Multiple sequence alignment - TraesCS6B01G212300

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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 TraesCS6B01G212300 chr6B 100.000 3305 0 0 1 3305 280367416 280364112 0.000000e+00 6104.0
1 TraesCS6B01G212300 chr6D 96.402 1723 53 3 649 2366 157441197 157439479 0.000000e+00 2830.0
2 TraesCS6B01G212300 chr6D 97.682 647 14 1 1 647 157442483 157441838 0.000000e+00 1110.0
3 TraesCS6B01G212300 chr6D 94.531 512 12 7 2435 2940 157439485 157438984 0.000000e+00 776.0
4 TraesCS6B01G212300 chr6D 78.764 259 50 4 3036 3289 13966326 13966068 5.670000e-38 169.0
5 TraesCS6B01G212300 chr7B 79.733 824 159 8 830 1649 663117886 663117067 1.020000e-164 590.0
6 TraesCS6B01G212300 chr7B 78.627 903 179 10 751 1643 512697378 512698276 1.320000e-163 586.0
7 TraesCS6B01G212300 chr7B 77.364 994 207 15 662 1643 512709849 512710836 1.030000e-159 573.0
8 TraesCS6B01G212300 chr7B 76.963 382 74 9 1895 2269 512698467 512698841 4.320000e-49 206.0
9 TraesCS6B01G212300 chr6A 87.963 324 38 1 2969 3291 451417870 451417547 6.690000e-102 381.0
10 TraesCS6B01G212300 chr2D 86.269 335 26 7 2959 3291 73124648 73124332 2.440000e-91 346.0
11 TraesCS6B01G212300 chr2A 85.455 330 44 4 2963 3290 564978383 564978710 1.140000e-89 340.0
12 TraesCS6B01G212300 chr1A 84.643 280 42 1 2981 3259 278678655 278678934 9.030000e-71 278.0
13 TraesCS6B01G212300 chr1A 87.330 221 27 1 3071 3291 550645905 550645686 5.470000e-63 252.0
14 TraesCS6B01G212300 chr7D 83.667 300 36 4 2993 3291 34475512 34475799 1.510000e-68 270.0
15 TraesCS6B01G212300 chr7D 90.270 185 17 1 3107 3291 3077266 3077449 1.190000e-59 241.0
16 TraesCS6B01G212300 chr5D 89.560 182 18 1 3086 3267 550945078 550944898 2.570000e-56 230.0
17 TraesCS6B01G212300 chr5D 84.314 102 6 2 2959 3050 550945173 550945072 1.260000e-14 91.6


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 TraesCS6B01G212300 chr6B 280364112 280367416 3304 True 6104 6104 100.000 1 3305 1 chr6B.!!$R1 3304
1 TraesCS6B01G212300 chr6D 157438984 157442483 3499 True 1572 2830 96.205 1 2940 3 chr6D.!!$R2 2939
2 TraesCS6B01G212300 chr7B 663117067 663117886 819 True 590 590 79.733 830 1649 1 chr7B.!!$R1 819
3 TraesCS6B01G212300 chr7B 512709849 512710836 987 False 573 573 77.364 662 1643 1 chr7B.!!$F1 981
4 TraesCS6B01G212300 chr7B 512697378 512698841 1463 False 396 586 77.795 751 2269 2 chr7B.!!$F2 1518

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
41 42 1.002274 AGGGAGCCTACCACCTCTG 59.998 63.158 0.00 0.0 28.47 3.35 F
843 1489 1.208706 TCACCGGAAATGATGGCCTA 58.791 50.000 9.46 0.0 0.00 3.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1230 1878 0.865218 GAGCGCATCTCAGTGTCTCG 60.865 60.0 11.47 0.0 41.51 4.04 R
2437 3097 0.106519 AGCCTGGAAACTGCTGTGTT 60.107 50.0 0.00 0.0 37.67 3.32 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 1.002274 AGGGAGCCTACCACCTCTG 59.998 63.158 0.00 0.00 28.47 3.35
44 45 1.553690 GGAGCCTACCACCTCTGCAA 61.554 60.000 0.00 0.00 0.00 4.08
98 99 2.907910 CGAACAGCATCAAAGGAAGG 57.092 50.000 0.00 0.00 0.00 3.46
111 112 1.454663 GGAAGGATCCCTGCTTGGC 60.455 63.158 8.55 0.00 40.10 4.52
242 243 3.730715 CGCAAAACAATCTTTCAGGTCAC 59.269 43.478 0.00 0.00 0.00 3.67
261 262 3.332187 TCACATACCACATTCCCTTGGAA 59.668 43.478 0.00 0.00 46.39 3.53
275 276 1.547372 CTTGGAAATCTTGGTGCCCTG 59.453 52.381 0.00 0.00 0.00 4.45
359 360 4.873746 TTCCGCTCTTGAAGATATAGGG 57.126 45.455 0.00 0.00 0.00 3.53
398 399 5.368523 TCTTAGTGGGTCTTTTCCTCTTGAA 59.631 40.000 0.00 0.00 31.49 2.69
489 490 2.578786 CATCCATGTGCAATGCCTCTA 58.421 47.619 1.53 0.00 0.00 2.43
549 550 5.010922 TCAGGTGAAATTCCCAATTGTCTTG 59.989 40.000 4.43 0.00 0.00 3.02
647 648 4.122046 GCTTTTTGACCAGCTTGACAAAT 58.878 39.130 14.28 0.00 33.38 2.32
813 1453 1.217882 GGGTATTCCTCAATGCGACG 58.782 55.000 0.00 0.00 0.00 5.12
843 1489 1.208706 TCACCGGAAATGATGGCCTA 58.791 50.000 9.46 0.00 0.00 3.93
856 1502 2.190398 TGGCCTATGTGGTGGTATCT 57.810 50.000 3.32 0.00 38.35 1.98
863 1509 5.246203 GCCTATGTGGTGGTATCTCTCAATA 59.754 44.000 0.00 0.00 38.35 1.90
979 1627 7.706607 TCACATTAGTATCTGCACTGTTCATAC 59.293 37.037 0.00 0.00 0.00 2.39
985 1633 7.881142 AGTATCTGCACTGTTCATACTCTATC 58.119 38.462 0.00 0.00 0.00 2.08
1094 1742 1.864565 ACAAATGGTTTTGCTTCCGC 58.135 45.000 0.00 0.00 45.01 5.54
1103 1751 1.452145 TTTGCTTCCGCCAACCTCAC 61.452 55.000 0.00 0.00 34.43 3.51
1109 1757 2.743718 CGCCAACCTCACTGGAGT 59.256 61.111 0.00 0.00 39.64 3.85
1556 2204 3.029320 TGCTCATGTTGGTGATTTTGC 57.971 42.857 0.00 0.00 0.00 3.68
1562 2210 1.139163 GTTGGTGATTTTGCGCTTGG 58.861 50.000 9.73 0.00 0.00 3.61
1574 2222 2.778299 TGCGCTTGGAAGATTTGTACT 58.222 42.857 9.73 0.00 0.00 2.73
