Multiple sequence alignment - TraesCS1B01G248200

Loading Multiple Alignment...

Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS1B01G248200 chr1B 100.000 3206 0 0 1 3206 439129755 439126550 0.000000e+00 5921.0
1 TraesCS1B01G248200 chr1D 96.369 2534 60 11 1 2524 326017584 326015073 0.000000e+00 4141.0
2 TraesCS1B01G248200 chr1D 94.949 99 5 0 2663 2761 326014871 326014773 4.280000e-34 156.0
3 TraesCS1B01G248200 chr1D 95.385 65 3 0 3023 3087 326014659 326014595 1.570000e-18 104.0
4 TraesCS1B01G248200 chr1D 93.617 47 1 1 2779 2825 326014777 326014733 5.740000e-08 69.4
5 TraesCS1B01G248200 chr1A 95.669 2563 72 14 1 2554 416537707 416540239 0.000000e+00 4082.0
6 TraesCS1B01G248200 chr1A 91.441 222 15 4 2693 2910 416540289 416540510 5.200000e-78 302.0


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 TraesCS1B01G248200 chr1B 439126550 439129755 3205 True 5921.0 5921 100.000 1 3206 1 chr1B.!!$R1 3205
1 TraesCS1B01G248200 chr1D 326014595 326017584 2989 True 1117.6 4141 95.080 1 3087 4 chr1D.!!$R1 3086
2 TraesCS1B01G248200 chr1A 416537707 416540510 2803 False 2192.0 4082 93.555 1 2910 2 chr1A.!!$F1 2909

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
320 323 5.654497 CTTGAAACCTCTGCTTTCACTTTT 58.346 37.5 0.00 0.00 37.36 2.27 F
1973 1977 0.457853 GATAGGCGCAACTCACGTGA 60.458 55.0 18.88 18.88 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2043 2047 0.955919 GGTAACTGCTGGTGTGCCTC 60.956 60.0 0.0 0.0 35.27 4.70 R
3123 3280 0.179073 AGATACACCCAGCGACATGC 60.179 55.0 0.0 0.0 46.98 4.06 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
181 184 6.659242 ACTGATGGTGTAAAACTATTTCAGGG 59.341 38.462 0.00 0.00 30.34 4.45
213 216 6.112734 TGTGTCAATATTATCACGGCTCTTT 58.887 36.000 13.65 0.00 34.08 2.52
320 323 5.654497 CTTGAAACCTCTGCTTTCACTTTT 58.346 37.500 0.00 0.00 37.36 2.27
321 324 5.659440 TGAAACCTCTGCTTTCACTTTTT 57.341 34.783 0.00 0.00 33.60 1.94
655 658 9.258629 TGTCCCAAATCTTGAGAATGATTTTAT 57.741 29.630 0.00 0.00 0.00 1.40
750 754 6.933521 CACCATGATAATCTCCTTAGTCCTTG 59.066 42.308 0.00 0.00 0.00 3.61
779 783 9.129209 GCTAACACTGATTTGGAAACTAAAATC 57.871 33.333 0.00 0.00 41.25 2.17
1191 1195 5.279206 CCATCGACACTCTAATTGCCTAGAT 60.279 44.000 0.00 0.00 0.00 1.98
1387 1391 4.944962 TCTGCTAATTCAACACCATTCG 57.055 40.909 0.00 0.00 0.00 3.34
1508 1512 1.898472 TCCTGCTGGAGAAGTCAGAAG 59.102 52.381 8.48 0.00 37.46 2.85
1546 1550 1.673168 GAGGTGTTGCTCCCATGATC 58.327 55.000 0.00 0.00 0.00 2.92
1686 1690 2.079925 GAGCAGGAGTTTGGTGATGTC 58.920 52.381 0.00 0.00 0.00 3.06
1800 1804 2.649312 TGGGGAAGAAAGTGGTGATGAT 59.351 45.455 0.00 0.00 0.00 2.45
1964 1968 1.667236 CCATTCAGTGATAGGCGCAA 58.333 50.000 10.83 0.00 0.00 4.85
1973 1977 0.457853 GATAGGCGCAACTCACGTGA 60.458 55.000 18.88 18.88 0.00 4.35
2043 2047 0.640768 GTTTCTCGAATCGGCACTCG 59.359 55.000 1.76 0.00 40.90 4.18
2259 2263 7.519032 TTTAGTTATTACAAACAGCCAAGCT 57.481 32.000 0.00 0.00 40.77 3.74
2343 2347 8.804743 CGTGTATTATATCTGTCAGAAACGTTT 58.195 33.333 14.57 14.57 0.00 3.60
2352 2356 3.242608 TGTCAGAAACGTTTTAGTGCAGC 60.243 43.478 15.89 0.00 0.00 5.25
2408 2415 4.743955 GCCTTGTTCTTGGTAGTCTTGTCT 60.744 45.833 0.00 0.00 0.00 3.41
2409 2416 5.510861 GCCTTGTTCTTGGTAGTCTTGTCTA 60.511 44.000 0.00 0.00 0.00 2.59
2410 2417 6.522054 CCTTGTTCTTGGTAGTCTTGTCTAA 58.478 40.000 0.00 0.00 0.00 2.10
2411 2418 7.162082 CCTTGTTCTTGGTAGTCTTGTCTAAT 58.838 38.462 0.00 0.00 0.00 1.73
2412 2419 7.661847 CCTTGTTCTTGGTAGTCTTGTCTAATT 59.338 37.037 0.00 0.00 0.00 1.40
2413 2420 8.974060 TTGTTCTTGGTAGTCTTGTCTAATTT 57.026 30.769 0.00 0.00 0.00 1.82
2414 2421 8.974060 TGTTCTTGGTAGTCTTGTCTAATTTT 57.026 30.769 0.00 0.00 0.00 1.82
2415 2422 9.403583 TGTTCTTGGTAGTCTTGTCTAATTTTT 57.596 29.630 0.00 0.00 0.00 1.94
2442 2449 4.156008 GTGTGAGGTTCTTTTTCTGTGTGT 59.844 41.667 0.00 0.00 0.00 3.72
2457 2464 2.436173 TGTGTGTGGTGGTTCTGTGATA 59.564 45.455 0.00 0.00 0.00 2.15
2491 2498 8.743085 ATGAGATATAACAGCATTTTCTGTGT 57.257 30.769 0.00 0.00 45.77 3.72
2508 2522 4.821805 TCTGTGTGTTCATTCTTTCCCTTC 59.178 41.667 0.00 0.00 0.00 3.46
2524 2552 6.448369 TTCCCTTCCTCTTTGTTCTTCATA 57.552 37.500 0.00 0.00 0.00 2.15
2526 2554 5.309543 TCCCTTCCTCTTTGTTCTTCATACA 59.690 40.000 0.00 0.00 0.00 2.29
2527 2555 5.645497 CCCTTCCTCTTTGTTCTTCATACAG 59.355 44.000 0.00 0.00 0.00 2.74
2528 2556 6.467677 CCTTCCTCTTTGTTCTTCATACAGA 58.532 40.000 0.00 0.00 0.00 3.41
