Multiple sequence alignment - TraesCS3D01G181500

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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 TraesCS3D01G181500 chr3D 100.000 3818 0 0 1 3818 164314701 164318518 0.000000e+00 7051.0
1 TraesCS3D01G181500 chr3D 91.309 863 59 8 1687 2542 164058059 164058912 0.000000e+00 1164.0
2 TraesCS3D01G181500 chr3D 91.081 370 27 5 2578 2946 164058906 164059270 2.650000e-136 496.0
3 TraesCS3D01G181500 chr3D 86.200 471 44 13 964 1431 164057470 164057922 1.230000e-134 490.0
4 TraesCS3D01G181500 chr3D 86.486 222 24 4 3086 3301 164059484 164059705 4.930000e-59 239.0
5 TraesCS3D01G181500 chr3A 91.893 2948 166 28 1 2906 196189259 196192175 0.000000e+00 4052.0
6 TraesCS3D01G181500 chr3A 89.299 271 29 0 3548 3818 196192665 196192935 1.310000e-89 340.0
7 TraesCS3D01G181500 chr3A 83.972 287 32 11 3029 3304 196192227 196192510 2.920000e-66 263.0
8 TraesCS3D01G181500 chr3B 90.657 867 61 9 1687 2542 240269015 240269872 0.000000e+00 1134.0
9 TraesCS3D01G181500 chr3B 84.940 664 58 15 964 1602 240268373 240269019 5.380000e-178 634.0
10 TraesCS3D01G181500 chr3B 90.710 366 28 5 2578 2943 240269866 240270225 2.060000e-132 483.0
11 TraesCS3D01G181500 chr3B 87.037 270 35 0 3549 3818 240270813 240271082 4.790000e-79 305.0
12 TraesCS3D01G181500 chr3B 87.156 218 22 4 3090 3301 240270447 240270664 3.810000e-60 243.0
13 TraesCS3D01G181500 chr5B 97.143 35 1 0 2764 2798 703133237 703133271 4.120000e-05 60.2
14 TraesCS3D01G181500 chr7A 100.000 28 0 0 452 479 540646858 540646831 7.000000e-03 52.8


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 TraesCS3D01G181500 chr3D 164314701 164318518 3817 False 7051.000000 7051 100.000 1 3818 1 chr3D.!!$F1 3817
1 TraesCS3D01G181500 chr3D 164057470 164059705 2235 False 597.250000 1164 88.769 964 3301 4 chr3D.!!$F2 2337
2 TraesCS3D01G181500 chr3A 196189259 196192935 3676 False 1551.666667 4052 88.388 1 3818 3 chr3A.!!$F1 3817
3 TraesCS3D01G181500 chr3B 240268373 240271082 2709 False 559.800000 1134 88.100 964 3818 5 chr3B.!!$F1 2854

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
434 436 0.117140 TATGCCTGGGGATCTCGGAT 59.883 55.000 0.0 0.0 0.0 4.18 F
1695 1749 1.003545 CAAATCCTTGCTATGTCCGCG 60.004 52.381 0.0 0.0 0.0 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2225 2289 1.001633 GCTCGTTTACAGAGTCCCCAA 59.998 52.381 0.00 0.0 37.99 4.12 R
2889 2960 0.250513 ATCCTCTTCGTCAAGGCCAC 59.749 55.000 5.01 0.0 32.37 5.01 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
17 18 2.261671 GATGGGTCAGTGCGACGT 59.738 61.111 0.00 0.00 46.42 4.34
47 48 2.333926 CGGCGAAGTGAATAGACAACA 58.666 47.619 0.00 0.00 0.00 3.33
90 91 0.321564 CCTCGCTGGAAACATGGTCA 60.322 55.000 0.00 0.00 41.51 4.02
95 96 1.911293 CTGGAAACATGGTCACGGCG 61.911 60.000 4.80 4.80 41.51 6.46
98 99 4.634703 AACATGGTCACGGCGGCA 62.635 61.111 13.24 0.00 0.00 5.69
148 150 1.694525 TGGGGTTGACCTGGACACA 60.695 57.895 0.00 0.00 40.03 3.72
149 151 1.065410 TGGGGTTGACCTGGACACAT 61.065 55.000 0.00 0.00 40.03 3.21
176 178 2.267188 TCAAAAGCATGCGATGAAGC 57.733 45.000 13.01 0.00 37.71 3.86
235 237 1.067974 ACTTGTGTGTGTCGGAATCGA 59.932 47.619 0.00 0.00 43.86 3.59
265 267 2.696566 AACGACAATTGCGGTGACA 58.303 47.368 20.77 0.00 0.00 3.58
303 305 0.324943 GTGGCAAAGAGGGTGAGCTA 59.675 55.000 0.00 0.00 0.00 3.32
318 320 1.682344 GCTAGGTGGGGGCTTTTGG 60.682 63.158 0.00 0.00 0.00 3.28
319 321 1.682344 CTAGGTGGGGGCTTTTGGC 60.682 63.158 0.00 0.00 45.19 4.52
339 341 3.777910 GGGCGGCGAGGAGGTTTA 61.778 66.667 12.98 0.00 0.00 2.01
342 344 1.366854 GGCGGCGAGGAGGTTTAAAG 61.367 60.000 12.98 0.00 0.00 1.85
343 345 0.672711 GCGGCGAGGAGGTTTAAAGT 60.673 55.000 12.98 0.00 0.00 2.66
344 346 1.804601 CGGCGAGGAGGTTTAAAGTT 58.195 50.000 0.00 0.00 0.00 2.66
347 349 1.810755 GCGAGGAGGTTTAAAGTTGGG 59.189 52.381 0.00 0.00 0.00 4.12
348 350 2.812983 GCGAGGAGGTTTAAAGTTGGGT 60.813 50.000 0.00 0.00 0.00 4.51
350 352 3.154710 GAGGAGGTTTAAAGTTGGGTGG 58.845 50.000 0.00 0.00 0.00 4.61
351 353 1.616865 GGAGGTTTAAAGTTGGGTGGC 59.383 52.381 0.00 0.00 0.00 5.01
352 354 2.312390 GAGGTTTAAAGTTGGGTGGCA 58.688 47.619 0.00 0.00 0.00 4.92
394 396 0.842467 AGGTGGAGAAAGTGGGGGAG 60.842 60.000 0.00 0.00 0.00 4.30