1629 2277 6.817765 TCAATGAGAGGAACAATTGGTTAC 57.182 37.500 10.83 0.46 40.63 2.50
1650 2298 2.328099 CGCTCCAGGTGCAGTTTCC 61.328 63.158 13.92 0.00 0.00 3.13
1651 2299 1.228245 GCTCCAGGTGCAGTTTCCA 60.228 57.895 8.73 0.00 0.00 3.53
1655 2312 2.629617 CTCCAGGTGCAGTTTCCAAATT 59.370 45.455 0.00 0.00 0.00 1.82
1691 2348 1.743252 GTCCAGAAAGCAGGCTCCG 60.743 63.158 0.00 0.00 0.00 4.63
1699 2356 2.215942 AAGCAGGCTCCGGTAAAAAT 57.784 45.000 0.00 0.00 0.00 1.82
1700 2357 2.215942 AGCAGGCTCCGGTAAAAATT 57.784 45.000 0.00 0.00 0.00 1.82
1701 2358 2.525368 AGCAGGCTCCGGTAAAAATTT 58.475 42.857 0.00 0.00 0.00 1.82
1707 2364 6.695713 GCAGGCTCCGGTAAAAATTTAATTAG 59.304 38.462 0.00 0.00 0.00 1.73
2108 2768 6.683974 ACCAGAGATGGAAAATGATAAACG 57.316 37.500 0.31 0.00 0.00 3.60
2147 2807 4.454728 ACAAGAGCAGAGATCTGAGAAC 57.545 45.455 13.98 1.85 46.59 3.01
2326 2986 1.800805 CGTGTGGAGATCAGCAAGTT 58.199 50.000 0.00 0.00 0.00 2.66
2342 3002 0.754472 AGTTGTTGCAAGCTGCCATT 59.246 45.000 0.00 0.00 44.23 3.16
2366 3026 2.276732 ATCCATCCCGGCATTTACAG 57.723 50.000 0.00 0.00 33.14 2.74
2367 3027 1.208706 TCCATCCCGGCATTTACAGA 58.791 50.000 0.00 0.00 33.14 3.41
2368 3028 1.562008 TCCATCCCGGCATTTACAGAA 59.438 47.619 0.00 0.00 33.14 3.02
2369 3029 1.949525 CCATCCCGGCATTTACAGAAG 59.050 52.381 0.00 0.00 0.00 2.85
2370 3030 2.421388 CCATCCCGGCATTTACAGAAGA 60.421 50.000 0.00 0.00 0.00 2.87
2371 3031 2.396590 TCCCGGCATTTACAGAAGAC 57.603 50.000 0.00 0.00 0.00 3.01
2372 3032 1.906574 TCCCGGCATTTACAGAAGACT 59.093 47.619 0.00 0.00 0.00 3.24
2373 3033 2.093658 TCCCGGCATTTACAGAAGACTC 60.094 50.000 0.00 0.00 0.00 3.36
2374 3034 2.354704 CCCGGCATTTACAGAAGACTCA 60.355 50.000 0.00 0.00 0.00 3.41
2375 3035 3.334691 CCGGCATTTACAGAAGACTCAA 58.665 45.455 0.00 0.00 0.00 3.02
2376 3036 3.941483 CCGGCATTTACAGAAGACTCAAT 59.059 43.478 0.00 0.00 0.00 2.57
2377 3037 5.116180 CCGGCATTTACAGAAGACTCAATA 58.884 41.667 0.00 0.00 0.00 1.90
2378 3038 5.584649 CCGGCATTTACAGAAGACTCAATAA 59.415 40.000 0.00 0.00 0.00 1.40
2379 3039 6.093495 CCGGCATTTACAGAAGACTCAATAAA 59.907 38.462 0.00 0.00 0.00 1.40
2380 3040 7.361713 CCGGCATTTACAGAAGACTCAATAAAA 60.362 37.037 0.00 0.00 0.00 1.52
2381 3041 7.693951 CGGCATTTACAGAAGACTCAATAAAAG 59.306 37.037 0.00 0.00 0.00 2.27
2382 3042 8.730680 GGCATTTACAGAAGACTCAATAAAAGA 58.269 33.333 0.00 0.00 0.00 2.52
2400 3060 9.546428 AATAAAAGATTGTAATAATTGGCTGGC 57.454 29.630 0.00 0.00 0.00 4.85
2401 3061 6.543430 AAAGATTGTAATAATTGGCTGGCA 57.457 33.333 0.00 0.00 0.00 4.92
2402 3062 6.736110 AAGATTGTAATAATTGGCTGGCAT 57.264 33.333 4.22 0.00 0.00 4.40
2403 3063 6.736110 AGATTGTAATAATTGGCTGGCATT 57.264 33.333 4.22 0.00 0.00 3.56
2404 3064 6.518493 AGATTGTAATAATTGGCTGGCATTG 58.482 36.000 4.22 0.00 0.00 2.82
2405 3065 5.674052 TTGTAATAATTGGCTGGCATTGT 57.326 34.783 4.22 0.00 0.00 2.71
2406 3066 5.261209 TGTAATAATTGGCTGGCATTGTC 57.739 39.130 4.22 0.00 0.00 3.18
2407 3067 4.708909 TGTAATAATTGGCTGGCATTGTCA 59.291 37.500 4.22 0.00 0.00 3.58
2408 3068 4.822685 AATAATTGGCTGGCATTGTCAA 57.177 36.364 4.22 0.00 33.39 3.18
2409 3069 4.822685 ATAATTGGCTGGCATTGTCAAA 57.177 36.364 4.22 0.00 32.58 2.69
2410 3070 3.706600 AATTGGCTGGCATTGTCAAAT 57.293 38.095 4.22 0.00 32.58 2.32
2411 3071 2.459060 TTGGCTGGCATTGTCAAATG 57.541 45.000 4.22 0.00 45.13 2.32
2412 3072 1.340088 TGGCTGGCATTGTCAAATGT 58.660 45.000 0.00 0.00 44.34 2.71
2413 3073 1.693062 TGGCTGGCATTGTCAAATGTT 59.307 42.857 0.00 0.00 44.34 2.71
2414 3074 2.288948 TGGCTGGCATTGTCAAATGTTC 60.289 45.455 0.00 0.00 44.34 3.18
2415 3075 2.340337 GCTGGCATTGTCAAATGTTCC 58.660 47.619 0.00 0.00 44.34 3.62
2416 3076 2.932187 GCTGGCATTGTCAAATGTTCCC 60.932 50.000 0.00 0.00 44.34 3.97
2417 3077 2.299582 CTGGCATTGTCAAATGTTCCCA 59.700 45.455 0.00 0.00 44.34 4.37
2418 3078 2.905085 TGGCATTGTCAAATGTTCCCAT 59.095 40.909 0.00 0.00 44.34 4.00
2419 3079 3.327172 TGGCATTGTCAAATGTTCCCATT 59.673 39.130 0.00 0.00 44.34 3.16
2421 3081 4.761227 GGCATTGTCAAATGTTCCCATTTT 59.239 37.500 0.00 0.00 46.61 1.82
2422 3082 5.106594 GGCATTGTCAAATGTTCCCATTTTC 60.107 40.000 0.00 0.00 46.61 2.29
2423 3083 5.106594 GCATTGTCAAATGTTCCCATTTTCC 60.107 40.000 0.00 0.00 46.61 3.13
2424 3084 4.615588 TGTCAAATGTTCCCATTTTCCC 57.384 40.909 0.00 0.00 46.61 3.97
2425 3085 3.969976 TGTCAAATGTTCCCATTTTCCCA 59.030 39.130 0.00 0.00 46.61 4.37
2426 3086 4.410228 TGTCAAATGTTCCCATTTTCCCAA 59.590 37.500 0.00 0.00 46.61 4.12
2427 3087 5.072872 TGTCAAATGTTCCCATTTTCCCAAT 59.927 36.000 0.00 0.00 46.61 3.16
2428 3088 5.412286 GTCAAATGTTCCCATTTTCCCAATG 59.588 40.000 0.00 0.00 46.61 2.82
2429 3089 5.072872 TCAAATGTTCCCATTTTCCCAATGT 59.927 36.000 0.00 0.00 46.61 2.71
