Multiple sequence alignment - TraesCS4B01G198400

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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 TraesCS4B01G198400 chr4B 100.000 3326 0 0 1 3326 427275027 427271702 0.000000e+00 6143
1 TraesCS4B01G198400 chr4B 93.046 302 13 5 3025 3326 480298213 480297920 5.100000e-118 435
2 TraesCS4B01G198400 chr4D 95.381 2295 86 13 747 3026 346133878 346131589 0.000000e+00 3633
3 TraesCS4B01G198400 chr4D 89.835 728 69 5 2 726 427611895 427612620 0.000000e+00 929
4 TraesCS4B01G198400 chr4D 89.669 726 66 7 2 724 69480906 69481625 0.000000e+00 917
5 TraesCS4B01G198400 chr4D 89.113 744 69 8 1 735 16023455 16022715 0.000000e+00 915
6 TraesCS4B01G198400 chr4D 90.698 301 25 2 3026 3326 196790140 196789843 6.690000e-107 398
7 TraesCS4B01G198400 chr4A 95.949 1802 48 10 723 2506 119781429 119783223 0.000000e+00 2900
8 TraesCS4B01G198400 chr4A 91.221 524 41 5 2505 3026 119783327 119783847 0.000000e+00 708
9 TraesCS4B01G198400 chr4A 91.349 289 19 3 3038 3326 718230903 718230621 1.120000e-104 390
10 TraesCS4B01G198400 chr5D 90.997 722 57 6 4 724 230374835 230374121 0.000000e+00 966
11 TraesCS4B01G198400 chr5D 90.723 733 53 12 2 727 61411334 61412058 0.000000e+00 963
12 TraesCS4B01G198400 chr5D 87.960 299 33 2 3026 3324 489688995 489689290 1.900000e-92 350
13 TraesCS4B01G198400 chr1B 89.646 734 67 9 2 731 320102568 320103296 0.000000e+00 926
14 TraesCS4B01G198400 chr1B 92.233 309 16 5 3018 3326 30647538 30647838 6.590000e-117 431
15 TraesCS4B01G198400 chr1B 91.909 309 17 5 3018 3326 30658952 30659252 3.070000e-115 425
16 TraesCS4B01G198400 chr7D 89.807 726 60 11 2 724 638182008 638182722 0.000000e+00 918
17 TraesCS4B01G198400 chr7D 89.481 732 65 12 2 729 554535853 554535130 0.000000e+00 915
18 TraesCS4B01G198400 chr1D 89.712 729 56 15 1 724 483684576 483683862 0.000000e+00 913
19 TraesCS4B01G198400 chr3A 90.698 301 23 3 3026 3326 359350027 359349732 2.400000e-106 396
20 TraesCS4B01G198400 chr5B 87.667 300 33 3 3026 3324 603801733 603802029 2.460000e-91 346
21 TraesCS4B01G198400 chr2D 87.086 302 35 4 3026 3326 333600121 333599823 4.110000e-89 339


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 TraesCS4B01G198400 chr4B 427271702 427275027 3325 True 6143 6143 100.000 1 3326 1 chr4B.!!$R1 3325
1 TraesCS4B01G198400 chr4D 346131589 346133878 2289 True 3633 3633 95.381 747 3026 1 chr4D.!!$R3 2279
2 TraesCS4B01G198400 chr4D 427611895 427612620 725 False 929 929 89.835 2 726 1 chr4D.!!$F2 724
3 TraesCS4B01G198400 chr4D 69480906 69481625 719 False 917 917 89.669 2 724 1 chr4D.!!$F1 722
4 TraesCS4B01G198400 chr4D 16022715 16023455 740 True 915 915 89.113 1 735 1 chr4D.!!$R1 734
5 TraesCS4B01G198400 chr4A 119781429 119783847 2418 False 1804 2900 93.585 723 3026 2 chr4A.!!$F1 2303
6 TraesCS4B01G198400 chr5D 230374121 230374835 714 True 966 966 90.997 4 724 1 chr5D.!!$R1 720
7 TraesCS4B01G198400 chr5D 61411334 61412058 724 False 963 963 90.723 2 727 1 chr5D.!!$F1 725
8 TraesCS4B01G198400 chr1B 320102568 320103296 728 False 926 926 89.646 2 731 1 chr1B.!!$F3 729
9 TraesCS4B01G198400 chr7D 638182008 638182722 714 False 918 918 89.807 2 724 1 chr7D.!!$F1 722
10 TraesCS4B01G198400 chr7D 554535130 554535853 723 True 915 915 89.481 2 729 1 chr7D.!!$R1 727
11 TraesCS4B01G198400 chr1D 483683862 483684576 714 True 913 913 89.712 1 724 1 chr1D.!!$R1 723

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
823 853 0.889186 ACGTTGCTGGGCCAAGTTAG 60.889 55.0 9.48 1.77 0.0 2.34 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2725 2868 0.04087 TGCCACACAAATGTTACGCG 60.041 50.0 3.53 3.53 36.72 6.01 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
84 85 2.542178 CCATTAAATCCATCGCGACGAA 59.458 45.455 12.93 0.00 39.99 3.85
91 92 1.135228 TCCATCGCGACGAAATCTTCA 60.135 47.619 12.93 0.00 39.99 3.02
123 125 6.183309 TCTCATATCAATATGTCTCGACGG 57.817 41.667 9.27 0.00 40.69 4.79
