Multiple sequence alignment - TraesCS5A01G037100

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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 TraesCS5A01G037100 chr5A 100.000 3434 0 0 1 3434 34261293 34264726 0.000000e+00 6342.0
1 TraesCS5A01G037100 chr5A 87.624 905 63 32 1833 2721 363860420 363861291 0.000000e+00 1005.0
2 TraesCS5A01G037100 chr5A 80.702 1140 159 44 1256 2369 573086685 573085581 0.000000e+00 830.0
3 TraesCS5A01G037100 chr5A 88.442 199 12 6 249 444 34250694 34250884 2.670000e-56 230.0
4 TraesCS5A01G037100 chr5A 100.000 34 0 0 429 462 34253944 34253977 2.860000e-06 63.9
5 TraesCS5A01G037100 chr5D 90.994 2343 124 43 428 2721 44138574 44136270 0.000000e+00 3077.0
6 TraesCS5A01G037100 chr5D 81.285 1074 155 39 1322 2369 454099609 454098556 0.000000e+00 828.0
7 TraesCS5A01G037100 chr5D 92.544 228 17 0 2748 2975 44136144 44135917 9.190000e-86 327.0
8 TraesCS5A01G037100 chr5D 85.356 239 13 8 3217 3434 44135789 44135552 9.590000e-56 228.0
9 TraesCS5A01G037100 chr5D 87.121 132 11 3 429 560 44167686 44167561 9.930000e-31 145.0
10 TraesCS5A01G037100 chr5D 84.892 139 21 0 1673 1811 218189958 218190096 1.280000e-29 141.0
11 TraesCS5A01G037100 chr5D 88.571 70 6 2 1268 1336 402723558 402723626 2.200000e-12 84.2
12 TraesCS5A01G037100 chr5B 92.281 1995 100 27 761 2721 42533330 42531356 0.000000e+00 2782.0
13 TraesCS5A01G037100 chr5B 81.192 1074 156 37 1322 2369 554809023 554807970 0.000000e+00 822.0
14 TraesCS5A01G037100 chr5B 84.513 749 48 29 2748 3434 42531296 42530554 0.000000e+00 678.0
15 TraesCS5A01G037100 chr5B 83.866 688 39 33 8 683 42534102 42533475 1.060000e-164 590.0
16 TraesCS5A01G037100 chr5B 84.892 139 21 0 1673 1811 234880151 234880289 1.280000e-29 141.0
17 TraesCS5A01G037100 chr5B 86.207 87 9 1 474 560 42692867 42692784 1.310000e-14 91.6
18 TraesCS5A01G037100 chr5B 73.684 285 44 18 281 560 42753114 42752856 7.900000e-12 82.4
19 TraesCS5A01G037100 chr5B 85.246 61 0 4 171 230 42693365 42693313 2.000000e-03 54.7
20 TraesCS5A01G037100 chr1B 88.366 1083 80 33 1833 2890 343969532 343970593 0.000000e+00 1260.0
21 TraesCS5A01G037100 chr1B 87.514 905 64 32 1833 2721 605938712 605939583 0.000000e+00 1000.0
22 TraesCS5A01G037100 chr1B 95.205 292 14 0 1443 1734 605938405 605938696 2.410000e-126 462.0
23 TraesCS5A01G037100 chr1B 89.552 134 10 4 2748 2880 605939646 605939776 2.120000e-37 167.0
24 TraesCS5A01G037100 chr3B 90.308 877 56 15 1833 2697 559103039 559102180 0.000000e+00 1122.0
25 TraesCS5A01G037100 chr3B 93.035 402 19 5 1346 1746 559103429 559103036 2.300000e-161 579.0
26 TraesCS5A01G037100 chr3B 88.889 144 12 4 2748 2890 559102084 559101944 1.270000e-39 174.0
27 TraesCS5A01G037100 chr4B 87.514 905 64 32 1833 2721 389754250 389753379 0.000000e+00 1000.0
28 TraesCS5A01G037100 chr4B 95.205 292 14 0 1443 1734 389754557 389754266 2.410000e-126 462.0
29 TraesCS5A01G037100 chr4B 89.552 134 10 4 2748 2880 389753316 389753186 2.120000e-37 167.0
30 TraesCS5A01G037100 chr7B 87.293 905 66 32 1833 2721 60628884 60628013 0.000000e+00 989.0
31 TraesCS5A01G037100 chr7B 95.205 292 14 0 1443 1734 60629191 60628900 2.410000e-126 462.0
32 TraesCS5A01G037100 chr7B 89.552 134 10 4 2748 2880 60627950 60627820 2.120000e-37 167.0
33 TraesCS5A01G037100 chr7B 92.857 56 4 0 1277 1332 458795895 458795950 7.900000e-12 82.4
34 TraesCS5A01G037100 chr6B 87.640 178 15 2 1162 1333 623994409 623994233 2.090000e-47 200.0
35 TraesCS5A01G037100 chr6B 89.552 134 10 4 2748 2880 623986936 623986806 2.120000e-37 167.0


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 TraesCS5A01G037100 chr5A 34261293 34264726 3433 False 6342.000000 6342 100.000000 1 3434 1 chr5A.!!$F1 3433
1 TraesCS5A01G037100 chr5A 363860420 363861291 871 False 1005.000000 1005 87.624000 1833 2721 1 chr5A.!!$F2 888