2529 2557 7.108847 CCTTCCTCTTTGTTCTTCATACAGAT 58.891 38.462 0.00 0.00 0.00 2.90
2530 2558 7.609532 CCTTCCTCTTTGTTCTTCATACAGATT 59.390 37.037 0.00 0.00 0.00 2.40
2531 2559 7.912056 TCCTCTTTGTTCTTCATACAGATTG 57.088 36.000 0.00 0.00 0.00 2.67
2532 2560 7.453393 TCCTCTTTGTTCTTCATACAGATTGT 58.547 34.615 0.00 0.00 0.00 2.71
2533 2561 7.939039 TCCTCTTTGTTCTTCATACAGATTGTT 59.061 33.333 0.00 0.00 0.00 2.83
2534 2562 8.571336 CCTCTTTGTTCTTCATACAGATTGTTT 58.429 33.333 0.00 0.00 0.00 2.83
2535 2563 9.604626 CTCTTTGTTCTTCATACAGATTGTTTC 57.395 33.333 0.00 0.00 0.00 2.78
2536 2564 9.119418 TCTTTGTTCTTCATACAGATTGTTTCA 57.881 29.630 0.00 0.00 0.00 2.69
2537 2565 9.903682 CTTTGTTCTTCATACAGATTGTTTCAT 57.096 29.630 0.00 0.00 0.00 2.57
2539 2567 9.681692 TTGTTCTTCATACAGATTGTTTCATTG 57.318 29.630 0.00 0.00 0.00 2.82
2554 2582 5.182950 TGTTTCATTGCCTGTTACTATGGTG 59.817 40.000 0.00 0.00 0.00 4.17
2556 2584 5.372343 TCATTGCCTGTTACTATGGTGAT 57.628 39.130 0.00 0.00 0.00 3.06
2557 2585 6.493189 TCATTGCCTGTTACTATGGTGATA 57.507 37.500 0.00 0.00 0.00 2.15
2558 2586 7.078249 TCATTGCCTGTTACTATGGTGATAT 57.922 36.000 0.00 0.00 0.00 1.63
2560 2588 7.998383 TCATTGCCTGTTACTATGGTGATATTT 59.002 33.333 0.00 0.00 0.00 1.40
2561 2589 8.632679 CATTGCCTGTTACTATGGTGATATTTT 58.367 33.333 0.00 0.00 0.00 1.82
2562 2590 9.860650 ATTGCCTGTTACTATGGTGATATTTTA 57.139 29.630 0.00 0.00 0.00 1.52
2563 2591 9.860650 TTGCCTGTTACTATGGTGATATTTTAT 57.139 29.630 0.00 0.00 0.00 1.40
2564 2592 9.860650 TGCCTGTTACTATGGTGATATTTTATT 57.139 29.630 0.00 0.00 0.00 1.40
2575 2603 9.699410 ATGGTGATATTTTATTGACAAGGAGAA 57.301 29.630 0.00 0.00 0.00 2.87
2576 2604 9.699410 TGGTGATATTTTATTGACAAGGAGAAT 57.301 29.630 0.00 0.00 0.00 2.40
2584 2612 9.912634 TTTTATTGACAAGGAGAATTGATTGAC 57.087 29.630 0.00 0.00 34.20 3.18
2585 2613 5.611796 TTGACAAGGAGAATTGATTGACG 57.388 39.130 0.00 0.00 34.20 4.35
2586 2614 3.436704 TGACAAGGAGAATTGATTGACGC 59.563 43.478 0.00 0.00 34.20 5.19
2587 2615 2.416547 ACAAGGAGAATTGATTGACGCG 59.583 45.455 3.53 3.53 34.20 6.01
2588 2616 2.672874 CAAGGAGAATTGATTGACGCGA 59.327 45.455 15.93 0.00 31.55 5.87
2589 2617 2.544685 AGGAGAATTGATTGACGCGAG 58.455 47.619 15.93 0.00 0.00 5.03
2590 2618 2.166459 AGGAGAATTGATTGACGCGAGA 59.834 45.455 15.93 0.00 0.00 4.04
2591 2619 2.537625 GGAGAATTGATTGACGCGAGAG 59.462 50.000 15.93 0.00 0.00 3.20
2683 2840 7.502177 TTCGTACTGTTTTAGAGCTATTTCG 57.498 36.000 0.00 0.00 0.00 3.46
2704 2861 6.252967 TCGTTAATTGATTGACAATGTGCT 57.747 33.333 5.14 0.00 46.90 4.40
2708 2865 7.538575 GTTAATTGATTGACAATGTGCTAGGT 58.461 34.615 5.14 0.00 46.90 3.08
2747 2904 8.040727 AGGGGAAACAAATATAAAATGAGCAAC 58.959 33.333 0.00 0.00 0.00 4.17
2764 2921 5.525745 TGAGCAACGTATTTTCTTGTGAAGA 59.474 36.000 0.00 0.00 33.28 2.87
2767 2924 5.621228 GCAACGTATTTTCTTGTGAAGAGTG 59.379 40.000 0.00 0.00 39.03 3.51
2817 2974 4.127171 CTCCTTTTCCGTGAAGAGTTTCA 58.873 43.478 4.36 0.00 40.92 2.69
2884 3041 6.451393 AGACTCGAGAGTTCATAATATTGCC 58.549 40.000 21.68 0.00 42.66 4.52
2906 3063 5.065474 GCCGTTGCTAGGTTATTTTGACATA 59.935 40.000 0.00 0.00 33.53 2.29
2910 3067 7.643764 CGTTGCTAGGTTATTTTGACATAATGG 59.356 37.037 1.79 0.00 0.00 3.16
2911 3068 7.581213 TGCTAGGTTATTTTGACATAATGGG 57.419 36.000 1.79 0.00 0.00 4.00
2912 3069 6.549364 TGCTAGGTTATTTTGACATAATGGGG 59.451 38.462 1.79 0.00 0.00 4.96
2913 3070 6.775629 GCTAGGTTATTTTGACATAATGGGGA 59.224 38.462 1.79 0.00 0.00 4.81
2914 3071 7.286775 GCTAGGTTATTTTGACATAATGGGGAA 59.713 37.037 1.79 0.00 0.00 3.97
2915 3072 9.196139 CTAGGTTATTTTGACATAATGGGGAAA 57.804 33.333 1.79 0.00 0.00 3.13
2916 3073 8.442660 AGGTTATTTTGACATAATGGGGAAAA 57.557 30.769 1.79 0.00 0.00 2.29
2917 3074 9.056799 AGGTTATTTTGACATAATGGGGAAAAT 57.943 29.630 1.79 0.00 0.00 1.82
2921 3078 8.940768 ATTTTGACATAATGGGGAAAATAACG 57.059 30.769 0.00 0.00 0.00 3.18
2922 3079 7.469537 TTTGACATAATGGGGAAAATAACGT 57.530 32.000 0.00 0.00 0.00 3.99
2923 3080 7.469537 TTGACATAATGGGGAAAATAACGTT 57.530 32.000 5.88 5.88 0.00 3.99
2924 3081 6.857956 TGACATAATGGGGAAAATAACGTTG 58.142 36.000 11.99 0.00 0.00 4.10
2925 3082 6.659668 TGACATAATGGGGAAAATAACGTTGA 59.340 34.615 11.99 0.00 0.00 3.18
2926 3083 6.859017 ACATAATGGGGAAAATAACGTTGAC 58.141 36.000 11.99 0.00 0.00 3.18
2927 3084 6.434652 ACATAATGGGGAAAATAACGTTGACA 59.565 34.615 11.99 0.00 0.00 3.58
2928 3085 5.793030 AATGGGGAAAATAACGTTGACAA 57.207 34.783 11.99 0.00 0.00 3.18