176 180 3.897141 ATTGCACATGAATTGCCATGA 57.103 38.095 12.68 0.00 44.98 3.07
370 381 5.982890 ATTTTCATGGTCAAAGTACTGGG 57.017 39.130 0.00 0.00 0.00 4.45
375 386 4.042809 TCATGGTCAAAGTACTGGGATTGT 59.957 41.667 0.00 0.00 0.00 2.71
523 537 5.759763 TCGAAACATATCAACATGGGATCTG 59.240 40.000 5.52 8.77 0.00 2.90
564 582 6.488683 TCAAGACGGATTTAATGGTGAAAACT 59.511 34.615 0.00 0.00 0.00 2.66
566 584 5.768164 AGACGGATTTAATGGTGAAAACTGT 59.232 36.000 0.00 0.00 32.65 3.55
617 636 8.793592 AGATAAAACATCTTTAAGCCGAAAACT 58.206 29.630 0.00 0.00 0.00 2.66
673 693 4.190772 GTGGCAAAATGAATGGTAATGGG 58.809 43.478 0.00 0.00 0.00 4.00
726 746 4.635765 ACGTGTGGACATTATCATTTGAGG 59.364 41.667 0.00 0.00 0.00 3.86
817 847 4.680237 CGAGACGTTGCTGGGCCA 62.680 66.667 5.85 5.85 0.00 5.36
820 850 2.594592 GACGTTGCTGGGCCAAGT 60.595 61.111 9.48 2.64 0.00 3.16
823 853 0.889186 ACGTTGCTGGGCCAAGTTAG 60.889 55.000 9.48 1.77 0.00 2.34
871 907 1.227380 CATAGGGCAGAGTGCGGAC 60.227 63.158 0.00 0.00 46.21 4.79
891 927 2.058595 CGTCTCCGTCCCTCCCATT 61.059 63.158 0.00 0.00 0.00 3.16
905 941 1.505538 TCCCATTCTCCCCAACCAAAA 59.494 47.619 0.00 0.00 0.00 2.44
919 955 1.064314 ACCAAAACCACAGCCACACTA 60.064 47.619 0.00 0.00 0.00 2.74
1398 1434 0.865362 ACCAGGTATACCTCCCGGAT 59.135 55.000 26.15 12.44 46.65 4.18
1638 1674 4.451150 GGATGCACCCGCTCGTCA 62.451 66.667 0.00 0.00 39.64 4.35
1758 1794 2.759560 GCCATCCCGCCCAACATT 60.760 61.111 0.00 0.00 0.00 2.71
1887 1923 3.797865 GCATCATATTGACAGCAAAGGGC 60.798 47.826 0.00 0.00 45.30 5.19
1983 2019 2.235898 GGACTCTGATCCATATGGGCTC 59.764 54.545 21.78 17.72 38.77 4.70
2025 2061 0.955428 GCGGCTCCAAGAACATGTCA 60.955 55.000 0.00 0.00 0.00 3.58
2361 2397 2.478134 GCAGGTGAATAGATGATCGTGC 59.522 50.000 0.00 0.00 0.00 5.34
2378 2414 3.679980 TCGTGCTGCTCTTTATCTTTGTC 59.320 43.478 0.00 0.00 0.00 3.18
2465 2501 2.549754 CCAAGGACATAAGCCTTATGCG 59.450 50.000 21.53 7.60 45.38 4.73
2470 2506 4.344102 AGGACATAAGCCTTATGCGAGTTA 59.656 41.667 21.53 0.00 45.38 2.24
2480 2516 7.247929 GCCTTATGCGAGTTAAGTAGAAAAT 57.752 36.000 0.00 0.00 0.00 1.82
2498 2534 7.472334 AGAAAATTGTTATCATCTGTGGCTT 57.528 32.000 0.00 0.00 0.00 4.35
2506 2542 8.893219 TGTTATCATCTGTGGCTTAGAATTAG 57.107 34.615 0.00 0.00 0.00 1.73
2508 2544 9.982651 GTTATCATCTGTGGCTTAGAATTAGTA 57.017 33.333 0.00 0.00 0.00 1.82
2533 2675 6.782082 TTATGTACCTTGGCATTGCATAAA 57.218 33.333 11.39 0.99 0.00 1.40
2592 2735 6.349115 GCGAAGAATATTCAATCAGGATGCAT 60.349 38.462 17.56 0.00 34.76 3.96
2603 2746 3.877559 TCAGGATGCATGAGTTAACCAG 58.122 45.455 2.46 0.00 34.76 4.00
2623 2766 4.876107 CCAGTATTGCTACTAAACCTGGTG 59.124 45.833 0.00 0.00 35.99 4.17
2647 2790 2.799017 TGTTTCCAGCTGCAGATGATT 58.201 42.857 32.59 1.33 32.25 2.57
2648 2791 3.159472 TGTTTCCAGCTGCAGATGATTT 58.841 40.909 32.59 0.00 32.25 2.17
2669 2812 2.891112 AGAGAAAGAGCAGCTTGATCG 58.109 47.619 0.00 0.00 37.94 3.69
2684 2827 4.512944 GCTTGATCGAGGAGCATCAATTTA 59.487 41.667 12.06 0.00 38.15 1.40
2725 2868 7.269477 AGCTTAAAAATATCTCATCTGTGCC 57.731 36.000 0.00 0.00 0.00 5.01
2728 2871 1.788258 AATATCTCATCTGTGCCGCG 58.212 50.000 0.00 0.00 0.00 6.46
2740 2883 0.040781 GTGCCGCGTAACATTTGTGT 60.041 50.000 4.92 0.00 0.00 3.72
2803 2946 6.590292 CGTATGTTGAATACTTGTGAGACCTT 59.410 38.462 0.00 0.00 0.00 3.50
2804 2947 7.117812 CGTATGTTGAATACTTGTGAGACCTTT 59.882 37.037 0.00 0.00 0.00 3.11
2824 2967 8.910351 ACCTTTATTTAGAAGTATCTGCATCC 57.090 34.615 0.00 0.00 37.10 3.51
2833 2976 3.470709 AGTATCTGCATCCGTGGAATTG 58.529 45.455 0.00 0.00 0.00 2.32
2840 2983 2.095059 GCATCCGTGGAATTGGATATGC 60.095 50.000 0.00 0.00 43.09 3.14
2895 3038 7.624344 GCGTTTTTCTTGTACTGCTGAAGATAT 60.624 37.037 0.00 0.00 0.00 1.63
2908 3051 8.893727 ACTGCTGAAGATATAATTTGGTGTAAC 58.106 33.333 0.00 0.00 0.00 2.50
2954 3097 3.018856 AGCATTCGCATCTGGAAAATCA 58.981 40.909 0.00 0.00 42.27 2.57
2979 3124 3.049206 GCAAGAGATTAGAGCTACTGCG 58.951 50.000 0.00 0.00 45.42 5.18
2988 3133 8.343168 AGATTAGAGCTACTGCGATACTTTAT 57.657 34.615 0.00 0.00 45.42 1.40