2 TraesCS5A01G037100 chr5A 573085581 573086685 1104 True 830.000000 830 80.702000 1256 2369 1 chr5A.!!$R1 1113
3 TraesCS5A01G037100 chr5D 44135552 44138574 3022 True 1210.666667 3077 89.631333 428 3434 3 chr5D.!!$R3 3006
4 TraesCS5A01G037100 chr5D 454098556 454099609 1053 True 828.000000 828 81.285000 1322 2369 1 chr5D.!!$R2 1047
5 TraesCS5A01G037100 chr5B 42530554 42534102 3548 True 1350.000000 2782 86.886667 8 3434 3 chr5B.!!$R3 3426
6 TraesCS5A01G037100 chr5B 554807970 554809023 1053 True 822.000000 822 81.192000 1322 2369 1 chr5B.!!$R2 1047
7 TraesCS5A01G037100 chr1B 343969532 343970593 1061 False 1260.000000 1260 88.366000 1833 2890 1 chr1B.!!$F1 1057
8 TraesCS5A01G037100 chr1B 605938405 605939776 1371 False 543.000000 1000 90.757000 1443 2880 3 chr1B.!!$F2 1437
9 TraesCS5A01G037100 chr3B 559101944 559103429 1485 True 625.000000 1122 90.744000 1346 2890 3 chr3B.!!$R1 1544
10 TraesCS5A01G037100 chr4B 389753186 389754557 1371 True 543.000000 1000 90.757000 1443 2880 3 chr4B.!!$R1 1437
11 TraesCS5A01G037100 chr7B 60627820 60629191 1371 True 539.333333 989 90.683333 1443 2880 3 chr7B.!!$R1 1437

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
399 404 0.032130 CCAGGACGGATCGGTACATG 59.968 60.0 17.16 11.71 36.56 3.21 F
504 512 0.251354 ACTAGCAGACCGTCGTAGGA 59.749 55.0 5.97 0.00 34.73 2.94 F
900 987 0.453793 CAACAACCGTCCAAGCAACA 59.546 50.0 0.00 0.00 0.00 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1843 1954 1.456705 CCTCTTCCTCCTCCTCGGG 60.457 68.421 0.00 0.0 0.00 5.14 R
2413 2558 1.075425 CAGAAGAGGTCGAAGCGCTG 61.075 60.000 12.58 0.0 0.00 5.18 R
2848 3119 0.250901 AGCTCCAACACCCATGTGAC 60.251 55.000 0.00 0.0 45.76 3.67 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
41 42 2.504244 CGTGTCGCCTCTCGGTTC 60.504 66.667 0.00 0.00 39.05 3.62
48 49 1.588082 GCCTCTCGGTTCGGTAACA 59.412 57.895 0.00 0.00 37.34 2.41
49 50 0.175073 GCCTCTCGGTTCGGTAACAT 59.825 55.000 0.00 0.00 37.34 2.71
50 51 1.922570 CCTCTCGGTTCGGTAACATG 58.077 55.000 0.00 0.00 37.34 3.21
51 52 1.470979 CCTCTCGGTTCGGTAACATGG 60.471 57.143 0.00 0.00 37.34 3.66
52 53 1.203994 CTCTCGGTTCGGTAACATGGT 59.796 52.381 0.00 0.00 37.34 3.55
53 54 1.619827 TCTCGGTTCGGTAACATGGTT 59.380 47.619 0.00 0.00 37.34 3.67
54 55 2.037511 TCTCGGTTCGGTAACATGGTTT 59.962 45.455 0.00 0.00 37.34 3.27
120 121 3.181530 CGGTTTCTGATGATGACAACGTC 60.182 47.826 0.00 0.00 0.00 4.34
122 123 5.168569 GGTTTCTGATGATGACAACGTCTA 58.831 41.667 6.50 0.00 33.15 2.59
123 124 5.812642 GGTTTCTGATGATGACAACGTCTAT 59.187 40.000 6.50 0.00 33.15 1.98
166 167 1.202521 CGGCCAAACTCCAAAAGCTTT 60.203 47.619 5.69 5.69 0.00 3.51
167 168 2.035321 CGGCCAAACTCCAAAAGCTTTA 59.965 45.455 13.10 0.00 0.00 1.85
168 169 3.653344 GGCCAAACTCCAAAAGCTTTAG 58.347 45.455 13.10 9.01 0.00 1.85
169 170 3.320826 GGCCAAACTCCAAAAGCTTTAGA 59.679 43.478 13.10 11.52 0.00 2.10
218 223 1.916874 TGGATCCATGAACCCCGTTTA 59.083 47.619 11.44 0.00 0.00 2.01
219 224 2.309162 TGGATCCATGAACCCCGTTTAA 59.691 45.455 11.44 0.00 0.00 1.52
253 258 2.705371 CATGCATGCATGTACCGGA 58.295 52.632 40.30 11.51 46.20 5.14
254 259 1.023502 CATGCATGCATGTACCGGAA 58.976 50.000 40.30 10.77 46.20 4.30
255 260 1.002142 CATGCATGCATGTACCGGAAG 60.002 52.381 40.30 20.25 46.20 3.46
266 271 1.884579 GTACCGGAAGAGACAGTGTCA 59.115 52.381 24.73 0.00 34.60 3.58
387 392 2.738521 CTCGCACCAACCAGGACG 60.739 66.667 0.00 0.00 41.22 4.79
388 393 4.308458 TCGCACCAACCAGGACGG 62.308 66.667 0.00 0.00 41.22 4.79
389 394 4.308458 CGCACCAACCAGGACGGA 62.308 66.667 5.97 0.00 41.22 4.69
390 395 2.351276 GCACCAACCAGGACGGAT 59.649 61.111 5.97 0.00 41.22 4.18
399 404 0.032130 CCAGGACGGATCGGTACATG 59.968 60.000 17.16 11.71 36.56 3.21
420 425 7.433680 ACATGCATACGTATCTCTCATACAAA 58.566 34.615 4.74 0.00 0.00 2.83
422 427 7.694388 TGCATACGTATCTCTCATACAAAAC 57.306 36.000 4.74 0.00 0.00 2.43
425 430 5.934402 ACGTATCTCTCATACAAAACCCT 57.066 39.130 0.00 0.00 0.00 4.34
