Multiple sequence alignment - TraesCS3B01G027000

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 TraesCS3B01G027000 chr3B 100.000 3182 0 0 1 3182 11662786 11665967 0.000000e+00 5877
1 TraesCS3B01G027000 chr3B 91.667 96 8 0 1577 1672 190848566 190848661 1.990000e-27 134
2 TraesCS3B01G027000 chrUn 94.850 1767 48 14 560 2318 40588243 40589974 0.000000e+00 2719
3 TraesCS3B01G027000 chrUn 96.935 522 15 1 1 521 40587720 40588241 0.000000e+00 874
4 TraesCS3B01G027000 chrUn 85.930 398 30 14 2792 3181 40590164 40590543 4.940000e-108 401
5 TraesCS3B01G027000 chr3D 92.251 1497 40 23 861 2318 5858130 5856671 0.000000e+00 2052
6 TraesCS3B01G027000 chr3D 85.635 543 40 10 2641 3181 5856304 5855798 1.300000e-148 536
7 TraesCS3B01G027000 chr3D 86.335 322 38 5 2305 2623 401882305 401882623 2.350000e-91 346
8 TraesCS3B01G027000 chr3D 83.434 332 40 8 2310 2636 14198202 14198523 8.630000e-76 294
9 TraesCS3B01G027000 chr3A 94.621 911 37 4 1417 2318 15315232 15316139 0.000000e+00 1400
10 TraesCS3B01G027000 chr3A 91.729 532 21 8 800 1331 15314665 15315173 0.000000e+00 717
11 TraesCS3B01G027000 chr3A 84.321 759 68 16 78 789 15313781 15314535 0.000000e+00 695
12 TraesCS3B01G027000 chr3A 89.415 359 30 5 2830 3181 15325805 15326162 2.250000e-121 446
13 TraesCS3B01G027000 chr3A 84.112 428 51 9 1249 1674 313184545 313184133 6.400000e-107 398
14 TraesCS3B01G027000 chr3A 88.889 198 15 4 2641 2831 15317911 15318108 1.480000e-58 237
15 TraesCS3B01G027000 chr5D 88.107 412 32 8 1229 1638 380295999 380295603 1.030000e-129 473
16 TraesCS3B01G027000 chr5D 92.857 98 7 0 1577 1674 30832513 30832416 3.310000e-30 143
17 TraesCS3B01G027000 chr4D 86.905 336 35 8 2310 2640 505165566 505165897 5.010000e-98 368
18 TraesCS3B01G027000 chr4D 83.381 349 48 9 2310 2654 4932285 4931943 6.630000e-82 315
19 TraesCS3B01G027000 chr4D 92.857 98 7 0 1577 1674 444094288 444094385 3.310000e-30 143
20 TraesCS3B01G027000 chr2B 86.196 326 36 7 2321 2640 719434390 719434068 8.450000e-91 344
21 TraesCS3B01G027000 chr1A 85.119 336 41 8 2310 2641 555797155 555797485 5.090000e-88 335
22 TraesCS3B01G027000 chr1A 85.437 103 10 1 1577 1674 26057202 26057100 5.620000e-18 102
23 TraesCS3B01G027000 chr1B 84.545 330 41 7 2319 2644 496075454 496075777 5.120000e-83 318
24 TraesCS3B01G027000 chr1B 92.553 94 6 1 1226 1319 298764587 298764679 1.990000e-27 134
25 TraesCS3B01G027000 chr6D 84.375 320 37 7 2322 2636 427167481 427167792 5.160000e-78 302
26 TraesCS3B01G027000 chr2D 82.544 338 49 10 2310 2643 299981093 299981424 4.020000e-74 289


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 TraesCS3B01G027000 chr3B 11662786 11665967 3181 False 5877.000000 5877 100.000000 1 3182 1 chr3B.!!$F1 3181
1 TraesCS3B01G027000 chrUn 40587720 40590543 2823 False 1331.333333 2719 92.571667 1 3181 3 chrUn.!!$F1 3180
2 TraesCS3B01G027000 chr3D 5855798 5858130 2332 True 1294.000000 2052 88.943000 861 3181 2 chr3D.!!$R1 2320
3 TraesCS3B01G027000 chr3A 15313781 15318108 4327 False 762.250000 1400 89.890000 78 2831 4 chr3A.!!$F2 2753

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
28 29 0.251073 ACAAACCGGGGGTCTAATCG 59.749 55.0 6.32 0.0 33.12 3.34 F
360 389 0.617535 GGGGTGGAAATCAAAGGGGG 60.618 60.0 0.00 0.0 0.00 5.40 F
1004 1189 0.760567 TGGATCGAGGGAGACATGGG 60.761 60.0 0.00 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1004 1189 4.021925 ACCTCTTGTCCTGCCCGC 62.022 66.667 0.00 0.0 0.00 6.13 R
2146 2353 1.004277 GGTTGTTGTCCTAGCATGGGA 59.996 52.381 0.00 0.0 46.94 4.37 R
2506 3383 0.250124 TGCGTGAGGTTCGTTCCAAT 60.250 50.000 2.12 0.0 0.00 3.16 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
28 29 0.251073 ACAAACCGGGGGTCTAATCG 59.749 55.000 6.32 0.00 33.12 3.34
142 143 6.500684 TCTTGCCAATTGAATCAAGAGTAC 57.499 37.500 22.33 0.00 39.70 2.73
172 173 4.712763 CGCACCAAAGAGTCATTAACTTC 58.287 43.478 0.00 0.00 38.74 3.01
179 180 6.819146 CCAAAGAGTCATTAACTTCCCTCTAC 59.181 42.308 0.00 0.00 38.74 2.59