397 399 0.401395 TGGAGAAAGTGGGGGAGTGT 60.401 55.000 0.00 0.00 0.00 3.55
400 402 1.143073 GAGAAAGTGGGGGAGTGTTGT 59.857 52.381 0.00 0.00 0.00 3.32
404 406 0.986019 AGTGGGGGAGTGTTGTGTCA 60.986 55.000 0.00 0.00 0.00 3.58
415 417 3.117888 AGTGTTGTGTCATTCTTGAGGGT 60.118 43.478 0.00 0.00 30.85 4.34
416 418 4.102524 AGTGTTGTGTCATTCTTGAGGGTA 59.897 41.667 0.00 0.00 30.85 3.69
421 423 2.846206 TGTCATTCTTGAGGGTATGCCT 59.154 45.455 0.00 0.00 30.85 4.75
434 436 0.117140 TATGCCTGGGGATCTCGGAT 59.883 55.000 0.00 0.00 0.00 4.18
438 440 1.190833 CCTGGGGATCTCGGATGGAG 61.191 65.000 0.00 0.00 44.58 3.86
440 442 1.152226 GGGGATCTCGGATGGAGGT 60.152 63.158 0.00 0.00 43.34 3.85
476 478 1.597461 GTGGGTCCTACCTGTCAGC 59.403 63.158 0.00 0.00 38.64 4.26
496 498 3.554692 GTCAATCGCTCGGGCACG 61.555 66.667 8.62 0.00 42.74 5.34
551 553 1.376037 GGGACTTGTCCCTCGCTTG 60.376 63.158 26.80 0.00 46.39 4.01
563 565 2.735478 CGCTTGCGTACCGGTTCA 60.735 61.111 15.04 6.04 0.00 3.18
568 570 2.433664 GCGTACCGGTTCAGGTGG 60.434 66.667 15.04 0.00 45.54 4.61
582 584 1.914764 GGTGGAGGGTTGGGTCGTA 60.915 63.158 0.00 0.00 0.00 3.43
603 605 2.420568 CCCTAAGTGGCTACGCGGA 61.421 63.158 12.47 0.00 0.00 5.54
609 611 3.061231 TGGCTACGCGGACGGTTA 61.061 61.111 12.47 0.00 46.04 2.85
650 652 2.910319 TGAGGCCCAAGTACATAGTGTT 59.090 45.455 0.00 0.00 0.00 3.32
892 898 6.840527 ACTGAATCCCAAAAATCCAAAATGT 58.159 32.000 0.00 0.00 0.00 2.71
918 924 7.836479 TTGGAATCATGGTATGCATATGAAA 57.164 32.000 10.16 0.00 34.80 2.69
957 963 9.554395 ACCTAATTTGAAAATTTTAGGTTGTGG 57.446 29.630 13.13 9.48 45.43 4.17
959 965 5.975410 TTTGAAAATTTTAGGTTGTGGCG 57.025 34.783 2.75 0.00 0.00 5.69
1088 1094 6.791303 TGTCTTCGAAAAACTTGTAGCAAAT 58.209 32.000 0.00 0.00 0.00 2.32
1145 1152 6.365520 AGTTCTGTTTACCTTCACATTTCCT 58.634 36.000 0.00 0.00 0.00 3.36
1505 1534 4.148079 TGAACTGCCAATAACATGTCCAA 58.852 39.130 0.00 0.00 0.00 3.53
1673 1727 5.243507 TGCCATTGAAGAATTGAGCACTTAA 59.756 36.000 0.00 0.00 0.00 1.85
1684 1738 8.248945 AGAATTGAGCACTTAATCAAATCCTTG 58.751 33.333 2.41 0.00 38.80 3.61
1695 1749 1.003545 CAAATCCTTGCTATGTCCGCG 60.004 52.381 0.00 0.00 0.00 6.46
1742 1796 4.142491 GGAATTCAACCACATGCAACGATA 60.142 41.667 7.93 0.00 0.00 2.92
1745 1799 5.384063 TTCAACCACATGCAACGATATTT 57.616 34.783 0.00 0.00 0.00 1.40
2000 2063 3.872511 TTTGCCATGCCTGTAGATTTG 57.127 42.857 0.00 0.00 0.00 2.32
2002 2065 3.643199 TGCCATGCCTGTAGATTTGTA 57.357 42.857 0.00 0.00 0.00 2.41
2003 2066 3.961849 TGCCATGCCTGTAGATTTGTAA 58.038 40.909 0.00 0.00 0.00 2.41
2015 2078 8.064222 CCTGTAGATTTGTAAGATGTAAATGCG 58.936 37.037 0.00 0.00 0.00 4.73
2034 2097 4.295133 GCGTAGAATATAAGCGCACTTC 57.705 45.455 11.47 4.76 46.23 3.01
2043 2106 1.429463 AAGCGCACTTCTTAACTCCG 58.571 50.000 11.47 0.00 0.00 4.63
2154 2218 6.870971 AATGAACCTAACGCTTTAGTTTCA 57.129 33.333 20.19 20.19 45.50 2.69
2220 2284 4.192429 ACCATTTGGATTTGCTAACTGC 57.808 40.909 3.01 0.00 39.51 4.40
2225 2289 3.439857 TGGATTTGCTAACTGCTCCTT 57.560 42.857 1.03 0.00 43.37 3.36
2342 2406 8.488764 GGTACTATCTTTTCGCTAGCAAATTAG 58.511 37.037 16.45 13.40 0.00 1.73
2343 2407 9.032420 GTACTATCTTTTCGCTAGCAAATTAGT 57.968 33.333 16.45 17.34 0.00 2.24
2487 2551 5.809001 TGTCTTGAATAATTGGTCTGCTCT 58.191 37.500 0.00 0.00 0.00 4.09
2508 2572 7.326789 TGCTCTAAAAAGAAAAATCTGAATGCG 59.673 33.333 0.00 0.00 0.00 4.73
2563 2627 7.436430 TTGGAAGTATGTTACATACGCAAAA 57.564 32.000 24.23 16.64 0.00 2.44
2564 2628 6.833839 TGGAAGTATGTTACATACGCAAAAC 58.166 36.000 24.23 15.13 0.00 2.43
2566 2630 6.959311 GGAAGTATGTTACATACGCAAAACTG 59.041 38.462 24.23 0.00 0.00 3.16
2570 2634 3.878103 TGTTACATACGCAAAACTGGTGT 59.122 39.130 0.00 0.00 0.00 4.16
2614 2678 8.921205 CCTTGGACTTTAGGTATAGCTTAACTA 58.079 37.037 10.19 0.00 34.64 2.24
2643 2713 3.187842 CCTAAGGACGTTAAAAGCACCAC 59.812 47.826 0.00 0.00 0.00 4.16
2709 2780 1.663702 GCTGCAGGCAAAGCAACAG 60.664 57.895 17.12 0.00 42.17 3.16
2730 2801 6.006449 ACAGGGACTTATTGGCATGAATATC 58.994 40.000 0.00 0.00 34.60 1.63
2871 2942 2.834638 ACAGGGCCAGCATCTATTTT 57.165 45.000 6.18 0.00 0.00 1.82
2915 2986 4.265073 CCTTGACGAAGAGGATCCAAAAT 58.735 43.478 15.82 0.00 34.91 1.82
2925 2996 5.774179 AGAGGATCCAAAATGATCACCAAT 58.226 37.500 15.82 0.00 42.41 3.16