2989 3134 8.455682 AGATTAGAGCTACTGCGATACTTTATC 58.544 37.037 0.00 0.00 45.42 1.75
2990 3135 7.747155 TTAGAGCTACTGCGATACTTTATCT 57.253 36.000 0.00 0.00 45.42 1.98
2991 3136 6.642707 AGAGCTACTGCGATACTTTATCTT 57.357 37.500 0.00 0.00 45.42 2.40
3026 3171 6.589139 GCGGGGATACTTATGTTTATCTGTAC 59.411 42.308 0.00 0.00 0.00 2.90
3027 3172 7.525029 GCGGGGATACTTATGTTTATCTGTACT 60.525 40.741 0.00 0.00 0.00 2.73
3028 3173 9.017509 CGGGGATACTTATGTTTATCTGTACTA 57.982 37.037 0.00 0.00 0.00 1.82
3030 3175 9.857957 GGGATACTTATGTTTATCTGTACTAGC 57.142 37.037 0.00 0.00 0.00 3.42
3035 3180 9.938280 ACTTATGTTTATCTGTACTAGCACAAA 57.062 29.630 0.00 0.00 0.00 2.83
3046 3191 2.262292 GCACAAATGCCCATGCGT 59.738 55.556 0.00 0.00 46.97 5.24
3048 3193 1.628447 GCACAAATGCCCATGCGTTG 61.628 55.000 0.00 0.00 45.88 4.10
3049 3194 0.319727 CACAAATGCCCATGCGTTGT 60.320 50.000 0.00 0.00 45.88 3.32
3050 3195 1.067985 CACAAATGCCCATGCGTTGTA 60.068 47.619 6.23 0.00 45.88 2.41
3051 3196 1.615883 ACAAATGCCCATGCGTTGTAA 59.384 42.857 5.06 0.00 45.88 2.41
3052 3197 1.991965 CAAATGCCCATGCGTTGTAAC 59.008 47.619 0.00 0.00 45.88 2.50
3067 3212 5.761165 GTTGTAACGGGGCAATACATATT 57.239 39.130 0.00 0.00 30.29 1.28
3068 3213 5.754778 GTTGTAACGGGGCAATACATATTC 58.245 41.667 0.00 0.00 30.29 1.75
3069 3214 5.298989 TGTAACGGGGCAATACATATTCT 57.701 39.130 0.00 0.00 0.00 2.40
3070 3215 6.422344 TGTAACGGGGCAATACATATTCTA 57.578 37.500 0.00 0.00 0.00 2.10
3071 3216 7.011499 TGTAACGGGGCAATACATATTCTAT 57.989 36.000 0.00 0.00 0.00 1.98
3072 3217 7.455058 TGTAACGGGGCAATACATATTCTATT 58.545 34.615 0.00 0.00 0.00 1.73
3073 3218 6.817765 AACGGGGCAATACATATTCTATTG 57.182 37.500 5.86 5.86 35.50 1.90
3127 3272 9.837681 TCTTTAGGATACATATTCTATGGTCCA 57.162 33.333 16.46 0.00 41.41 4.02
3137 3282 9.730705 ACATATTCTATGGTCCAATATCAACTG 57.269 33.333 0.00 0.00 0.00 3.16
3138 3283 9.730705 CATATTCTATGGTCCAATATCAACTGT 57.269 33.333 0.00 0.00 0.00 3.55
3139 3284 9.730705 ATATTCTATGGTCCAATATCAACTGTG 57.269 33.333 0.00 0.00 0.00 3.66
3140 3285 6.560003 TCTATGGTCCAATATCAACTGTGT 57.440 37.500 0.00 0.00 0.00 3.72
3141 3286 6.348498 TCTATGGTCCAATATCAACTGTGTG 58.652 40.000 0.00 0.00 0.00 3.82
3142 3287 4.365514 TGGTCCAATATCAACTGTGTGT 57.634 40.909 0.00 0.00 0.00 3.72
3143 3288 5.491323 TGGTCCAATATCAACTGTGTGTA 57.509 39.130 0.00 0.00 0.00 2.90
3144 3289 5.242434 TGGTCCAATATCAACTGTGTGTAC 58.758 41.667 0.00 0.00 0.00 2.90
3145 3290 4.634443 GGTCCAATATCAACTGTGTGTACC 59.366 45.833 0.00 0.00 0.00 3.34
3146 3291 5.242434 GTCCAATATCAACTGTGTGTACCA 58.758 41.667 0.00 0.00 0.00 3.25
3147 3292 5.121768 GTCCAATATCAACTGTGTGTACCAC 59.878 44.000 7.34 7.34 44.78 4.16
3161 3306 7.435068 GTGTGTACCACATATCTTTTTGACT 57.565 36.000 0.00 0.00 46.32 3.41
3162 3307 8.542497 GTGTGTACCACATATCTTTTTGACTA 57.458 34.615 0.00 0.00 46.32 2.59
3163 3308 9.162764 GTGTGTACCACATATCTTTTTGACTAT 57.837 33.333 0.00 0.00 46.32 2.12
3164 3309 9.378551 TGTGTACCACATATCTTTTTGACTATC 57.621 33.333 0.00 0.00 39.62 2.08
3165 3310 9.378551 GTGTACCACATATCTTTTTGACTATCA 57.621 33.333 0.00 0.00 34.08 2.15
3166 3311 9.378551 TGTACCACATATCTTTTTGACTATCAC 57.621 33.333 0.00 0.00 0.00 3.06
3167 3312 9.378551 GTACCACATATCTTTTTGACTATCACA 57.621 33.333 0.00 0.00 0.00 3.58
3176 3321 8.722480 TCTTTTTGACTATCACATACATCAGG 57.278 34.615 0.00 0.00 0.00 3.86
3177 3322 8.321353 TCTTTTTGACTATCACATACATCAGGT 58.679 33.333 0.00 0.00 0.00 4.00
3178 3323 7.848223 TTTTGACTATCACATACATCAGGTG 57.152 36.000 0.00 0.00 40.34 4.00
3185 3330 5.164620 TCACATACATCAGGTGACAATGT 57.835 39.130 0.00 0.00 42.75 2.71
3186 3331 5.559770 TCACATACATCAGGTGACAATGTT 58.440 37.500 3.44 0.00 42.75 2.71
3187 3332 5.412286 TCACATACATCAGGTGACAATGTTG 59.588 40.000 3.44 1.04 42.75 3.33
3188 3333 5.412286 CACATACATCAGGTGACAATGTTGA 59.588 40.000 0.00 0.00 41.53 3.18
3189 3334 5.412594 ACATACATCAGGTGACAATGTTGAC 59.587 40.000 0.00 0.00 39.07 3.18
3190 3335 3.149196 ACATCAGGTGACAATGTTGACC 58.851 45.455 7.27 7.27 36.06 4.02