248 249 3.833070 GGGGTAGGTCAATCTATCGACAT 59.167 47.826 0.00 0.00 33.66 3.06
258 285 6.036517 GTCAATCTATCGACATGAGTTTGCTT 59.963 38.462 0.00 0.00 32.24 3.91
360 389 0.617535 GGGGTGGAAATCAAAGGGGG 60.618 60.000 0.00 0.00 0.00 5.40
550 580 3.350219 AACTAGAAATGTGGCGGATGT 57.650 42.857 0.00 0.00 0.00 3.06
558 588 3.792736 TGGCGGATGTGGGTAGGC 61.793 66.667 0.00 0.00 0.00 3.93
569 599 4.054359 TGTGGGTAGGCAATAAAACCAT 57.946 40.909 0.00 0.00 33.46 3.55
607 637 4.073169 TCAAATTGTACACGAATTCGCC 57.927 40.909 27.03 13.11 44.43 5.54
608 638 2.798834 AATTGTACACGAATTCGCCG 57.201 45.000 27.03 20.13 44.43 6.46
770 817 3.727726 TGCTCGACTGTCAAATCTCAAA 58.272 40.909 8.73 0.00 0.00 2.69
793 978 2.956333 GGCGCCTTATATTTTGGGAAGT 59.044 45.455 22.15 0.00 0.00 3.01
794 979 4.139038 GGCGCCTTATATTTTGGGAAGTA 58.861 43.478 22.15 0.00 0.00 2.24
795 980 4.215613 GGCGCCTTATATTTTGGGAAGTAG 59.784 45.833 22.15 0.00 0.00 2.57
796 981 4.215613 GCGCCTTATATTTTGGGAAGTAGG 59.784 45.833 0.00 0.00 0.00 3.18
797 982 5.617252 CGCCTTATATTTTGGGAAGTAGGA 58.383 41.667 0.00 0.00 0.00 2.94
798 983 6.059484 CGCCTTATATTTTGGGAAGTAGGAA 58.941 40.000 0.00 0.00 0.00 3.36
799 984 6.544564 CGCCTTATATTTTGGGAAGTAGGAAA 59.455 38.462 0.00 0.00 0.00 3.13
800 985 7.230712 CGCCTTATATTTTGGGAAGTAGGAAAT 59.769 37.037 0.00 0.00 0.00 2.17
801 986 9.582648 GCCTTATATTTTGGGAAGTAGGAAATA 57.417 33.333 0.00 0.00 0.00 1.40
808 993 7.489239 TTTGGGAAGTAGGAAATATTTTGGG 57.511 36.000 1.43 0.00 0.00 4.12
809 994 6.410222 TGGGAAGTAGGAAATATTTTGGGA 57.590 37.500 1.43 0.00 0.00 4.37
810 995 6.806217 TGGGAAGTAGGAAATATTTTGGGAA 58.194 36.000 1.43 0.00 0.00 3.97
811 996 7.426667 TGGGAAGTAGGAAATATTTTGGGAAT 58.573 34.615 1.43 0.00 0.00 3.01
1004 1189 0.760567 TGGATCGAGGGAGACATGGG 60.761 60.000 0.00 0.00 0.00 4.00
1319 1513 3.007070 GCGTGTTCAAGGTACGGCG 62.007 63.158 4.80 4.80 38.20 6.46
2146 2353 4.697756 CGGCGTCACCACCACCAT 62.698 66.667 0.00 0.00 39.03 3.55
2315 2541 9.339850 ACCAATCATGTCAAATTTTCAAATTCA 57.660 25.926 0.00 0.00 37.62 2.57
2347 2573 4.811555 TGCGTGGTAGATAATTTGATGC 57.188 40.909 0.00 0.00 0.00 3.91
2348 2574 3.247411 TGCGTGGTAGATAATTTGATGCG 59.753 43.478 0.00 0.00 0.00 4.73
2349 2575 3.247648 GCGTGGTAGATAATTTGATGCGT 59.752 43.478 0.00 0.00 0.00 5.24
2350 2576 4.761745 CGTGGTAGATAATTTGATGCGTG 58.238 43.478 0.00 0.00 0.00 5.34
2352 2578 5.332581 CGTGGTAGATAATTTGATGCGTGAG 60.333 44.000 0.00 0.00 0.00 3.51
2354 2580 5.057149 GGTAGATAATTTGATGCGTGAGGT 58.943 41.667 0.00 0.00 0.00 3.85
2355 2581 5.527582 GGTAGATAATTTGATGCGTGAGGTT 59.472 40.000 0.00 0.00 0.00 3.50
2356 2582 5.741388 AGATAATTTGATGCGTGAGGTTC 57.259 39.130 0.00 0.00 0.00 3.62
2364 2590 4.598257 CGTGAGGTTCGCTCCAAT 57.402 55.556 0.00 0.00 0.00 3.16
2366 2592 1.156736 CGTGAGGTTCGCTCCAATTT 58.843 50.000 0.00 0.00 0.00 1.82
2368 2594 2.031157 CGTGAGGTTCGCTCCAATTTTT 60.031 45.455 0.00 0.00 0.00 1.94
2369 2595 3.187637 CGTGAGGTTCGCTCCAATTTTTA 59.812 43.478 0.00 0.00 0.00 1.52
2370 2596 4.669197 CGTGAGGTTCGCTCCAATTTTTAG 60.669 45.833 0.00 0.00 0.00 1.85
2371 2597 4.454504 GTGAGGTTCGCTCCAATTTTTAGA 59.545 41.667 0.00 0.00 0.00 2.10
2372 2598 5.123979 GTGAGGTTCGCTCCAATTTTTAGAT 59.876 40.000 0.00 0.00 0.00 1.98
2373 2599 5.354234 TGAGGTTCGCTCCAATTTTTAGATC 59.646 40.000 0.00 0.00 0.00 2.75
2375 2601 5.888161 AGGTTCGCTCCAATTTTTAGATCAT 59.112 36.000 0.00 0.00 0.00 2.45
2376 2602 6.378280 AGGTTCGCTCCAATTTTTAGATCATT 59.622 34.615 0.00 0.00 0.00 2.57
2377 2603 7.035612 GGTTCGCTCCAATTTTTAGATCATTT 58.964 34.615 0.00 0.00 0.00 2.32
2378 2604 8.188139 GGTTCGCTCCAATTTTTAGATCATTTA 58.812 33.333 0.00 0.00 0.00 1.40
2379 2605 9.226345 GTTCGCTCCAATTTTTAGATCATTTAG 57.774 33.333 0.00 0.00 0.00 1.85
2381 2607 8.612619 TCGCTCCAATTTTTAGATCATTTAGAC 58.387 33.333 0.00 0.00 0.00 2.59
2392 2618 8.824159 TTAGATCATTTAGACATCTAAGCAGC 57.176 34.615 0.00 0.00 39.36 5.25
2393 2619 7.065120 AGATCATTTAGACATCTAAGCAGCT 57.935 36.000 0.00 0.00 39.36 4.24