2430 3090 4.556592 ATGTTCCCATTTTCCCAATGTG 57.443 40.909 0.00 0.00 0.00 3.21
2431 3091 2.038295 TGTTCCCATTTTCCCAATGTGC 59.962 45.455 0.00 0.00 0.00 4.57
2432 3092 2.302733 GTTCCCATTTTCCCAATGTGCT 59.697 45.455 0.00 0.00 0.00 4.40
2433 3093 3.464720 TCCCATTTTCCCAATGTGCTA 57.535 42.857 0.00 0.00 0.00 3.49
2434 3094 3.784178 TCCCATTTTCCCAATGTGCTAA 58.216 40.909 0.00 0.00 0.00 3.09
2435 3095 4.360889 TCCCATTTTCCCAATGTGCTAAT 58.639 39.130 0.00 0.00 0.00 1.73
2436 3096 4.782156 TCCCATTTTCCCAATGTGCTAATT 59.218 37.500 0.00 0.00 0.00 1.40
2437 3097 5.960811 TCCCATTTTCCCAATGTGCTAATTA 59.039 36.000 0.00 0.00 0.00 1.40
2438 3098 6.441924 TCCCATTTTCCCAATGTGCTAATTAA 59.558 34.615 0.00 0.00 0.00 1.40
2439 3099 6.538381 CCCATTTTCCCAATGTGCTAATTAAC 59.462 38.462 0.00 0.00 0.00 2.01
2440 3100 7.102346 CCATTTTCCCAATGTGCTAATTAACA 58.898 34.615 0.00 0.00 0.00 2.41
2471 3131 4.040755 TCCAGGCTTCCTTATTTAGAGCT 58.959 43.478 0.00 0.00 33.96 4.09
2501 3163 5.875359 GGCTTATATATTAGTCACAGCCACC 59.125 44.000 11.34 0.00 44.29 4.61
2559 3221 1.838112 AAGTGTGTGGGTATGGCATG 58.162 50.000 10.98 0.00 0.00 4.06
2573 3235 3.084536 TGGCATGAGCAATAAAGTGGA 57.915 42.857 0.00 0.00 44.61 4.02
2702 3365 4.271696 TGGTGTAGATCCAGACAAAGTG 57.728 45.455 0.00 0.00 0.00 3.16
2725 3388 2.440409 ACTCTGCAATAACCAAGCTGG 58.560 47.619 0.00 0.00 45.02 4.85
2736 3399 0.896940 CCAAGCTGGGATGCACAACT 60.897 55.000 0.00 0.00 32.67 3.16
2755 3419 7.305474 CACAACTTTGGTAACTTGGTATCATC 58.695 38.462 0.00 0.00 37.61 2.92
2780 3444 3.710209 AACTATTGCCTGCAGAGAGTT 57.290 42.857 17.39 11.60 0.00 3.01
2805 3470 8.616377 TTATAATAAAGCATAAACGCGCAAAA 57.384 26.923 5.73 0.00 36.85 2.44
2806 3471 4.816277 ATAAAGCATAAACGCGCAAAAC 57.184 36.364 5.73 0.00 36.85 2.43
2807 3472 2.415697 AAGCATAAACGCGCAAAACT 57.584 40.000 5.73 0.00 36.85 2.66
2808 3473 2.415697 AGCATAAACGCGCAAAACTT 57.584 40.000 5.73 0.00 36.85 2.66
2809 3474 2.738135 AGCATAAACGCGCAAAACTTT 58.262 38.095 5.73 0.00 36.85 2.66
2810 3475 2.470999 AGCATAAACGCGCAAAACTTTG 59.529 40.909 5.73 0.00 41.03 2.77
2928 3593 7.094634 GGGTACTGATAATATGGCAAGTCAATG 60.095 40.741 0.00 0.00 0.00 2.82
2930 3595 9.224267 GTACTGATAATATGGCAAGTCAATGAT 57.776 33.333 0.00 0.00 0.00 2.45
2932 3597 9.797642 ACTGATAATATGGCAAGTCAATGATTA 57.202 29.630 0.00 0.00 0.00 1.75
2941 3606 9.797642 ATGGCAAGTCAATGATTAACTATATGA 57.202 29.630 0.00 0.00 0.00 2.15
2942 3607 9.056005 TGGCAAGTCAATGATTAACTATATGAC 57.944 33.333 0.00 0.00 36.77 3.06
2943 3608 8.223769 GGCAAGTCAATGATTAACTATATGACG 58.776 37.037 0.00 0.00 40.33 4.35
2944 3609 7.742089 GCAAGTCAATGATTAACTATATGACGC 59.258 37.037 0.00 0.00 40.33 5.19
2945 3610 8.764287 CAAGTCAATGATTAACTATATGACGCA 58.236 33.333 0.00 0.00 40.33 5.24
2946 3611 8.526218 AGTCAATGATTAACTATATGACGCAG 57.474 34.615 0.00 0.00 40.33 5.18
2947 3612 7.600375 AGTCAATGATTAACTATATGACGCAGG 59.400 37.037 0.00 0.00 40.33 4.85
2948 3613 7.598869 GTCAATGATTAACTATATGACGCAGGA 59.401 37.037 0.00 0.00 0.00 3.86
2949 3614 7.598869 TCAATGATTAACTATATGACGCAGGAC 59.401 37.037 0.00 0.00 0.00 3.85
2950 3615 6.399639 TGATTAACTATATGACGCAGGACA 57.600 37.500 0.00 0.00 0.00 4.02
2951 3616 6.993079 TGATTAACTATATGACGCAGGACAT 58.007 36.000 0.00 0.00 33.90 3.06
2952 3617 8.117813 TGATTAACTATATGACGCAGGACATA 57.882 34.615 0.00 0.00 32.12 2.29
2953 3618 8.749354 TGATTAACTATATGACGCAGGACATAT 58.251 33.333 0.00 0.00 32.12 1.78
2954 3619 8.932945 ATTAACTATATGACGCAGGACATATG 57.067 34.615 0.00 0.00 32.12 1.78
2955 3620 6.590234 AACTATATGACGCAGGACATATGA 57.410 37.500 10.38 0.00 32.12 2.15
2956 3621 6.201226 ACTATATGACGCAGGACATATGAG 57.799 41.667 10.38 0.00 32.12 2.90
2957 3622 5.946377 ACTATATGACGCAGGACATATGAGA 59.054 40.000 10.38 0.00 32.12 3.27
2958 3623 5.728637 ATATGACGCAGGACATATGAGAA 57.271 39.130 10.38 0.00 32.12 2.87
2959 3624 3.165058 TGACGCAGGACATATGAGAAC 57.835 47.619 10.38 0.00 0.00 3.01
2960 3625 2.159099 TGACGCAGGACATATGAGAACC 60.159 50.000 10.38 7.23 0.00 3.62
2961 3626 1.139058 ACGCAGGACATATGAGAACCC 59.861 52.381 10.38 2.62 0.00 4.11
2962 3627 1.869754 CGCAGGACATATGAGAACCCG 60.870 57.143 10.38 1.25 0.00 5.28
2963 3628 1.412710 GCAGGACATATGAGAACCCGA 59.587 52.381 10.38 0.00 0.00 5.14
2964 3629 2.803492 GCAGGACATATGAGAACCCGAC 60.803 54.545 10.38 0.00 0.00 4.79
2965 3630 2.040178 AGGACATATGAGAACCCGACC 58.960 52.381 10.38 0.00 0.00 4.79
2966 3631 1.070289 GGACATATGAGAACCCGACCC 59.930 57.143 10.38 0.00 0.00 4.46
2967 3632 2.040178 GACATATGAGAACCCGACCCT 58.960 52.381 10.38 0.00 0.00 4.34
2968 3633 2.036089 GACATATGAGAACCCGACCCTC 59.964 54.545 10.38 0.00 0.00 4.30
2969 3634 1.000163 CATATGAGAACCCGACCCTCG 60.000 57.143 0.00 0.00 40.07 4.63
2970 3635 1.389609 TATGAGAACCCGACCCTCGC 61.390 60.000 0.00 0.00 38.82 5.03
