GAGTGGACGGAAATCTCAATCC 58.801 50.000 0.00 0.00 0.00 3.01
997 2075 5.139435 ACGAGTGTCAGAAGAATCATTCA 57.861 39.130 0.00 0.00 0.00 2.57
1013 2091 1.586564 GCGGCTGCTACTACGAGTG 60.587 63.158 11.21 0.00 38.39 3.51
1347 2440 2.284405 TTCCTCCGGTCTGGGTCC 60.284 66.667 0.00 0.00 38.76 4.46
1518 2694 1.221909 TCTCCCTCTCCACCAGGCTA 61.222 60.000 0.00 0.00 33.74 3.93
1806 2982 2.742372 CCGGCTCCGAACACCTTG 60.742 66.667 10.28 0.00 42.83 3.61
1844 3020 4.867599 CCGAGTAGTTCCGGCGCC 62.868 72.222 19.07 19.07 39.22 6.53
1879 3055 0.108615 AAGCCAATGTCGACGAGGAG 60.109 55.000 20.69 6.51 0.00 3.69
1896 3072 4.771356 TCGACGCCTTCGCCGAAG 62.771 66.667 19.63 19.63 46.74 3.79
1984 3163 3.702048 CACCCCGACACCCACGAT 61.702 66.667 0.00 0.00 0.00 3.73
2004 3183 3.461773 ACCATCCTCTCCGGCGTG 61.462 66.667 6.01 0.00 0.00 5.34
2227 3406 7.817418 AAAGTTTGTTGGACTAATTAGCTCA 57.183 32.000 12.54 8.14 0.00 4.26
2276 3455 9.327731 CCCTCTCTTCCTTTTATAGTGGTATAT 57.672 37.037 0.00 0.00 0.00 0.86
2277 3456 7.733501 CCCCTCTCTTCCTTTTATAGTGGTATA 59.266 40.741 0.00 0.00 0.00 1.47
2278 3457 6.559157 CCCCTCTCTTCCTTTTATAGTGGTAT 59.441 42.308 0.00 0.00 0.00 2.73
2279 3458 5.903589 CCCCTCTCTTCCTTTTATAGTGGTA 59.096 44.000 0.00 0.00 0.00 3.25
2280 3459 4.722279 CCCCTCTCTTCCTTTTATAGTGGT 59.278 45.833 0.00 0.00 0.00 4.16
2281 3460 4.445019 GCCCCTCTCTTCCTTTTATAGTGG 60.445 50.000 0.00 0.00 0.00 4.00
2282 3461 4.164221 TGCCCCTCTCTTCCTTTTATAGTG 59.836 45.833 0.00 0.00 0.00 2.74
2283 3462 4.371681 TGCCCCTCTCTTCCTTTTATAGT 58.628 43.478 0.00 0.00 0.00 2.12
2284 3463 4.656112 TCTGCCCCTCTCTTCCTTTTATAG 59.344 45.833 0.00 0.00 0.00 1.31
2285 3464 4.631234 TCTGCCCCTCTCTTCCTTTTATA 58.369 43.478 0.00 0.00 0.00 0.98
2286 3465 3.464828 TCTGCCCCTCTCTTCCTTTTAT 58.535 45.455 0.00 0.00 0.00 1.40
2287 3466 2.915869 TCTGCCCCTCTCTTCCTTTTA 58.084 47.619 0.00 0.00 0.00 1.52
2288 3467 1.747444 TCTGCCCCTCTCTTCCTTTT 58.253 50.000 0.00 0.00 0.00 2.27
2289 3468 1.843206 GATCTGCCCCTCTCTTCCTTT 59.157 52.381 0.00 0.00 0.00 3.11
2290 3469 1.506025 GATCTGCCCCTCTCTTCCTT 58.494 55.000 0.00 0.00 0.00 3.36
2291 3470 0.399806 GGATCTGCCCCTCTCTTCCT 60.400 60.000 0.00 0.00 0.00 3.36
2292 3471 0.692419 TGGATCTGCCCCTCTCTTCC 60.692 60.000 0.00 0.00 34.97 3.46
2293 3472 1.207791 TTGGATCTGCCCCTCTCTTC 58.792 55.000 0.00 0.00 34.97 2.87
2294 3473 1.283321 GTTTGGATCTGCCCCTCTCTT 59.717 52.381 0.00 0.00 34.97 2.85