2394 2620 7.153985 AGATCATTTAGACATCTAAGCAGCTC 58.846 38.462 0.00 0.00 39.36 4.09
2395 2621 6.477053 TCATTTAGACATCTAAGCAGCTCT 57.523 37.500 0.00 0.00 39.36 4.09
2397 3274 8.011844 TCATTTAGACATCTAAGCAGCTCTAA 57.988 34.615 0.00 0.00 39.36 2.10
2403 3280 5.248640 ACATCTAAGCAGCTCTAAGCAAAA 58.751 37.500 0.00 0.00 45.56 2.44
2404 3281 5.707298 ACATCTAAGCAGCTCTAAGCAAAAA 59.293 36.000 0.00 0.00 45.56 1.94
2421 3298 3.485463 AAAAAGACACATCGGGTCAGA 57.515 42.857 0.00 0.00 37.74 3.27
2424 3301 1.338107 AGACACATCGGGTCAGAACA 58.662 50.000 0.00 0.00 37.74 3.18
2428 3305 0.320771 ACATCGGGTCAGAACAGTGC 60.321 55.000 0.00 0.00 0.00 4.40
2429 3306 1.079819 ATCGGGTCAGAACAGTGCG 60.080 57.895 0.00 0.00 0.00 5.34
2430 3307 1.816863 ATCGGGTCAGAACAGTGCGT 61.817 55.000 0.00 0.00 0.00 5.24
2431 3308 2.310233 CGGGTCAGAACAGTGCGTG 61.310 63.158 0.00 0.00 0.00 5.34
2432 3309 1.069090 GGGTCAGAACAGTGCGTGA 59.931 57.895 0.00 0.00 0.00 4.35
2433 3310 0.531974 GGGTCAGAACAGTGCGTGAA 60.532 55.000 0.00 0.00 0.00 3.18
2434 3311 0.582005 GGTCAGAACAGTGCGTGAAC 59.418 55.000 0.00 0.00 0.00 3.18
2435 3312 1.286501 GTCAGAACAGTGCGTGAACA 58.713 50.000 0.00 0.00 0.00 3.18
2437 3314 2.287915 GTCAGAACAGTGCGTGAACAAT 59.712 45.455 0.00 0.00 0.00 2.71
2438 3315 3.493129 GTCAGAACAGTGCGTGAACAATA 59.507 43.478 0.00 0.00 0.00 1.90
2439 3316 4.025229 GTCAGAACAGTGCGTGAACAATAA 60.025 41.667 0.00 0.00 0.00 1.40
2440 3317 4.025229 TCAGAACAGTGCGTGAACAATAAC 60.025 41.667 0.00 0.00 0.00 1.89
2442 3319 4.515191 AGAACAGTGCGTGAACAATAACAT 59.485 37.500 0.00 0.00 0.00 2.71
2444 3321 5.181690 ACAGTGCGTGAACAATAACATTT 57.818 34.783 0.00 0.00 0.00 2.32
2445 3322 5.587289 ACAGTGCGTGAACAATAACATTTT 58.413 33.333 0.00 0.00 0.00 1.82
2446 3323 6.039616 ACAGTGCGTGAACAATAACATTTTT 58.960 32.000 0.00 0.00 0.00 1.94
2447 3324 7.197017 ACAGTGCGTGAACAATAACATTTTTA 58.803 30.769 0.00 0.00 0.00 1.52
2449 3326 7.166638 CAGTGCGTGAACAATAACATTTTTACA 59.833 33.333 0.00 0.00 0.00 2.41
2451 3328 7.377397 GTGCGTGAACAATAACATTTTTACAGA 59.623 33.333 0.00 0.00 0.00 3.41
2452 3329 7.377397 TGCGTGAACAATAACATTTTTACAGAC 59.623 33.333 0.00 0.00 0.00 3.51
2455 3332 7.597369 GTGAACAATAACATTTTTACAGACCCC 59.403 37.037 0.00 0.00 0.00 4.95
2456 3333 6.262193 ACAATAACATTTTTACAGACCCCG 57.738 37.500 0.00 0.00 0.00 5.73
2457 3334 5.184287 ACAATAACATTTTTACAGACCCCGG 59.816 40.000 0.00 0.00 0.00 5.73
2460 3337 4.042271 ACATTTTTACAGACCCCGGATT 57.958 40.909 0.73 0.00 0.00 3.01
2461 3338 4.412843 ACATTTTTACAGACCCCGGATTT 58.587 39.130 0.73 0.00 0.00 2.17
2463 3340 3.512219 TTTTACAGACCCCGGATTTGT 57.488 42.857 0.73 4.96 0.00 2.83
2464 3341 2.773993 TTACAGACCCCGGATTTGTC 57.226 50.000 0.73 3.99 0.00 3.18
2465 3342 1.946984 TACAGACCCCGGATTTGTCT 58.053 50.000 0.73 6.55 39.86 3.41
2466 3343 1.064825 ACAGACCCCGGATTTGTCTT 58.935 50.000 0.73 0.00 37.25 3.01
2467 3344 1.423921 ACAGACCCCGGATTTGTCTTT 59.576 47.619 0.73 0.00 37.25 2.52
2468 3345 2.158519 ACAGACCCCGGATTTGTCTTTT 60.159 45.455 0.73 0.00 37.25 2.27
2469 3346 2.890945 CAGACCCCGGATTTGTCTTTTT 59.109 45.455 0.73 0.00 37.25 1.94
2484 3361 2.247790 TTTTTGCCGAGAGCTGCTC 58.752 52.632 21.72 21.72 44.23 4.26
2485 3362 0.534877 TTTTTGCCGAGAGCTGCTCA 60.535 50.000 29.49 8.15 44.15 4.26
2487 3364 1.820010 TTTGCCGAGAGCTGCTCAGA 61.820 55.000 29.49 7.15 44.15 3.27
2488 3365 1.611474 TTGCCGAGAGCTGCTCAGAT 61.611 55.000 29.49 10.97 44.15 2.90
2489 3366 0.753111 TGCCGAGAGCTGCTCAGATA 60.753 55.000 29.49 12.91 44.15 1.98
2490 3367 0.602562 GCCGAGAGCTGCTCAGATAT 59.397 55.000 29.49 10.20 44.15 1.63
2491 3368 1.815613 GCCGAGAGCTGCTCAGATATA 59.184 52.381 29.49 0.00 44.15 0.86
2493 3370 2.816672 CCGAGAGCTGCTCAGATATACA 59.183 50.000 29.49 0.00 44.15 2.29
2495 3372 4.261783 CCGAGAGCTGCTCAGATATACAAA 60.262 45.833 29.49 0.00 44.15 2.83
2496 3373 5.468592 CGAGAGCTGCTCAGATATACAAAT 58.531 41.667 29.49 5.90 44.15 2.32