2971 3636 4.493747 GAGAACCCGACCCTCGCG 62.494 72.222 0.00 0.00 38.82 5.87
2973 3638 4.790861 GAACCCGACCCTCGCGTC 62.791 72.222 5.77 0.00 38.82 5.19
2979 3644 4.176851 GACCCTCGCGTCGTCTCC 62.177 72.222 5.77 0.00 0.00 3.71
2983 3648 4.180946 CTCGCGTCGTCTCCCCAG 62.181 72.222 5.77 0.00 0.00 4.45
2991 3656 3.090532 GTCTCCCCAGGGGCGAAT 61.091 66.667 19.80 0.00 43.94 3.34
2992 3657 3.089874 TCTCCCCAGGGGCGAATG 61.090 66.667 21.90 7.28 43.94 2.67
2993 3658 4.883354 CTCCCCAGGGGCGAATGC 62.883 72.222 21.90 0.00 43.94 3.56
2995 3660 4.883354 CCCCAGGGGCGAATGCTC 62.883 72.222 13.35 0.00 42.57 4.26
3026 3691 4.144681 CACTCGCGCTGCTGCTTC 62.145 66.667 14.03 4.50 36.97 3.86
3032 3697 3.207669 CGCTGCTGCTTCCCCATC 61.208 66.667 14.03 0.00 36.97 3.51
3033 3698 2.832201 GCTGCTGCTTCCCCATCC 60.832 66.667 8.53 0.00 36.03 3.51
3034 3699 2.515523 CTGCTGCTTCCCCATCCG 60.516 66.667 0.00 0.00 0.00 4.18
3035 3700 4.802051 TGCTGCTTCCCCATCCGC 62.802 66.667 0.00 0.00 0.00 5.54
3094 3759 4.835927 CGAAGGAACCGGGATCTG 57.164 61.111 6.32 0.00 0.00 2.90
3095 3760 1.144057 CGAAGGAACCGGGATCTGG 59.856 63.158 6.32 3.37 0.00 3.86
3096 3761 1.327690 CGAAGGAACCGGGATCTGGA 61.328 60.000 6.32 0.00 0.00 3.86
3097 3762 0.178301 GAAGGAACCGGGATCTGGAC 59.822 60.000 6.32 5.22 0.00 4.02
3098 3763 1.614241 AAGGAACCGGGATCTGGACG 61.614 60.000 6.32 2.77 0.00 4.79
3099 3764 2.202892 GAACCGGGATCTGGACGC 60.203 66.667 6.32 0.00 0.00 5.19
3100 3765 4.143333 AACCGGGATCTGGACGCG 62.143 66.667 6.32 3.53 41.89 6.01
3117 3782 2.105128 GGCGACGATCTCCTGGTG 59.895 66.667 0.00 0.00 0.00 4.17
3118 3783 2.583593 GCGACGATCTCCTGGTGC 60.584 66.667 0.00 0.00 0.00 5.01
3119 3784 2.278206 CGACGATCTCCTGGTGCG 60.278 66.667 0.00 0.00 0.00 5.34
3120 3785 2.105128 GACGATCTCCTGGTGCGG 59.895 66.667 0.00 0.00 0.00 5.69
3121 3786 4.148825 ACGATCTCCTGGTGCGGC 62.149 66.667 0.00 0.00 0.00 6.53
3122 3787 3.842923 CGATCTCCTGGTGCGGCT 61.843 66.667 0.00 0.00 0.00 5.52
3123 3788 2.490148 CGATCTCCTGGTGCGGCTA 61.490 63.158 0.00 0.00 0.00 3.93
3124 3789 1.365633 GATCTCCTGGTGCGGCTAG 59.634 63.158 0.00 0.00 0.00 3.42
3125 3790 2.093537 GATCTCCTGGTGCGGCTAGG 62.094 65.000 0.00 6.84 46.15 3.02
3126 3791 3.854669 CTCCTGGTGCGGCTAGGG 61.855 72.222 15.10 6.97 45.00 3.53
3138 3803 3.854669 CTAGGGCGTGGCTGGGAG 61.855 72.222 0.00 0.00 0.00 4.30
3144 3809 3.322466 CGTGGCTGGGAGGGAGTT 61.322 66.667 0.00 0.00 0.00 3.01
3145 3810 2.352805 GTGGCTGGGAGGGAGTTG 59.647 66.667 0.00 0.00 0.00 3.16
3146 3811 3.650950 TGGCTGGGAGGGAGTTGC 61.651 66.667 0.00 0.00 0.00 4.17
3147 3812 4.785453 GGCTGGGAGGGAGTTGCG 62.785 72.222 0.00 0.00 0.00 4.85
3200 3865 3.537874 GGTCGCGCTACCCTCCAT 61.538 66.667 19.95 0.00 33.02 3.41
3201 3866 2.279517 GTCGCGCTACCCTCCATG 60.280 66.667 5.56 0.00 0.00 3.66
3202 3867 2.441348 TCGCGCTACCCTCCATGA 60.441 61.111 5.56 0.00 0.00 3.07
3203 3868 2.279517 CGCGCTACCCTCCATGAC 60.280 66.667 5.56 0.00 0.00 3.06
3204 3869 2.109181 GCGCTACCCTCCATGACC 59.891 66.667 0.00 0.00 0.00 4.02
3205 3870 2.822399 CGCTACCCTCCATGACCC 59.178 66.667 0.00 0.00 0.00 4.46
3206 3871 2.822399 GCTACCCTCCATGACCCG 59.178 66.667 0.00 0.00 0.00 5.28
3207 3872 2.064581 GCTACCCTCCATGACCCGT 61.065 63.158 0.00 0.00 0.00 5.28
3208 3873 1.823295 CTACCCTCCATGACCCGTG 59.177 63.158 0.00 0.00 0.00 4.94
3209 3874 1.686325 CTACCCTCCATGACCCGTGG 61.686 65.000 0.00 0.00 41.56 4.94
3210 3875 3.797353 CCCTCCATGACCCGTGGG 61.797 72.222 2.58 2.58 40.65 4.61
3211 3876 2.687200 CCTCCATGACCCGTGGGA 60.687 66.667 13.01 0.00 40.65 4.37
3212 3877 2.072487 CCTCCATGACCCGTGGGAT 61.072 63.158 13.01 0.00 40.65 3.85
3213 3878 1.447643 CTCCATGACCCGTGGGATC 59.552 63.158 13.01 6.27 40.65 3.36
3214 3879 2.044806 CTCCATGACCCGTGGGATCC 62.045 65.000 13.01 1.92 40.65 3.36
3215 3880 2.108976 CATGACCCGTGGGATCCG 59.891 66.667 13.01 0.00 38.96 4.18
3216 3881 2.042333 ATGACCCGTGGGATCCGA 60.042 61.111 13.01 0.00 38.96 4.55
3217 3882 2.134287 ATGACCCGTGGGATCCGAG 61.134 63.158 13.01 0.00 38.96 4.63
3218 3883 3.537874 GACCCGTGGGATCCGAGG 61.538 72.222 13.01 7.64 38.96 4.63
3219 3884 4.393778 ACCCGTGGGATCCGAGGT 62.394 66.667 13.01 8.55 38.96 3.85
3220 3885 3.537874 CCCGTGGGATCCGAGGTC 61.538 72.222 14.37 0.00 37.50 3.85
3221 3886 2.442272 CCGTGGGATCCGAGGTCT 60.442 66.667 14.37 0.00 0.00 3.85
3222 3887 2.491022 CCGTGGGATCCGAGGTCTC 61.491 68.421 14.37 0.00 0.00 3.36
3223 3888 2.491022 CGTGGGATCCGAGGTCTCC 61.491 68.421 5.45 5.36 0.00 3.71
3224 3889 2.123854 TGGGATCCGAGGTCTCCG 60.124 66.667 5.45 0.00 0.00 4.63
3226 3891 3.607661 GGATCCGAGGTCTCCGGC 61.608 72.222 0.00 0.00 46.10 6.13
3227 3892 3.967335 GATCCGAGGTCTCCGGCG 61.967 72.222 0.00 0.00 46.10 6.46