426 431 6.295719 ACGTATCTCTCATACAAAACCCTT 57.704 37.500 0.00 0.00 0.00 3.95
441 446 3.876309 ACCCTTTTAGAACCAGCAAGA 57.124 42.857 0.00 0.00 0.00 3.02
462 467 1.068541 CACGCTACACTGCTCACACTA 60.069 52.381 0.00 0.00 0.00 2.74
465 470 2.600731 GCTACACTGCTCACACTACTG 58.399 52.381 0.00 0.00 0.00 2.74
466 471 2.600731 CTACACTGCTCACACTACTGC 58.399 52.381 0.00 0.00 0.00 4.40
467 472 1.043816 ACACTGCTCACACTACTGCT 58.956 50.000 0.00 0.00 0.00 4.24
468 473 2.239400 ACACTGCTCACACTACTGCTA 58.761 47.619 0.00 0.00 0.00 3.49
469 474 2.029828 ACACTGCTCACACTACTGCTAC 60.030 50.000 0.00 0.00 0.00 3.58
470 475 2.230025 CACTGCTCACACTACTGCTACT 59.770 50.000 0.00 0.00 0.00 2.57
471 476 3.440522 CACTGCTCACACTACTGCTACTA 59.559 47.826 0.00 0.00 0.00 1.82
472 477 3.440872 ACTGCTCACACTACTGCTACTAC 59.559 47.826 0.00 0.00 0.00 2.73
473 478 3.687125 TGCTCACACTACTGCTACTACT 58.313 45.455 0.00 0.00 0.00 2.57
481 489 6.372103 CACACTACTGCTACTACTACTTGACT 59.628 42.308 0.00 0.00 0.00 3.41
482 490 6.372103 ACACTACTGCTACTACTACTTGACTG 59.628 42.308 0.00 0.00 0.00 3.51
493 501 1.342074 ACTTGACTGGCACTAGCAGA 58.658 50.000 3.21 0.00 44.61 4.26
498 506 1.153745 CTGGCACTAGCAGACCGTC 60.154 63.158 0.00 0.00 44.61 4.79
500 508 2.567049 GCACTAGCAGACCGTCGT 59.433 61.111 0.00 0.00 41.58 4.34
501 509 1.651240 GGCACTAGCAGACCGTCGTA 61.651 60.000 0.00 0.00 44.61 3.43
503 511 0.377554 CACTAGCAGACCGTCGTAGG 59.622 60.000 9.23 0.00 37.30 3.18
504 512 0.251354 ACTAGCAGACCGTCGTAGGA 59.749 55.000 5.97 0.00 34.73 2.94
507 515 2.403987 CAGACCGTCGTAGGAGCG 59.596 66.667 5.97 0.00 34.73 5.03
508 516 3.507009 AGACCGTCGTAGGAGCGC 61.507 66.667 0.00 0.00 34.73 5.92
510 518 4.112341 ACCGTCGTAGGAGCGCAC 62.112 66.667 11.47 1.97 34.73 5.34
511 519 3.812019 CCGTCGTAGGAGCGCACT 61.812 66.667 11.47 10.35 0.00 4.40
512 520 2.577112 CGTCGTAGGAGCGCACTG 60.577 66.667 11.47 0.00 0.00 3.66
522 530 2.510238 GCGCACTGCAGTAGGAGG 60.510 66.667 21.20 7.99 45.45 4.30
538 546 1.018910 GAGGAGTAGGAGTGAGCGAC 58.981 60.000 0.00 0.00 0.00 5.19
546 554 4.702081 AGTGAGCGACGCACGTCC 62.702 66.667 23.70 7.87 44.60 4.79
547 555 4.994201 GTGAGCGACGCACGTCCA 62.994 66.667 23.70 8.55 44.60 4.02
548 556 4.273257 TGAGCGACGCACGTCCAA 62.273 61.111 23.70 0.00 44.60 3.53
549 557 3.764049 GAGCGACGCACGTCCAAC 61.764 66.667 23.70 7.39 44.60 3.77
550 558 4.578898 AGCGACGCACGTCCAACA 62.579 61.111 23.70 0.00 44.60 3.33
560 568 2.076100 CACGTCCAACATACAGTGCAT 58.924 47.619 0.00 0.00 0.00 3.96
563 571 2.094258 CGTCCAACATACAGTGCATGTC 59.906 50.000 9.44 0.00 42.70 3.06
599 607 2.835431 CGGCACACCCAACCCAAA 60.835 61.111 0.00 0.00 0.00 3.28
600 608 2.206536 CGGCACACCCAACCCAAAT 61.207 57.895 0.00 0.00 0.00 2.32
601 609 1.671166 GGCACACCCAACCCAAATC 59.329 57.895 0.00 0.00 0.00 2.17
603 611 1.826340 GCACACCCAACCCAAATCCC 61.826 60.000 0.00 0.00 0.00 3.85
607 615 2.443324 CCAACCCAAATCCCCGGT 59.557 61.111 0.00 0.00 0.00 5.28
633 649 4.008933 GTGGGTGGCTGTCTCGCT 62.009 66.667 0.32 0.00 0.00 4.93
634 650 3.695606 TGGGTGGCTGTCTCGCTC 61.696 66.667 0.32 0.00 0.00 5.03
635 651 4.803426 GGGTGGCTGTCTCGCTCG 62.803 72.222 0.00 0.00 0.00 5.03
662 678 2.568090 GCAACCACCCATTCGCAG 59.432 61.111 0.00 0.00 0.00 5.18
696 727 3.316071 TGATTTGCGGAGTACGGTAAA 57.684 42.857 0.00 0.00 44.51 2.01
726 777 2.631696 CTTACGGCGCTGCGAAATGG 62.632 60.000 28.07 11.12 0.00 3.16
777 861 2.509336 CCATGCCAGACGACCGTC 60.509 66.667 14.03 14.03 44.86 4.79
794 878 4.504916 CTGACGAGCCTCTGCCGG 62.505 72.222 0.00 0.00 38.69 6.13
900 987 0.453793 CAACAACCGTCCAAGCAACA 59.546 50.000 0.00 0.00 0.00 3.33
901 988 1.135257 CAACAACCGTCCAAGCAACAA 60.135 47.619 0.00 0.00 0.00 2.83
952 1039 1.278937 CGTCGTCGTCTCACTGTGT 59.721 57.895 7.79 0.00 0.00 3.72
973 1060 4.767841 ACTGTGCGAGCGAGCGAG 62.768 66.667 1.41 3.03 40.67 5.03
985 1072 1.448717 GAGCGAGGAGAAAGGTGCC 60.449 63.158 0.00 0.00 0.00 5.01