2498 3375 6.416631 AGAGCTGCTCAGATATACAAATGA 57.583 37.500 29.49 0.00 32.06 2.57
2499 3376 7.006865 AGAGCTGCTCAGATATACAAATGAT 57.993 36.000 29.49 1.88 32.06 2.45
2500 3377 7.451732 AGAGCTGCTCAGATATACAAATGATT 58.548 34.615 29.49 1.49 32.06 2.57
2501 3378 7.937942 AGAGCTGCTCAGATATACAAATGATTT 59.062 33.333 29.49 1.14 32.06 2.17
2502 3379 8.461249 AGCTGCTCAGATATACAAATGATTTT 57.539 30.769 0.00 0.00 0.00 1.82
2503 3380 9.565090 AGCTGCTCAGATATACAAATGATTTTA 57.435 29.630 0.00 0.00 0.00 1.52
2519 3396 9.554395 AAATGATTTTAAAATTGGAACGAACCT 57.446 25.926 14.45 0.00 0.00 3.50
2520 3397 8.757164 ATGATTTTAAAATTGGAACGAACCTC 57.243 30.769 14.45 0.00 0.00 3.85
2521 3398 7.717568 TGATTTTAAAATTGGAACGAACCTCA 58.282 30.769 14.45 1.99 0.00 3.86
2525 3402 0.250124 ATTGGAACGAACCTCACGCA 60.250 50.000 0.00 0.00 0.00 5.24
2527 3404 0.669318 TGGAACGAACCTCACGCATC 60.669 55.000 0.00 0.00 0.00 3.91
2528 3405 0.669318 GGAACGAACCTCACGCATCA 60.669 55.000 0.00 0.00 0.00 3.07
2529 3406 1.144969 GAACGAACCTCACGCATCAA 58.855 50.000 0.00 0.00 0.00 2.57
2530 3407 1.529438 GAACGAACCTCACGCATCAAA 59.471 47.619 0.00 0.00 0.00 2.69
2531 3408 1.588674 ACGAACCTCACGCATCAAAA 58.411 45.000 0.00 0.00 0.00 2.44
2532 3409 2.151202 ACGAACCTCACGCATCAAAAT 58.849 42.857 0.00 0.00 0.00 1.82
2534 3411 3.938963 ACGAACCTCACGCATCAAAATAT 59.061 39.130 0.00 0.00 0.00 1.28
2536 3413 4.271049 CGAACCTCACGCATCAAAATATCT 59.729 41.667 0.00 0.00 0.00 1.98
2537 3414 5.462068 CGAACCTCACGCATCAAAATATCTA 59.538 40.000 0.00 0.00 0.00 1.98
2543 3420 5.293324 TCACGCATCAAAATATCTACCACAC 59.707 40.000 0.00 0.00 0.00 3.82
2544 3421 5.064579 CACGCATCAAAATATCTACCACACA 59.935 40.000 0.00 0.00 0.00 3.72
2546 3423 5.064579 CGCATCAAAATATCTACCACACACA 59.935 40.000 0.00 0.00 0.00 3.72
2548 3425 6.128035 GCATCAAAATATCTACCACACACACA 60.128 38.462 0.00 0.00 0.00 3.72
2549 3426 7.574779 GCATCAAAATATCTACCACACACACAA 60.575 37.037 0.00 0.00 0.00 3.33
2550 3427 7.809546 TCAAAATATCTACCACACACACAAA 57.190 32.000 0.00 0.00 0.00 2.83
2551 3428 8.226819 TCAAAATATCTACCACACACACAAAA 57.773 30.769 0.00 0.00 0.00 2.44
2552 3429 8.687242 TCAAAATATCTACCACACACACAAAAA 58.313 29.630 0.00 0.00 0.00 1.94
2553 3430 9.474920 CAAAATATCTACCACACACACAAAAAT 57.525 29.630 0.00 0.00 0.00 1.82
2555 3432 9.474920 AAATATCTACCACACACACAAAAATTG 57.525 29.630 0.00 0.00 0.00 2.32
2556 3433 5.255710 TCTACCACACACACAAAAATTGG 57.744 39.130 0.00 0.00 34.12 3.16
2558 3435 4.543590 ACCACACACACAAAAATTGGAA 57.456 36.364 0.00 0.00 34.12 3.53
2559 3436 5.096443 ACCACACACACAAAAATTGGAAT 57.904 34.783 0.00 0.00 34.12 3.01
2560 3437 5.495640 ACCACACACACAAAAATTGGAATT 58.504 33.333 0.00 0.00 34.12 2.17
2561 3438 5.942826 ACCACACACACAAAAATTGGAATTT 59.057 32.000 0.00 0.00 40.15 1.82
2562 3439 7.106239 ACCACACACACAAAAATTGGAATTTA 58.894 30.769 0.00 0.00 37.62 1.40
2564 3441 8.454106 CCACACACACAAAAATTGGAATTTAAA 58.546 29.630 0.00 0.00 37.62 1.52
2565 3442 9.831737 CACACACACAAAAATTGGAATTTAAAA 57.168 25.926 0.00 0.00 37.62 1.52
2601 4044 8.696410 TTTATTTTGATTATTTTCGTCAGGGC 57.304 30.769 0.00 0.00 0.00 5.19
2602 4045 4.349663 TTTGATTATTTTCGTCAGGGCG 57.650 40.909 0.00 0.00 0.00 6.13
2603 4046 2.285083 TGATTATTTTCGTCAGGGCGG 58.715 47.619 0.00 0.00 0.00 6.13
2605 4048 2.188062 TTATTTTCGTCAGGGCGGTT 57.812 45.000 0.00 0.00 0.00 4.44
2606 4049 1.444836 TATTTTCGTCAGGGCGGTTG 58.555 50.000 0.00 0.00 0.00 3.77
2607 4050 1.862602 ATTTTCGTCAGGGCGGTTGC 61.863 55.000 0.00 0.00 41.71 4.17
2608 4051 3.758973 TTTCGTCAGGGCGGTTGCA 62.759 57.895 0.00 0.00 45.35 4.08
2619 4322 3.060615 GGTTGCAGCTGAGCCTGG 61.061 66.667 20.43 0.00 33.44 4.45
2634 4337 0.622665 CCTGGGCTTGAGAAGTGGAT 59.377 55.000 0.00 0.00 0.00 3.41
2635 4338 1.005215 CCTGGGCTTGAGAAGTGGATT 59.995 52.381 0.00 0.00 0.00 3.01
2636 4339 2.089980 CTGGGCTTGAGAAGTGGATTG 58.910 52.381 0.00 0.00 0.00 2.67
2638 4341 0.813821 GGCTTGAGAAGTGGATTGCC 59.186 55.000 0.00 0.00 0.00 4.52
2639 4342 0.449388 GCTTGAGAAGTGGATTGCCG 59.551 55.000 0.00 0.00 36.79 5.69