3228 3893 4.501285 ATCCGAGGTCTCCGGCGA 62.501 66.667 9.30 0.00 46.10 5.54
3229 3894 3.793957 ATCCGAGGTCTCCGGCGAT 62.794 63.158 9.30 0.00 46.10 4.58
3230 3895 4.271816 CCGAGGTCTCCGGCGATG 62.272 72.222 9.30 0.00 40.54 3.84
3231 3896 4.271816 CGAGGTCTCCGGCGATGG 62.272 72.222 9.30 0.00 0.00 3.51
3232 3897 3.148279 GAGGTCTCCGGCGATGGT 61.148 66.667 9.30 0.00 0.00 3.55
3233 3898 3.432051 GAGGTCTCCGGCGATGGTG 62.432 68.421 9.30 0.00 0.00 4.17
3234 3899 4.530857 GGTCTCCGGCGATGGTGG 62.531 72.222 9.30 0.00 0.00 4.61
3235 3900 4.530857 GTCTCCGGCGATGGTGGG 62.531 72.222 9.30 0.00 0.00 4.61
3275 3940 3.971894 GATCCCACCCAGATCCGT 58.028 61.111 0.00 0.00 35.16 4.69
3276 3941 1.749033 GATCCCACCCAGATCCGTC 59.251 63.158 0.00 0.00 35.16 4.79
3277 3942 2.088674 GATCCCACCCAGATCCGTCG 62.089 65.000 0.00 0.00 35.16 5.12
3278 3943 2.873557 ATCCCACCCAGATCCGTCGT 62.874 60.000 0.00 0.00 0.00 4.34
3279 3944 2.494918 CCACCCAGATCCGTCGTC 59.505 66.667 0.00 0.00 0.00 4.20
3280 3945 2.348104 CCACCCAGATCCGTCGTCA 61.348 63.158 0.00 0.00 0.00 4.35
3281 3946 1.589630 CACCCAGATCCGTCGTCAA 59.410 57.895 0.00 0.00 0.00 3.18
3282 3947 0.736325 CACCCAGATCCGTCGTCAAC 60.736 60.000 0.00 0.00 0.00 3.18
3283 3948 0.898789 ACCCAGATCCGTCGTCAACT 60.899 55.000 0.00 0.00 0.00 3.16
3284 3949 0.179134 CCCAGATCCGTCGTCAACTC 60.179 60.000 0.00 0.00 0.00 3.01
3285 3950 0.811915 CCAGATCCGTCGTCAACTCT 59.188 55.000 0.00 0.00 0.00 3.24
3286 3951 1.202582 CCAGATCCGTCGTCAACTCTT 59.797 52.381 0.00 0.00 0.00 2.85
3287 3952 2.520979 CAGATCCGTCGTCAACTCTTC 58.479 52.381 0.00 0.00 0.00 2.87
3288 3953 2.095212 CAGATCCGTCGTCAACTCTTCA 60.095 50.000 0.00 0.00 0.00 3.02
3289 3954 2.755655 AGATCCGTCGTCAACTCTTCAT 59.244 45.455 0.00 0.00 0.00 2.57
3290 3955 2.347697 TCCGTCGTCAACTCTTCATG 57.652 50.000 0.00 0.00 0.00 3.07
3291 3956 1.067846 TCCGTCGTCAACTCTTCATGG 60.068 52.381 0.00 0.00 0.00 3.66
3292 3957 0.716108 CGTCGTCAACTCTTCATGGC 59.284 55.000 0.00 0.00 0.00 4.40
3293 3958 0.716108 GTCGTCAACTCTTCATGGCG 59.284 55.000 0.00 0.00 45.44 5.69
3294 3959 0.389817 TCGTCAACTCTTCATGGCGG 60.390 55.000 0.00 0.00 44.29 6.13
3295 3960 1.796796 GTCAACTCTTCATGGCGGC 59.203 57.895 0.00 0.00 0.00 6.53
3296 3961 1.741401 TCAACTCTTCATGGCGGCG 60.741 57.895 0.51 0.51 0.00 6.46
3297 3962 2.436646 AACTCTTCATGGCGGCGG 60.437 61.111 9.78 0.00 0.00 6.13
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 2.708861 TCCCTGTTAGTTTGGCTGAAGA 59.291 45.455 0.00 0.00 0.00 2.87
9 10 1.271379 GCTCCCTGTTAGTTTGGCTGA 60.271 52.381 0.00 0.00 0.00 4.26
41 42 6.128145 GGACTAGAAGAGATGAAAGGTTTTGC 60.128 42.308 0.00 0.00 0.00 3.68
44 45 6.943899 AGGACTAGAAGAGATGAAAGGTTT 57.056 37.500 0.00 0.00 0.00 3.27
111 112 1.880340 GCGACGAGAGATTGCCCAG 60.880 63.158 0.00 0.00 0.00 4.45
116 117 2.834574 ACACTAGCGACGAGAGATTG 57.165 50.000 0.00 0.00 0.00 2.67
242 243 5.203528 AGATTTCCAAGGGAATGTGGTATG 58.796 41.667 0.00 0.00 41.71 2.39
398 399 6.796785 ATGTTTGGAAGCTTATTGCCTATT 57.203 33.333 0.00 0.00 44.23 1.73
489 490 1.965643 TGCTTGCAGAATTTGAAGCCT 59.034 42.857 0.00 0.00 38.27 4.58
549 550 1.264288 CAACCTGTTTTGTCGAGCTCC 59.736 52.381 8.47 0.00 0.00 4.70
600 601 4.693566 CCAATCAGCATCATTTGTTGCTTT 59.306 37.500 12.28 4.60 45.71 3.51
647 648 4.202461 ACAGACCTTTTAGTTGCTCCATCA 60.202 41.667 0.00 0.00 0.00 3.07
813 1453 0.179084 TTCCGGTGATCGAGATTGCC 60.179 55.000 0.00 0.00 42.43 4.52
843 1489 7.437713 TTTCTATTGAGAGATACCACCACAT 57.562 36.000 0.00 0.00 31.77 3.21
856 1502 4.263905 ACAGGGTGGCAATTTCTATTGAGA 60.264 41.667 2.25 0.00 43.12 3.27
863 1509 1.133199 TGGAACAGGGTGGCAATTTCT 60.133 47.619 0.00 0.00 0.00 2.52
965 1613 7.040132 TCCTATGATAGAGTATGAACAGTGCAG 60.040 40.741 0.00 0.00 0.00 4.41
979 1627 5.951148 TCATCTTCCTGCTCCTATGATAGAG 59.049 44.000 0.00 0.00 0.00 2.43
985 1633 5.618236 TGATTTCATCTTCCTGCTCCTATG 58.382 41.667 0.00 0.00 0.00 2.23
1094 1742 1.938585 TCCTACTCCAGTGAGGTTGG 58.061 55.000 0.00 0.79 43.29 3.77
1103 1751 3.339141 GAGCCAAAACTTCCTACTCCAG 58.661 50.000 0.00 0.00 0.00 3.86
1109 1757 1.975680 AGACCGAGCCAAAACTTCCTA 59.024 47.619 0.00 0.00 0.00 2.94
1230 1878 0.865218 GAGCGCATCTCAGTGTCTCG 60.865 60.000 11.47 0.00 41.51 4.04
1385 2033 3.674997 TCTATTGCCTTCTGTTCACCAC 58.325 45.455 0.00 0.00 0.00 4.16
1556 2204 5.179368 TCTTGAAGTACAAATCTTCCAAGCG 59.821 40.000 0.00 0.00 40.10 4.68
1562 2210 7.657761 TCTCCAAGTCTTGAAGTACAAATCTTC 59.342 37.037 14.42 0.00 40.89 2.87
1707 2364 6.158023 TCGTCTAATTGGGAATAGAAGTCC 57.842 41.667 0.00 0.00 0.00 3.85
1718 2375 8.485591 GTTTCGAAATATACTCGTCTAATTGGG 58.514 37.037 14.69 0.00 37.56 4.12
1792 2452 5.173664 TCTGATGCACTACATTTCTGAGTG 58.826 41.667 0.00 0.00 39.84 3.51
2108 2768 5.844004 TCTTGTTAGAGTTGGACTTGTCTC 58.156 41.667 0.61 0.00 0.00 3.36