2943 3014 7.633789 TCACCAATAGAGAAGCTTTTTAGGAT 58.366 34.615 0.00 0.00 0.00 3.24
2944 3015 7.770897 TCACCAATAGAGAAGCTTTTTAGGATC 59.229 37.037 0.00 0.00 0.00 3.36
2945 3016 7.772757 CACCAATAGAGAAGCTTTTTAGGATCT 59.227 37.037 0.00 0.00 0.00 2.75
2947 3018 9.183368 CCAATAGAGAAGCTTTTTAGGATCTTT 57.817 33.333 0.00 0.00 0.00 2.52
2975 3046 7.414814 TTTTGCGAATAAAAGCTTTTTAGGG 57.585 32.000 28.21 16.45 0.00 3.53
2976 3047 5.715434 TGCGAATAAAAGCTTTTTAGGGT 57.285 34.783 28.21 10.34 0.00 4.34
2977 3048 5.705902 TGCGAATAAAAGCTTTTTAGGGTC 58.294 37.500 28.21 16.48 0.00 4.46
2978 3049 5.475564 TGCGAATAAAAGCTTTTTAGGGTCT 59.524 36.000 28.21 5.39 0.00 3.85
2979 3050 6.655848 TGCGAATAAAAGCTTTTTAGGGTCTA 59.344 34.615 28.21 9.32 0.00 2.59
2980 3051 7.148306 TGCGAATAAAAGCTTTTTAGGGTCTAG 60.148 37.037 28.21 11.87 0.00 2.43
2981 3052 7.187480 CGAATAAAAGCTTTTTAGGGTCTAGC 58.813 38.462 28.21 5.06 0.00 3.42
3011 3082 8.602472 ACAAGGATGCCATTACCTTATTTTAA 57.398 30.769 0.00 0.00 41.33 1.52
3027 3098 8.379902 CCTTATTTTAAACATTTCATCCAACGC 58.620 33.333 0.00 0.00 0.00 4.84
3030 3101 5.461032 TTAAACATTTCATCCAACGCCTT 57.539 34.783 0.00 0.00 0.00 4.35
3062 3133 3.386078 TGCCAAACTGCCAATGAAACTTA 59.614 39.130 0.00 0.00 0.00 2.24
3069 3142 8.610896 CAAACTGCCAATGAAACTTATTTGAAA 58.389 29.630 0.00 0.00 0.00 2.69
3072 3145 8.370182 ACTGCCAATGAAACTTATTTGAAATCT 58.630 29.630 0.00 0.00 0.00 2.40
3149 3336 9.899661 AGAACATTATGTTATTTAGTAGTGCCA 57.100 29.630 10.82 0.00 41.28 4.92
3226 3413 6.976925 ACGTACTTTAATACCACATAGCTGTC 59.023 38.462 0.00 0.00 31.62 3.51
3228 3415 5.681639 ACTTTAATACCACATAGCTGTCCC 58.318 41.667 0.00 0.00 31.62 4.46
3255 3448 5.353400 GGTACTGAAACTACAACCATAAGCC 59.647 44.000 0.00 0.00 0.00 4.35
3267 3460 6.727394 ACAACCATAAGCCCTTTATTAGTGA 58.273 36.000 0.00 0.00 29.37 3.41
3279 3472 7.361286 GCCCTTTATTAGTGAAGTTCTTCTGTG 60.361 40.741 12.74 0.00 0.00 3.66
3288 3481 6.480320 AGTGAAGTTCTTCTGTGTATGTCAAC 59.520 38.462 12.74 0.36 0.00 3.18
3361 3586 8.047911 TCAGGTATTATTGGATTTCGTGGTTTA 58.952 33.333 0.00 0.00 0.00 2.01
3394 3619 9.237846 GATGTATAAAAATCTAAACTTGGCAGC 57.762 33.333 0.00 0.00 0.00 5.25
3395 3620 8.116651 TGTATAAAAATCTAAACTTGGCAGCA 57.883 30.769 0.00 0.00 0.00 4.41
3396 3621 8.580720 TGTATAAAAATCTAAACTTGGCAGCAA 58.419 29.630 0.00 0.00 0.00 3.91
3397 3622 9.076596 GTATAAAAATCTAAACTTGGCAGCAAG 57.923 33.333 0.00 1.61 38.11 4.01
3398 3623 4.525912 AAATCTAAACTTGGCAGCAAGG 57.474 40.909 7.50 0.00 36.55 3.61
3399 3624 1.247567 TCTAAACTTGGCAGCAAGGC 58.752 50.000 7.50 0.00 44.50 4.35
3408 3633 2.965572 GGCAGCAAGGCATAAAATGA 57.034 45.000 0.00 0.00 43.51 2.57
3409 3634 3.249986 GGCAGCAAGGCATAAAATGAA 57.750 42.857 0.00 0.00 43.51 2.57
3410 3635 3.598299 GGCAGCAAGGCATAAAATGAAA 58.402 40.909 0.00 0.00 43.51 2.69
3411 3636 3.619929 GGCAGCAAGGCATAAAATGAAAG 59.380 43.478 0.00 0.00 43.51 2.62
3412 3637 4.248058 GCAGCAAGGCATAAAATGAAAGT 58.752 39.130 0.00 0.00 0.00 2.66
3413 3638 5.410067 GCAGCAAGGCATAAAATGAAAGTA 58.590 37.500 0.00 0.00 0.00 2.24
3414 3639 5.289434 GCAGCAAGGCATAAAATGAAAGTAC 59.711 40.000 0.00 0.00 0.00 2.73
3415 3640 6.389091 CAGCAAGGCATAAAATGAAAGTACA 58.611 36.000 0.00 0.00 0.00 2.90
3416 3641 7.037438 CAGCAAGGCATAAAATGAAAGTACAT 58.963 34.615 0.00 0.00 0.00 2.29
3417 3642 8.190122 CAGCAAGGCATAAAATGAAAGTACATA 58.810 33.333 0.00 0.00 0.00 2.29
3418 3643 8.917088 AGCAAGGCATAAAATGAAAGTACATAT 58.083 29.630 0.00 0.00 0.00 1.78
3419 3644 9.185192 GCAAGGCATAAAATGAAAGTACATATC 57.815 33.333 0.00 0.00 0.00 1.63
3443 3668 8.996024 TCATCATCGTAGTATTCAAGAACAAA 57.004 30.769 0.00 0.00 0.00 2.83
3444 3669 9.599866 TCATCATCGTAGTATTCAAGAACAAAT 57.400 29.630 0.00 0.00 0.00 2.32
3445 3670 9.642312 CATCATCGTAGTATTCAAGAACAAATG 57.358 33.333 0.00 0.00 0.00 2.32
3446 3671 8.771920 TCATCGTAGTATTCAAGAACAAATGT 57.228 30.769 0.00 0.00 0.00 2.71
3447 3672 9.863845 TCATCGTAGTATTCAAGAACAAATGTA 57.136 29.630 0.00 0.00 0.00 2.29
3450 3675 9.016623 TCGTAGTATTCAAGAACAAATGTATCG 57.983 33.333 0.00 0.00 0.00 2.92
3451 3676 9.016623 CGTAGTATTCAAGAACAAATGTATCGA 57.983 33.333 0.00 0.00 0.00 3.59
3454 3679 9.383519 AGTATTCAAGAACAAATGTATCGATGT 57.616 29.630 8.54 0.00 0.00 3.06
3455 3680 9.988350 GTATTCAAGAACAAATGTATCGATGTT 57.012 29.630 8.54 3.59 38.62 2.71