2295 3474 0.915364 GTTTGGATCTGCCCCTCTCT 59.085 55.000 0.00 0.00 34.97 3.10
2296 3475 0.620556 TGTTTGGATCTGCCCCTCTC 59.379 55.000 0.00 0.00 34.97 3.20
2297 3476 1.075601 TTGTTTGGATCTGCCCCTCT 58.924 50.000 0.00 0.00 34.97 3.69
2298 3477 2.027385 GATTGTTTGGATCTGCCCCTC 58.973 52.381 0.00 0.00 34.97 4.30
2299 3478 1.358787 TGATTGTTTGGATCTGCCCCT 59.641 47.619 0.00 0.00 34.97 4.79
2300 3479 1.478105 GTGATTGTTTGGATCTGCCCC 59.522 52.381 0.00 0.00 34.97 5.80
2301 3480 2.094545 GTGTGATTGTTTGGATCTGCCC 60.095 50.000 0.00 0.00 34.97 5.36
2302 3481 2.094545 GGTGTGATTGTTTGGATCTGCC 60.095 50.000 0.00 0.00 37.10 4.85
2303 3482 2.094545 GGGTGTGATTGTTTGGATCTGC 60.095 50.000 0.00 0.00 0.00 4.26
2304 3483 3.156293 TGGGTGTGATTGTTTGGATCTG 58.844 45.455 0.00 0.00 0.00 2.90
2305 3484 3.524095 TGGGTGTGATTGTTTGGATCT 57.476 42.857 0.00 0.00 0.00 2.75
2306 3485 3.131046 GGATGGGTGTGATTGTTTGGATC 59.869 47.826 0.00 0.00 0.00 3.36
2307 3486 3.099141 GGATGGGTGTGATTGTTTGGAT 58.901 45.455 0.00 0.00 0.00 3.41
2308 3487 2.158400 TGGATGGGTGTGATTGTTTGGA 60.158 45.455 0.00 0.00 0.00 3.53
2309 3488 2.246469 TGGATGGGTGTGATTGTTTGG 58.754 47.619 0.00 0.00 0.00 3.28
2310 3489 4.540359 AATGGATGGGTGTGATTGTTTG 57.460 40.909 0.00 0.00 0.00 2.93
2311 3490 5.957168 TGATAATGGATGGGTGTGATTGTTT 59.043 36.000 0.00 0.00 0.00 2.83
2312 3491 5.517924 TGATAATGGATGGGTGTGATTGTT 58.482 37.500 0.00 0.00 0.00 2.83
2313 3492 5.128033 TGATAATGGATGGGTGTGATTGT 57.872 39.130 0.00 0.00 0.00 2.71
2314 3493 5.829391 TCTTGATAATGGATGGGTGTGATTG 59.171 40.000 0.00 0.00 0.00 2.67
2315 3494 6.017211 TCTTGATAATGGATGGGTGTGATT 57.983 37.500 0.00 0.00 0.00 2.57
2316 3495 5.651612 TCTTGATAATGGATGGGTGTGAT 57.348 39.130 0.00 0.00 0.00 3.06
2317 3496 5.370584 AGATCTTGATAATGGATGGGTGTGA 59.629 40.000 0.00 0.00 0.00 3.58
2318 3497 5.628130 AGATCTTGATAATGGATGGGTGTG 58.372 41.667 0.00 0.00 0.00 3.82
2319 3498 5.919348 AGATCTTGATAATGGATGGGTGT 57.081 39.130 0.00 0.00 0.00 4.16
2320 3499 8.277490 CATTAGATCTTGATAATGGATGGGTG 57.723 38.462 0.00 0.00 36.28 4.61
2332 3511 9.282569 GAGAATTAAGCACCATTAGATCTTGAT 57.717 33.333 0.00 0.00 0.00 2.57
2333 3512 7.716998 GGAGAATTAAGCACCATTAGATCTTGA 59.283 37.037 0.00 0.00 0.00 3.02
2334 3513 7.307632 CGGAGAATTAAGCACCATTAGATCTTG 60.308 40.741 0.00 0.00 0.00 3.02
2335 3514 6.708054 CGGAGAATTAAGCACCATTAGATCTT 59.292 38.462 0.00 0.00 0.00 2.40
2336 3515 6.226787 CGGAGAATTAAGCACCATTAGATCT 58.773 40.000 0.00 0.00 0.00 2.75