2954 3111 6.018016 GTGCAGTTTGCCATGAACTAAAATTT 60.018 34.615 0.00 0.00 44.23 1.82
2959 3116 9.696917 AGTTTGCCATGAACTAAAATTTAAGAG 57.303 29.630 0.00 0.00 35.68 2.85
2978 3135 9.877178 TTTAAGAGCTGAAATTAACTCTAGGAG 57.123 33.333 0.00 0.00 38.53 3.69
2979 3136 7.489239 AAGAGCTGAAATTAACTCTAGGAGT 57.511 36.000 0.00 0.00 45.64 3.85
2980 3137 8.596781 AAGAGCTGAAATTAACTCTAGGAGTA 57.403 34.615 0.00 0.00 42.59 2.59
2981 3138 8.002984 AGAGCTGAAATTAACTCTAGGAGTAC 57.997 38.462 0.00 0.00 42.59 2.73
2982 3139 7.837187 AGAGCTGAAATTAACTCTAGGAGTACT 59.163 37.037 0.00 0.00 42.59 2.73
2983 3140 8.368962 AGCTGAAATTAACTCTAGGAGTACTT 57.631 34.615 0.00 0.00 42.59 2.24
2984 3141 8.471609 AGCTGAAATTAACTCTAGGAGTACTTC 58.528 37.037 0.00 0.00 42.59 3.01
3001 3158 9.944376 GGAGTACTTCCTATTTCATTATATGCA 57.056 33.333 0.00 0.00 43.16 3.96
3008 3165 9.812347 TTCCTATTTCATTATATGCATGTTCCT 57.188 29.630 10.16 0.00 0.00 3.36
3061 3218 7.083858 TGCTGATTATGTTCTGTTGTTTTAGC 58.916 34.615 0.00 0.00 0.00 3.09
3071 3228 5.985911 TCTGTTGTTTTAGCCTATAGGGAC 58.014 41.667 20.58 4.61 37.23 4.46
3072 3229 5.724854 TCTGTTGTTTTAGCCTATAGGGACT 59.275 40.000 20.58 11.96 46.37 3.85
3097 3254 2.169832 GTGCAACTCTTGTAGAGCCA 57.830 50.000 3.68 0.00 46.12 4.75
3098 3255 2.704572 GTGCAACTCTTGTAGAGCCAT 58.295 47.619 3.68 0.00 46.12 4.40
3099 3256 3.077359 GTGCAACTCTTGTAGAGCCATT 58.923 45.455 3.68 0.00 46.12 3.16
3100 3257 3.503748 GTGCAACTCTTGTAGAGCCATTT 59.496 43.478 3.68 0.00 46.12 2.32
3101 3258 3.753272 TGCAACTCTTGTAGAGCCATTTC 59.247 43.478 3.68 0.00 46.12 2.17
3102 3259 4.006319 GCAACTCTTGTAGAGCCATTTCT 58.994 43.478 3.68 0.00 46.12 2.52
3103 3260 4.457257 GCAACTCTTGTAGAGCCATTTCTT 59.543 41.667 3.68 0.00 46.12 2.52
3104 3261 5.048434 GCAACTCTTGTAGAGCCATTTCTTT 60.048 40.000 3.68 0.00 46.12 2.52
3105 3262 6.606768 CAACTCTTGTAGAGCCATTTCTTTC 58.393 40.000 3.68 0.00 46.12 2.62
3106 3263 5.869579 ACTCTTGTAGAGCCATTTCTTTCA 58.130 37.500 3.68 0.00 46.12 2.69
3107 3264 5.936956 ACTCTTGTAGAGCCATTTCTTTCAG 59.063 40.000 3.68 0.00 46.12 3.02
3108 3265 5.869579 TCTTGTAGAGCCATTTCTTTCAGT 58.130 37.500 0.00 0.00 0.00 3.41
3109 3266 5.934625 TCTTGTAGAGCCATTTCTTTCAGTC 59.065 40.000 0.00 0.00 0.00 3.51
3110 3267 5.227569 TGTAGAGCCATTTCTTTCAGTCA 57.772 39.130 0.00 0.00 0.00 3.41
3111 3268 5.809001 TGTAGAGCCATTTCTTTCAGTCAT 58.191 37.500 0.00 0.00 0.00 3.06
3112 3269 5.877012 TGTAGAGCCATTTCTTTCAGTCATC 59.123 40.000 0.00 0.00 0.00 2.92
3113 3270 4.914983 AGAGCCATTTCTTTCAGTCATCA 58.085 39.130 0.00 0.00 0.00 3.07
3114 3271 4.942483 AGAGCCATTTCTTTCAGTCATCAG 59.058 41.667 0.00 0.00 0.00 2.90
3115 3272 4.914983 AGCCATTTCTTTCAGTCATCAGA 58.085 39.130 0.00 0.00 0.00 3.27
3116 3273 5.319453 AGCCATTTCTTTCAGTCATCAGAA 58.681 37.500 0.00 0.00 0.00 3.02
3117 3274 5.182760 AGCCATTTCTTTCAGTCATCAGAAC 59.817 40.000 0.00 0.00 0.00 3.01
3118 3275 5.625251 CCATTTCTTTCAGTCATCAGAACG 58.375 41.667 0.00 0.00 0.00 3.95
3119 3276 5.409520 CCATTTCTTTCAGTCATCAGAACGA 59.590 40.000 0.00 0.00 0.00 3.85
3120 3277 6.093219 CCATTTCTTTCAGTCATCAGAACGAT 59.907 38.462 0.00 0.00 33.27 3.73
3129 3286 3.314763 CATCAGAACGATGTGCATGTC 57.685 47.619 0.00 0.00 45.61 3.06
3130 3287 1.349234 TCAGAACGATGTGCATGTCG 58.651 50.000 18.39 18.39 43.13 4.35
3131 3288 0.247419 CAGAACGATGTGCATGTCGC 60.247 55.000 19.48 7.96 41.31 5.19
3132 3289 0.390340 AGAACGATGTGCATGTCGCT 60.390 50.000 19.48 10.57 43.06 4.93
3133 3290 0.247419 GAACGATGTGCATGTCGCTG 60.247 55.000 19.48 0.00 43.06 5.18
3134 3291 1.638388 AACGATGTGCATGTCGCTGG 61.638 55.000 19.48 0.00 43.06 4.85
3135 3292 2.816360 CGATGTGCATGTCGCTGGG 61.816 63.158 10.14 0.00 43.06 4.45
3136 3293 1.746615 GATGTGCATGTCGCTGGGT 60.747 57.895 0.00 0.00 43.06 4.51
3137 3294 1.985447 GATGTGCATGTCGCTGGGTG 61.985 60.000 0.00 0.00 43.06 4.61
3138 3295 2.669569 GTGCATGTCGCTGGGTGT 60.670 61.111 0.00 0.00 43.06 4.16
3139 3296 1.375396 GTGCATGTCGCTGGGTGTA 60.375 57.895 0.00 0.00 43.06 2.90
3140 3297 0.744414 GTGCATGTCGCTGGGTGTAT 60.744 55.000 0.00 0.00 43.06 2.29
3141 3298 0.461870 TGCATGTCGCTGGGTGTATC 60.462 55.000 0.00 0.00 43.06 2.24
3142 3299 0.179073 GCATGTCGCTGGGTGTATCT 60.179 55.000 0.00 0.00 37.77 1.98
3143 3300 1.858091 CATGTCGCTGGGTGTATCTC 58.142 55.000 0.00 0.00 0.00 2.75
3144 3301 1.136891 CATGTCGCTGGGTGTATCTCA 59.863 52.381 0.00 0.00 0.00 3.27
3145 3302 0.817654 TGTCGCTGGGTGTATCTCAG 59.182 55.000 0.00 0.00 46.73 3.35