3456 3681 8.900511 ATTCAAGAACAAATGTATCGATGTTG 57.099 30.769 8.54 9.40 36.22 3.33
3457 3682 7.433708 TCAAGAACAAATGTATCGATGTTGT 57.566 32.000 8.54 10.01 36.22 3.32
3458 3683 7.870826 TCAAGAACAAATGTATCGATGTTGTT 58.129 30.769 21.24 21.24 43.23 2.83
3459 3684 8.349245 TCAAGAACAAATGTATCGATGTTGTTT 58.651 29.630 21.66 11.09 41.25 2.83
3460 3685 8.629986 CAAGAACAAATGTATCGATGTTGTTTC 58.370 33.333 21.66 16.95 41.25 2.78
3461 3686 7.305474 AGAACAAATGTATCGATGTTGTTTCC 58.695 34.615 21.66 14.74 41.25 3.13
3462 3687 5.627172 ACAAATGTATCGATGTTGTTTCCG 58.373 37.500 8.54 0.00 0.00 4.30
3463 3688 5.180492 ACAAATGTATCGATGTTGTTTCCGT 59.820 36.000 8.54 0.00 0.00 4.69
3464 3689 5.873179 AATGTATCGATGTTGTTTCCGTT 57.127 34.783 8.54 0.00 0.00 4.44
3465 3690 4.655440 TGTATCGATGTTGTTTCCGTTG 57.345 40.909 8.54 0.00 0.00 4.10
3466 3691 3.433957 TGTATCGATGTTGTTTCCGTTGG 59.566 43.478 8.54 0.00 0.00 3.77
3467 3692 1.956297 TCGATGTTGTTTCCGTTGGT 58.044 45.000 0.00 0.00 0.00 3.67
3468 3693 1.600013 TCGATGTTGTTTCCGTTGGTG 59.400 47.619 0.00 0.00 0.00 4.17
3469 3694 1.334599 CGATGTTGTTTCCGTTGGTGG 60.335 52.381 0.00 0.00 0.00 4.61
3470 3695 1.679153 GATGTTGTTTCCGTTGGTGGT 59.321 47.619 0.00 0.00 0.00 4.16
3471 3696 0.811915 TGTTGTTTCCGTTGGTGGTG 59.188 50.000 0.00 0.00 0.00 4.17
3472 3697 0.526739 GTTGTTTCCGTTGGTGGTGC 60.527 55.000 0.00 0.00 0.00 5.01
3473 3698 0.965866 TTGTTTCCGTTGGTGGTGCA 60.966 50.000 0.00 0.00 0.00 4.57
3474 3699 0.753479 TGTTTCCGTTGGTGGTGCAT 60.753 50.000 0.00 0.00 0.00 3.96
3475 3700 0.318614 GTTTCCGTTGGTGGTGCATG 60.319 55.000 0.00 0.00 0.00 4.06
3476 3701 0.466372 TTTCCGTTGGTGGTGCATGA 60.466 50.000 0.00 0.00 0.00 3.07
3477 3702 0.251121 TTCCGTTGGTGGTGCATGAT 60.251 50.000 0.00 0.00 0.00 2.45
3478 3703 0.959867 TCCGTTGGTGGTGCATGATG 60.960 55.000 0.00 0.00 0.00 3.07
3479 3704 1.243342 CCGTTGGTGGTGCATGATGT 61.243 55.000 0.00 0.00 0.00 3.06
3480 3705 1.447945 CGTTGGTGGTGCATGATGTA 58.552 50.000 0.00 0.00 0.00 2.29
3481 3706 2.016318 CGTTGGTGGTGCATGATGTAT 58.984 47.619 0.00 0.00 0.00 2.29
3494 3719 6.901887 GTGCATGATGTATTTTTCTAGTCACG 59.098 38.462 0.00 0.00 0.00 4.35
3498 3723 6.827641 TGATGTATTTTTCTAGTCACGCAAC 58.172 36.000 0.00 0.00 0.00 4.17
3506 3731 1.537814 TAGTCACGCAACGGTGGGAT 61.538 55.000 25.69 9.27 39.54 3.85
3511 3736 0.896923 ACGCAACGGTGGGATACTTA 59.103 50.000 25.69 0.00 40.06 2.24
3516 3741 4.134563 GCAACGGTGGGATACTTATCATT 58.865 43.478 0.90 0.00 34.40 2.57
3586 3811 7.554476 ACTTATGGAGCTAGAAAGTTGGATTTC 59.446 37.037 0.00 0.00 39.09 2.17
3592 3817 7.709613 GGAGCTAGAAAGTTGGATTTCGTAATA 59.290 37.037 0.00 0.00 42.73 0.98
3605 3830 7.554835 TGGATTTCGTAATAGTAAATGTTGCCT 59.445 33.333 0.00 0.00 0.00 4.75
3609 3834 5.644206 TCGTAATAGTAAATGTTGCCTTGCA 59.356 36.000 0.00 0.00 36.47 4.08
3628 3853 2.925563 GCATTGCACTAAAATGGTGAGC 59.074 45.455 3.15 0.00 35.88 4.26
3639 3864 1.708341 ATGGTGAGCAAACTTTGGCT 58.292 45.000 3.69 0.00 44.48 4.75
3652 3877 7.984617 AGCAAACTTTGGCTCTTTTGTAAATTA 59.015 29.630 3.69 0.00 34.76 1.40
3653 3878 8.773645 GCAAACTTTGGCTCTTTTGTAAATTAT 58.226 29.630 3.69 0.00 32.57 1.28
3706 3931 6.782988 TCCTCTTTATTATGGAGACTACCCAG 59.217 42.308 0.00 0.00 37.08 4.45
3711 3936 8.612486 TTTATTATGGAGACTACCCAGTTGTA 57.388 34.615 0.00 0.00 37.08 2.41
3723 3948 4.652822 ACCCAGTTGTAATGAAGGAGAAC 58.347 43.478 0.00 0.00 0.00 3.01
3724 3949 3.684788 CCCAGTTGTAATGAAGGAGAACG 59.315 47.826 0.00 0.00 0.00 3.95
3726 3951 3.125316 CAGTTGTAATGAAGGAGAACGCC 59.875 47.826 0.00 0.00 0.00 5.68
3763 3988 4.756084 AAATTTTCTCGAAGCCAGTCTG 57.244 40.909 0.00 0.00 0.00 3.51
3765 3990 3.685139 TTTTCTCGAAGCCAGTCTGAT 57.315 42.857 0.00 0.00 0.00 2.90
3766 3991 3.685139 TTTCTCGAAGCCAGTCTGATT 57.315 42.857 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 1.880601 CTCAAGCACGTCGCACTGAC 61.881 60.000 11.58 0.00 46.13 3.51
10 11 3.337889 GCACTCAAGCACGTCGCA 61.338 61.111 11.58 0.00 46.13 5.10
13 14 4.077188 GCCGCACTCAAGCACGTC 62.077 66.667 0.00 0.00 0.00 4.34
17 18 3.043713 CTTCGCCGCACTCAAGCA 61.044 61.111 0.00 0.00 0.00 3.91
47 48 1.750193 CTACCAATTGACCATGCCGT 58.250 50.000 7.12 0.00 0.00 5.68
95 96 3.964875 CACCGGTGCACAACTGCC 61.965 66.667 24.02 0.00 43.51 4.85