2337 3516 5.409826 CCGGAGAATTAAGCACCATTAGATC 59.590 44.000 0.00 0.00 0.00 2.75
2338 3517 5.163195 ACCGGAGAATTAAGCACCATTAGAT 60.163 40.000 9.46 0.00 0.00 1.98
2339 3518 4.163458 ACCGGAGAATTAAGCACCATTAGA 59.837 41.667 9.46 0.00 0.00 2.10
2340 3519 4.273480 CACCGGAGAATTAAGCACCATTAG 59.727 45.833 9.46 0.00 0.00 1.73
2341 3520 4.196193 CACCGGAGAATTAAGCACCATTA 58.804 43.478 9.46 0.00 0.00 1.90
2342 3521 3.016736 CACCGGAGAATTAAGCACCATT 58.983 45.455 9.46 0.00 0.00 3.16
2343 3522 2.026262 ACACCGGAGAATTAAGCACCAT 60.026 45.455 9.46 0.00 0.00 3.55
2344 3523 1.349688 ACACCGGAGAATTAAGCACCA 59.650 47.619 9.46 0.00 0.00 4.17
2345 3524 2.109425 ACACCGGAGAATTAAGCACC 57.891 50.000 9.46 0.00 0.00 5.01
2346 3525 5.049267 TGTTAAACACCGGAGAATTAAGCAC 60.049 40.000 9.46 2.55 0.00 4.40
2347 3526 5.049267 GTGTTAAACACCGGAGAATTAAGCA 60.049 40.000 9.46 9.80 43.05 3.91
2348 3527 5.388111 GTGTTAAACACCGGAGAATTAAGC 58.612 41.667 9.46 7.69 43.05 3.09
2362 3541 3.688185 TGCGTGTTTGGTAGTGTTAAACA 59.312 39.130 0.00 0.00 40.73 2.83
2363 3542 4.275838 TGCGTGTTTGGTAGTGTTAAAC 57.724 40.909 0.00 0.00 35.46 2.01
2364 3543 5.502153 AATGCGTGTTTGGTAGTGTTAAA 57.498 34.783 0.00 0.00 0.00 1.52
2365 3544 6.615264 TTAATGCGTGTTTGGTAGTGTTAA 57.385 33.333 0.00 0.00 0.00 2.01
2366 3545 5.334260 GCTTAATGCGTGTTTGGTAGTGTTA 60.334 40.000 0.00 0.00 0.00 2.41
2367 3546 4.555906 GCTTAATGCGTGTTTGGTAGTGTT 60.556 41.667 0.00 0.00 0.00 3.32
2368 3547 3.058501 GCTTAATGCGTGTTTGGTAGTGT 60.059 43.478 0.00 0.00 0.00 3.55
2369 3548 3.488489 GCTTAATGCGTGTTTGGTAGTG 58.512 45.455 0.00 0.00 0.00 2.74
2370 3549 3.824414 GCTTAATGCGTGTTTGGTAGT 57.176 42.857 0.00 0.00 0.00 2.73
2377 3556 9.153056 GATCGATGGATTAGCTTAATGCGTGTT 62.153 40.741 0.54 0.00 39.08 3.32
2378 3557 7.770401 GATCGATGGATTAGCTTAATGCGTGT 61.770 42.308 0.54 0.00 39.08 4.49
2379 3558 5.445142 GATCGATGGATTAGCTTAATGCGTG 60.445 44.000 0.54 0.00 39.08 5.34
2380 3559 4.627467 GATCGATGGATTAGCTTAATGCGT 59.373 41.667 0.54 0.00 39.08 5.24
2381 3560 4.259570 CGATCGATGGATTAGCTTAATGCG 60.260 45.833 10.26 0.00 39.08 4.73
2382 3561 4.493220 GCGATCGATGGATTAGCTTAATGC 60.493 45.833 21.57 0.00 37.07 3.56
2383 3562 4.867047 AGCGATCGATGGATTAGCTTAATG 59.133 41.667 21.57 0.00 41.19 1.90
2384 3563 5.078411 AGCGATCGATGGATTAGCTTAAT 57.922 39.130 21.57 0.00 41.19 1.40
2385 3564 4.521130 AGCGATCGATGGATTAGCTTAA 57.479 40.909 21.57 0.00 41.19 1.85