1092 1196 4.083862 GGGCTGTCGGACCTGGAC 62.084 72.222 5.55 0.00 40.87 4.02
1203 1307 3.934391 CTTCGACTGCACCCCGTCC 62.934 68.421 0.00 0.00 0.00 4.79
1450 1560 1.921243 CATGTACGCGATGAAGGTGA 58.079 50.000 15.93 0.00 0.00 4.02
1452 1562 2.203800 TGTACGCGATGAAGGTGATC 57.796 50.000 15.93 0.00 0.00 2.92
2139 2274 0.973632 AGGACACACTCCGCAACATA 59.026 50.000 0.00 0.00 45.10 2.29
2166 2301 4.410400 CCGCTCACCTTCCCCACC 62.410 72.222 0.00 0.00 0.00 4.61
2314 2449 2.431454 CCTTCTTCAAGAGCCTCAACC 58.569 52.381 0.00 0.00 0.00 3.77
2340 2475 3.822192 CTCCGGTCATCGCGTCCA 61.822 66.667 5.77 0.00 37.59 4.02
2549 2700 5.051508 CGACGTTAACCCCTTGATAATTACG 60.052 44.000 0.00 0.00 0.00 3.18
2553 2704 6.199719 CGTTAACCCCTTGATAATTACGACTC 59.800 42.308 0.00 0.00 0.00 3.36
2556 2707 5.461327 ACCCCTTGATAATTACGACTCCTA 58.539 41.667 0.00 0.00 0.00 2.94
2557 2708 5.539193 ACCCCTTGATAATTACGACTCCTAG 59.461 44.000 0.00 0.00 0.00 3.02
2558 2709 5.471257 CCCTTGATAATTACGACTCCTAGC 58.529 45.833 0.00 0.00 0.00 3.42
2559 2710 5.244178 CCCTTGATAATTACGACTCCTAGCT 59.756 44.000 0.00 0.00 0.00 3.32
2560 2711 6.433404 CCCTTGATAATTACGACTCCTAGCTA 59.567 42.308 0.00 0.00 0.00 3.32
2561 2712 7.362229 CCCTTGATAATTACGACTCCTAGCTAG 60.362 44.444 14.20 14.20 0.00 3.42
2562 2713 6.497785 TGATAATTACGACTCCTAGCTAGC 57.502 41.667 15.74 6.62 0.00 3.42
2643 2805 7.305474 CACCCTTGTACAATCAACTGTTAATC 58.695 38.462 9.13 0.00 0.00 1.75
2655 2817 2.996621 ACTGTTAATCACGCTTCTCAGC 59.003 45.455 0.00 0.00 43.41 4.26
2684 2847 1.078214 TCCCATGTGCTAGTGCTGC 60.078 57.895 0.00 0.00 40.48 5.25
2692 2855 2.694760 GCTAGTGCTGCCTTGTGCC 61.695 63.158 0.00 0.00 40.16 5.01
2695 2866 1.198094 TAGTGCTGCCTTGTGCCCTA 61.198 55.000 0.00 0.00 40.16 3.53
2696 2867 2.034066 TGCTGCCTTGTGCCCTAC 59.966 61.111 0.00 0.00 40.16 3.18
2697 2868 2.034066 GCTGCCTTGTGCCCTACA 59.966 61.111 0.00 0.00 40.16 2.74
2699 2870 1.866853 GCTGCCTTGTGCCCTACAAC 61.867 60.000 0.00 0.00 44.07 3.32
2701 2872 1.003118 CTGCCTTGTGCCCTACAACTA 59.997 52.381 0.00 0.00 44.07 2.24
2702 2873 1.633432 TGCCTTGTGCCCTACAACTAT 59.367 47.619 0.00 0.00 44.07 2.12
2721 2892 5.467705 ACTATTCGAGGTTACACTTGTCAC 58.532 41.667 0.00 0.00 0.00 3.67
2722 2893 4.602340 ATTCGAGGTTACACTTGTCACT 57.398 40.909 0.00 0.00 0.00 3.41
2723 2894 3.637998 TCGAGGTTACACTTGTCACTC 57.362 47.619 0.00 0.00 0.00 3.51
2724 2895 2.295349 TCGAGGTTACACTTGTCACTCC 59.705 50.000 0.00 0.00 0.00 3.85
2725 2896 2.035449 CGAGGTTACACTTGTCACTCCA 59.965 50.000 0.00 0.00 0.00 3.86
2740 2940 6.472887 TGTCACTCCATTTTCTACTTAAGGG 58.527 40.000 7.53 0.00 0.00 3.95
2741 2941 6.271391 TGTCACTCCATTTTCTACTTAAGGGA 59.729 38.462 7.53 1.93 33.60 4.20
2742 2942 6.594547 GTCACTCCATTTTCTACTTAAGGGAC 59.405 42.308 7.53 0.00 31.56 4.46
2743 2943 5.581085 CACTCCATTTTCTACTTAAGGGACG 59.419 44.000 7.53 0.00 31.56 4.79
2744 2944 5.247792 ACTCCATTTTCTACTTAAGGGACGT 59.752 40.000 7.53 0.00 31.56 4.34
2746 2946 5.482878 TCCATTTTCTACTTAAGGGACGTCT 59.517 40.000 16.46 0.00 29.98 4.18
2754 3025 2.933495 TAAGGGACGTCTGTGAATCG 57.067 50.000 16.46 0.00 0.00 3.34
2760 3031 1.002250 ACGTCTGTGAATCGTGTCGC 61.002 55.000 0.00 0.00 36.46 5.19
2772 3043 3.334751 TGTCGCGGCTTTGACACG 61.335 61.111 13.81 0.00 40.02 4.49
2809 3080 8.936864 CAAGGAGTACACTGATTAGTTTTTAGG 58.063 37.037 0.00 0.00 34.07 2.69
2811 3082 9.047947 AGGAGTACACTGATTAGTTTTTAGGAT 57.952 33.333 0.00 0.00 34.07 3.24
2812 3083 9.668497 GGAGTACACTGATTAGTTTTTAGGATT 57.332 33.333 0.00 0.00 34.07 3.01
2815 3086 9.556030 GTACACTGATTAGTTTTTAGGATTTGC 57.444 33.333 0.00 0.00 34.07 3.68
2840 3111 0.177836 TGATGTGGTGGTGCTATCGG 59.822 55.000 0.00 0.00 0.00 4.18
2848 3119 1.883084 GGTGCTATCGGGACAAGCG 60.883 63.158 0.00 0.00 38.05 4.68
2885 3156 2.359230 GTCTGGTCACAGGGCTGC 60.359 66.667 0.00 0.00 44.99 5.25
2969 3240 2.498167 GTGTCCATATGATGTGGCCTC 58.502 52.381 3.32 0.00 36.66 4.70