148 150 1.647346 CATGCTTTTGAATGCGCCAT 58.353 45.000 4.18 0.00 32.27 4.40
149 151 3.125200 CATGCTTTTGAATGCGCCA 57.875 47.368 4.18 0.00 32.27 5.69
186 188 1.559965 GCCCCTCTTTTCCCCTACGT 61.560 60.000 0.00 0.00 0.00 3.57
187 189 1.223763 GCCCCTCTTTTCCCCTACG 59.776 63.158 0.00 0.00 0.00 3.51
235 237 1.306642 TTGTCGTTGCCGTTGTTGGT 61.307 50.000 0.00 0.00 35.01 3.67
286 288 0.107459 CCTAGCTCACCCTCTTTGCC 60.107 60.000 0.00 0.00 0.00 4.52
290 292 0.618968 CCCACCTAGCTCACCCTCTT 60.619 60.000 0.00 0.00 0.00 2.85
303 305 4.994756 CGCCAAAAGCCCCCACCT 62.995 66.667 0.00 0.00 38.78 4.00
326 328 1.810755 CCAACTTTAAACCTCCTCGCC 59.189 52.381 0.00 0.00 0.00 5.54
329 331 3.154710 CCACCCAACTTTAAACCTCCTC 58.845 50.000 0.00 0.00 0.00 3.71
333 335 2.316108 CTGCCACCCAACTTTAAACCT 58.684 47.619 0.00 0.00 0.00 3.50
336 338 0.671251 CGCTGCCACCCAACTTTAAA 59.329 50.000 0.00 0.00 0.00 1.52
339 341 2.123897 ACGCTGCCACCCAACTTT 60.124 55.556 0.00 0.00 0.00 2.66
351 353 3.499737 GACCGAATGGCCACGCTG 61.500 66.667 8.16 1.44 39.70 5.18
352 354 3.665675 GAGACCGAATGGCCACGCT 62.666 63.158 8.16 0.94 39.70 5.07
394 396 3.214328 ACCCTCAAGAATGACACAACAC 58.786 45.455 0.00 0.00 0.00 3.32
397 399 4.009675 GCATACCCTCAAGAATGACACAA 58.990 43.478 0.00 0.00 0.00 3.33
400 402 2.846206 AGGCATACCCTCAAGAATGACA 59.154 45.455 0.00 0.00 41.21 3.58
404 406 1.496429 CCCAGGCATACCCTCAAGAAT 59.504 52.381 0.00 0.00 44.09 2.40
415 417 0.117140 ATCCGAGATCCCCAGGCATA 59.883 55.000 0.00 0.00 0.00 3.14
416 418 1.151943 ATCCGAGATCCCCAGGCAT 60.152 57.895 0.00 0.00 0.00 4.40
421 423 1.152247 CCTCCATCCGAGATCCCCA 60.152 63.158 0.00 0.00 41.63 4.96
434 436 1.483004 TCAGTTCGTTGTCAACCTCCA 59.517 47.619 10.12 0.00 0.00 3.86
438 440 1.597663 CCTGTCAGTTCGTTGTCAACC 59.402 52.381 10.12 0.00 0.00 3.77
440 442 2.276201 CACCTGTCAGTTCGTTGTCAA 58.724 47.619 0.00 0.00 0.00 3.18
496 498 0.674895 AAGATCCAACAGCTCACGCC 60.675 55.000 0.00 0.00 36.60 5.68
563 565 2.390777 TACGACCCAACCCTCCACCT 62.391 60.000 0.00 0.00 0.00 4.00
568 570 2.582978 GCCTACGACCCAACCCTC 59.417 66.667 0.00 0.00 0.00 4.30
717 722 6.323739 TCCCTTCTAGTTTCATGCAAGTTTTT 59.676 34.615 0.00 0.00 0.00 1.94
763 768 4.613437 AGGTTGCATCAGGTTGGAAATAT 58.387 39.130 0.00 0.00 0.00 1.28
766 771 2.364970 CAAGGTTGCATCAGGTTGGAAA 59.635 45.455 0.00 0.00 0.00 3.13
793 799 4.040217 TCAAAGCCCTGTTGCATAAAATGT 59.960 37.500 0.00 0.00 0.00 2.71
794 800 4.567971 TCAAAGCCCTGTTGCATAAAATG 58.432 39.130 0.00 0.00 0.00 2.32
795 801 4.888326 TCAAAGCCCTGTTGCATAAAAT 57.112 36.364 0.00 0.00 0.00 1.82
797 803 5.163426 CCATATCAAAGCCCTGTTGCATAAA 60.163 40.000 0.00 0.00 0.00 1.40
798 804 4.341806 CCATATCAAAGCCCTGTTGCATAA 59.658 41.667 0.00 0.00 0.00 1.90
799 805 3.890756 CCATATCAAAGCCCTGTTGCATA 59.109 43.478 0.00 0.00 0.00 3.14
892 898 9.531158 TTTCATATGCATACCATGATTCCAATA 57.469 29.630 8.99 0.00 35.34 1.90
931 937 9.554395 CCACAACCTAAAATTTTCAAATTAGGT 57.446 29.630 12.92 12.92 43.84 3.08
934 940 7.171678 CCGCCACAACCTAAAATTTTCAAATTA 59.828 33.333 6.72 0.00 37.62 1.40
952 958 3.252215 CACAAGAAAAGATACCGCCACAA 59.748 43.478 0.00 0.00 0.00 3.33
955 961 3.134574 ACACAAGAAAAGATACCGCCA 57.865 42.857 0.00 0.00 0.00 5.69
957 963 4.855531 ACAAACACAAGAAAAGATACCGC 58.144 39.130 0.00 0.00 0.00 5.68
1145 1152 6.409005 GGATTGATTTCTCCTCTTCCATCTGA 60.409 42.308 0.00 0.00 0.00 3.27
1375 1385 7.130303 GGCTAAAACCTACCGATATCATTTC 57.870 40.000 3.12 0.00 0.00 2.17
1386 1405 1.452651 GGCCCGGCTAAAACCTACC 60.453 63.158 9.86 0.00 0.00 3.18
1656 1710 8.465201 AGGATTTGATTAAGTGCTCAATTCTTC 58.535 33.333 9.54 0.00 34.52 2.87
1673 1727 2.880890 GCGGACATAGCAAGGATTTGAT 59.119 45.455 0.00 0.00 36.36 2.57
1684 1738 1.986378 CATAGTAAGCGCGGACATAGC 59.014 52.381 8.83 0.00 0.00 2.97
1695 1749 7.040340 TCCTGCAAGATACTAGACATAGTAAGC 60.040 40.741 0.00 3.54 45.37 3.09
2002 2065 8.648097 CGCTTATATTCTACGCATTTACATCTT 58.352 33.333 0.00 0.00 0.00 2.40
2003 2066 8.174484 CGCTTATATTCTACGCATTTACATCT 57.826 34.615 0.00 0.00 0.00 2.90
2015 2078 8.576936 AGTTAAGAAGTGCGCTTATATTCTAC 57.423 34.615 13.53 9.81 34.61 2.59
2034 2097 4.124238 TGGAAACAGACAACGGAGTTAAG 58.876 43.478 0.00 0.00 43.09 1.85
2154 2218 4.323028 CCGATACCAGCATCATATCCAAGT 60.323 45.833 0.00 0.00 0.00 3.16