3146 3303 1.103803 GTCGCTGGGTGTATCTCAGA 58.896 55.000 0.00 0.00 46.95 3.27
3147 3304 1.476891 GTCGCTGGGTGTATCTCAGAA 59.523 52.381 0.00 0.00 46.95 3.02
3148 3305 2.094182 GTCGCTGGGTGTATCTCAGAAA 60.094 50.000 0.00 0.00 46.95 2.52
3149 3306 2.565391 TCGCTGGGTGTATCTCAGAAAA 59.435 45.455 0.00 0.00 46.95 2.29
3150 3307 3.197766 TCGCTGGGTGTATCTCAGAAAAT 59.802 43.478 0.00 0.00 46.95 1.82
3151 3308 3.310774 CGCTGGGTGTATCTCAGAAAATG 59.689 47.826 0.00 0.00 46.95 2.32
3152 3309 3.629398 GCTGGGTGTATCTCAGAAAATGG 59.371 47.826 0.00 0.00 46.95 3.16
3153 3310 3.620488 TGGGTGTATCTCAGAAAATGGC 58.380 45.455 0.00 0.00 0.00 4.40
3154 3311 3.010027 TGGGTGTATCTCAGAAAATGGCA 59.990 43.478 0.00 0.00 0.00 4.92
3155 3312 4.016444 GGGTGTATCTCAGAAAATGGCAA 58.984 43.478 0.00 0.00 0.00 4.52
3156 3313 4.646492 GGGTGTATCTCAGAAAATGGCAAT 59.354 41.667 0.00 0.00 0.00 3.56
3157 3314 5.450965 GGGTGTATCTCAGAAAATGGCAATG 60.451 44.000 0.00 0.00 0.00 2.82
3158 3315 5.450965 GGTGTATCTCAGAAAATGGCAATGG 60.451 44.000 0.00 0.00 0.00 3.16
3159 3316 3.814005 ATCTCAGAAAATGGCAATGGC 57.186 42.857 0.00 0.00 40.13 4.40
3160 3317 1.473677 TCTCAGAAAATGGCAATGGCG 59.526 47.619 1.51 0.00 42.47 5.69
3161 3318 0.531657 TCAGAAAATGGCAATGGCGG 59.468 50.000 1.51 0.00 42.47 6.13
3162 3319 0.531657 CAGAAAATGGCAATGGCGGA 59.468 50.000 1.51 0.00 42.47 5.54
3163 3320 1.137479 CAGAAAATGGCAATGGCGGAT 59.863 47.619 1.51 0.00 42.47 4.18
3164 3321 1.832998 AGAAAATGGCAATGGCGGATT 59.167 42.857 1.51 0.00 42.47 3.01
3165 3322 2.236893 AGAAAATGGCAATGGCGGATTT 59.763 40.909 1.51 3.29 42.47 2.17
3166 3323 2.785540 AAATGGCAATGGCGGATTTT 57.214 40.000 1.51 0.00 42.47 1.82
3167 3324 2.027003 AATGGCAATGGCGGATTTTG 57.973 45.000 1.51 0.00 42.47 2.44
3168 3325 1.193323 ATGGCAATGGCGGATTTTGA 58.807 45.000 1.51 0.00 42.47 2.69
3169 3326 1.193323 TGGCAATGGCGGATTTTGAT 58.807 45.000 1.51 0.00 42.47 2.57
3170 3327 1.554160 TGGCAATGGCGGATTTTGATT 59.446 42.857 1.51 0.00 42.47 2.57
3171 3328 1.935199 GGCAATGGCGGATTTTGATTG 59.065 47.619 0.00 0.00 42.47 2.67
3172 3329 2.620242 GCAATGGCGGATTTTGATTGT 58.380 42.857 0.00 0.00 0.00 2.71
3173 3330 3.002102 GCAATGGCGGATTTTGATTGTT 58.998 40.909 0.00 0.00 0.00 2.83
3174 3331 3.062504 GCAATGGCGGATTTTGATTGTTC 59.937 43.478 0.00 0.00 0.00 3.18
3175 3332 4.244066 CAATGGCGGATTTTGATTGTTCA 58.756 39.130 0.00 0.00 0.00 3.18
3176 3333 3.574284 TGGCGGATTTTGATTGTTCAG 57.426 42.857 0.00 0.00 32.27 3.02
3177 3334 2.890311 TGGCGGATTTTGATTGTTCAGT 59.110 40.909 0.00 0.00 32.27 3.41
3178 3335 3.057596 TGGCGGATTTTGATTGTTCAGTC 60.058 43.478 0.00 0.00 32.27 3.51
3179 3336 3.057596 GGCGGATTTTGATTGTTCAGTCA 60.058 43.478 0.00 0.00 32.27 3.41
3180 3337 4.380867 GGCGGATTTTGATTGTTCAGTCAT 60.381 41.667 0.00 0.00 32.27 3.06
3181 3338 4.560035 GCGGATTTTGATTGTTCAGTCATG 59.440 41.667 0.00 0.00 32.27 3.07
3182 3339 5.619757 GCGGATTTTGATTGTTCAGTCATGA 60.620 40.000 0.00 0.00 32.27 3.07
3183 3340 6.558009 CGGATTTTGATTGTTCAGTCATGAT 58.442 36.000 0.00 0.00 34.73 2.45
3184 3341 7.679400 GCGGATTTTGATTGTTCAGTCATGATA 60.679 37.037 0.00 0.00 34.73 2.15
3185 3342 8.183536 CGGATTTTGATTGTTCAGTCATGATAA 58.816 33.333 0.00 0.00 34.73 1.75
3186 3343 9.512435 GGATTTTGATTGTTCAGTCATGATAAG 57.488 33.333 0.00 0.00 34.73 1.73
3190 3347 9.452287 TTTGATTGTTCAGTCATGATAAGATGA 57.548 29.630 0.00 0.00 34.73 2.92
3191 3348 9.623000 TTGATTGTTCAGTCATGATAAGATGAT 57.377 29.630 0.00 0.00 34.86 2.45
3192 3349 9.052759 TGATTGTTCAGTCATGATAAGATGATG 57.947 33.333 0.00 0.00 34.86 3.07
3193 3350 9.269453 GATTGTTCAGTCATGATAAGATGATGA 57.731 33.333 0.00 0.00 34.86 2.92
3201 3358 7.248743 TCATGATAAGATGATGACATAGCCA 57.751 36.000 0.00 0.00 36.82 4.75
3202 3359 7.328737 TCATGATAAGATGATGACATAGCCAG 58.671 38.462 0.00 0.00 36.82 4.85
3203 3360 6.923199 TGATAAGATGATGACATAGCCAGA 57.077 37.500 0.00 0.00 36.82 3.86
3204 3361 6.695429 TGATAAGATGATGACATAGCCAGAC 58.305 40.000 0.00 0.00 36.82 3.51
3205 3362 6.268387 TGATAAGATGATGACATAGCCAGACA 59.732 38.462 0.00 0.00 36.82 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
171 174 5.530915 TGACACAACAGAAACCCTGAAATAG 59.469 40.000 0.00 0.00 45.78 1.73
181 184 7.692291 CCGTGATAATATTGACACAACAGAAAC 59.308 37.037 19.28 0.00 33.56 2.78
213 216 1.871039 GGTTCTGCACGCTTCAAAGTA 59.129 47.619 0.00 0.00 0.00 2.24
321 324 5.596836 AGACAAATGCACCTTCAGAAAAA 57.403 34.783 0.00 0.00 0.00 1.94
449 452 9.791801 AAAATTAGTAATTTGCCACAGGAAATT 57.208 25.926 19.15 9.67 40.05 1.82