3191 3336 3.181440 ACATCAGGTGACAATGTTGACCT 60.181 43.478 11.06 11.06 39.52 3.85
3192 3337 3.576078 TCAGGTGACAATGTTGACCTT 57.424 42.857 13.45 0.46 36.65 3.50
3193 3338 3.897239 TCAGGTGACAATGTTGACCTTT 58.103 40.909 13.45 0.00 36.65 3.11
3194 3339 4.277476 TCAGGTGACAATGTTGACCTTTT 58.723 39.130 13.45 0.00 36.65 2.27
3195 3340 4.709397 TCAGGTGACAATGTTGACCTTTTT 59.291 37.500 13.45 0.00 36.65 1.94
3216 3361 6.613755 TTTTACTGTTGAACTACTGCTTCC 57.386 37.500 0.00 0.00 0.00 3.46
3217 3362 5.546621 TTACTGTTGAACTACTGCTTCCT 57.453 39.130 0.00 0.00 0.00 3.36
3218 3363 3.996480 ACTGTTGAACTACTGCTTCCTC 58.004 45.455 0.00 0.00 0.00 3.71
3219 3364 3.244249 ACTGTTGAACTACTGCTTCCTCC 60.244 47.826 0.00 0.00 0.00 4.30
3220 3365 2.703536 TGTTGAACTACTGCTTCCTCCA 59.296 45.455 0.00 0.00 0.00 3.86
3221 3366 3.067833 GTTGAACTACTGCTTCCTCCAC 58.932 50.000 0.00 0.00 0.00 4.02
3222 3367 1.623811 TGAACTACTGCTTCCTCCACC 59.376 52.381 0.00 0.00 0.00 4.61
3223 3368 0.984995 AACTACTGCTTCCTCCACCC 59.015 55.000 0.00 0.00 0.00 4.61
3224 3369 0.117340 ACTACTGCTTCCTCCACCCT 59.883 55.000 0.00 0.00 0.00 4.34
3225 3370 1.361543 ACTACTGCTTCCTCCACCCTA 59.638 52.381 0.00 0.00 0.00 3.53
3226 3371 1.757699 CTACTGCTTCCTCCACCCTAC 59.242 57.143 0.00 0.00 0.00 3.18
3227 3372 0.178903 ACTGCTTCCTCCACCCTACA 60.179 55.000 0.00 0.00 0.00 2.74
3228 3373 1.207791 CTGCTTCCTCCACCCTACAT 58.792 55.000 0.00 0.00 0.00 2.29
3229 3374 2.292918 ACTGCTTCCTCCACCCTACATA 60.293 50.000 0.00 0.00 0.00 2.29
3230 3375 2.975489 CTGCTTCCTCCACCCTACATAT 59.025 50.000 0.00 0.00 0.00 1.78
3231 3376 4.160329 CTGCTTCCTCCACCCTACATATA 58.840 47.826 0.00 0.00 0.00 0.86
3232 3377 4.763355 TGCTTCCTCCACCCTACATATAT 58.237 43.478 0.00 0.00 0.00 0.86
3233 3378 4.532126 TGCTTCCTCCACCCTACATATATG 59.468 45.833 11.29 11.29 0.00 1.78
3234 3379 4.532521 GCTTCCTCCACCCTACATATATGT 59.467 45.833 21.57 21.57 44.48 2.29
3235 3380 5.337652 GCTTCCTCCACCCTACATATATGTC 60.338 48.000 21.49 0.00 41.97 3.06
3236 3381 5.616975 TCCTCCACCCTACATATATGTCT 57.383 43.478 21.49 1.29 41.97 3.41
3237 3382 5.580998 TCCTCCACCCTACATATATGTCTC 58.419 45.833 21.49 0.00 41.97 3.36
3238 3383 5.316183 TCCTCCACCCTACATATATGTCTCT 59.684 44.000 21.49 0.16 41.97 3.10
3239 3384 6.019748 CCTCCACCCTACATATATGTCTCTT 58.980 44.000 21.49 3.19 41.97 2.85
3240 3385 6.498651 CCTCCACCCTACATATATGTCTCTTT 59.501 42.308 21.49 1.82 41.97 2.52
3241 3386 7.303182 TCCACCCTACATATATGTCTCTTTG 57.697 40.000 21.49 12.81 41.97 2.77
3242 3387 6.844388 TCCACCCTACATATATGTCTCTTTGT 59.156 38.462 21.49 9.04 41.97 2.83
3243 3388 6.931281 CCACCCTACATATATGTCTCTTTGTG 59.069 42.308 21.49 18.07 41.97 3.33
3244 3389 7.419057 CCACCCTACATATATGTCTCTTTGTGT 60.419 40.741 21.49 6.72 41.97 3.72
3245 3390 7.987458 CACCCTACATATATGTCTCTTTGTGTT 59.013 37.037 21.49 0.00 41.97 3.32
3246 3391 8.204836 ACCCTACATATATGTCTCTTTGTGTTC 58.795 37.037 21.49 0.00 41.97 3.18
3247 3392 7.382488 CCCTACATATATGTCTCTTTGTGTTCG 59.618 40.741 21.49 0.00 41.97 3.95
3248 3393 7.382488 CCTACATATATGTCTCTTTGTGTTCGG 59.618 40.741 21.49 0.00 41.97 4.30
3249 3394 5.523916 ACATATATGTCTCTTTGTGTTCGGC 59.476 40.000 12.75 0.00 35.87 5.54
3250 3395 1.148310 ATGTCTCTTTGTGTTCGGCG 58.852 50.000 0.00 0.00 0.00 6.46
3251 3396 0.179094 TGTCTCTTTGTGTTCGGCGT 60.179 50.000 6.85 0.00 0.00 5.68
3252 3397 0.507358 GTCTCTTTGTGTTCGGCGTC 59.493 55.000 6.85 2.07 0.00 5.19
3253 3398 0.103390 TCTCTTTGTGTTCGGCGTCA 59.897 50.000 6.85 5.04 0.00 4.35
3254 3399 1.148310 CTCTTTGTGTTCGGCGTCAT 58.852 50.000 6.85 0.00 0.00 3.06
3255 3400 1.126846 CTCTTTGTGTTCGGCGTCATC 59.873 52.381 6.85 4.11 0.00 2.92
3256 3401 1.148310 CTTTGTGTTCGGCGTCATCT 58.852 50.000 6.85 0.00 0.00 2.90
3257 3402 1.531149 CTTTGTGTTCGGCGTCATCTT 59.469 47.619 6.85 0.00 0.00 2.40
3258 3403 2.442212 TTGTGTTCGGCGTCATCTTA 57.558 45.000 6.85 0.00 0.00 2.10
3259 3404 2.665649 TGTGTTCGGCGTCATCTTAT 57.334 45.000 6.85 0.00 0.00 1.73