2225 2289 1.001633 GCTCGTTTACAGAGTCCCCAA 59.998 52.381 0.00 0.00 37.99 4.12
2261 2325 6.205464 TGAGCTATGAGCCAATAAGCAATTAC 59.795 38.462 0.00 0.00 43.77 1.89
2392 2456 9.494271 ACTACTGCATTGATCGTTCATAATAAT 57.506 29.630 0.00 0.00 0.00 1.28
2460 2524 6.072286 AGCAGACCAATTATTCAAGACAACAG 60.072 38.462 0.00 0.00 0.00 3.16
2487 2551 9.912634 AAGATCGCATTCAGATTTTTCTTTTTA 57.087 25.926 0.00 0.00 0.00 1.52
2508 2572 5.505286 CACAGAATATCGGCAACAAAGATC 58.495 41.667 0.00 0.00 0.00 2.75
2553 2617 3.347958 ACAACACCAGTTTTGCGTATG 57.652 42.857 0.00 0.00 35.28 2.39
2563 2627 6.374333 GGACATATGAATGTTACAACACCAGT 59.626 38.462 10.38 0.00 46.49 4.00
2564 2628 6.183360 GGGACATATGAATGTTACAACACCAG 60.183 42.308 10.38 0.00 46.49 4.00
2566 2630 5.885912 AGGGACATATGAATGTTACAACACC 59.114 40.000 10.38 0.00 46.49 4.16
2570 2634 6.726379 TCCAAGGGACATATGAATGTTACAA 58.274 36.000 10.38 0.00 46.49 2.41
2614 2678 8.456471 GTGCTTTTAACGTCCTTAGGAAATATT 58.544 33.333 0.98 0.00 31.38 1.28
2617 2687 5.182570 GGTGCTTTTAACGTCCTTAGGAAAT 59.817 40.000 0.98 0.00 31.38 2.17
2643 2713 8.931775 TGGATATAACCGATTTCATATGAAACG 58.068 33.333 28.59 28.06 45.55 3.60
2709 2780 7.530426 AAAGATATTCATGCCAATAAGTCCC 57.470 36.000 0.00 0.00 0.00 4.46
2799 2870 2.616524 ACCTACCAGCCTGTGTAGAAA 58.383 47.619 17.00 0.00 37.26 2.52
2841 2912 2.894765 GCTGGCCCTGTAAAGGTAAAAA 59.105 45.455 0.00 0.00 0.00 1.94
2856 2927 7.119846 CCAACTAGTATAAAATAGATGCTGGCC 59.880 40.741 0.00 0.00 0.00 5.36
2857 2928 7.878127 TCCAACTAGTATAAAATAGATGCTGGC 59.122 37.037 0.00 0.00 0.00 4.85
2871 2942 6.487828 AGGCCACGTATATCCAACTAGTATA 58.512 40.000 5.01 0.00 0.00 1.47
2889 2960 0.250513 ATCCTCTTCGTCAAGGCCAC 59.749 55.000 5.01 0.00 32.37 5.01
2915 2986 7.554118 CCTAAAAAGCTTCTCTATTGGTGATCA 59.446 37.037 0.00 0.00 0.00 2.92
2952 3023 6.517605 ACCCTAAAAAGCTTTTATTCGCAAA 58.482 32.000 24.11 3.19 0.00 3.68
2955 3026 5.950883 AGACCCTAAAAAGCTTTTATTCGC 58.049 37.500 24.11 12.32 0.00 4.70
2957 3028 7.339721 AGGCTAGACCCTAAAAAGCTTTTATTC 59.660 37.037 24.11 14.98 40.58 1.75
2958 3029 7.182760 AGGCTAGACCCTAAAAAGCTTTTATT 58.817 34.615 24.11 12.60 40.58 1.40
2960 3031 6.135819 AGGCTAGACCCTAAAAAGCTTTTA 57.864 37.500 24.11 11.76 40.58 1.52
2961 3032 4.999310 AGGCTAGACCCTAAAAAGCTTTT 58.001 39.130 18.74 18.74 40.58 2.27
2963 3034 3.587506 TGAGGCTAGACCCTAAAAAGCTT 59.412 43.478 0.00 0.00 40.58 3.74
2964 3035 3.182152 TGAGGCTAGACCCTAAAAAGCT 58.818 45.455 0.00 0.00 40.58 3.74
2965 3036 3.629142 TGAGGCTAGACCCTAAAAAGC 57.371 47.619 0.00 0.00 40.58 3.51
2966 3037 4.906618 TGTTGAGGCTAGACCCTAAAAAG 58.093 43.478 0.00 0.00 40.58 2.27
2967 3038 4.986054 TGTTGAGGCTAGACCCTAAAAA 57.014 40.909 0.00 0.00 40.58 1.94
2968 3039 4.263331 CCTTGTTGAGGCTAGACCCTAAAA 60.263 45.833 0.00 0.00 39.09 1.52
2970 3041 2.838202 CCTTGTTGAGGCTAGACCCTAA 59.162 50.000 0.00 0.00 39.09 2.69
2972 3043 1.203313 TCCTTGTTGAGGCTAGACCCT 60.203 52.381 0.00 0.00 45.87 4.34
2973 3044 1.276622 TCCTTGTTGAGGCTAGACCC 58.723 55.000 0.00 0.00 45.87 4.46
2974 3045 2.911484 CATCCTTGTTGAGGCTAGACC 58.089 52.381 0.00 0.00 45.87 3.85
2975 3046 2.284190 GCATCCTTGTTGAGGCTAGAC 58.716 52.381 0.00 0.00 45.87 2.59
2976 3047 1.210478 GGCATCCTTGTTGAGGCTAGA 59.790 52.381 0.00 0.00 45.87 2.43
2977 3048 1.065199 TGGCATCCTTGTTGAGGCTAG 60.065 52.381 0.00 0.00 45.87 3.42
2978 3049 0.991146 TGGCATCCTTGTTGAGGCTA 59.009 50.000 0.00 0.00 45.87 3.93
2979 3050 0.333993 ATGGCATCCTTGTTGAGGCT 59.666 50.000 0.00 0.00 45.87 4.58
2980 3051 1.188863 AATGGCATCCTTGTTGAGGC 58.811 50.000 0.00 0.00 45.87 4.70
3002 3073 8.379902 GGCGTTGGATGAAATGTTTAAAATAAG 58.620 33.333 0.00 0.00 0.00 1.73
3011 3082 4.057432 CAAAAGGCGTTGGATGAAATGTT 58.943 39.130 0.00 0.00 0.00 2.71
3024 3095 1.137872 TGGCACAAATTCAAAAGGCGT 59.862 42.857 0.00 0.00 31.92 5.68
3025 3096 1.863267 TGGCACAAATTCAAAAGGCG 58.137 45.000 0.00 0.00 31.92 5.52
3103 3282 4.324267 TCTCTCAGACACGTTATCTGTCA 58.676 43.478 20.67 11.09 43.47 3.58
3142 3321 5.596772 GGCCCTAAAAATTCTATTGGCACTA 59.403 40.000 0.00 0.00 39.38 2.74
3147 3334 6.790232 TTCAGGCCCTAAAAATTCTATTGG 57.210 37.500 0.00 0.00 0.00 3.16
3149 3336 9.147732 CCTATTTCAGGCCCTAAAAATTCTATT 57.852 33.333 0.00 0.00 37.70 1.73
3226 3413 4.007659 GGTTGTAGTTTCAGTACCATGGG 58.992 47.826 18.09 0.00 0.00 4.00