486 489 3.993736 GACGGCATTAAACAAGGCAAATT 59.006 39.130 0.00 0.00 0.00 1.82
568 571 9.424319 CAGTACAATAGTTCTTGTCTAACATGT 57.576 33.333 0.00 0.00 39.88 3.21
655 658 9.802039 AAAGTTCTGGTACAAATGGTAAATAGA 57.198 29.630 0.00 0.00 38.70 1.98
750 754 2.507407 TCCAAATCAGTGTTAGCCCC 57.493 50.000 0.00 0.00 0.00 5.80
1191 1195 4.222810 TCTCCATTCATTTCTCTGAACCGA 59.777 41.667 0.00 0.00 37.93 4.69
1508 1512 2.286872 TCGACTTCTCGTCCAGATACC 58.713 52.381 0.00 0.00 41.02 2.73
1546 1550 1.720852 GCTACCAACAAATTTGCAGCG 59.279 47.619 18.12 5.93 0.00 5.18
1686 1690 4.256110 TCTGTGACCTGATTGCACTAATG 58.744 43.478 0.00 0.00 33.83 1.90
1743 1747 4.870363 GAGACATTGCATCTCTAGTCTCC 58.130 47.826 8.30 0.00 43.65 3.71
1973 1977 1.454479 CGGATGCCCTGCCAATCTT 60.454 57.895 0.00 0.00 0.00 2.40
2043 2047 0.955919 GGTAACTGCTGGTGTGCCTC 60.956 60.000 0.00 0.00 35.27 4.70
2259 2263 8.828751 ACCACCACTAACTATTTTACAAGGATA 58.171 33.333 0.00 0.00 0.00 2.59
2333 2337 3.291585 CAGCTGCACTAAAACGTTTCTG 58.708 45.455 15.01 10.48 0.00 3.02
2352 2356 5.006386 ACATTTAGAAGGGAAGTTCTGCAG 58.994 41.667 7.63 7.63 37.36 4.41
2412 2419 7.090173 CAGAAAAAGAACCTCACACAGAAAAA 58.910 34.615 0.00 0.00 0.00 1.94
2413 2420 6.208599 ACAGAAAAAGAACCTCACACAGAAAA 59.791 34.615 0.00 0.00 0.00 2.29
2414 2421 5.710099 ACAGAAAAAGAACCTCACACAGAAA 59.290 36.000 0.00 0.00 0.00 2.52
2415 2422 5.123820 CACAGAAAAAGAACCTCACACAGAA 59.876 40.000 0.00 0.00 0.00 3.02
2416 2423 4.635765 CACAGAAAAAGAACCTCACACAGA 59.364 41.667 0.00 0.00 0.00 3.41
2417 2424 4.396166 ACACAGAAAAAGAACCTCACACAG 59.604 41.667 0.00 0.00 0.00 3.66
2418 2425 4.155826 CACACAGAAAAAGAACCTCACACA 59.844 41.667 0.00 0.00 0.00 3.72
2419 2426 4.156008 ACACACAGAAAAAGAACCTCACAC 59.844 41.667 0.00 0.00 0.00 3.82
2420 2427 4.155826 CACACACAGAAAAAGAACCTCACA 59.844 41.667 0.00 0.00 0.00 3.58
2421 2428 4.438744 CCACACACAGAAAAAGAACCTCAC 60.439 45.833 0.00 0.00 0.00 3.51
2422 2429 3.694072 CCACACACAGAAAAAGAACCTCA 59.306 43.478 0.00 0.00 0.00 3.86
2423 2430 3.694566 ACCACACACAGAAAAAGAACCTC 59.305 43.478 0.00 0.00 0.00 3.85
2424 2431 3.443681 CACCACACACAGAAAAAGAACCT 59.556 43.478 0.00 0.00 0.00 3.50
2425 2432 3.428862 CCACCACACACAGAAAAAGAACC 60.429 47.826 0.00 0.00 0.00 3.62
2426 2433 3.192633 ACCACCACACACAGAAAAAGAAC 59.807 43.478 0.00 0.00 0.00 3.01
2429 2436 3.443681 AGAACCACCACACACAGAAAAAG 59.556 43.478 0.00 0.00 0.00 2.27
2442 2449 5.042463 TCAACTTTATCACAGAACCACCA 57.958 39.130 0.00 0.00 0.00 4.17
2488 2495 4.145052 AGGAAGGGAAAGAATGAACACAC 58.855 43.478 0.00 0.00 0.00 3.82
2489 2496 4.104738 AGAGGAAGGGAAAGAATGAACACA 59.895 41.667 0.00 0.00 0.00 3.72
2490 2497 4.657013 AGAGGAAGGGAAAGAATGAACAC 58.343 43.478 0.00 0.00 0.00 3.32
2491 2498 5.324832 AAGAGGAAGGGAAAGAATGAACA 57.675 39.130 0.00 0.00 0.00 3.18
2508 2522 7.678947 ACAATCTGTATGAAGAACAAAGAGG 57.321 36.000 0.00 0.00 0.00 3.69
2524 2552 4.942761 AACAGGCAATGAAACAATCTGT 57.057 36.364 0.00 0.00 35.79 3.41
2526 2554 7.148018 CCATAGTAACAGGCAATGAAACAATCT 60.148 37.037 0.00 0.00 0.00 2.40
2527 2555 6.974622 CCATAGTAACAGGCAATGAAACAATC 59.025 38.462 0.00 0.00 0.00 2.67
2528 2556 6.437162 ACCATAGTAACAGGCAATGAAACAAT 59.563 34.615 0.00 0.00 0.00 2.71
2529 2557 5.772672 ACCATAGTAACAGGCAATGAAACAA 59.227 36.000 0.00 0.00 0.00 2.83
2530 2558 5.182950 CACCATAGTAACAGGCAATGAAACA 59.817 40.000 0.00 0.00 0.00 2.83
2531 2559 5.414454 TCACCATAGTAACAGGCAATGAAAC 59.586 40.000 0.00 0.00 0.00 2.78
2532 2560 5.565509 TCACCATAGTAACAGGCAATGAAA 58.434 37.500 0.00 0.00 0.00 2.69
2533 2561 5.172687 TCACCATAGTAACAGGCAATGAA 57.827 39.130 0.00 0.00 0.00 2.57
2534 2562 4.835284 TCACCATAGTAACAGGCAATGA 57.165 40.909 0.00 0.00 0.00 2.57
2535 2563 7.750229 AATATCACCATAGTAACAGGCAATG 57.250 36.000 0.00 0.00 0.00 2.82
2536 2564 8.766994 AAAATATCACCATAGTAACAGGCAAT 57.233 30.769 0.00 0.00 0.00 3.56
2537 2565 9.860650 ATAAAATATCACCATAGTAACAGGCAA 57.139 29.630 0.00 0.00 0.00 4.52
2538 2566 9.860650 AATAAAATATCACCATAGTAACAGGCA 57.139 29.630 0.00 0.00 0.00 4.75
2558 2586 9.912634 GTCAATCAATTCTCCTTGTCAATAAAA 57.087 29.630 0.00 0.00 0.00 1.52
2560 2588 7.626240 GCGTCAATCAATTCTCCTTGTCAATAA 60.626 37.037 0.00 0.00 0.00 1.40
2561 2589 6.183360 GCGTCAATCAATTCTCCTTGTCAATA 60.183 38.462 0.00 0.00 0.00 1.90
2562 2590 5.392380 GCGTCAATCAATTCTCCTTGTCAAT 60.392 40.000 0.00 0.00 0.00 2.57
2563 2591 4.083324 GCGTCAATCAATTCTCCTTGTCAA 60.083 41.667 0.00 0.00 0.00 3.18