2386 3565 5.399858 GTTAGCGATCGATGGATTAGCTTA 58.600 41.667 21.57 12.62 41.19 3.09
2387 3566 4.238514 GTTAGCGATCGATGGATTAGCTT 58.761 43.478 21.57 9.79 41.19 3.74
2388 3567 3.367498 GGTTAGCGATCGATGGATTAGCT 60.367 47.826 21.57 19.54 44.01 3.32
2389 3568 2.924290 GGTTAGCGATCGATGGATTAGC 59.076 50.000 21.57 4.84 37.07 3.09
2390 3569 4.169508 CAGGTTAGCGATCGATGGATTAG 58.830 47.826 21.57 0.00 31.51 1.73
2391 3570 3.614150 GCAGGTTAGCGATCGATGGATTA 60.614 47.826 21.57 0.00 31.51 1.75
2392 3571 2.868044 GCAGGTTAGCGATCGATGGATT 60.868 50.000 21.57 0.00 31.51 3.01
2393 3572 1.337260 GCAGGTTAGCGATCGATGGAT 60.337 52.381 21.57 7.58 34.96 3.41
2394 3573 0.032130 GCAGGTTAGCGATCGATGGA 59.968 55.000 21.57 2.84 0.00 3.41
2395 3574 0.946221 GGCAGGTTAGCGATCGATGG 60.946 60.000 21.57 1.74 34.64 3.51
2396 3575 0.946221 GGGCAGGTTAGCGATCGATG 60.946 60.000 21.57 0.47 34.64 3.84
2397 3576 1.115930 AGGGCAGGTTAGCGATCGAT 61.116 55.000 21.57 16.78 34.64 3.59
2398 3577 1.756950 AGGGCAGGTTAGCGATCGA 60.757 57.895 21.57 0.00 34.64 3.59
2399 3578 1.592669 CAGGGCAGGTTAGCGATCG 60.593 63.158 11.69 11.69 34.64 3.69
2400 3579 1.889573 GCAGGGCAGGTTAGCGATC 60.890 63.158 0.00 0.00 34.64 3.69
2401 3580 2.190578 GCAGGGCAGGTTAGCGAT 59.809 61.111 0.00 0.00 34.64 4.58
2402 3581 4.096003 GGCAGGGCAGGTTAGCGA 62.096 66.667 0.00 0.00 34.64 4.93
2403 3582 2.252072 TAAGGCAGGGCAGGTTAGCG 62.252 60.000 0.00 0.00 34.64 4.26
2404 3583 0.034477 TTAAGGCAGGGCAGGTTAGC 60.034 55.000 0.00 0.00 0.00 3.09
2405 3584 2.492088 GTTTTAAGGCAGGGCAGGTTAG 59.508 50.000 0.00 0.00 0.00 2.34
2406 3585 2.158445 TGTTTTAAGGCAGGGCAGGTTA 60.158 45.455 0.00 0.00 0.00 2.85
2407 3586 1.338107 GTTTTAAGGCAGGGCAGGTT 58.662 50.000 0.00 0.00 0.00 3.50
2408 3587 0.187361 TGTTTTAAGGCAGGGCAGGT 59.813 50.000 0.00 0.00 0.00 4.00
2409 3588 1.337118 TTGTTTTAAGGCAGGGCAGG 58.663 50.000 0.00 0.00 0.00 4.85
2410 3589 3.467374 TTTTGTTTTAAGGCAGGGCAG 57.533 42.857 0.00 0.00 0.00 4.85
2411 3590 3.536570 GTTTTTGTTTTAAGGCAGGGCA 58.463 40.909 0.00 0.00 0.00 5.36
2412 3591 2.875933 GGTTTTTGTTTTAAGGCAGGGC 59.124 45.455 0.00 0.00 0.00 5.19
2413 3592 3.127589 CGGTTTTTGTTTTAAGGCAGGG 58.872 45.455 0.00 0.00 0.00 4.45
2414 3593 2.542178 GCGGTTTTTGTTTTAAGGCAGG 59.458 45.455 0.00 0.00 0.00 4.85
2415 3594 3.245048 CAGCGGTTTTTGTTTTAAGGCAG 59.755 43.478 0.00 0.00 0.00 4.85
2416 3595 3.190874 CAGCGGTTTTTGTTTTAAGGCA 58.809 40.909 0.00 0.00 0.00 4.75