3260 3405 3.786516 TGTGTTCGGCGTCATCTTATA 57.213 42.857 6.85 0.00 0.00 0.98
3261 3406 4.112716 TGTGTTCGGCGTCATCTTATAA 57.887 40.909 6.85 0.00 0.00 0.98
3262 3407 3.861113 TGTGTTCGGCGTCATCTTATAAC 59.139 43.478 6.85 0.69 0.00 1.89
3263 3408 3.061403 GTGTTCGGCGTCATCTTATAACG 60.061 47.826 6.85 0.00 39.33 3.18
3264 3409 3.181498 TGTTCGGCGTCATCTTATAACGA 60.181 43.478 6.85 0.00 38.65 3.85
3265 3410 2.990941 TCGGCGTCATCTTATAACGAC 58.009 47.619 6.85 0.00 40.98 4.34
3266 3411 2.615447 TCGGCGTCATCTTATAACGACT 59.385 45.455 6.85 0.00 42.20 4.18
3267 3412 2.971915 CGGCGTCATCTTATAACGACTC 59.028 50.000 0.00 0.00 42.20 3.36
3268 3413 3.303857 CGGCGTCATCTTATAACGACTCT 60.304 47.826 0.00 0.00 42.20 3.24
3269 3414 4.220572 GGCGTCATCTTATAACGACTCTC 58.779 47.826 0.00 0.00 41.18 3.20
3270 3415 4.023878 GGCGTCATCTTATAACGACTCTCT 60.024 45.833 0.00 0.00 41.18 3.10
3271 3416 5.505985 GGCGTCATCTTATAACGACTCTCTT 60.506 44.000 0.00 0.00 41.18 2.85
3272 3417 5.972382 GCGTCATCTTATAACGACTCTCTTT 59.028 40.000 0.00 0.00 38.65 2.52
3273 3418 6.141053 GCGTCATCTTATAACGACTCTCTTTC 59.859 42.308 0.00 0.00 38.65 2.62
3274 3419 7.411274 CGTCATCTTATAACGACTCTCTTTCT 58.589 38.462 0.00 0.00 38.65 2.52
3275 3420 7.374754 CGTCATCTTATAACGACTCTCTTTCTG 59.625 40.741 0.00 0.00 38.65 3.02
3276 3421 8.185505 GTCATCTTATAACGACTCTCTTTCTGT 58.814 37.037 0.00 0.00 0.00 3.41
3277 3422 9.392259 TCATCTTATAACGACTCTCTTTCTGTA 57.608 33.333 0.00 0.00 0.00 2.74
3278 3423 9.440784 CATCTTATAACGACTCTCTTTCTGTAC 57.559 37.037 0.00 0.00 0.00 2.90
3279 3424 7.983307 TCTTATAACGACTCTCTTTCTGTACC 58.017 38.462 0.00 0.00 0.00 3.34
3280 3425 3.555917 AACGACTCTCTTTCTGTACCG 57.444 47.619 0.00 0.00 0.00 4.02
3281 3426 1.199558 ACGACTCTCTTTCTGTACCGC 59.800 52.381 0.00 0.00 0.00 5.68
3282 3427 1.469308 CGACTCTCTTTCTGTACCGCT 59.531 52.381 0.00 0.00 0.00 5.52
3283 3428 2.476519 CGACTCTCTTTCTGTACCGCTC 60.477 54.545 0.00 0.00 0.00 5.03
3284 3429 1.469308 ACTCTCTTTCTGTACCGCTCG 59.531 52.381 0.00 0.00 0.00 5.03
3285 3430 1.738350 CTCTCTTTCTGTACCGCTCGA 59.262 52.381 0.00 0.00 0.00 4.04
3286 3431 2.356382 CTCTCTTTCTGTACCGCTCGAT 59.644 50.000 0.00 0.00 0.00 3.59
3287 3432 2.355132 TCTCTTTCTGTACCGCTCGATC 59.645 50.000 0.00 0.00 0.00 3.69
3288 3433 2.356382 CTCTTTCTGTACCGCTCGATCT 59.644 50.000 0.00 0.00 0.00 2.75
3289 3434 2.753452 TCTTTCTGTACCGCTCGATCTT 59.247 45.455 0.00 0.00 0.00 2.40
3290 3435 3.192844 TCTTTCTGTACCGCTCGATCTTT 59.807 43.478 0.00 0.00 0.00 2.52
3291 3436 2.846039 TCTGTACCGCTCGATCTTTC 57.154 50.000 0.00 0.00 0.00 2.62
3292 3437 1.063616 TCTGTACCGCTCGATCTTTCG 59.936 52.381 0.00 0.00 46.87 3.46
3320 3465 5.078411 TCTCTAAAGAGGTTCATGTCAGC 57.922 43.478 7.14 0.00 42.30 4.26
3321 3466 4.774726 TCTCTAAAGAGGTTCATGTCAGCT 59.225 41.667 7.14 0.00 42.30 4.24
3322 3467 4.825422 TCTAAAGAGGTTCATGTCAGCTG 58.175 43.478 7.63 7.63 0.00 4.24
3323 3468 2.486472 AAGAGGTTCATGTCAGCTGG 57.514 50.000 15.13 0.00 0.00 4.85
3324 3469 0.617413 AGAGGTTCATGTCAGCTGGG 59.383 55.000 15.13 1.48 0.00 4.45
3325 3470 0.393537 GAGGTTCATGTCAGCTGGGG 60.394 60.000 15.13 1.10 0.00 4.96
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
41 42 4.201724 GGTGAAAACGGATCTTCAATCGAG 60.202 45.833 0.00 0.00 33.52 4.04
42 43 3.682858 GGTGAAAACGGATCTTCAATCGA 59.317 43.478 0.00 0.00 33.52 3.59
133 135 5.061721 AGACATGACAACTTTTAACCCCT 57.938 39.130 0.00 0.00 0.00 4.79
176 180 4.826733 TCATGGCAACTTCAGTGTAAACAT 59.173 37.500 0.00 0.00 37.61 2.71
258 267 8.734386 CATGGCAAGTCTAGTTTCTTAATTCTT 58.266 33.333 0.00 0.00 0.00 2.52
457 468 4.584325 AGTTGCCATGATGTTTACACTGTT 59.416 37.500 0.00 0.00 0.00 3.16
497 508 4.196193 TCCCATGTTGATATGTTTCGACC 58.804 43.478 0.00 0.00 0.00 4.79
523 537 5.220303 CCGTCTTGACGAGATCTTCAAAATC 60.220 44.000 22.54 4.50 36.61 2.17
602 621 8.912658 GGAATCTTTTTAGTTTTCGGCTTAAAG 58.087 33.333 0.00 0.00 0.00 1.85
617 636 4.584874 TGACATCAGCGGGAATCTTTTTA 58.415 39.130 0.00 0.00 0.00 1.52
673 693 0.039527 GCAACATGGTCCAAACGTCC 60.040 55.000 0.00 0.00 0.00 4.79