2564 2592 3.436704 GCGTCAATCAATTCTCCTTGTCA 59.563 43.478 0.00 0.00 0.00 3.58
2565 2593 3.484229 CGCGTCAATCAATTCTCCTTGTC 60.484 47.826 0.00 0.00 0.00 3.18
2566 2594 2.416547 CGCGTCAATCAATTCTCCTTGT 59.583 45.455 0.00 0.00 0.00 3.16
2567 2595 2.672874 TCGCGTCAATCAATTCTCCTTG 59.327 45.455 5.77 0.00 0.00 3.61
2568 2596 2.932614 CTCGCGTCAATCAATTCTCCTT 59.067 45.455 5.77 0.00 0.00 3.36
2569 2597 2.166459 TCTCGCGTCAATCAATTCTCCT 59.834 45.455 5.77 0.00 0.00 3.69
2570 2598 2.537625 CTCTCGCGTCAATCAATTCTCC 59.462 50.000 5.77 0.00 0.00 3.71
2571 2599 2.034170 GCTCTCGCGTCAATCAATTCTC 60.034 50.000 5.77 0.00 0.00 2.87
2572 2600 1.929836 GCTCTCGCGTCAATCAATTCT 59.070 47.619 5.77 0.00 0.00 2.40
2573 2601 1.929836 AGCTCTCGCGTCAATCAATTC 59.070 47.619 5.77 0.00 42.32 2.17
2574 2602 2.015736 AGCTCTCGCGTCAATCAATT 57.984 45.000 5.77 0.00 42.32 2.32
2575 2603 2.871182 TAGCTCTCGCGTCAATCAAT 57.129 45.000 5.77 0.00 42.32 2.57
2576 2604 2.871182 ATAGCTCTCGCGTCAATCAA 57.129 45.000 5.77 0.00 42.32 2.57
2577 2605 2.871182 AATAGCTCTCGCGTCAATCA 57.129 45.000 5.77 0.00 42.32 2.57
2578 2606 3.116300 TGAAATAGCTCTCGCGTCAATC 58.884 45.455 5.77 0.00 42.32 2.67
2579 2607 3.165058 TGAAATAGCTCTCGCGTCAAT 57.835 42.857 5.77 0.00 42.32 2.57
2580 2608 2.647529 TGAAATAGCTCTCGCGTCAA 57.352 45.000 5.77 0.00 42.32 3.18
2581 2609 2.871182 ATGAAATAGCTCTCGCGTCA 57.129 45.000 5.77 0.00 42.32 4.35
2582 2610 4.090642 CCATAATGAAATAGCTCTCGCGTC 59.909 45.833 5.77 0.00 42.32 5.19
2583 2611 3.990469 CCATAATGAAATAGCTCTCGCGT 59.010 43.478 5.77 0.00 42.32 6.01
2584 2612 3.990469 ACCATAATGAAATAGCTCTCGCG 59.010 43.478 0.00 0.00 42.32 5.87
2585 2613 4.991056 TCACCATAATGAAATAGCTCTCGC 59.009 41.667 0.00 0.00 0.00 5.03
2586 2614 7.482654 TTTCACCATAATGAAATAGCTCTCG 57.517 36.000 0.00 0.00 42.32 4.04
2602 2630 9.748708 CGTCAATAAAATCCATAATTTCACCAT 57.251 29.630 0.00 0.00 36.54 3.55
2603 2631 7.704472 GCGTCAATAAAATCCATAATTTCACCA 59.296 33.333 0.00 0.00 36.54 4.17
2604 2632 7.096640 CGCGTCAATAAAATCCATAATTTCACC 60.097 37.037 0.00 0.00 36.54 4.02
2605 2633 7.642194 TCGCGTCAATAAAATCCATAATTTCAC 59.358 33.333 5.77 0.00 36.54 3.18
2606 2634 7.698628 TCGCGTCAATAAAATCCATAATTTCA 58.301 30.769 5.77 0.00 36.54 2.69
2607 2635 8.067784 TCTCGCGTCAATAAAATCCATAATTTC 58.932 33.333 5.77 0.00 36.54 2.17
2608 2636 7.925993 TCTCGCGTCAATAAAATCCATAATTT 58.074 30.769 5.77 0.00 39.30 1.82
2609 2637 7.490962 TCTCGCGTCAATAAAATCCATAATT 57.509 32.000 5.77 0.00 0.00 1.40
2610 2638 6.347725 GCTCTCGCGTCAATAAAATCCATAAT 60.348 38.462 5.77 0.00 0.00 1.28
2611 2639 5.050363 GCTCTCGCGTCAATAAAATCCATAA 60.050 40.000 5.77 0.00 0.00 1.90
2612 2640 4.447724 GCTCTCGCGTCAATAAAATCCATA 59.552 41.667 5.77 0.00 0.00 2.74
2627 2655 6.215477 TGAAATAATGAAATAGCTCTCGCG 57.785 37.500 0.00 0.00 42.32 5.87
2651 2679 9.431887 AGCTCTAAAACAGTACGAAAATCATAA 57.568 29.630 0.00 0.00 0.00 1.90
2657 2685 8.430063 CGAAATAGCTCTAAAACAGTACGAAAA 58.570 33.333 0.00 0.00 0.00 2.29
2658 2686 7.596248 ACGAAATAGCTCTAAAACAGTACGAAA 59.404 33.333 0.00 0.00 0.00 3.46
2659 2687 7.086376 ACGAAATAGCTCTAAAACAGTACGAA 58.914 34.615 0.00 0.00 0.00 3.85
2660 2688 6.615088 ACGAAATAGCTCTAAAACAGTACGA 58.385 36.000 0.00 0.00 0.00 3.43
2661 2689 6.866179 ACGAAATAGCTCTAAAACAGTACG 57.134 37.500 0.00 0.00 0.00 3.67
2683 2840 7.538575 ACCTAGCACATTGTCAATCAATTAAC 58.461 34.615 0.00 0.00 43.33 2.01
2704 2861 3.214985 TCCCCTTCCCCCATTATTACCTA 59.785 47.826 0.00 0.00 0.00 3.08
2708 2865 3.865387 TGTTTCCCCTTCCCCCATTATTA 59.135 43.478 0.00 0.00 0.00 0.98
2747 2904 6.525121 TGACACTCTTCACAAGAAAATACG 57.475 37.500 0.00 0.00 37.02 3.06
2756 2913 4.753516 TTCTCCTTGACACTCTTCACAA 57.246 40.909 0.00 0.00 0.00 3.33
2764 2921 3.213206 TGCACAATTCTCCTTGACACT 57.787 42.857 0.00 0.00 0.00 3.55
2767 2924 3.503363 TGTCATGCACAATTCTCCTTGAC 59.497 43.478 0.00 0.00 34.71 3.18
2817 2974 8.125978 TCATTTCTTCATGCAAAATACTCCTT 57.874 30.769 0.00 0.00 0.00 3.36
2824 2981 5.741011 AGCCATCATTTCTTCATGCAAAAT 58.259 33.333 0.00 0.00 0.00 1.82
2884 3041 7.643764 CCATTATGTCAAAATAACCTAGCAACG 59.356 37.037 0.00 0.00 0.00 4.10
2906 3063 5.303333 ACTTGTCAACGTTATTTTCCCCATT 59.697 36.000 0.00 0.00 0.00 3.16
2910 3067 3.978855 GCACTTGTCAACGTTATTTTCCC 59.021 43.478 0.00 0.00 0.00 3.97
2911 3068 4.602995 TGCACTTGTCAACGTTATTTTCC 58.397 39.130 0.00 0.00 0.00 3.13
2912 3069 5.270853 ACTGCACTTGTCAACGTTATTTTC 58.729 37.500 0.00 0.00 0.00 2.29