3228 3415 7.414098 GCTTATGGTTGTAGTTTCAGTACCATG 60.414 40.741 13.30 1.17 43.95 3.66
3255 3448 8.608844 ACACAGAAGAACTTCACTAATAAAGG 57.391 34.615 15.43 0.00 41.84 3.11
3267 3460 6.604735 GTGTTGACATACACAGAAGAACTT 57.395 37.500 12.92 0.00 46.00 2.66
3297 3490 9.900710 TGAACAATTACATACGCACTTTTAAAT 57.099 25.926 0.00 0.00 0.00 1.40
3304 3497 7.589395 TCAAAATGAACAATTACATACGCACT 58.411 30.769 0.00 0.00 0.00 4.40
3305 3498 7.789341 TCAAAATGAACAATTACATACGCAC 57.211 32.000 0.00 0.00 0.00 5.34
3306 3499 8.803201 TTTCAAAATGAACAATTACATACGCA 57.197 26.923 0.00 0.00 35.89 5.24
3334 3556 5.820947 ACCACGAAATCCAATAATACCTGAC 59.179 40.000 0.00 0.00 0.00 3.51
3338 3560 7.067251 TGGTAAACCACGAAATCCAATAATACC 59.933 37.037 0.00 0.00 42.01 2.73
3368 3593 9.237846 GCTGCCAAGTTTAGATTTTTATACATC 57.762 33.333 0.00 0.00 0.00 3.06
3369 3594 8.748412 TGCTGCCAAGTTTAGATTTTTATACAT 58.252 29.630 0.00 0.00 0.00 2.29
3374 3599 6.454795 CCTTGCTGCCAAGTTTAGATTTTTA 58.545 36.000 0.00 0.00 45.57 1.52
3383 3608 1.631405 TATGCCTTGCTGCCAAGTTT 58.369 45.000 0.00 0.00 45.57 2.66
3387 3612 2.566279 TCATTTTATGCCTTGCTGCCAA 59.434 40.909 0.00 0.00 0.00 4.52
3388 3613 2.177734 TCATTTTATGCCTTGCTGCCA 58.822 42.857 0.00 0.00 0.00 4.92
3389 3614 2.965572 TCATTTTATGCCTTGCTGCC 57.034 45.000 0.00 0.00 0.00 4.85
3390 3615 4.248058 ACTTTCATTTTATGCCTTGCTGC 58.752 39.130 0.00 0.00 0.00 5.25
3391 3616 6.389091 TGTACTTTCATTTTATGCCTTGCTG 58.611 36.000 0.00 0.00 0.00 4.41
3392 3617 6.588719 TGTACTTTCATTTTATGCCTTGCT 57.411 33.333 0.00 0.00 0.00 3.91
3393 3618 9.185192 GATATGTACTTTCATTTTATGCCTTGC 57.815 33.333 0.00 0.00 0.00 4.01
3417 3642 9.599866 TTTGTTCTTGAATACTACGATGATGAT 57.400 29.630 0.00 0.00 0.00 2.45
3418 3643 8.996024 TTTGTTCTTGAATACTACGATGATGA 57.004 30.769 0.00 0.00 0.00 2.92
3419 3644 9.642312 CATTTGTTCTTGAATACTACGATGATG 57.358 33.333 0.00 0.00 0.00 3.07
3420 3645 9.383519 ACATTTGTTCTTGAATACTACGATGAT 57.616 29.630 0.00 0.00 0.00 2.45
3421 3646 8.771920 ACATTTGTTCTTGAATACTACGATGA 57.228 30.769 0.00 0.00 0.00 2.92
3424 3649 9.016623 CGATACATTTGTTCTTGAATACTACGA 57.983 33.333 0.00 0.00 0.00 3.43
3425 3650 9.016623 TCGATACATTTGTTCTTGAATACTACG 57.983 33.333 0.00 0.00 0.00 3.51
3428 3653 9.383519 ACATCGATACATTTGTTCTTGAATACT 57.616 29.630 0.00 0.00 0.00 2.12
3429 3654 9.988350 AACATCGATACATTTGTTCTTGAATAC 57.012 29.630 0.00 0.00 0.00 1.89
3430 3655 9.986833 CAACATCGATACATTTGTTCTTGAATA 57.013 29.630 0.00 0.00 30.23 1.75
3431 3656 8.514594 ACAACATCGATACATTTGTTCTTGAAT 58.485 29.630 0.00 0.00 30.23 2.57
3432 3657 7.870826 ACAACATCGATACATTTGTTCTTGAA 58.129 30.769 0.00 0.00 30.23 2.69
3433 3658 7.433708 ACAACATCGATACATTTGTTCTTGA 57.566 32.000 0.00 0.00 30.23 3.02
3434 3659 8.506140 AAACAACATCGATACATTTGTTCTTG 57.494 30.769 18.98 5.57 39.00 3.02
3435 3660 7.807907 GGAAACAACATCGATACATTTGTTCTT 59.192 33.333 18.98 10.28 39.00 2.52
3436 3661 7.305474 GGAAACAACATCGATACATTTGTTCT 58.695 34.615 18.98 12.88 39.00 3.01
3437 3662 6.248420 CGGAAACAACATCGATACATTTGTTC 59.752 38.462 18.98 14.40 39.00 3.18
3438 3663 6.083630 CGGAAACAACATCGATACATTTGTT 58.916 36.000 15.50 15.50 41.09 2.83
3439 3664 5.180492 ACGGAAACAACATCGATACATTTGT 59.820 36.000 0.00 2.93 31.74 2.83
3440 3665 5.627172 ACGGAAACAACATCGATACATTTG 58.373 37.500 0.00 2.28 0.00 2.32
3441 3666 5.873179 ACGGAAACAACATCGATACATTT 57.127 34.783 0.00 0.00 0.00 2.32
3442 3667 5.391523 CCAACGGAAACAACATCGATACATT 60.392 40.000 0.00 0.00 0.00 2.71
3443 3668 4.094294 CCAACGGAAACAACATCGATACAT 59.906 41.667 0.00 0.00 0.00 2.29
3444 3669 3.433957 CCAACGGAAACAACATCGATACA 59.566 43.478 0.00 0.00 0.00 2.29
3445 3670 3.434299 ACCAACGGAAACAACATCGATAC 59.566 43.478 0.00 0.00 0.00 2.24
3446 3671 3.433957 CACCAACGGAAACAACATCGATA 59.566 43.478 0.00 0.00 0.00 2.92
3447 3672 2.225491 CACCAACGGAAACAACATCGAT 59.775 45.455 0.00 0.00 0.00 3.59
3448 3673 1.600013 CACCAACGGAAACAACATCGA 59.400 47.619 0.00 0.00 0.00 3.59
3449 3674 1.334599 CCACCAACGGAAACAACATCG 60.335 52.381 0.00 0.00 0.00 3.84
3450 3675 1.679153 ACCACCAACGGAAACAACATC 59.321 47.619 0.00 0.00 0.00 3.06
3451 3676 1.407258 CACCACCAACGGAAACAACAT 59.593 47.619 0.00 0.00 0.00 2.71
3452 3677 0.811915 CACCACCAACGGAAACAACA 59.188 50.000 0.00 0.00 0.00 3.33