754 776 2.232452 CAGATGTCTCCGTGAAGGTTCT 59.768 50.000 0.00 0.00 41.99 3.01
755 777 2.611518 CAGATGTCTCCGTGAAGGTTC 58.388 52.381 0.00 0.00 41.99 3.62
860 890 3.343788 GAGACGGGTCCGCACTCTG 62.344 68.421 20.92 0.00 44.19 3.35
891 927 0.631753 TGTGGTTTTGGTTGGGGAGA 59.368 50.000 0.00 0.00 0.00 3.71
905 941 0.837272 AACTGTAGTGTGGCTGTGGT 59.163 50.000 0.00 0.00 0.00 4.16
919 955 2.125673 CGGCGGGATTCGAACTGT 60.126 61.111 0.00 0.00 42.43 3.55
1323 1359 4.809496 CGGCCAGCCAGGATGCTT 62.809 66.667 9.78 0.00 40.32 3.91
1638 1674 1.679305 AGAGGCGACGACATGGAGT 60.679 57.895 2.19 0.00 0.00 3.85
1950 1986 1.078848 AGAGTCCACCAATGCGAGC 60.079 57.895 0.00 0.00 0.00 5.03
1983 2019 5.050769 GCACATATACACGGACAAGATCTTG 60.051 44.000 29.74 29.74 45.58 3.02
2025 2061 5.294306 CGTTGTAAGATTGGCACTGTCATAT 59.706 40.000 0.00 0.00 0.00 1.78
2361 2397 7.375106 ACATGAAGACAAAGATAAAGAGCAG 57.625 36.000 0.00 0.00 0.00 4.24
2392 2428 9.125026 GTATTGGATCAGTAATGAAATCAACCT 57.875 33.333 0.00 0.00 0.00 3.50
2470 2506 8.462016 GCCACAGATGATAACAATTTTCTACTT 58.538 33.333 0.00 0.00 0.00 2.24
2480 2516 9.330063 CTAATTCTAAGCCACAGATGATAACAA 57.670 33.333 0.00 0.00 0.00 2.83
2506 2542 6.142818 TGCAATGCCAAGGTACATAAATAC 57.857 37.500 1.53 0.00 0.00 1.89
2508 2544 5.874897 ATGCAATGCCAAGGTACATAAAT 57.125 34.783 1.53 0.00 0.00 1.40
2509 2545 6.782082 TTATGCAATGCCAAGGTACATAAA 57.218 33.333 1.53 0.00 0.00 1.40
2510 2546 6.183360 CCTTTATGCAATGCCAAGGTACATAA 60.183 38.462 15.78 3.82 0.00 1.90
2512 2548 4.099881 CCTTTATGCAATGCCAAGGTACAT 59.900 41.667 15.78 0.00 0.00 2.29
2570 2713 7.724506 ACTCATGCATCCTGATTGAATATTCTT 59.275 33.333 16.24 4.30 0.00 2.52
2592 2735 7.820872 GGTTTAGTAGCAATACTGGTTAACTCA 59.179 37.037 5.42 1.27 34.40 3.41
2603 2746 5.484715 TGACACCAGGTTTAGTAGCAATAC 58.515 41.667 0.00 0.00 0.00 1.89
2623 2766 1.527034 TCTGCAGCTGGAAACATGAC 58.473 50.000 17.12 0.00 41.51 3.06
2647 2790 4.158579 TCGATCAAGCTGCTCTTTCTCTAA 59.841 41.667 1.00 0.00 31.27 2.10
2648 2791 3.696548 TCGATCAAGCTGCTCTTTCTCTA 59.303 43.478 1.00 0.00 31.27 2.43
2669 2812 4.439289 GCAGGTGTTAAATTGATGCTCCTC 60.439 45.833 0.00 0.00 0.00 3.71
2713 2856 0.457853 GTTACGCGGCACAGATGAGA 60.458 55.000 12.47 0.00 0.00 3.27
2725 2868 0.040870 TGCCACACAAATGTTACGCG 60.041 50.000 3.53 3.53 36.72 6.01
2728 2871 2.030274 GGGACTGCCACACAAATGTTAC 60.030 50.000 0.00 0.00 36.72 2.50
2740 2883 3.737559 AATCATACAAAGGGACTGCCA 57.262 42.857 0.00 0.00 40.86 4.92
2803 2946 6.929049 CCACGGATGCAGATACTTCTAAATAA 59.071 38.462 0.00 0.00 0.00 1.40
2804 2947 6.266786 TCCACGGATGCAGATACTTCTAAATA 59.733 38.462 0.00 0.00 0.00 1.40
2824 2967 4.761739 ACATAAGGCATATCCAATTCCACG 59.238 41.667 0.00 0.00 37.29 4.94
2859 3002 8.751335 CAGTACAAGAAAAACGCAACATAATTT 58.249 29.630 0.00 0.00 0.00 1.82
2860 3003 7.096230 GCAGTACAAGAAAAACGCAACATAATT 60.096 33.333 0.00 0.00 0.00 1.40
2861 3004 6.362283 GCAGTACAAGAAAAACGCAACATAAT 59.638 34.615 0.00 0.00 0.00 1.28
2862 3005 5.683743 GCAGTACAAGAAAAACGCAACATAA 59.316 36.000 0.00 0.00 0.00 1.90
2895 3038 6.150976 CAGGCATCAGAAGTTACACCAAATTA 59.849 38.462 0.00 0.00 0.00 1.40
2908 3051 6.054295 AGCTTCTAAATACAGGCATCAGAAG 58.946 40.000 0.00 0.00 40.16 2.85
2954 3097 5.659463 CAGTAGCTCTAATCTCTTGCAACT 58.341 41.667 0.00 0.00 0.00 3.16
2991 3136 6.209788 ACATAAGTATCCCCGCAAAAGAAAAA 59.790 34.615 0.00 0.00 0.00 1.94
2996 3141 5.576447 AAACATAAGTATCCCCGCAAAAG 57.424 39.130 0.00 0.00 0.00 2.27
3000 3145 5.071250 ACAGATAAACATAAGTATCCCCGCA 59.929 40.000 0.00 0.00 0.00 5.69
3002 3147 7.893658 AGTACAGATAAACATAAGTATCCCCG 58.106 38.462 0.00 0.00 0.00 5.73
3026 3171 0.248743 CGCATGGGCATTTGTGCTAG 60.249 55.000 0.00 0.00 41.24 3.42
3027 3172 0.964860 ACGCATGGGCATTTGTGCTA 60.965 50.000 10.10 0.00 41.24 3.49
3028 3173 1.818959 AACGCATGGGCATTTGTGCT 61.819 50.000 10.10 0.00 41.24 4.40
3029 3174 1.374505 AACGCATGGGCATTTGTGC 60.375 52.632 10.10 0.00 41.24 4.57
3030 3175 0.319727 ACAACGCATGGGCATTTGTG 60.320 50.000 14.03 5.05 41.71 3.33