2913 3070 5.243426 ACTGCACTTGTCAACGTTATTTT 57.757 34.783 0.00 0.00 0.00 1.82
2914 3071 4.893424 ACTGCACTTGTCAACGTTATTT 57.107 36.364 0.00 0.00 0.00 1.40
2915 3072 4.893424 AACTGCACTTGTCAACGTTATT 57.107 36.364 0.00 0.00 0.00 1.40
2916 3073 4.597079 CAAACTGCACTTGTCAACGTTAT 58.403 39.130 0.00 0.00 0.00 1.89
2917 3074 3.729462 GCAAACTGCACTTGTCAACGTTA 60.729 43.478 0.00 0.00 44.26 3.18
2918 3075 2.862512 CAAACTGCACTTGTCAACGTT 58.137 42.857 0.00 0.00 0.00 3.99
2919 3076 1.467374 GCAAACTGCACTTGTCAACGT 60.467 47.619 5.83 0.00 44.26 3.99
2920 3077 1.191096 GCAAACTGCACTTGTCAACG 58.809 50.000 5.83 0.00 44.26 4.10
2954 3111 8.596781 ACTCCTAGAGTTAATTTCAGCTCTTA 57.403 34.615 0.60 0.00 40.28 2.10
2959 3116 7.707464 GGAAGTACTCCTAGAGTTAATTTCAGC 59.293 40.741 2.05 0.00 40.28 4.26
2982 3139 9.812347 AGGAACATGCATATAATGAAATAGGAA 57.188 29.630 0.00 0.00 0.00 3.36
2997 3154 9.027202 TGCATATAATGAAATAGGAACATGCAT 57.973 29.630 0.00 0.00 39.86 3.96
2998 3155 8.406730 TGCATATAATGAAATAGGAACATGCA 57.593 30.769 0.00 0.00 41.78 3.96
2999 3156 9.865321 AATGCATATAATGAAATAGGAACATGC 57.135 29.630 0.00 0.00 36.48 4.06
3001 3158 9.865321 GCAATGCATATAATGAAATAGGAACAT 57.135 29.630 0.00 0.00 0.00 2.71
3002 3159 8.022550 CGCAATGCATATAATGAAATAGGAACA 58.977 33.333 5.91 0.00 0.00 3.18
3003 3160 7.485913 CCGCAATGCATATAATGAAATAGGAAC 59.514 37.037 5.91 0.00 0.00 3.62
3004 3161 7.392953 TCCGCAATGCATATAATGAAATAGGAA 59.607 33.333 5.91 0.00 0.00 3.36
3005 3162 6.883756 TCCGCAATGCATATAATGAAATAGGA 59.116 34.615 5.91 0.00 0.00 2.94
3006 3163 7.087409 TCCGCAATGCATATAATGAAATAGG 57.913 36.000 5.91 0.00 0.00 2.57
3007 3164 8.969121 TTTCCGCAATGCATATAATGAAATAG 57.031 30.769 5.91 0.00 0.00 1.73
3008 3165 9.571810 GATTTCCGCAATGCATATAATGAAATA 57.428 29.630 17.09 1.08 0.00 1.40
3009 3166 8.089597 TGATTTCCGCAATGCATATAATGAAAT 58.910 29.630 17.08 17.08 0.00 2.17
3010 3167 7.432059 TGATTTCCGCAATGCATATAATGAAA 58.568 30.769 5.91 6.70 0.00 2.69
3011 3168 6.979465 TGATTTCCGCAATGCATATAATGAA 58.021 32.000 5.91 0.00 0.00 2.57
3012 3169 6.572167 TGATTTCCGCAATGCATATAATGA 57.428 33.333 5.91 0.00 0.00 2.57
3013 3170 6.237728 GCATGATTTCCGCAATGCATATAATG 60.238 38.462 5.91 0.00 35.35 1.90
3014 3171 5.808540 GCATGATTTCCGCAATGCATATAAT 59.191 36.000 5.91 0.00 35.35 1.28
3015 3172 5.047872 AGCATGATTTCCGCAATGCATATAA 60.048 36.000 5.91 0.00 37.48 0.98
3016 3173 4.460034 AGCATGATTTCCGCAATGCATATA 59.540 37.500 5.91 0.00 37.48 0.86
3017 3174 3.257375 AGCATGATTTCCGCAATGCATAT 59.743 39.130 5.91 0.00 37.48 1.78
3018 3175 2.624364 AGCATGATTTCCGCAATGCATA 59.376 40.909 5.91 0.00 37.48 3.14
3019 3176 1.411246 AGCATGATTTCCGCAATGCAT 59.589 42.857 5.91 0.00 37.48 3.96
3020 3177 0.818938 AGCATGATTTCCGCAATGCA 59.181 45.000 5.91 0.00 37.48 3.96
3021 3178 1.202325 TCAGCATGATTTCCGCAATGC 60.202 47.619 0.00 0.00 42.56 3.56
3061 3218 0.962489 CACTCCGCAGTCCCTATAGG 59.038 60.000 12.27 12.27 0.00 2.57
3072 3229 5.709071 CTCTACAAGAGTTGCACTCCGCA 62.709 52.174 11.24 0.00 46.18 5.69
3087 3244 5.620206 TGACTGAAAGAAATGGCTCTACAA 58.380 37.500 0.00 0.00 37.43 2.41
3088 3245 5.227569 TGACTGAAAGAAATGGCTCTACA 57.772 39.130 0.00 0.00 37.43 2.74
3089 3246 5.877012 TGATGACTGAAAGAAATGGCTCTAC 59.123 40.000 0.00 0.00 37.43 2.59
3090 3247 6.053632 TGATGACTGAAAGAAATGGCTCTA 57.946 37.500 0.00 0.00 37.43 2.43
3091 3248 4.914983 TGATGACTGAAAGAAATGGCTCT 58.085 39.130 0.00 0.00 37.43 4.09
3092 3249 4.940046 TCTGATGACTGAAAGAAATGGCTC 59.060 41.667 0.00 0.00 37.43 4.70
3093 3250 4.914983 TCTGATGACTGAAAGAAATGGCT 58.085 39.130 0.00 0.00 37.43 4.75
3094 3251 5.397326 GTTCTGATGACTGAAAGAAATGGC 58.603 41.667 0.00 0.00 37.43 4.40
3095 3252 5.409520 TCGTTCTGATGACTGAAAGAAATGG 59.590 40.000 0.00 0.00 38.56 3.16
3096 3253 6.471976 TCGTTCTGATGACTGAAAGAAATG 57.528 37.500 0.00 0.00 38.56 2.32
3110 3267 1.929169 CGACATGCACATCGTTCTGAT 59.071 47.619 12.21 0.00 38.01 2.90
3111 3268 1.349234 CGACATGCACATCGTTCTGA 58.651 50.000 12.21 0.00 33.63 3.27
3112 3269 0.247419 GCGACATGCACATCGTTCTG 60.247 55.000 19.36 1.07 45.45 3.02
3113 3270 2.081526 GCGACATGCACATCGTTCT 58.918 52.632 19.36 0.00 45.45 3.01
3114 3271 4.651317 GCGACATGCACATCGTTC 57.349 55.556 19.36 3.93 45.45 3.95
3123 3280 0.179073 AGATACACCCAGCGACATGC 60.179 55.000 0.00 0.00 46.98 4.06
3124 3281 1.136891 TGAGATACACCCAGCGACATG 59.863 52.381 0.00 0.00 0.00 3.21
3125 3282 1.410517 CTGAGATACACCCAGCGACAT 59.589 52.381 0.00 0.00 0.00 3.06