2647 4365 2.496899 AGTGGATTGCCGAATCTTGT 57.503 45.000 0.00 0.00 38.48 3.16
2667 4385 1.276622 ATACCTTCTGGGCGACTTGT 58.723 50.000 0.00 0.00 39.10 3.16
2680 4398 1.852942 GACTTGTGCTTCAGACGTCA 58.147 50.000 19.50 0.00 0.00 4.35
2700 4418 3.082548 CACCTTCTCTCTGACGGTTAGA 58.917 50.000 2.45 2.45 43.77 2.10
2736 4454 3.893324 TGGATGACCAACCCGTGA 58.107 55.556 0.00 0.00 43.91 4.35
2778 4496 0.107643 GCTACCATCTTCCTGGAGGC 59.892 60.000 0.04 0.00 39.73 4.70
2805 4526 5.043903 CCTGATGACACTCAAATACGTAGG 58.956 45.833 0.08 0.00 0.00 3.18
2807 4528 5.891451 TGATGACACTCAAATACGTAGGAG 58.109 41.667 15.94 15.94 0.00 3.69
2808 4529 5.417894 TGATGACACTCAAATACGTAGGAGT 59.582 40.000 16.94 16.94 41.04 3.85
2809 4530 5.306532 TGACACTCAAATACGTAGGAGTC 57.693 43.478 18.82 11.55 38.48 3.36
2811 4532 5.242171 TGACACTCAAATACGTAGGAGTCAA 59.758 40.000 18.82 9.10 38.48 3.18
2812 4533 5.467705 ACACTCAAATACGTAGGAGTCAAC 58.532 41.667 18.82 0.00 38.48 3.18
2819 4548 7.442969 TCAAATACGTAGGAGTCAACATTTTGT 59.557 33.333 0.08 0.00 34.02 2.83
2831 4560 7.083858 AGTCAACATTTTGTGCATGTATGTAC 58.916 34.615 6.20 6.20 42.66 2.90
2895 4624 2.158475 TCCCACCTGTTTGATTCAAGCT 60.158 45.455 13.42 0.00 0.00 3.74
2899 4628 4.320494 CCACCTGTTTGATTCAAGCTACAC 60.320 45.833 13.42 3.55 0.00 2.90
2905 4634 4.990543 TTGATTCAAGCTACACGAGTTG 57.009 40.909 0.00 0.00 0.00 3.16
2914 4643 6.092396 TCAAGCTACACGAGTTGTTTACAAAA 59.908 34.615 0.00 0.00 39.91 2.44
2918 4647 8.614346 AGCTACACGAGTTGTTTACAAAATTTA 58.386 29.630 0.00 0.00 39.91 1.40
2924 4653 9.057365 ACGAGTTGTTTACAAAATTTATATGCG 57.943 29.630 0.00 0.00 37.63 4.73
3065 4796 3.857665 TGATTCAAGCGACACGAGTTATC 59.142 43.478 0.00 0.00 0.00 1.75
3139 4870 2.173382 CGAGGCGTTTTTGCTCCG 59.827 61.111 0.00 0.00 34.52 4.63
3140 4871 2.314647 CGAGGCGTTTTTGCTCCGA 61.315 57.895 0.00 0.00 33.76 4.55
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 0.828677 CTCGATTAGACCCCCGGTTT 59.171 55.000 0.00 0.00 35.25 3.27
28 29 3.426695 CCCTGATGCGTCATGTTTTTCTC 60.427 47.826 9.53 0.00 32.98 2.87
172 173 2.399580 CCCCTTCCTAAGTGTAGAGGG 58.600 57.143 0.00 0.00 39.63 4.30
179 180 0.991920 TTCAGCCCCCTTCCTAAGTG 59.008 55.000 0.00 0.00 0.00 3.16
216 217 1.615424 ACCTACCCCGAAGCACCAT 60.615 57.895 0.00 0.00 0.00 3.55
219 220 0.252197 ATTGACCTACCCCGAAGCAC 59.748 55.000 0.00 0.00 0.00 4.40
248 249 1.194547 GATCGTCGCAAAGCAAACTCA 59.805 47.619 0.00 0.00 0.00 3.41
258 285 1.130373 GCAAGAAATGGATCGTCGCAA 59.870 47.619 0.00 0.00 0.00 4.85
360 389 0.594110 TTCCCGACGCACCATTTTTC 59.406 50.000 0.00 0.00 0.00 2.29
550 580 3.011821 TGGATGGTTTTATTGCCTACCCA 59.988 43.478 0.00 0.00 0.00 4.51
558 588 3.799281 ATGCCGTGGATGGTTTTATTG 57.201 42.857 0.00 0.00 0.00 1.90
569 599 1.814793 TGAAAATCGAATGCCGTGGA 58.185 45.000 0.00 0.00 39.75 4.02
607 637 2.419895 TTTACGAGACGAACGCGCG 61.420 57.895 30.96 30.96 45.03 6.86
608 638 1.054785 GTTTACGAGACGAACGCGC 59.945 57.895 5.73 0.00 45.03 6.86
757 804 0.237235 GCGCCGTTTGAGATTTGACA 59.763 50.000 0.00 0.00 0.00 3.58
762 809 2.038387 ATAAGGCGCCGTTTGAGATT 57.962 45.000 22.74 9.53 0.00 2.40
770 817 1.134037 TCCCAAAATATAAGGCGCCGT 60.134 47.619 23.20 22.12 0.00 5.68
793 978 9.728100 ATTTCCTCATTCCCAAAATATTTCCTA 57.272 29.630 0.10 0.00 0.00 2.94
794 979 8.628368 ATTTCCTCATTCCCAAAATATTTCCT 57.372 30.769 0.10 0.00 0.00 3.36
795 980 9.764363 GTATTTCCTCATTCCCAAAATATTTCC 57.236 33.333 0.10 0.00 0.00 3.13
798 983 9.492730 ACAGTATTTCCTCATTCCCAAAATATT 57.507 29.630 0.00 0.00 0.00 1.28
802 987 9.983024 TTATACAGTATTTCCTCATTCCCAAAA 57.017 29.630 0.00 0.00 0.00 2.44
803 988 9.627123 CTTATACAGTATTTCCTCATTCCCAAA 57.373 33.333 0.00 0.00 0.00 3.28
804 989 8.778059 ACTTATACAGTATTTCCTCATTCCCAA 58.222 33.333 0.00 0.00 31.97 4.12
805 990 8.331931 ACTTATACAGTATTTCCTCATTCCCA 57.668 34.615 0.00 0.00 31.97 4.37
841 1026 0.323999 TGCTGCCCGTCTTCCTAGTA 60.324 55.000 0.00 0.00 0.00 1.82
842 1027 0.978146 ATGCTGCCCGTCTTCCTAGT 60.978 55.000 0.00 0.00 0.00 2.57