3031 3176 1.252175 TACAACGCATGGGCATTTGT 58.748 45.000 17.45 17.45 44.06 2.83
3032 3177 1.991965 GTTACAACGCATGGGCATTTG 59.008 47.619 10.10 9.59 41.24 2.32
3033 3178 1.402194 CGTTACAACGCATGGGCATTT 60.402 47.619 10.10 0.00 46.06 2.32
3034 3179 0.170116 CGTTACAACGCATGGGCATT 59.830 50.000 10.10 0.00 46.06 3.56
3035 3180 1.800032 CGTTACAACGCATGGGCAT 59.200 52.632 10.10 0.00 46.06 4.40
3036 3181 3.258931 CGTTACAACGCATGGGCA 58.741 55.556 10.10 0.00 46.06 5.36
3045 3190 5.529800 AGAATATGTATTGCCCCGTTACAAC 59.470 40.000 0.00 0.00 30.29 3.32
3046 3191 5.686753 AGAATATGTATTGCCCCGTTACAA 58.313 37.500 0.00 0.00 30.29 2.41
3047 3192 5.298989 AGAATATGTATTGCCCCGTTACA 57.701 39.130 0.00 0.00 0.00 2.41
3048 3193 7.748847 CAATAGAATATGTATTGCCCCGTTAC 58.251 38.462 5.54 0.00 32.56 2.50
3049 3194 7.915293 CAATAGAATATGTATTGCCCCGTTA 57.085 36.000 5.54 0.00 32.56 3.18
3050 3195 6.817765 CAATAGAATATGTATTGCCCCGTT 57.182 37.500 5.54 0.00 32.56 4.44
3101 3246 9.837681 TGGACCATAGAATATGTATCCTAAAGA 57.162 33.333 13.98 0.00 0.00 2.52
3111 3256 9.730705 CAGTTGATATTGGACCATAGAATATGT 57.269 33.333 0.00 0.00 0.00 2.29
3112 3257 9.730705 ACAGTTGATATTGGACCATAGAATATG 57.269 33.333 0.00 0.00 0.00 1.78
3113 3258 9.730705 CACAGTTGATATTGGACCATAGAATAT 57.269 33.333 0.00 0.00 0.00 1.28
3114 3259 8.713971 ACACAGTTGATATTGGACCATAGAATA 58.286 33.333 0.00 0.00 0.00 1.75
3115 3260 7.500227 CACACAGTTGATATTGGACCATAGAAT 59.500 37.037 0.00 0.00 0.00 2.40
3116 3261 6.823182 CACACAGTTGATATTGGACCATAGAA 59.177 38.462 0.00 0.00 0.00 2.10
3117 3262 6.070251 ACACACAGTTGATATTGGACCATAGA 60.070 38.462 0.00 0.00 0.00 1.98
3118 3263 6.115446 ACACACAGTTGATATTGGACCATAG 58.885 40.000 0.00 0.00 0.00 2.23
3119 3264 6.061022 ACACACAGTTGATATTGGACCATA 57.939 37.500 0.00 0.00 0.00 2.74
3120 3265 4.922206 ACACACAGTTGATATTGGACCAT 58.078 39.130 0.00 0.00 0.00 3.55
3121 3266 4.365514 ACACACAGTTGATATTGGACCA 57.634 40.909 0.00 0.00 0.00 4.02
3122 3267 4.634443 GGTACACACAGTTGATATTGGACC 59.366 45.833 0.00 0.00 0.00 4.46
3123 3268 5.242434 TGGTACACACAGTTGATATTGGAC 58.758 41.667 0.00 0.00 0.00 4.02
3124 3269 5.491323 TGGTACACACAGTTGATATTGGA 57.509 39.130 0.00 0.00 0.00 3.53
3140 3285 9.378551 GTGATAGTCAAAAAGATATGTGGTACA 57.621 33.333 0.00 0.00 0.00 2.90
3141 3286 9.378551 TGTGATAGTCAAAAAGATATGTGGTAC 57.621 33.333 0.00 0.00 0.00 3.34
3150 3295 9.334947 CCTGATGTATGTGATAGTCAAAAAGAT 57.665 33.333 0.00 0.00 0.00 2.40
3151 3296 8.321353 ACCTGATGTATGTGATAGTCAAAAAGA 58.679 33.333 0.00 0.00 0.00 2.52
3152 3297 8.393366 CACCTGATGTATGTGATAGTCAAAAAG 58.607 37.037 0.00 0.00 31.66 2.27
3153 3298 8.100164 TCACCTGATGTATGTGATAGTCAAAAA 58.900 33.333 0.00 0.00 34.28 1.94
3154 3299 7.549134 GTCACCTGATGTATGTGATAGTCAAAA 59.451 37.037 0.00 0.00 40.75 2.44
3155 3300 7.041721 GTCACCTGATGTATGTGATAGTCAAA 58.958 38.462 0.00 0.00 40.75 2.69
3156 3301 6.154363 TGTCACCTGATGTATGTGATAGTCAA 59.846 38.462 0.00 0.00 40.75 3.18
3157 3302 5.656416 TGTCACCTGATGTATGTGATAGTCA 59.344 40.000 0.00 0.00 40.75 3.41
3158 3303 6.149129 TGTCACCTGATGTATGTGATAGTC 57.851 41.667 0.00 0.00 40.75 2.59
3159 3304 6.544928 TTGTCACCTGATGTATGTGATAGT 57.455 37.500 0.00 0.00 40.75 2.12
3160 3305 6.988580 ACATTGTCACCTGATGTATGTGATAG 59.011 38.462 0.00 0.00 40.75 2.08
3161 3306 6.888105 ACATTGTCACCTGATGTATGTGATA 58.112 36.000 0.00 0.00 40.75 2.15
3162 3307 5.748402 ACATTGTCACCTGATGTATGTGAT 58.252 37.500 0.00 0.00 40.75 3.06
3163 3308 5.164620 ACATTGTCACCTGATGTATGTGA 57.835 39.130 0.00 0.00 36.71 3.58
3164 3309 5.412286 TCAACATTGTCACCTGATGTATGTG 59.588 40.000 0.00 0.00 33.88 3.21
3165 3310 5.412594 GTCAACATTGTCACCTGATGTATGT 59.587 40.000 0.00 0.00 33.88 2.29
3166 3311 5.163723 GGTCAACATTGTCACCTGATGTATG 60.164 44.000 9.62 0.00 33.88 2.39
3167 3312 4.943705 GGTCAACATTGTCACCTGATGTAT 59.056 41.667 9.62 0.00 33.88 2.29
3168 3313 4.041567 AGGTCAACATTGTCACCTGATGTA 59.958 41.667 16.15 0.00 37.88 2.29
3169 3314 3.149196 GGTCAACATTGTCACCTGATGT 58.851 45.455 9.62 0.00 35.65 3.06