2417 3596 2.033236 GCAGCGGTTTTTGTTTTAAGGC 60.033 45.455 0.00 0.00 0.00 4.35
2418 3597 2.542178 GGCAGCGGTTTTTGTTTTAAGG 59.458 45.455 0.00 0.00 0.00 2.69
2419 3598 2.542178 GGGCAGCGGTTTTTGTTTTAAG 59.458 45.455 0.00 0.00 0.00 1.85
2420 3599 2.552031 GGGCAGCGGTTTTTGTTTTAA 58.448 42.857 0.00 0.00 0.00 1.52
2421 3600 1.536284 CGGGCAGCGGTTTTTGTTTTA 60.536 47.619 0.00 0.00 0.00 1.52
2422 3601 0.808060 CGGGCAGCGGTTTTTGTTTT 60.808 50.000 0.00 0.00 0.00 2.43
2423 3602 1.227118 CGGGCAGCGGTTTTTGTTT 60.227 52.632 0.00 0.00 0.00 2.83
2424 3603 2.415426 CGGGCAGCGGTTTTTGTT 59.585 55.556 0.00 0.00 0.00 2.83
2425 3604 4.279043 GCGGGCAGCGGTTTTTGT 62.279 61.111 0.00 0.00 35.41 2.83
2442 3621 3.948086 GAGAGGTCGTGCGGTCGTG 62.948 68.421 0.00 0.00 0.00 4.35
2443 3622 3.735029 GAGAGGTCGTGCGGTCGT 61.735 66.667 0.00 0.00 0.00 4.34
2444 3623 4.813526 CGAGAGGTCGTGCGGTCG 62.814 72.222 0.00 0.00 41.57 4.79
2453 3632 2.444895 AGGATGGGGCGAGAGGTC 60.445 66.667 0.00 0.00 0.00 3.85
2454 3633 2.444895 GAGGATGGGGCGAGAGGT 60.445 66.667 0.00 0.00 0.00 3.85
2455 3634 3.237741 GGAGGATGGGGCGAGAGG 61.238 72.222 0.00 0.00 0.00 3.69
2456 3635 1.764054 AAGGAGGATGGGGCGAGAG 60.764 63.158 0.00 0.00 0.00 3.20
2457 3636 2.066393 CAAGGAGGATGGGGCGAGA 61.066 63.158 0.00 0.00 0.00 4.04
2458 3637 2.037620 CTCAAGGAGGATGGGGCGAG 62.038 65.000 0.00 0.00 0.00 5.03
2459 3638 2.040442 TCAAGGAGGATGGGGCGA 59.960 61.111 0.00 0.00 0.00 5.54
2460 3639 2.507944 CTCAAGGAGGATGGGGCG 59.492 66.667 0.00 0.00 0.00 6.13
2470 3649 0.252284 GTCCAGGAGTCCCTCAAGGA 60.252 60.000 5.25 3.21 42.02 3.36
2471 3650 0.252467 AGTCCAGGAGTCCCTCAAGG 60.252 60.000 5.25 0.63 42.02 3.61
2472 3651 2.383855 CTAGTCCAGGAGTCCCTCAAG 58.616 57.143 5.25 0.00 42.02 3.02
2580 3759 1.524008 CCACGCCAAAGAAAGTCCCC 61.524 60.000 0.00 0.00 0.00 4.81
2590 3769 2.855514 GCTTGCCTTCCACGCCAAA 61.856 57.895 0.00 0.00 32.93 3.28
2662 3841 2.170012 TAAACACCGGAGAGGGCTAT 57.830 50.000 9.46 0.00 46.96 2.97
2773 3956 7.959658 ATTGATGATGTGGGAATTACAAGAA 57.040 32.000 0.00 0.00 0.00 2.52
2965 4148 3.818773 TCCTGATTGCGACGACATAGATA 59.181 43.478 0.00 0.00 0.00 1.98
2966 4149 2.623416 TCCTGATTGCGACGACATAGAT 59.377 45.455 0.00 0.00 0.00 1.98
3161 4344 0.187117 AGAGCTCCATCGGATCCAGA 59.813 55.000 13.41 10.55 0.00 3.86
3186 4369 3.609853 TGCAATCCAAGAGCTCGTTTAT 58.390 40.909 8.37 0.00 0.00 1.40


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

AutoCloner maintained by Alex Coulton.