2984 3264 0.469070 GCCTCATGAGCCTGAGTGAT 59.531 55.000 17.76 0.00 40.91 3.06
2987 3267 3.204526 CCTCATGAGCCTGAGTGATTTC 58.795 50.000 17.76 0.00 40.91 2.17
2992 3272 2.003301 GAGCCTGAGTGATTTCGGTTC 58.997 52.381 0.00 0.00 0.00 3.62
2997 3277 1.069513 TGAGTGATTTCGGTTCGTGGT 59.930 47.619 0.00 0.00 0.00 4.16
3005 3285 1.521906 CGGTTCGTGGTGTGGTTCA 60.522 57.895 0.00 0.00 0.00 3.18
3050 3330 3.804601 CCAACAAATGGCCGGTTAC 57.195 52.632 1.90 0.00 43.80 2.50
3051 3331 1.253100 CCAACAAATGGCCGGTTACT 58.747 50.000 1.90 0.00 43.80 2.24
3063 3354 2.673833 CCGGTTACTCATCTTATCCGC 58.326 52.381 0.00 0.00 32.61 5.54
3080 3371 0.890996 CGCCCAGAGTTTTTCCTGCT 60.891 55.000 0.00 0.00 0.00 4.24
3098 3389 3.059884 TGCTCTCGTGTTTTCATGTCTC 58.940 45.455 0.00 0.00 37.97 3.36
3099 3390 3.243873 TGCTCTCGTGTTTTCATGTCTCT 60.244 43.478 0.00 0.00 37.97 3.10
3105 3412 5.353111 TCGTGTTTTCATGTCTCTACACAA 58.647 37.500 14.56 0.70 38.78 3.33
3121 3428 9.658799 TCTCTACACAATCTTTTTATCCAAGAG 57.341 33.333 0.00 0.00 33.74 2.85
3126 3433 8.076178 ACACAATCTTTTTATCCAAGAGTTTCG 58.924 33.333 0.00 0.00 33.74 3.46
3138 3445 5.046878 TCCAAGAGTTTCGCAGGAATTACTA 60.047 40.000 0.00 0.00 30.88 1.82
3182 3491 6.534793 GTGATTTGATTGGAACACACTGTTTT 59.465 34.615 0.00 0.00 41.28 2.43
3202 3511 0.037326 TTCCTGCGTGTGGAGATGTC 60.037 55.000 0.00 0.00 35.14 3.06
3208 3517 1.734047 GCGTGTGGAGATGTCTCTGAC 60.734 57.143 9.68 7.60 42.48 3.51
3210 3519 2.230025 CGTGTGGAGATGTCTCTGACTT 59.770 50.000 9.68 0.00 42.48 3.01
3212 3521 4.241681 GTGTGGAGATGTCTCTGACTTTC 58.758 47.826 9.68 0.00 42.48 2.62
3213 3522 4.021544 GTGTGGAGATGTCTCTGACTTTCT 60.022 45.833 9.68 2.27 42.48 2.52
3214 3523 4.219507 TGTGGAGATGTCTCTGACTTTCTC 59.780 45.833 9.68 15.88 42.48 2.87
3215 3524 4.219507 GTGGAGATGTCTCTGACTTTCTCA 59.780 45.833 20.99 11.82 40.62 3.27
3217 3526 4.462483 GGAGATGTCTCTGACTTTCTCAGT 59.538 45.833 20.99 0.00 46.09 3.41
3218 3527 5.389859 AGATGTCTCTGACTTTCTCAGTG 57.610 43.478 0.00 0.00 46.09 3.66
3219 3528 3.377346 TGTCTCTGACTTTCTCAGTGC 57.623 47.619 0.00 0.00 46.09 4.40
3223 3542 2.036992 CTCTGACTTTCTCAGTGCAGGT 59.963 50.000 0.00 0.00 46.09 4.00
3273 3604 3.564342 GAGCGCGCACACAGTGTTC 62.564 63.158 35.10 14.89 35.75 3.18
3336 3667 4.152625 GTGCACATCGTCAGCCGC 62.153 66.667 13.17 0.00 36.19 6.53
3337 3668 4.377708 TGCACATCGTCAGCCGCT 62.378 61.111 0.00 0.00 36.19 5.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 1.708027 GATGCGTTCCGAGGAAACG 59.292 57.895 6.09 12.81 35.75 3.60
2 3 1.708027 CGATGCGTTCCGAGGAAAC 59.292 57.895 6.09 2.93 35.75 2.78
3 4 2.098233 GCGATGCGTTCCGAGGAAA 61.098 57.895 6.09 0.00 35.75 3.13
4 5 2.508439 GCGATGCGTTCCGAGGAA 60.508 61.111 0.00 0.00 0.00 3.36
5 6 3.449227 AGCGATGCGTTCCGAGGA 61.449 61.111 0.00 0.00 0.00 3.71
6 7 3.257561 CAGCGATGCGTTCCGAGG 61.258 66.667 0.00 0.00 0.00 4.63
37 38 2.029739 CCCAAAACCATGTTACCGAACC 60.030 50.000 0.00 0.00 34.38 3.62
41 42 3.181474 ACAAACCCAAAACCATGTTACCG 60.181 43.478 0.00 0.00 0.00 4.02
48 49 2.036604 CGGCTTACAAACCCAAAACCAT 59.963 45.455 0.00 0.00 0.00 3.55
49 50 1.409427 CGGCTTACAAACCCAAAACCA 59.591 47.619 0.00 0.00 0.00 3.67
50 51 1.409790 ACGGCTTACAAACCCAAAACC 59.590 47.619 0.00 0.00 0.00 3.27
51 52 2.875087 ACGGCTTACAAACCCAAAAC 57.125 45.000 0.00 0.00 0.00 2.43
52 53 3.734293 CGAAACGGCTTACAAACCCAAAA 60.734 43.478 0.00 0.00 0.00 2.44
53 54 2.223525 CGAAACGGCTTACAAACCCAAA 60.224 45.455 0.00 0.00 0.00 3.28
54 55 1.334243 CGAAACGGCTTACAAACCCAA 59.666 47.619 0.00 0.00 0.00 4.12
120 121 6.599437 ACGTGTTTTCATTCCGAGAAAATAG 58.401 36.000 4.65 3.08 44.10 1.73
122 123 5.432885 ACGTGTTTTCATTCCGAGAAAAT 57.567 34.783 4.65 0.00 44.10 1.82
123 124 4.260866 GGACGTGTTTTCATTCCGAGAAAA 60.261 41.667 0.00 0.00 41.27 2.29
166 167 0.677731 CCGGTGGTGGTACGACTCTA 60.678 60.000 7.99 0.00 0.00 2.43
167 168 1.975407 CCGGTGGTGGTACGACTCT 60.975 63.158 7.99 0.00 0.00 3.24