3453 3678 0.526739 GCACCACCAACGGAAACAAC 60.527 55.000 0.00 0.00 0.00 3.32
3454 3679 0.965866 TGCACCACCAACGGAAACAA 60.966 50.000 0.00 0.00 0.00 2.83
3455 3680 0.753479 ATGCACCACCAACGGAAACA 60.753 50.000 0.00 0.00 0.00 2.83
3456 3681 0.318614 CATGCACCACCAACGGAAAC 60.319 55.000 0.00 0.00 0.00 2.78
3457 3682 0.466372 TCATGCACCACCAACGGAAA 60.466 50.000 0.00 0.00 0.00 3.13
3458 3683 0.251121 ATCATGCACCACCAACGGAA 60.251 50.000 0.00 0.00 0.00 4.30
3459 3684 0.959867 CATCATGCACCACCAACGGA 60.960 55.000 0.00 0.00 0.00 4.69
3460 3685 1.243342 ACATCATGCACCACCAACGG 61.243 55.000 0.00 0.00 0.00 4.44
3461 3686 1.447945 TACATCATGCACCACCAACG 58.552 50.000 0.00 0.00 0.00 4.10
3462 3687 4.454728 AAATACATCATGCACCACCAAC 57.545 40.909 0.00 0.00 0.00 3.77
3463 3688 5.245751 AGAAAAATACATCATGCACCACCAA 59.754 36.000 0.00 0.00 0.00 3.67
3464 3689 4.771577 AGAAAAATACATCATGCACCACCA 59.228 37.500 0.00 0.00 0.00 4.17
3465 3690 5.329035 AGAAAAATACATCATGCACCACC 57.671 39.130 0.00 0.00 0.00 4.61
3466 3691 7.088589 ACTAGAAAAATACATCATGCACCAC 57.911 36.000 0.00 0.00 0.00 4.16
3467 3692 6.883756 TGACTAGAAAAATACATCATGCACCA 59.116 34.615 0.00 0.00 0.00 4.17
3468 3693 7.189512 GTGACTAGAAAAATACATCATGCACC 58.810 38.462 0.00 0.00 0.00 5.01
3469 3694 6.901887 CGTGACTAGAAAAATACATCATGCAC 59.098 38.462 0.00 0.00 0.00 4.57
3470 3695 6.456853 GCGTGACTAGAAAAATACATCATGCA 60.457 38.462 9.93 0.00 43.71 3.96
3471 3696 5.904080 GCGTGACTAGAAAAATACATCATGC 59.096 40.000 0.00 0.00 39.58 4.06
3472 3697 7.003939 TGCGTGACTAGAAAAATACATCATG 57.996 36.000 0.00 0.00 0.00 3.07
3473 3698 7.464358 GTTGCGTGACTAGAAAAATACATCAT 58.536 34.615 0.00 0.00 0.00 2.45
3474 3699 6.400621 CGTTGCGTGACTAGAAAAATACATCA 60.401 38.462 0.00 0.00 0.00 3.07
3475 3700 5.952064 CGTTGCGTGACTAGAAAAATACATC 59.048 40.000 0.00 0.00 0.00 3.06
3476 3701 5.163893 CCGTTGCGTGACTAGAAAAATACAT 60.164 40.000 0.00 0.00 0.00 2.29
3477 3702 4.150980 CCGTTGCGTGACTAGAAAAATACA 59.849 41.667 0.00 0.00 0.00 2.29
3478 3703 4.151157 ACCGTTGCGTGACTAGAAAAATAC 59.849 41.667 0.00 0.00 0.00 1.89
3479 3704 4.150980 CACCGTTGCGTGACTAGAAAAATA 59.849 41.667 0.00 0.00 35.68 1.40
3480 3705 3.059188 CACCGTTGCGTGACTAGAAAAAT 60.059 43.478 0.00 0.00 35.68 1.82
3481 3706 2.285756 CACCGTTGCGTGACTAGAAAAA 59.714 45.455 0.00 0.00 35.68 1.94
3494 3719 3.188159 TGATAAGTATCCCACCGTTGC 57.812 47.619 0.00 0.00 31.71 4.17
3550 3775 7.900782 TCTAGCTCCATAAGTTTACACAAAC 57.099 36.000 0.00 0.00 43.71 2.93
3551 3776 8.911918 TTTCTAGCTCCATAAGTTTACACAAA 57.088 30.769 0.00 0.00 0.00 2.83
3552 3777 8.154856 ACTTTCTAGCTCCATAAGTTTACACAA 58.845 33.333 0.00 0.00 0.00 3.33
3553 3778 7.676947 ACTTTCTAGCTCCATAAGTTTACACA 58.323 34.615 0.00 0.00 0.00 3.72
3554 3779 8.443937 CAACTTTCTAGCTCCATAAGTTTACAC 58.556 37.037 11.31 0.00 37.04 2.90
3555 3780 7.606456 CCAACTTTCTAGCTCCATAAGTTTACA 59.394 37.037 11.31 0.00 37.04 2.41
3556 3781 7.822822 TCCAACTTTCTAGCTCCATAAGTTTAC 59.177 37.037 11.31 0.00 37.04 2.01
3557 3782 7.913789 TCCAACTTTCTAGCTCCATAAGTTTA 58.086 34.615 11.31 3.86 37.04 2.01
3558 3783 6.779860 TCCAACTTTCTAGCTCCATAAGTTT 58.220 36.000 11.31 0.00 37.04 2.66
3559 3784 6.374417 TCCAACTTTCTAGCTCCATAAGTT 57.626 37.500 0.00 0.00 39.03 2.66
3560 3785 6.567602 ATCCAACTTTCTAGCTCCATAAGT 57.432 37.500 0.00 0.00 0.00 2.24
3561 3786 7.254590 CGAAATCCAACTTTCTAGCTCCATAAG 60.255 40.741 0.00 0.00 33.80 1.73
3567 3792 6.963049 TTACGAAATCCAACTTTCTAGCTC 57.037 37.500 0.00 0.00 33.80 4.09
3569 3794 8.421673 ACTATTACGAAATCCAACTTTCTAGC 57.578 34.615 0.00 0.00 33.80 3.42
3586 3811 5.874831 TGCAAGGCAACATTTACTATTACG 58.125 37.500 0.00 0.00 34.76 3.18
3592 3817 3.244146 TGCAATGCAAGGCAACATTTACT 60.244 39.130 5.01 0.00 43.62 2.24
3605 3830 4.558178 CTCACCATTTTAGTGCAATGCAA 58.442 39.130 10.44 0.00 41.47 4.08
3609 3834 4.870123 TTGCTCACCATTTTAGTGCAAT 57.130 36.364 0.00 0.00 36.99 3.56
3679 3904 7.794683 TGGGTAGTCTCCATAATAAAGAGGATT 59.205 37.037 0.00 0.00 0.00 3.01
3687 3912 8.612486 TTACAACTGGGTAGTCTCCATAATAA 57.388 34.615 0.00 0.00 35.69 1.40
3706 3931 2.093783 CGGCGTTCTCCTTCATTACAAC 59.906 50.000 0.00 0.00 0.00 3.32
3711 3936 1.745489 GCCGGCGTTCTCCTTCATT 60.745 57.895 12.58 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.