2147 2807 2.676839 AGAATCGAAGTGATGCAAGCTG 59.323 45.455 0.00 0.00 37.39 4.24
2288 2948 0.445436 GCTTCAGTTGCTCGATGGTG 59.555 55.000 0.00 0.00 0.00 4.17
2342 3002 3.593442 AAATGCCGGGATGGATAAGAA 57.407 42.857 10.10 0.00 42.00 2.52
2374 3034 9.546428 GCCAGCCAATTATTACAATCTTTTATT 57.454 29.630 0.00 0.00 0.00 1.40
2375 3035 8.703743 TGCCAGCCAATTATTACAATCTTTTAT 58.296 29.630 0.00 0.00 0.00 1.40
2376 3036 8.072321 TGCCAGCCAATTATTACAATCTTTTA 57.928 30.769 0.00 0.00 0.00 1.52
2377 3037 6.945218 TGCCAGCCAATTATTACAATCTTTT 58.055 32.000 0.00 0.00 0.00 2.27
2378 3038 6.543430 TGCCAGCCAATTATTACAATCTTT 57.457 33.333 0.00 0.00 0.00 2.52
2379 3039 6.736110 ATGCCAGCCAATTATTACAATCTT 57.264 33.333 0.00 0.00 0.00 2.40
2380 3040 6.098695 ACAATGCCAGCCAATTATTACAATCT 59.901 34.615 0.00 0.00 0.00 2.40
2381 3041 6.282930 ACAATGCCAGCCAATTATTACAATC 58.717 36.000 0.00 0.00 0.00 2.67
2382 3042 6.127111 TGACAATGCCAGCCAATTATTACAAT 60.127 34.615 0.00 0.00 0.00 2.71
2383 3043 5.186603 TGACAATGCCAGCCAATTATTACAA 59.813 36.000 0.00 0.00 0.00 2.41
2384 3044 4.708909 TGACAATGCCAGCCAATTATTACA 59.291 37.500 0.00 0.00 0.00 2.41
2385 3045 5.261209 TGACAATGCCAGCCAATTATTAC 57.739 39.130 0.00 0.00 0.00 1.89
2386 3046 5.929058 TTGACAATGCCAGCCAATTATTA 57.071 34.783 0.00 0.00 0.00 0.98
2387 3047 4.822685 TTGACAATGCCAGCCAATTATT 57.177 36.364 0.00 0.00 0.00 1.40
2388 3048 4.822685 TTTGACAATGCCAGCCAATTAT 57.177 36.364 0.00 0.00 0.00 1.28
2389 3049 4.020396 ACATTTGACAATGCCAGCCAATTA 60.020 37.500 0.00 0.00 43.39 1.40
2390 3050 3.244630 ACATTTGACAATGCCAGCCAATT 60.245 39.130 0.00 0.00 43.39 2.32
2391 3051 2.303600 ACATTTGACAATGCCAGCCAAT 59.696 40.909 0.00 0.00 43.39 3.16
2392 3052 1.693062 ACATTTGACAATGCCAGCCAA 59.307 42.857 0.00 0.00 43.39 4.52
2393 3053 1.340088 ACATTTGACAATGCCAGCCA 58.660 45.000 0.00 0.00 43.39 4.75
2394 3054 2.340337 GAACATTTGACAATGCCAGCC 58.660 47.619 0.00 0.00 43.39 4.85
2395 3055 2.340337 GGAACATTTGACAATGCCAGC 58.660 47.619 0.00 0.00 43.39 4.85
2396 3056 2.299582 TGGGAACATTTGACAATGCCAG 59.700 45.455 0.00 0.00 43.39 4.85
2397 3057 2.323599 TGGGAACATTTGACAATGCCA 58.676 42.857 0.00 0.00 43.39 4.92
2411 3071 2.302733 AGCACATTGGGAAAATGGGAAC 59.697 45.455 4.53 0.00 32.96 3.62
2412 3072 2.618794 AGCACATTGGGAAAATGGGAA 58.381 42.857 4.53 0.00 32.96 3.97
2413 3073 2.323999 AGCACATTGGGAAAATGGGA 57.676 45.000 4.53 0.00 32.96 4.37
2414 3074 4.758773 ATTAGCACATTGGGAAAATGGG 57.241 40.909 0.00 0.00 34.28 4.00
2415 3075 7.064490 GTGTTAATTAGCACATTGGGAAAATGG 59.936 37.037 22.97 0.00 37.37 3.16
2416 3076 7.601886 TGTGTTAATTAGCACATTGGGAAAATG 59.398 33.333 25.68 0.00 41.46 2.32
2417 3077 7.675062 TGTGTTAATTAGCACATTGGGAAAAT 58.325 30.769 25.68 0.00 41.46 1.82
2418 3078 7.055667 TGTGTTAATTAGCACATTGGGAAAA 57.944 32.000 25.68 5.40 41.46 2.29
2419 3079 6.656632 TGTGTTAATTAGCACATTGGGAAA 57.343 33.333 25.68 6.02 41.46 3.13
2420 3080 5.336372 GCTGTGTTAATTAGCACATTGGGAA 60.336 40.000 28.33 9.95 44.44 3.97
2421 3081 4.157656 GCTGTGTTAATTAGCACATTGGGA 59.842 41.667 28.33 10.54 44.44 4.37
2422 3082 4.082300 TGCTGTGTTAATTAGCACATTGGG 60.082 41.667 28.33 19.85 44.44 4.12
2423 3083 5.058149 TGCTGTGTTAATTAGCACATTGG 57.942 39.130 28.33 20.13 44.44 3.16
2424 3084 5.702865 ACTGCTGTGTTAATTAGCACATTG 58.297 37.500 28.33 22.64 44.44 2.82
2425 3085 5.964958 ACTGCTGTGTTAATTAGCACATT 57.035 34.783 28.33 14.60 44.44 2.71
2426 3086 5.964958 AACTGCTGTGTTAATTAGCACAT 57.035 34.783 28.33 15.42 44.44 3.21
2427 3087 5.278266 GGAAACTGCTGTGTTAATTAGCACA 60.278 40.000 26.99 26.99 43.56 4.57
2428 3088 5.154222 GGAAACTGCTGTGTTAATTAGCAC 58.846 41.667 21.62 21.62 42.05 4.40
2429 3089 4.824537 TGGAAACTGCTGTGTTAATTAGCA 59.175 37.500 0.00 0.00 44.45 3.49
2430 3090 5.371115 TGGAAACTGCTGTGTTAATTAGC 57.629 39.130 0.00 0.00 37.93 3.09
2431 3091 5.619981 GCCTGGAAACTGCTGTGTTAATTAG 60.620 44.000 0.00 0.00 0.00 1.73
2432 3092 4.217550 GCCTGGAAACTGCTGTGTTAATTA 59.782 41.667 0.00 0.00 0.00 1.40
2433 3093 3.005791 GCCTGGAAACTGCTGTGTTAATT 59.994 43.478 0.00 0.00 0.00 1.40
2434 3094 2.558359 GCCTGGAAACTGCTGTGTTAAT 59.442 45.455 0.00 0.00 0.00 1.40
2435 3095 1.953686 GCCTGGAAACTGCTGTGTTAA 59.046 47.619 0.00 0.00 0.00 2.01
2436 3096 1.142870 AGCCTGGAAACTGCTGTGTTA 59.857 47.619 0.00 0.00 37.67 2.41
2437 3097 0.106519 AGCCTGGAAACTGCTGTGTT 60.107 50.000 0.00 0.00 37.67 3.32
2438 3098 0.106519 AAGCCTGGAAACTGCTGTGT 60.107 50.000 0.00 0.00 38.77 3.72
2439 3099 0.595095 GAAGCCTGGAAACTGCTGTG 59.405 55.000 0.00 0.00 38.77 3.66
2440 3100 0.538287 GGAAGCCTGGAAACTGCTGT 60.538 55.000 0.00 0.00 38.77 4.40
2471 3131 9.273016 GCTGTGACTAATATATAAGCCTTTTGA 57.727 33.333 0.00 0.00 0.00 2.69