168 169 2.270986 ACCGGTGGTGGTACGACTC 61.271 63.158 6.12 2.21 41.55 3.36
169 170 2.203538 ACCGGTGGTGGTACGACT 60.204 61.111 6.12 0.00 41.55 4.18
189 194 3.524541 GTTCATGGATCCAATTTGCACC 58.475 45.455 20.67 0.47 0.00 5.01
190 195 3.524541 GGTTCATGGATCCAATTTGCAC 58.475 45.455 20.67 13.00 0.00 4.57
191 196 2.500910 GGGTTCATGGATCCAATTTGCA 59.499 45.455 20.67 0.00 0.00 4.08
192 197 2.158914 GGGGTTCATGGATCCAATTTGC 60.159 50.000 20.67 8.24 0.00 3.68
193 198 2.101249 CGGGGTTCATGGATCCAATTTG 59.899 50.000 20.67 13.20 0.00 2.32
194 199 2.292192 ACGGGGTTCATGGATCCAATTT 60.292 45.455 20.67 0.00 0.00 1.82
195 200 1.287739 ACGGGGTTCATGGATCCAATT 59.712 47.619 20.67 0.00 0.00 2.32
196 201 0.926293 ACGGGGTTCATGGATCCAAT 59.074 50.000 20.67 4.61 0.00 3.16
197 202 0.701731 AACGGGGTTCATGGATCCAA 59.298 50.000 20.67 0.00 0.00 3.53
198 203 0.701731 AAACGGGGTTCATGGATCCA 59.298 50.000 18.88 18.88 0.00 3.41
218 223 3.452755 CATGCATGCATGTGGATCTTT 57.547 42.857 40.30 14.19 46.20 2.52
239 244 2.205074 GTCTCTTCCGGTACATGCATG 58.795 52.381 25.09 25.09 0.00 4.06
241 246 1.204704 CTGTCTCTTCCGGTACATGCA 59.795 52.381 0.00 0.00 0.00 3.96
242 247 1.204941 ACTGTCTCTTCCGGTACATGC 59.795 52.381 0.00 0.00 0.00 4.06
243 248 2.231478 ACACTGTCTCTTCCGGTACATG 59.769 50.000 0.00 0.00 0.00 3.21
244 249 2.492484 GACACTGTCTCTTCCGGTACAT 59.508 50.000 0.00 0.00 0.00 2.29
245 250 1.884579 GACACTGTCTCTTCCGGTACA 59.115 52.381 0.00 0.00 0.00 2.90
246 251 1.884579 TGACACTGTCTCTTCCGGTAC 59.115 52.381 10.54 0.00 33.15 3.34
247 252 1.884579 GTGACACTGTCTCTTCCGGTA 59.115 52.381 10.54 0.00 33.15 4.02
248 253 0.674534 GTGACACTGTCTCTTCCGGT 59.325 55.000 10.54 0.00 33.15 5.28
249 254 0.038159 GGTGACACTGTCTCTTCCGG 60.038 60.000 10.54 0.00 33.15 5.14
250 255 0.673985 TGGTGACACTGTCTCTTCCG 59.326 55.000 10.54 0.00 33.15 4.30
266 271 0.976073 CGTGTGGGGTCTAGGATGGT 60.976 60.000 0.00 0.00 0.00 3.55
362 367 2.736995 TTGGTGCGAGCTACGTGC 60.737 61.111 0.00 0.00 44.60 5.34
363 368 2.380410 GGTTGGTGCGAGCTACGTG 61.380 63.158 0.00 0.00 44.60 4.49
364 369 2.048503 GGTTGGTGCGAGCTACGT 60.049 61.111 0.00 0.00 44.60 3.57
372 377 3.605749 ATCCGTCCTGGTTGGTGCG 62.606 63.158 6.82 0.00 39.52 5.34
387 392 2.433868 ACGTATGCATGTACCGATCC 57.566 50.000 10.16 0.00 0.00 3.36
388 393 4.982999 AGATACGTATGCATGTACCGATC 58.017 43.478 13.97 5.08 0.00 3.69
389 394 4.700692 AGAGATACGTATGCATGTACCGAT 59.299 41.667 13.97 0.00 0.00 4.18
390 395 4.070009 AGAGATACGTATGCATGTACCGA 58.930 43.478 13.97 0.00 0.00 4.69
399 404 6.145696 GGGTTTTGTATGAGAGATACGTATGC 59.854 42.308 13.97 4.86 0.00 3.14
420 425 3.889538 GTCTTGCTGGTTCTAAAAGGGTT 59.110 43.478 0.00 0.00 0.00 4.11
422 427 3.253432 GTGTCTTGCTGGTTCTAAAAGGG 59.747 47.826 0.00 0.00 0.00 3.95
425 430 2.289547 GCGTGTCTTGCTGGTTCTAAAA 59.710 45.455 0.00 0.00 0.00 1.52
426 431 1.871039 GCGTGTCTTGCTGGTTCTAAA 59.129 47.619 0.00 0.00 0.00 1.85
441 446 0.597637 GTGTGAGCAGTGTAGCGTGT 60.598 55.000 0.00 0.00 40.15 4.49
462 467 3.444388 GCCAGTCAAGTAGTAGTAGCAGT 59.556 47.826 0.00 0.00 0.00 4.40
465 470 3.444388 AGTGCCAGTCAAGTAGTAGTAGC 59.556 47.826 0.00 0.00 0.00 3.58
466 471 5.220892 GCTAGTGCCAGTCAAGTAGTAGTAG 60.221 48.000 0.00 0.00 0.00 2.57
467 472 4.639310 GCTAGTGCCAGTCAAGTAGTAGTA 59.361 45.833 0.00 0.00 0.00 1.82
468 473 3.444388 GCTAGTGCCAGTCAAGTAGTAGT 59.556 47.826 0.00 0.00 0.00 2.73
469 474 3.444034 TGCTAGTGCCAGTCAAGTAGTAG 59.556 47.826 0.00 0.00 38.71 2.57
470 475 3.427573 TGCTAGTGCCAGTCAAGTAGTA 58.572 45.455 0.00 0.00 38.71 1.82
471 476 2.232452 CTGCTAGTGCCAGTCAAGTAGT 59.768 50.000 0.00 0.00 38.71 2.73
472 477 2.493675 TCTGCTAGTGCCAGTCAAGTAG 59.506 50.000 0.00 0.00 38.71 2.57
473 478 2.231478 GTCTGCTAGTGCCAGTCAAGTA 59.769 50.000 0.00 0.00 38.71 2.24
481 489 2.970639 GACGGTCTGCTAGTGCCA 59.029 61.111 0.00 0.00 38.71 4.92
482 490 1.651240 TACGACGGTCTGCTAGTGCC 61.651 60.000 6.57 0.00 38.71 5.01