973 1158 5.759059 TCCCTCGATCCAACTAACTAACTA 58.241 41.667 0.00 0.00 0.00 2.24
974 1159 4.607239 TCCCTCGATCCAACTAACTAACT 58.393 43.478 0.00 0.00 0.00 2.24
975 1160 4.643784 TCTCCCTCGATCCAACTAACTAAC 59.356 45.833 0.00 0.00 0.00 2.34
976 1161 4.643784 GTCTCCCTCGATCCAACTAACTAA 59.356 45.833 0.00 0.00 0.00 2.24
1004 1189 4.021925 ACCTCTTGTCCTGCCCGC 62.022 66.667 0.00 0.00 0.00 6.13
1319 1513 6.506147 TGTGAAATAAATCTATGCATGCCAC 58.494 36.000 16.68 11.19 0.00 5.01
2146 2353 1.004277 GGTTGTTGTCCTAGCATGGGA 59.996 52.381 0.00 0.00 46.94 4.37
2322 2548 6.529829 GCATCAAATTATCTACCACGCAAAAA 59.470 34.615 0.00 0.00 0.00 1.94
2323 2549 6.033341 GCATCAAATTATCTACCACGCAAAA 58.967 36.000 0.00 0.00 0.00 2.44
2324 2550 5.577835 GCATCAAATTATCTACCACGCAAA 58.422 37.500 0.00 0.00 0.00 3.68
2325 2551 4.260579 CGCATCAAATTATCTACCACGCAA 60.261 41.667 0.00 0.00 0.00 4.85
2326 2552 3.247411 CGCATCAAATTATCTACCACGCA 59.753 43.478 0.00 0.00 0.00 5.24
2327 2553 3.247648 ACGCATCAAATTATCTACCACGC 59.752 43.478 0.00 0.00 0.00 5.34
2328 2554 4.506288 TCACGCATCAAATTATCTACCACG 59.494 41.667 0.00 0.00 0.00 4.94
2329 2555 5.050091 CCTCACGCATCAAATTATCTACCAC 60.050 44.000 0.00 0.00 0.00 4.16
2331 2557 5.057149 ACCTCACGCATCAAATTATCTACC 58.943 41.667 0.00 0.00 0.00 3.18
2332 2558 6.562270 CGAACCTCACGCATCAAATTATCTAC 60.562 42.308 0.00 0.00 0.00 2.59
2334 2560 4.271049 CGAACCTCACGCATCAAATTATCT 59.729 41.667 0.00 0.00 0.00 1.98
2335 2561 4.518217 CGAACCTCACGCATCAAATTATC 58.482 43.478 0.00 0.00 0.00 1.75
2336 2562 4.536364 CGAACCTCACGCATCAAATTAT 57.464 40.909 0.00 0.00 0.00 1.28
2338 2564 2.900122 CGAACCTCACGCATCAAATT 57.100 45.000 0.00 0.00 0.00 1.82
2347 2573 1.156736 AAATTGGAGCGAACCTCACG 58.843 50.000 0.00 0.00 42.62 4.35
2348 2574 3.643159 AAAAATTGGAGCGAACCTCAC 57.357 42.857 0.00 0.00 42.62 3.51
2349 2575 4.647611 TCTAAAAATTGGAGCGAACCTCA 58.352 39.130 0.00 0.00 42.62 3.86
2350 2576 5.354234 TGATCTAAAAATTGGAGCGAACCTC 59.646 40.000 0.00 0.00 39.98 3.85
2352 2578 5.560966 TGATCTAAAAATTGGAGCGAACC 57.439 39.130 0.00 0.00 28.26 3.62
2354 2580 9.173021 TCTAAATGATCTAAAAATTGGAGCGAA 57.827 29.630 0.00 0.00 28.26 4.70
2355 2581 8.612619 GTCTAAATGATCTAAAAATTGGAGCGA 58.387 33.333 0.00 0.00 28.26 4.93
2356 2582 8.397906 TGTCTAAATGATCTAAAAATTGGAGCG 58.602 33.333 0.00 0.00 28.26 5.03
2366 2592 9.265901 GCTGCTTAGATGTCTAAATGATCTAAA 57.734 33.333 4.24 0.00 37.93 1.85
2368 2594 8.187913 AGCTGCTTAGATGTCTAAATGATCTA 57.812 34.615 0.00 0.00 37.92 1.98
2369 2595 7.015487 AGAGCTGCTTAGATGTCTAAATGATCT 59.985 37.037 2.53 7.31 37.92 2.75
2370 2596 7.153985 AGAGCTGCTTAGATGTCTAAATGATC 58.846 38.462 2.53 5.61 37.92 2.92
2371 2597 7.065120 AGAGCTGCTTAGATGTCTAAATGAT 57.935 36.000 2.53 0.00 37.92 2.45
2372 2598 6.477053 AGAGCTGCTTAGATGTCTAAATGA 57.523 37.500 2.53 0.00 37.92 2.57
2373 2599 7.095691 GCTTAGAGCTGCTTAGATGTCTAAATG 60.096 40.741 2.53 0.00 36.83 2.32
2375 2601 6.127338 TGCTTAGAGCTGCTTAGATGTCTAAA 60.127 38.462 2.53 0.00 42.97 1.85
2376 2602 5.360999 TGCTTAGAGCTGCTTAGATGTCTAA 59.639 40.000 2.53 4.48 42.97 2.10
2377 2603 4.889995 TGCTTAGAGCTGCTTAGATGTCTA 59.110 41.667 2.53 0.00 42.97 2.59
2378 2604 3.703556 TGCTTAGAGCTGCTTAGATGTCT 59.296 43.478 2.53 0.00 42.97 3.41
2379 2605 4.052159 TGCTTAGAGCTGCTTAGATGTC 57.948 45.455 2.53 0.00 42.97 3.06
2381 2607 5.808042 TTTTGCTTAGAGCTGCTTAGATG 57.192 39.130 2.53 0.00 42.97 2.90
2403 3280 2.104111 TGTTCTGACCCGATGTGTCTTT 59.896 45.455 0.00 0.00 33.83 2.52
2404 3281 1.691976 TGTTCTGACCCGATGTGTCTT 59.308 47.619 0.00 0.00 33.83 3.01
2405 3282 1.273606 CTGTTCTGACCCGATGTGTCT 59.726 52.381 0.00 0.00 33.83 3.41
2407 3284 1.048601 ACTGTTCTGACCCGATGTGT 58.951 50.000 0.00 0.00 0.00 3.72
2411 3288 1.079819 CGCACTGTTCTGACCCGAT 60.080 57.895 0.00 0.00 0.00 4.18
2413 3290 2.029073 ACGCACTGTTCTGACCCG 59.971 61.111 0.00 0.00 0.00 5.28
2417 3294 2.017138 TTGTTCACGCACTGTTCTGA 57.983 45.000 0.00 0.00 0.00 3.27