2486 3148 1.071699 ACAACGGTGGCTGTGACTAAT 59.928 47.619 4.97 0.00 0.00 1.73
2487 3149 0.466543 ACAACGGTGGCTGTGACTAA 59.533 50.000 4.97 0.00 0.00 2.24
2501 3163 3.870723 TTTTGGAACTCGATGACAACG 57.129 42.857 0.00 0.00 0.00 4.10
2559 3221 6.402658 GCAGAAGTAGTTCCACTTTATTGCTC 60.403 42.308 6.68 0.00 38.86 4.26
2573 3235 8.312669 AGGTCTATTTCATAGCAGAAGTAGTT 57.687 34.615 12.43 0.00 38.34 2.24
2702 3365 4.142600 CCAGCTTGGTTATTGCAGAGTTAC 60.143 45.833 0.00 0.00 31.35 2.50
2725 3388 4.298332 CAAGTTACCAAAGTTGTGCATCC 58.702 43.478 0.00 0.00 39.97 3.51
2736 3399 8.573035 GTTTGAAGATGATACCAAGTTACCAAA 58.427 33.333 0.00 0.00 0.00 3.28
2755 3419 4.005650 TCTCTGCAGGCAATAGTTTGAAG 58.994 43.478 15.13 0.00 34.60 3.02
2780 3444 8.525071 GTTTTGCGCGTTTATGCTTTATTATAA 58.475 29.630 8.43 0.00 0.00 0.98
2808 3473 9.784531 TGGATAGGTTTTCATAAATTTTTGCAA 57.215 25.926 0.00 0.00 0.00 4.08
2809 3474 9.956640 ATGGATAGGTTTTCATAAATTTTTGCA 57.043 25.926 0.00 0.00 0.00 4.08
2832 3497 3.063997 GTCGCCAGTTTACTCATTGATGG 59.936 47.826 0.00 0.00 0.00 3.51
2928 3593 9.025020 CATATGTCCTGCGTCATATAGTTAATC 57.975 37.037 0.00 0.00 36.07 1.75
2930 3595 8.117813 TCATATGTCCTGCGTCATATAGTTAA 57.882 34.615 1.90 0.00 36.07 2.01
2932 3597 6.434340 TCTCATATGTCCTGCGTCATATAGTT 59.566 38.462 1.90 0.00 36.07 2.24
2934 3599 6.442513 TCTCATATGTCCTGCGTCATATAG 57.557 41.667 1.90 0.00 36.07 1.31
2935 3600 6.350194 GGTTCTCATATGTCCTGCGTCATATA 60.350 42.308 1.90 0.00 36.07 0.86
2936 3601 5.473931 GTTCTCATATGTCCTGCGTCATAT 58.526 41.667 1.90 0.00 37.62 1.78
2937 3602 4.262036 GGTTCTCATATGTCCTGCGTCATA 60.262 45.833 1.90 0.00 0.00 2.15
2938 3603 3.493350 GGTTCTCATATGTCCTGCGTCAT 60.493 47.826 1.90 0.00 0.00 3.06
2939 3604 2.159099 GGTTCTCATATGTCCTGCGTCA 60.159 50.000 1.90 0.00 0.00 4.35
2940 3605 2.474816 GGTTCTCATATGTCCTGCGTC 58.525 52.381 1.90 0.00 0.00 5.19
2941 3606 1.139058 GGGTTCTCATATGTCCTGCGT 59.861 52.381 1.90 0.00 0.00 5.24
2942 3607 1.869754 CGGGTTCTCATATGTCCTGCG 60.870 57.143 1.90 0.00 0.00 5.18
2943 3608 1.412710 TCGGGTTCTCATATGTCCTGC 59.587 52.381 1.90 0.00 0.00 4.85
2944 3609 2.224066 GGTCGGGTTCTCATATGTCCTG 60.224 54.545 1.90 6.97 0.00 3.86
2945 3610 2.040178 GGTCGGGTTCTCATATGTCCT 58.960 52.381 1.90 0.00 0.00 3.85
2946 3611 1.070289 GGGTCGGGTTCTCATATGTCC 59.930 57.143 1.90 2.12 0.00 4.02
2947 3612 2.036089 GAGGGTCGGGTTCTCATATGTC 59.964 54.545 1.90 0.00 0.00 3.06
2948 3613 2.040178 GAGGGTCGGGTTCTCATATGT 58.960 52.381 1.90 0.00 0.00 2.29
2949 3614 1.000163 CGAGGGTCGGGTTCTCATATG 60.000 57.143 0.00 0.00 36.00 1.78
2950 3615 1.329256 CGAGGGTCGGGTTCTCATAT 58.671 55.000 0.00 0.00 36.00 1.78
2951 3616 1.389609 GCGAGGGTCGGGTTCTCATA 61.390 60.000 0.00 0.00 40.84 2.15
2952 3617 2.722201 GCGAGGGTCGGGTTCTCAT 61.722 63.158 0.00 0.00 40.84 2.90
2953 3618 3.379445 GCGAGGGTCGGGTTCTCA 61.379 66.667 0.00 0.00 40.84 3.27
2954 3619 4.493747 CGCGAGGGTCGGGTTCTC 62.494 72.222 0.00 0.00 45.92 2.87
2962 3627 4.176851 GGAGACGACGCGAGGGTC 62.177 72.222 15.93 16.55 38.46 4.46
2966 3631 4.180946 CTGGGGAGACGACGCGAG 62.181 72.222 15.93 9.24 0.00 5.03
3016 3681 2.832201 GGATGGGGAAGCAGCAGC 60.832 66.667 0.00 0.00 42.56 5.25
3017 3682 2.515523 CGGATGGGGAAGCAGCAG 60.516 66.667 0.00 0.00 0.00 4.24
3018 3683 4.802051 GCGGATGGGGAAGCAGCA 62.802 66.667 0.00 0.00 35.28 4.41
3074 3739 4.157120 ATCCCGGTTCCTTCGGCG 62.157 66.667 0.00 0.00 45.60 6.46
3075 3740 2.203029 GATCCCGGTTCCTTCGGC 60.203 66.667 0.00 0.00 45.60 5.54
3076 3741 1.144057 CAGATCCCGGTTCCTTCGG 59.856 63.158 0.00 0.00 46.43 4.30
3077 3742 1.144057 CCAGATCCCGGTTCCTTCG 59.856 63.158 0.00 0.00 0.00 3.79
3078 3743 0.178301 GTCCAGATCCCGGTTCCTTC 59.822 60.000 0.00 0.00 0.00 3.46
3079 3744 1.614241 CGTCCAGATCCCGGTTCCTT 61.614 60.000 0.00 0.00 0.00 3.36
3080 3745 2.058595 CGTCCAGATCCCGGTTCCT 61.059 63.158 0.00 0.00 0.00 3.36
3081 3746 2.499685 CGTCCAGATCCCGGTTCC 59.500 66.667 0.00 0.00 0.00 3.62
3082 3747 2.202892 GCGTCCAGATCCCGGTTC 60.203 66.667 0.00 0.00 0.00 3.62
3083 3748 4.143333 CGCGTCCAGATCCCGGTT 62.143 66.667 0.00 0.00 0.00 4.44
3098 3763 4.933064 CCAGGAGATCGTCGCCGC 62.933 72.222 0.00 0.00 41.52 6.53
3099 3764 3.518998 ACCAGGAGATCGTCGCCG 61.519 66.667 0.00 0.00 41.52 6.46
3100 3765 2.105128 CACCAGGAGATCGTCGCC 59.895 66.667 0.00 0.72 36.52 5.54
3101 3766 2.583593 GCACCAGGAGATCGTCGC 60.584 66.667 0.00 0.00 0.00 5.19
3102 3767 2.278206 CGCACCAGGAGATCGTCG 60.278 66.667 0.00 0.00 0.00 5.12
3103 3768 2.105128 CCGCACCAGGAGATCGTC 59.895 66.667 0.00 0.00 0.00 4.20
3104 3769 4.148825 GCCGCACCAGGAGATCGT 62.149 66.667 0.00 0.00 0.00 3.73
3105 3770 2.413437 CTAGCCGCACCAGGAGATCG 62.413 65.000 0.00 0.00 0.00 3.69
3106 3771 1.365633 CTAGCCGCACCAGGAGATC 59.634 63.158 0.00 0.00 0.00 2.75