3126 3283 0.817654 CTGAGATACACCCAGCGACA 59.182 55.000 0.00 0.00 0.00 4.35
3127 3284 1.103803 TCTGAGATACACCCAGCGAC 58.896 55.000 0.00 0.00 0.00 5.19
3128 3285 1.847328 TTCTGAGATACACCCAGCGA 58.153 50.000 0.00 0.00 0.00 4.93
3129 3286 2.672961 TTTCTGAGATACACCCAGCG 57.327 50.000 0.00 0.00 0.00 5.18
3130 3287 3.629398 CCATTTTCTGAGATACACCCAGC 59.371 47.826 0.00 0.00 0.00 4.85
3131 3288 3.629398 GCCATTTTCTGAGATACACCCAG 59.371 47.826 0.00 0.00 0.00 4.45
3132 3289 3.010027 TGCCATTTTCTGAGATACACCCA 59.990 43.478 0.00 0.00 0.00 4.51
3133 3290 3.620488 TGCCATTTTCTGAGATACACCC 58.380 45.455 0.00 0.00 0.00 4.61
3134 3291 5.450965 CCATTGCCATTTTCTGAGATACACC 60.451 44.000 0.00 0.00 0.00 4.16
3135 3292 5.585390 CCATTGCCATTTTCTGAGATACAC 58.415 41.667 0.00 0.00 0.00 2.90
3136 3293 4.098349 GCCATTGCCATTTTCTGAGATACA 59.902 41.667 0.00 0.00 0.00 2.29
3137 3294 4.614946 GCCATTGCCATTTTCTGAGATAC 58.385 43.478 0.00 0.00 0.00 2.24
3138 3295 3.316029 CGCCATTGCCATTTTCTGAGATA 59.684 43.478 0.00 0.00 0.00 1.98
3139 3296 2.100252 CGCCATTGCCATTTTCTGAGAT 59.900 45.455 0.00 0.00 0.00 2.75
3140 3297 1.473677 CGCCATTGCCATTTTCTGAGA 59.526 47.619 0.00 0.00 0.00 3.27
3141 3298 1.470285 CCGCCATTGCCATTTTCTGAG 60.470 52.381 0.00 0.00 0.00 3.35
3142 3299 0.531657 CCGCCATTGCCATTTTCTGA 59.468 50.000 0.00 0.00 0.00 3.27
3143 3300 0.531657 TCCGCCATTGCCATTTTCTG 59.468 50.000 0.00 0.00 0.00 3.02
3144 3301 1.488390 ATCCGCCATTGCCATTTTCT 58.512 45.000 0.00 0.00 0.00 2.52
3145 3302 2.314323 AATCCGCCATTGCCATTTTC 57.686 45.000 0.00 0.00 0.00 2.29
3146 3303 2.748532 CAAAATCCGCCATTGCCATTTT 59.251 40.909 1.99 1.99 37.13 1.82
3147 3304 2.027377 TCAAAATCCGCCATTGCCATTT 60.027 40.909 0.00 0.00 31.15 2.32
3148 3305 1.554160 TCAAAATCCGCCATTGCCATT 59.446 42.857 0.00 0.00 0.00 3.16
3149 3306 1.193323 TCAAAATCCGCCATTGCCAT 58.807 45.000 0.00 0.00 0.00 4.40
3150 3307 1.193323 ATCAAAATCCGCCATTGCCA 58.807 45.000 0.00 0.00 0.00 4.92
3151 3308 1.935199 CAATCAAAATCCGCCATTGCC 59.065 47.619 0.00 0.00 0.00 4.52
3152 3309 2.620242 ACAATCAAAATCCGCCATTGC 58.380 42.857 0.00 0.00 0.00 3.56
3153 3310 4.244066 TGAACAATCAAAATCCGCCATTG 58.756 39.130 0.00 0.00 30.99 2.82
3154 3311 4.021192 ACTGAACAATCAAAATCCGCCATT 60.021 37.500 0.00 0.00 34.49 3.16
3155 3312 3.511146 ACTGAACAATCAAAATCCGCCAT 59.489 39.130 0.00 0.00 34.49 4.40
3156 3313 2.890311 ACTGAACAATCAAAATCCGCCA 59.110 40.909 0.00 0.00 34.49 5.69
3157 3314 3.057596 TGACTGAACAATCAAAATCCGCC 60.058 43.478 0.00 0.00 34.49 6.13
3158 3315 4.159377 TGACTGAACAATCAAAATCCGC 57.841 40.909 0.00 0.00 34.49 5.54
3159 3316 5.941733 TCATGACTGAACAATCAAAATCCG 58.058 37.500 0.00 0.00 34.49 4.18
3160 3317 9.512435 CTTATCATGACTGAACAATCAAAATCC 57.488 33.333 0.00 0.00 34.49 3.01
3164 3321 9.452287 TCATCTTATCATGACTGAACAATCAAA 57.548 29.630 0.00 0.00 34.49 2.69
3165 3322 9.623000 ATCATCTTATCATGACTGAACAATCAA 57.377 29.630 0.00 0.00 35.57 2.57
3166 3323 9.052759 CATCATCTTATCATGACTGAACAATCA 57.947 33.333 0.00 0.00 35.57 2.57
3167 3324 9.269453 TCATCATCTTATCATGACTGAACAATC 57.731 33.333 0.00 0.00 35.57 2.67
3168 3325 9.053840 GTCATCATCTTATCATGACTGAACAAT 57.946 33.333 0.00 0.00 42.13 2.71
3169 3326 8.042515 TGTCATCATCTTATCATGACTGAACAA 58.957 33.333 0.00 0.00 44.57 2.83
3170 3327 7.558604 TGTCATCATCTTATCATGACTGAACA 58.441 34.615 0.00 0.00 44.57 3.18
3171 3328 8.604640 ATGTCATCATCTTATCATGACTGAAC 57.395 34.615 0.00 0.00 44.57 3.18
3172 3329 9.924650 CTATGTCATCATCTTATCATGACTGAA 57.075 33.333 0.00 0.00 44.57 3.02
3173 3330 8.033626 GCTATGTCATCATCTTATCATGACTGA 58.966 37.037 0.00 0.00 44.57 3.41
3174 3331 7.278203 GGCTATGTCATCATCTTATCATGACTG 59.722 40.741 0.00 0.00 44.57 3.51
3175 3332 7.038516 TGGCTATGTCATCATCTTATCATGACT 60.039 37.037 0.00 0.00 44.57 3.41
3176 3333 7.101700 TGGCTATGTCATCATCTTATCATGAC 58.898 38.462 0.00 4.63 44.54 3.06
3177 3334 7.179694 TCTGGCTATGTCATCATCTTATCATGA 59.820 37.037 0.00 0.00 37.20 3.07
3178 3335 7.278203 GTCTGGCTATGTCATCATCTTATCATG 59.722 40.741 0.00 0.00 35.70 3.07
3179 3336 7.038516 TGTCTGGCTATGTCATCATCTTATCAT 60.039 37.037 0.00 0.00 35.70 2.45
3180 3337 6.268387 TGTCTGGCTATGTCATCATCTTATCA 59.732 38.462 0.00 0.00 35.70 2.15
3181 3338 6.695429 TGTCTGGCTATGTCATCATCTTATC 58.305 40.000 0.00 0.00 35.70 1.75
3182 3339 6.676990 TGTCTGGCTATGTCATCATCTTAT 57.323 37.500 0.00 0.00 35.70 1.73


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

AutoCloner maintained by Alex Coulton.