2420 3297 4.203950 TGTTATTGTTCACGCACTGTTC 57.796 40.909 0.00 0.00 0.00 3.18
2421 3298 4.829064 ATGTTATTGTTCACGCACTGTT 57.171 36.364 0.00 0.00 0.00 3.16
2424 3301 7.197017 TGTAAAAATGTTATTGTTCACGCACT 58.803 30.769 0.00 0.00 0.00 4.40
2428 3305 7.325097 GGGTCTGTAAAAATGTTATTGTTCACG 59.675 37.037 0.00 0.00 0.00 4.35
2429 3306 7.597369 GGGGTCTGTAAAAATGTTATTGTTCAC 59.403 37.037 0.00 0.00 0.00 3.18
2430 3307 7.522399 CGGGGTCTGTAAAAATGTTATTGTTCA 60.522 37.037 0.00 0.00 0.00 3.18
2431 3308 6.804783 CGGGGTCTGTAAAAATGTTATTGTTC 59.195 38.462 0.00 0.00 0.00 3.18
2432 3309 6.294843 CCGGGGTCTGTAAAAATGTTATTGTT 60.295 38.462 0.00 0.00 0.00 2.83
2433 3310 5.184287 CCGGGGTCTGTAAAAATGTTATTGT 59.816 40.000 0.00 0.00 0.00 2.71
2434 3311 5.416326 TCCGGGGTCTGTAAAAATGTTATTG 59.584 40.000 0.00 0.00 0.00 1.90
2435 3312 5.572252 TCCGGGGTCTGTAAAAATGTTATT 58.428 37.500 0.00 0.00 0.00 1.40
2437 3314 4.637387 TCCGGGGTCTGTAAAAATGTTA 57.363 40.909 0.00 0.00 0.00 2.41
2438 3315 3.512219 TCCGGGGTCTGTAAAAATGTT 57.488 42.857 0.00 0.00 0.00 2.71
2439 3316 3.732048 ATCCGGGGTCTGTAAAAATGT 57.268 42.857 0.00 0.00 0.00 2.71
2440 3317 4.219725 ACAAATCCGGGGTCTGTAAAAATG 59.780 41.667 0.00 0.00 0.00 2.32
2442 3319 3.822167 GACAAATCCGGGGTCTGTAAAAA 59.178 43.478 0.00 0.00 0.00 1.94
2444 3321 2.640826 AGACAAATCCGGGGTCTGTAAA 59.359 45.455 15.07 0.00 40.21 2.01
2445 3322 2.262637 AGACAAATCCGGGGTCTGTAA 58.737 47.619 15.07 0.00 40.21 2.41
2446 3323 1.946984 AGACAAATCCGGGGTCTGTA 58.053 50.000 15.07 0.00 40.21 2.74
2447 3324 1.064825 AAGACAAATCCGGGGTCTGT 58.935 50.000 16.08 8.85 40.80 3.41
2449 3326 2.971901 AAAAGACAAATCCGGGGTCT 57.028 45.000 0.00 7.39 43.35 3.85
2466 3343 0.534877 TGAGCAGCTCTCGGCAAAAA 60.535 50.000 23.15 0.00 44.86 1.94
2467 3344 0.952497 CTGAGCAGCTCTCGGCAAAA 60.952 55.000 23.15 0.00 44.86 2.44
2468 3345 1.375140 CTGAGCAGCTCTCGGCAAA 60.375 57.895 23.15 0.00 44.86 3.68
2469 3346 1.611474 ATCTGAGCAGCTCTCGGCAA 61.611 55.000 23.15 0.68 45.76 4.52
2470 3347 0.753111 TATCTGAGCAGCTCTCGGCA 60.753 55.000 23.15 2.15 45.76 5.69
2471 3348 0.602562 ATATCTGAGCAGCTCTCGGC 59.397 55.000 23.15 0.00 45.76 5.54
2475 3352 6.416631 TCATTTGTATATCTGAGCAGCTCT 57.583 37.500 23.15 5.93 0.00 4.09
2476 3353 7.670009 AATCATTTGTATATCTGAGCAGCTC 57.330 36.000 16.21 16.21 0.00 4.09
2477 3354 8.461249 AAAATCATTTGTATATCTGAGCAGCT 57.539 30.769 0.00 0.00 0.00 4.24
2493 3370 9.554395 AGGTTCGTTCCAATTTTAAAATCATTT 57.446 25.926 13.68 0.00 0.00 2.32
2495 3372 8.364142 TGAGGTTCGTTCCAATTTTAAAATCAT 58.636 29.630 13.68 0.00 0.00 2.45
2496 3373 7.650104 GTGAGGTTCGTTCCAATTTTAAAATCA 59.350 33.333 13.68 1.50 0.00 2.57
2498 3375 6.639279 CGTGAGGTTCGTTCCAATTTTAAAAT 59.361 34.615 7.64 7.64 0.00 1.82
2499 3376 5.972382 CGTGAGGTTCGTTCCAATTTTAAAA 59.028 36.000 2.51 2.51 0.00 1.52
2500 3377 5.512473 CGTGAGGTTCGTTCCAATTTTAAA 58.488 37.500 2.12 0.00 0.00 1.52
2501 3378 4.555116 GCGTGAGGTTCGTTCCAATTTTAA 60.555 41.667 2.12 0.00 0.00 1.52
2502 3379 3.058777 GCGTGAGGTTCGTTCCAATTTTA 60.059 43.478 2.12 0.00 0.00 1.52
2503 3380 2.287368 GCGTGAGGTTCGTTCCAATTTT 60.287 45.455 2.12 0.00 0.00 1.82
2504 3381 1.265905 GCGTGAGGTTCGTTCCAATTT 59.734 47.619 2.12 0.00 0.00 1.82
2505 3382 0.872388 GCGTGAGGTTCGTTCCAATT 59.128 50.000 2.12 0.00 0.00 2.32
2506 3383 0.250124 TGCGTGAGGTTCGTTCCAAT 60.250 50.000 2.12 0.00 0.00 3.16
2507 3384 0.250124 ATGCGTGAGGTTCGTTCCAA 60.250 50.000 2.12 0.00 0.00 3.53
2509 3386 0.669318 TGATGCGTGAGGTTCGTTCC 60.669 55.000 0.00 0.00 0.00 3.62
2512 3389 1.588674 TTTTGATGCGTGAGGTTCGT 58.411 45.000 0.00 0.00 0.00 3.85
2513 3390 2.900122 ATTTTGATGCGTGAGGTTCG 57.100 45.000 0.00 0.00 0.00 3.95
2516 3393 5.057149 GGTAGATATTTTGATGCGTGAGGT 58.943 41.667 0.00 0.00 0.00 3.85
2517 3394 5.050091 GTGGTAGATATTTTGATGCGTGAGG 60.050 44.000 0.00 0.00 0.00 3.86
2519 3396 5.293324 GTGTGGTAGATATTTTGATGCGTGA 59.707 40.000 0.00 0.00 0.00 4.35
2520 3397 5.064579 TGTGTGGTAGATATTTTGATGCGTG 59.935 40.000 0.00 0.00 0.00 5.34