3107 3772 2.136878 CCTAGCCGCACCAGGAGAT 61.137 63.158 0.00 0.00 0.00 2.75
3108 3773 2.759973 CCTAGCCGCACCAGGAGA 60.760 66.667 0.00 0.00 0.00 3.71
3109 3774 3.854669 CCCTAGCCGCACCAGGAG 61.855 72.222 0.00 0.00 0.00 3.69
3121 3786 3.854669 CTCCCAGCCACGCCCTAG 61.855 72.222 0.00 0.00 0.00 3.02
3127 3792 3.322466 AACTCCCTCCCAGCCACG 61.322 66.667 0.00 0.00 0.00 4.94
3128 3793 2.352805 CAACTCCCTCCCAGCCAC 59.647 66.667 0.00 0.00 0.00 5.01
3129 3794 3.650950 GCAACTCCCTCCCAGCCA 61.651 66.667 0.00 0.00 0.00 4.75
3130 3795 4.785453 CGCAACTCCCTCCCAGCC 62.785 72.222 0.00 0.00 0.00 4.85
3183 3848 3.537874 ATGGAGGGTAGCGCGACC 61.538 66.667 29.29 29.29 38.93 4.79
3184 3849 2.279517 CATGGAGGGTAGCGCGAC 60.280 66.667 12.10 12.67 0.00 5.19
3185 3850 2.441348 TCATGGAGGGTAGCGCGA 60.441 61.111 12.10 0.00 0.00 5.87
3186 3851 2.279517 GTCATGGAGGGTAGCGCG 60.280 66.667 0.00 0.00 0.00 6.86
3187 3852 2.109181 GGTCATGGAGGGTAGCGC 59.891 66.667 0.00 0.00 0.00 5.92
3188 3853 2.822399 GGGTCATGGAGGGTAGCG 59.178 66.667 0.00 0.00 0.00 4.26
3189 3854 2.064581 ACGGGTCATGGAGGGTAGC 61.065 63.158 0.00 0.00 0.00 3.58
3190 3855 1.686325 CCACGGGTCATGGAGGGTAG 61.686 65.000 0.00 0.00 39.87 3.18
3191 3856 1.687840 CCACGGGTCATGGAGGGTA 60.688 63.158 0.00 0.00 39.87 3.69
3192 3857 3.009115 CCACGGGTCATGGAGGGT 61.009 66.667 0.00 0.00 39.87 4.34
3193 3858 3.797353 CCCACGGGTCATGGAGGG 61.797 72.222 0.00 0.00 39.87 4.30
3194 3859 2.044806 GATCCCACGGGTCATGGAGG 62.045 65.000 1.07 0.00 39.87 4.30
3195 3860 1.447643 GATCCCACGGGTCATGGAG 59.552 63.158 1.07 0.00 39.87 3.86
3196 3861 2.070039 GGATCCCACGGGTCATGGA 61.070 63.158 0.00 0.00 39.87 3.41
3197 3862 2.510906 GGATCCCACGGGTCATGG 59.489 66.667 0.00 0.00 36.94 3.66
3198 3863 2.108976 CGGATCCCACGGGTCATG 59.891 66.667 6.06 0.00 36.47 3.07
3199 3864 2.042333 TCGGATCCCACGGGTCAT 60.042 61.111 6.06 0.00 36.47 3.06
3200 3865 2.758327 CTCGGATCCCACGGGTCA 60.758 66.667 6.06 0.00 36.47 4.02
3201 3866 3.537874 CCTCGGATCCCACGGGTC 61.538 72.222 6.06 0.00 36.47 4.46
3202 3867 4.393778 ACCTCGGATCCCACGGGT 62.394 66.667 6.06 6.47 36.47 5.28
3203 3868 3.537874 GACCTCGGATCCCACGGG 61.538 72.222 6.06 5.82 0.00 5.28
3204 3869 2.442272 AGACCTCGGATCCCACGG 60.442 66.667 6.06 6.62 0.00 4.94
3205 3870 2.491022 GGAGACCTCGGATCCCACG 61.491 68.421 6.06 0.00 0.00 4.94
3206 3871 2.491022 CGGAGACCTCGGATCCCAC 61.491 68.421 6.06 0.00 32.43 4.61
3207 3872 2.123854 CGGAGACCTCGGATCCCA 60.124 66.667 6.06 0.00 32.43 4.37
3214 3879 4.271816 CCATCGCCGGAGACCTCG 62.272 72.222 11.10 0.00 0.00 4.63
3215 3880 3.148279 ACCATCGCCGGAGACCTC 61.148 66.667 11.10 0.00 0.00 3.85
3216 3881 3.461773 CACCATCGCCGGAGACCT 61.462 66.667 11.10 0.00 0.00 3.85
3217 3882 4.530857 CCACCATCGCCGGAGACC 62.531 72.222 11.10 0.00 0.00 3.85
3218 3883 4.530857 CCCACCATCGCCGGAGAC 62.531 72.222 11.10 0.00 0.00 3.36
3245 3910 4.688966 GGATCCAGATCCGCGGCC 62.689 72.222 23.51 15.11 46.84 6.13
3258 3923 1.749033 GACGGATCTGGGTGGGATC 59.251 63.158 6.47 0.00 38.92 3.36
3259 3924 2.134287 CGACGGATCTGGGTGGGAT 61.134 63.158 6.47 0.00 0.00 3.85
3260 3925 2.758327 CGACGGATCTGGGTGGGA 60.758 66.667 6.47 0.00 0.00 4.37
3261 3926 3.075005 ACGACGGATCTGGGTGGG 61.075 66.667 6.47 0.00 0.00 4.61
3262 3927 1.884075 TTGACGACGGATCTGGGTGG 61.884 60.000 6.47 0.00 0.00 4.61
3263 3928 0.736325 GTTGACGACGGATCTGGGTG 60.736 60.000 6.47 0.00 0.00 4.61
3264 3929 0.898789 AGTTGACGACGGATCTGGGT 60.899 55.000 6.47 3.24 0.00 4.51
3265 3930 0.179134 GAGTTGACGACGGATCTGGG 60.179 60.000 6.47 0.00 0.00 4.45
3266 3931 0.811915 AGAGTTGACGACGGATCTGG 59.188 55.000 6.47 0.00 0.00 3.86
3267 3932 2.095212 TGAAGAGTTGACGACGGATCTG 60.095 50.000 0.00 0.00 0.00 2.90
3268 3933 2.160205 TGAAGAGTTGACGACGGATCT 58.840 47.619 0.00 0.00 0.00 2.75
3269 3934 2.631418 TGAAGAGTTGACGACGGATC 57.369 50.000 0.00 0.00 0.00 3.36
3270 3935 2.417379 CCATGAAGAGTTGACGACGGAT 60.417 50.000 0.00 0.00 0.00 4.18
3271 3936 1.067846 CCATGAAGAGTTGACGACGGA 60.068 52.381 0.00 0.00 0.00 4.69
3272 3937 1.350193 CCATGAAGAGTTGACGACGG 58.650 55.000 0.00 0.00 0.00 4.79
3273 3938 0.716108 GCCATGAAGAGTTGACGACG 59.284 55.000 0.00 0.00 0.00 5.12
3274 3939 0.716108 CGCCATGAAGAGTTGACGAC 59.284 55.000 0.00 0.00 0.00 4.34
3275 3940 0.389817 CCGCCATGAAGAGTTGACGA 60.390 55.000 0.00 0.00 0.00 4.20
3276 3941 1.970917 GCCGCCATGAAGAGTTGACG 61.971 60.000 0.00 0.00 0.00 4.35
3277 3942 1.796796 GCCGCCATGAAGAGTTGAC 59.203 57.895 0.00 0.00 0.00 3.18
3278 3943 1.741401 CGCCGCCATGAAGAGTTGA 60.741 57.895 0.00 0.00 0.00 3.18
3279 3944 2.753966 CCGCCGCCATGAAGAGTTG 61.754 63.158 0.00 0.00 0.00 3.16
3280 3945 2.436646 CCGCCGCCATGAAGAGTT 60.437 61.111 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.