493 501 4.112341 GTGCGCTCCTACGACGGT 62.112 66.667 9.73 0.00 34.06 4.83
498 506 2.266376 TACTGCAGTGCGCTCCTACG 62.266 60.000 29.57 0.00 43.06 3.51
500 508 1.667154 CCTACTGCAGTGCGCTCCTA 61.667 60.000 29.57 5.52 43.06 2.94
501 509 2.575993 CTACTGCAGTGCGCTCCT 59.424 61.111 29.57 1.61 43.06 3.69
503 511 1.518133 CTCCTACTGCAGTGCGCTC 60.518 63.158 29.57 4.74 43.06 5.03
504 512 2.575993 CTCCTACTGCAGTGCGCT 59.424 61.111 29.57 4.08 43.06 5.92
507 515 1.407258 CTACTCCTCCTACTGCAGTGC 59.593 57.143 29.57 8.58 0.00 4.40
508 516 2.028130 CCTACTCCTCCTACTGCAGTG 58.972 57.143 29.57 17.91 0.00 3.66
510 518 2.092103 ACTCCTACTCCTCCTACTGCAG 60.092 54.545 13.48 13.48 0.00 4.41
511 519 1.923850 ACTCCTACTCCTCCTACTGCA 59.076 52.381 0.00 0.00 0.00 4.41
512 520 2.092321 TCACTCCTACTCCTCCTACTGC 60.092 54.545 0.00 0.00 0.00 4.40
514 522 2.173996 GCTCACTCCTACTCCTCCTACT 59.826 54.545 0.00 0.00 0.00 2.57
516 524 1.141254 CGCTCACTCCTACTCCTCCTA 59.859 57.143 0.00 0.00 0.00 2.94
517 525 0.106918 CGCTCACTCCTACTCCTCCT 60.107 60.000 0.00 0.00 0.00 3.69
519 527 1.018910 GTCGCTCACTCCTACTCCTC 58.981 60.000 0.00 0.00 0.00 3.71
520 528 0.745128 CGTCGCTCACTCCTACTCCT 60.745 60.000 0.00 0.00 0.00 3.69
521 529 1.722677 CGTCGCTCACTCCTACTCC 59.277 63.158 0.00 0.00 0.00 3.85
522 530 1.062845 GCGTCGCTCACTCCTACTC 59.937 63.158 10.68 0.00 0.00 2.59
538 546 0.438445 CACTGTATGTTGGACGTGCG 59.562 55.000 1.60 0.00 0.00 5.34
546 554 2.163826 GCGACATGCACTGTATGTTG 57.836 50.000 18.58 18.58 45.45 3.33
578 586 2.670592 GGTTGGGTGTGCCGGTAC 60.671 66.667 16.68 16.68 34.97 3.34
579 587 3.956314 GGGTTGGGTGTGCCGGTA 61.956 66.667 1.90 0.00 34.97 4.02
581 589 4.904590 TTGGGTTGGGTGTGCCGG 62.905 66.667 0.00 0.00 34.97 6.13
582 590 2.153547 GATTTGGGTTGGGTGTGCCG 62.154 60.000 0.00 0.00 34.97 5.69
583 591 1.671166 GATTTGGGTTGGGTGTGCC 59.329 57.895 0.00 0.00 0.00 5.01
584 592 1.671166 GGATTTGGGTTGGGTGTGC 59.329 57.895 0.00 0.00 0.00 4.57
585 593 1.191489 GGGGATTTGGGTTGGGTGTG 61.191 60.000 0.00 0.00 0.00 3.82
586 594 1.157513 GGGGATTTGGGTTGGGTGT 59.842 57.895 0.00 0.00 0.00 4.16
587 595 1.981853 CGGGGATTTGGGTTGGGTG 60.982 63.158 0.00 0.00 0.00 4.61
633 649 2.268920 GGTTGCCAGATGGAGCGA 59.731 61.111 2.18 0.00 37.39 4.93
634 650 2.046023 TGGTTGCCAGATGGAGCG 60.046 61.111 2.18 0.00 37.39 5.03
635 651 2.048603 GGTGGTTGCCAGATGGAGC 61.049 63.158 2.18 0.00 37.39 4.70
636 652 1.379044 GGGTGGTTGCCAGATGGAG 60.379 63.158 2.18 0.00 37.39 3.86
662 678 1.047801 AAATCAAACTGGGTGTGGCC 58.952 50.000 0.00 0.00 0.00 5.36
696 727 3.617263 CAGCGCCGTAAGAAATCTACTTT 59.383 43.478 2.29 0.00 43.02 2.66
730 781 3.419580 TGGGCAGTAGGGGCATGG 61.420 66.667 0.00 0.00 34.52 3.66
757 808 3.399181 GGTCGTCTGGCATGGGGA 61.399 66.667 0.00 0.00 0.00 4.81
758 809 4.838152 CGGTCGTCTGGCATGGGG 62.838 72.222 0.00 0.00 0.00 4.96
777 861 4.504916 CCGGCAGAGGCTCGTCAG 62.505 72.222 9.22 5.61 40.87 3.51
900 987 0.891373 TCTCGCTCTGCTAGTGCTTT 59.109 50.000 0.00 0.00 40.48 3.51
901 988 0.455410 CTCTCGCTCTGCTAGTGCTT 59.545 55.000 0.00 0.00 40.48 3.91
970 1057 2.815647 GCGGCACCTTTCTCCTCG 60.816 66.667 0.00 0.00 0.00 4.63
971 1058 2.436824 GGCGGCACCTTTCTCCTC 60.437 66.667 3.07 0.00 34.51 3.71
972 1059 4.035102 GGGCGGCACCTTTCTCCT 62.035 66.667 12.47 0.00 39.10 3.69
974 1061 4.699522 ACGGGCGGCACCTTTCTC 62.700 66.667 12.47 0.00 39.10 2.87
1176 1280 2.492090 CAGTCGAAGGAGAGGCGG 59.508 66.667 0.00 0.00 0.00 6.13
1179 1283 1.216710 GGTGCAGTCGAAGGAGAGG 59.783 63.158 0.00 0.00 0.00 3.69
1497 1607 4.537433 AGGATGCGCTTCTCGGCC 62.537 66.667 21.05 6.56 38.94 6.13
1671 1782 3.823330 ACCTCGGCGGCGTAGAAG 61.823 66.667 31.06 20.11 35.61 2.85
1843 1954 1.456705 CCTCTTCCTCCTCCTCGGG 60.457 68.421 0.00 0.00 0.00 5.14
2413 2558 1.075425 CAGAAGAGGTCGAAGCGCTG 61.075 60.000 12.58 0.00 0.00 5.18
2450 2595 3.885521 GGGGAGGCTACGACGACG 61.886 72.222 5.58 5.58 45.75 5.12