2521 3398 5.064707 GTGTGTGGTAGATATTTTGATGCGT 59.935 40.000 0.00 0.00 0.00 5.24
2525 3402 7.994425 TTGTGTGTGTGGTAGATATTTTGAT 57.006 32.000 0.00 0.00 0.00 2.57
2527 3404 8.864069 TTTTTGTGTGTGTGGTAGATATTTTG 57.136 30.769 0.00 0.00 0.00 2.44
2529 3406 9.474920 CAATTTTTGTGTGTGTGGTAGATATTT 57.525 29.630 0.00 0.00 0.00 1.40
2530 3407 8.087750 CCAATTTTTGTGTGTGTGGTAGATATT 58.912 33.333 0.00 0.00 0.00 1.28
2531 3408 7.450014 TCCAATTTTTGTGTGTGTGGTAGATAT 59.550 33.333 0.00 0.00 0.00 1.63
2532 3409 6.773200 TCCAATTTTTGTGTGTGTGGTAGATA 59.227 34.615 0.00 0.00 0.00 1.98
2534 3411 4.950475 TCCAATTTTTGTGTGTGTGGTAGA 59.050 37.500 0.00 0.00 0.00 2.59
2536 3413 5.661056 TTCCAATTTTTGTGTGTGTGGTA 57.339 34.783 0.00 0.00 0.00 3.25
2537 3414 4.543590 TTCCAATTTTTGTGTGTGTGGT 57.456 36.364 0.00 0.00 0.00 4.16
2576 4019 7.486551 CGCCCTGACGAAAATAATCAAAATAAA 59.513 33.333 0.00 0.00 34.06 1.40
2583 4026 2.285083 CCGCCCTGACGAAAATAATCA 58.715 47.619 0.00 0.00 34.06 2.57
2587 4030 1.444836 CAACCGCCCTGACGAAAATA 58.555 50.000 0.00 0.00 34.06 1.40
2588 4031 1.862602 GCAACCGCCCTGACGAAAAT 61.863 55.000 0.00 0.00 34.06 1.82
2591 4034 4.243008 TGCAACCGCCCTGACGAA 62.243 61.111 0.00 0.00 37.32 3.85
2592 4035 4.680237 CTGCAACCGCCCTGACGA 62.680 66.667 0.00 0.00 37.32 4.20
2597 4040 4.711949 CTCAGCTGCAACCGCCCT 62.712 66.667 9.47 0.00 37.32 5.19
2601 4044 3.429141 CAGGCTCAGCTGCAACCG 61.429 66.667 9.47 3.32 34.04 4.44
2602 4045 3.060615 CCAGGCTCAGCTGCAACC 61.061 66.667 9.47 10.11 34.04 3.77
2603 4046 3.060615 CCCAGGCTCAGCTGCAAC 61.061 66.667 9.47 0.65 34.04 4.17
2615 4318 0.622665 ATCCACTTCTCAAGCCCAGG 59.377 55.000 0.00 0.00 0.00 4.45
2619 4322 0.813821 GGCAATCCACTTCTCAAGCC 59.186 55.000 0.00 0.00 0.00 4.35
2621 4324 2.099141 TCGGCAATCCACTTCTCAAG 57.901 50.000 0.00 0.00 0.00 3.02
2622 4325 2.559698 TTCGGCAATCCACTTCTCAA 57.440 45.000 0.00 0.00 0.00 3.02
2629 4332 4.213482 GGTATACAAGATTCGGCAATCCAC 59.787 45.833 5.01 0.00 39.58 4.02
2634 4337 5.116180 CAGAAGGTATACAAGATTCGGCAA 58.884 41.667 5.01 0.00 0.00 4.52
2635 4338 4.442893 CCAGAAGGTATACAAGATTCGGCA 60.443 45.833 5.01 0.00 0.00 5.69
2636 4339 4.058817 CCAGAAGGTATACAAGATTCGGC 58.941 47.826 5.01 0.00 0.00 5.54
2638 4341 4.058817 GCCCAGAAGGTATACAAGATTCG 58.941 47.826 5.01 1.39 38.26 3.34
2639 4342 4.058817 CGCCCAGAAGGTATACAAGATTC 58.941 47.826 5.01 3.63 38.26 2.52
2647 4365 2.167693 CACAAGTCGCCCAGAAGGTATA 59.832 50.000 0.00 0.00 38.26 1.47
2667 4385 3.588277 GAAGGTGACGTCTGAAGCA 57.412 52.632 17.92 0.00 35.80 3.91
2695 4413 9.038803 CCATTTTTACCCTACGAGTAATCTAAC 57.961 37.037 0.00 0.00 30.17 2.34
2700 4418 7.713942 GTCATCCATTTTTACCCTACGAGTAAT 59.286 37.037 0.00 0.00 30.17 1.89
2728 4446 3.745799 TCACATTGTGTATTCACGGGTT 58.254 40.909 16.06 0.00 46.49 4.11
2736 4454 8.400184 AGCTATTGCATATCACATTGTGTATT 57.600 30.769 16.06 5.92 42.74 1.89
2778 4496 4.093408 CGTATTTGAGTGTCATCAGGTTGG 59.907 45.833 0.00 0.00 0.00 3.77
2790 4508 5.466819 TGTTGACTCCTACGTATTTGAGTG 58.533 41.667 20.61 0.00 38.15 3.51
2805 4526 6.151691 ACATACATGCACAAAATGTTGACTC 58.848 36.000 1.62 0.00 39.05 3.36
2807 4528 6.032355 CGTACATACATGCACAAAATGTTGAC 59.968 38.462 1.62 0.00 39.05 3.18
2808 4529 6.082984 CGTACATACATGCACAAAATGTTGA 58.917 36.000 1.62 0.00 39.05 3.18
2809 4530 5.220006 GCGTACATACATGCACAAAATGTTG 60.220 40.000 10.07 0.00 39.05 3.33
2811 4532 4.083057 TGCGTACATACATGCACAAAATGT 60.083 37.500 9.80 9.80 41.14 2.71
2812 4533 4.410448 TGCGTACATACATGCACAAAATG 58.590 39.130 0.00 0.00 31.31 2.32
2819 4548 6.799926 AAATGATATGCGTACATACATGCA 57.200 33.333 0.00 0.00 41.50 3.96
2899 4628 8.042119 GCGCATATAAATTTTGTAAACAACTCG 58.958 33.333 0.30 0.00 35.28 4.18
2905 4634 9.618410 GATGTTGCGCATATAAATTTTGTAAAC 57.382 29.630 12.75 0.00 38.06 2.01
3065 4796 6.950545 TGTACATTTGGTCGAAACTTTGTAG 58.049 36.000 0.00 0.00 0.00 2.74


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

AutoCloner maintained by Alex Coulton.