2451 2596 3.885521 CGGGGAGGCTACGACGAC 61.886 72.222 0.00 0.00 0.00 4.34
2452 2597 4.100084 TCGGGGAGGCTACGACGA 62.100 66.667 10.58 10.58 0.00 4.20
2643 2805 1.783284 TAACAGTGCTGAGAAGCGTG 58.217 50.000 6.17 0.00 37.69 5.34
2655 2817 3.614092 AGCACATGGGAGATTAACAGTG 58.386 45.455 0.00 0.00 0.00 3.66
2692 2855 6.205101 AGTGTAACCTCGAATAGTTGTAGG 57.795 41.667 5.62 0.00 37.80 3.18
2695 2866 5.850614 ACAAGTGTAACCTCGAATAGTTGT 58.149 37.500 5.62 3.04 37.80 3.32
2696 2867 5.924254 TGACAAGTGTAACCTCGAATAGTTG 59.076 40.000 5.62 2.50 37.80 3.16
2697 2868 5.924825 GTGACAAGTGTAACCTCGAATAGTT 59.075 40.000 0.00 0.00 37.80 2.24
2699 2870 5.710984 AGTGACAAGTGTAACCTCGAATAG 58.289 41.667 0.00 0.00 37.80 1.73
2701 2872 4.557205 GAGTGACAAGTGTAACCTCGAAT 58.443 43.478 0.00 0.00 37.80 3.34
2702 2873 3.243636 GGAGTGACAAGTGTAACCTCGAA 60.244 47.826 0.00 0.00 37.80 3.71
2721 2892 5.731591 ACGTCCCTTAAGTAGAAAATGGAG 58.268 41.667 0.97 0.00 0.00 3.86
2722 2893 5.482878 AGACGTCCCTTAAGTAGAAAATGGA 59.517 40.000 13.01 0.00 0.00 3.41
2723 2894 5.581085 CAGACGTCCCTTAAGTAGAAAATGG 59.419 44.000 13.01 0.00 0.00 3.16
2724 2895 6.090898 CACAGACGTCCCTTAAGTAGAAAATG 59.909 42.308 13.01 0.14 0.00 2.32
2725 2896 6.014840 TCACAGACGTCCCTTAAGTAGAAAAT 60.015 38.462 13.01 0.00 0.00 1.82
2740 2940 0.975544 CGACACGATTCACAGACGTC 59.024 55.000 7.70 7.70 38.18 4.34
2741 2941 1.002250 GCGACACGATTCACAGACGT 61.002 55.000 0.00 0.00 40.87 4.34
2742 2942 1.696644 GCGACACGATTCACAGACG 59.303 57.895 0.00 0.00 0.00 4.18
2760 3031 2.675844 TCAATAATCCGTGTCAAAGCCG 59.324 45.455 0.00 0.00 0.00 5.52
2772 3043 7.500992 TCAGTGTACTCCTTGATCAATAATCC 58.499 38.462 8.96 0.00 33.01 3.01
2809 3080 4.104776 CCACCACATCATTAACGCAAATC 58.895 43.478 0.00 0.00 0.00 2.17
2811 3082 2.887783 ACCACCACATCATTAACGCAAA 59.112 40.909 0.00 0.00 0.00 3.68
2812 3083 2.227626 CACCACCACATCATTAACGCAA 59.772 45.455 0.00 0.00 0.00 4.85
2815 3086 2.083774 AGCACCACCACATCATTAACG 58.916 47.619 0.00 0.00 0.00 3.18
2840 3111 1.302511 ACCCATGTGACGCTTGTCC 60.303 57.895 0.00 0.00 42.17 4.02
2848 3119 0.250901 AGCTCCAACACCCATGTGAC 60.251 55.000 0.00 0.00 45.76 3.67
2969 3240 1.938577 CCGAAATCACTCAGGCTCATG 59.061 52.381 0.00 0.00 0.00 3.07
2984 3264 0.392729 AACCACACCACGAACCGAAA 60.393 50.000 0.00 0.00 0.00 3.46
2987 3267 1.495584 CTGAACCACACCACGAACCG 61.496 60.000 0.00 0.00 0.00 4.44
2992 3272 1.648720 CAAGCTGAACCACACCACG 59.351 57.895 0.00 0.00 0.00 4.94
2997 3277 2.594303 CCGGCAAGCTGAACCACA 60.594 61.111 1.69 0.00 0.00 4.17
3005 3285 0.983378 ACTTATCTCCCCGGCAAGCT 60.983 55.000 0.00 0.00 0.00 3.74
3050 3330 1.967066 ACTCTGGGCGGATAAGATGAG 59.033 52.381 0.00 0.00 0.00 2.90
3051 3331 2.088104 ACTCTGGGCGGATAAGATGA 57.912 50.000 0.00 0.00 0.00 2.92
3063 3354 2.431454 GAGAGCAGGAAAAACTCTGGG 58.569 52.381 0.00 0.00 40.80 4.45
3080 3371 5.220381 GTGTAGAGACATGAAAACACGAGA 58.780 41.667 0.00 0.00 38.04 4.04
3105 3412 6.127897 CCTGCGAAACTCTTGGATAAAAAGAT 60.128 38.462 0.00 0.00 33.34 2.40
3138 3445 8.526147 CAAATCACCAACTCAGGAATATTTTCT 58.474 33.333 0.00 0.00 32.16 2.52
3182 3491 0.396435 ACATCTCCACACGCAGGAAA 59.604 50.000 0.00 0.00 34.08 3.13
3184 3493 0.900182 AGACATCTCCACACGCAGGA 60.900 55.000 0.00 0.00 0.00 3.86
3185 3494 0.459237 GAGACATCTCCACACGCAGG 60.459 60.000 0.00 0.00 37.02 4.85
3208 3517 1.155042 GCTCACCTGCACTGAGAAAG 58.845 55.000 17.40 0.00 37.90 2.62
3210 3519 1.372683 GGCTCACCTGCACTGAGAA 59.627 57.895 17.40 0.00 37.90 2.87
3212 3521 2.046507 GGGCTCACCTGCACTGAG 60.047 66.667 11.02 11.02 38.59 3.35
3213 3522 4.007644 CGGGCTCACCTGCACTGA 62.008 66.667 0.00 0.00 34.87 3.41
3263 3586 3.672241 GCAAAAGGAAACGAACACTGTGT 60.672 43.478 7.80 7.80 0.00 3.72
3273 3604 3.449315 CGCGCGCAAAAGGAAACG 61.449 61.111 32.61 6.38 0.00 3.60


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

AutoCloner maintained by Alex Coulton.