3170 3315 3.415212 AGGTCAACATTGTCACCTGATG 58.585 45.455 16.15 0.00 37.88 3.07
3171 3316 3.795688 AGGTCAACATTGTCACCTGAT 57.204 42.857 16.15 0.00 37.88 2.90
3172 3317 3.576078 AAGGTCAACATTGTCACCTGA 57.424 42.857 17.15 3.53 39.32 3.86
3173 3318 4.654091 AAAAGGTCAACATTGTCACCTG 57.346 40.909 17.15 1.34 39.32 4.00
3192 3337 6.826741 AGGAAGCAGTAGTTCAACAGTAAAAA 59.173 34.615 0.00 0.00 0.00 1.94
3193 3338 6.354130 AGGAAGCAGTAGTTCAACAGTAAAA 58.646 36.000 0.00 0.00 0.00 1.52
3194 3339 5.925509 AGGAAGCAGTAGTTCAACAGTAAA 58.074 37.500 0.00 0.00 0.00 2.01
3195 3340 5.510861 GGAGGAAGCAGTAGTTCAACAGTAA 60.511 44.000 0.00 0.00 0.00 2.24
3196 3341 4.021368 GGAGGAAGCAGTAGTTCAACAGTA 60.021 45.833 0.00 0.00 0.00 2.74
3197 3342 3.244249 GGAGGAAGCAGTAGTTCAACAGT 60.244 47.826 0.00 0.00 0.00 3.55
3198 3343 3.244215 TGGAGGAAGCAGTAGTTCAACAG 60.244 47.826 0.00 0.00 0.00 3.16
3199 3344 2.703536 TGGAGGAAGCAGTAGTTCAACA 59.296 45.455 0.00 0.00 0.00 3.33
3200 3345 3.067833 GTGGAGGAAGCAGTAGTTCAAC 58.932 50.000 0.00 0.00 0.00 3.18
3201 3346 2.038557 GGTGGAGGAAGCAGTAGTTCAA 59.961 50.000 0.00 0.00 0.00 2.69
3202 3347 1.623811 GGTGGAGGAAGCAGTAGTTCA 59.376 52.381 0.00 0.00 0.00 3.18
3203 3348 1.066071 GGGTGGAGGAAGCAGTAGTTC 60.066 57.143 0.00 0.00 0.00 3.01
3204 3349 0.984995 GGGTGGAGGAAGCAGTAGTT 59.015 55.000 0.00 0.00 0.00 2.24
3205 3350 0.117340 AGGGTGGAGGAAGCAGTAGT 59.883 55.000 0.00 0.00 0.00 2.73
3206 3351 1.757699 GTAGGGTGGAGGAAGCAGTAG 59.242 57.143 0.00 0.00 0.00 2.57
3207 3352 1.078159 TGTAGGGTGGAGGAAGCAGTA 59.922 52.381 0.00 0.00 0.00 2.74
3208 3353 0.178903 TGTAGGGTGGAGGAAGCAGT 60.179 55.000 0.00 0.00 0.00 4.40
3209 3354 1.207791 ATGTAGGGTGGAGGAAGCAG 58.792 55.000 0.00 0.00 0.00 4.24
3210 3355 2.561209 TATGTAGGGTGGAGGAAGCA 57.439 50.000 0.00 0.00 0.00 3.91
3211 3356 4.532521 ACATATATGTAGGGTGGAGGAAGC 59.467 45.833 16.85 0.00 39.68 3.86
3212 3357 6.019748 AGACATATATGTAGGGTGGAGGAAG 58.980 44.000 18.28 0.00 41.95 3.46
3213 3358 5.977533 AGACATATATGTAGGGTGGAGGAA 58.022 41.667 18.28 0.00 41.95 3.36
3214 3359 5.316183 AGAGACATATATGTAGGGTGGAGGA 59.684 44.000 18.28 0.00 41.95 3.71
3215 3360 5.584913 AGAGACATATATGTAGGGTGGAGG 58.415 45.833 18.28 0.00 41.95 4.30
3216 3361 7.015682 ACAAAGAGACATATATGTAGGGTGGAG 59.984 40.741 18.28 7.51 41.95 3.86
3217 3362 6.844388 ACAAAGAGACATATATGTAGGGTGGA 59.156 38.462 18.28 0.00 41.95 4.02
3218 3363 6.931281 CACAAAGAGACATATATGTAGGGTGG 59.069 42.308 18.28 9.71 41.95 4.61
3219 3364 7.500992 ACACAAAGAGACATATATGTAGGGTG 58.499 38.462 18.28 19.27 41.95 4.61
3220 3365 7.676683 ACACAAAGAGACATATATGTAGGGT 57.323 36.000 18.28 8.67 41.95 4.34
3221 3366 7.382488 CGAACACAAAGAGACATATATGTAGGG 59.618 40.741 18.28 8.12 41.95 3.53
3222 3367 7.382488 CCGAACACAAAGAGACATATATGTAGG 59.618 40.741 18.28 7.21 41.95 3.18
3223 3368 7.096023 GCCGAACACAAAGAGACATATATGTAG 60.096 40.741 18.28 7.21 41.95 2.74
3224 3369 6.700081 GCCGAACACAAAGAGACATATATGTA 59.300 38.462 18.28 0.00 41.95 2.29
3225 3370 5.523916 GCCGAACACAAAGAGACATATATGT 59.476 40.000 18.31 18.31 45.16 2.29
3226 3371 5.332581 CGCCGAACACAAAGAGACATATATG 60.333 44.000 11.29 11.29 0.00 1.78
3227 3372 4.745125 CGCCGAACACAAAGAGACATATAT 59.255 41.667 0.00 0.00 0.00 0.86
3228 3373 4.109766 CGCCGAACACAAAGAGACATATA 58.890 43.478 0.00 0.00 0.00 0.86
3229 3374 2.930040 CGCCGAACACAAAGAGACATAT 59.070 45.455 0.00 0.00 0.00 1.78
3230 3375 2.288579 ACGCCGAACACAAAGAGACATA 60.289 45.455 0.00 0.00 0.00 2.29
3231 3376 1.148310 CGCCGAACACAAAGAGACAT 58.852 50.000 0.00 0.00 0.00 3.06
3232 3377 0.179094 ACGCCGAACACAAAGAGACA 60.179 50.000 0.00 0.00 0.00 3.41
3233 3378 0.507358 GACGCCGAACACAAAGAGAC 59.493 55.000 0.00 0.00 0.00 3.36
3234 3379 0.103390 TGACGCCGAACACAAAGAGA 59.897 50.000 0.00 0.00 0.00 3.10
3235 3380 1.126846 GATGACGCCGAACACAAAGAG 59.873 52.381 0.00 0.00 0.00 2.85
3236 3381 1.144969 GATGACGCCGAACACAAAGA 58.855 50.000 0.00 0.00 0.00 2.52
3237 3382 1.148310 AGATGACGCCGAACACAAAG 58.852 50.000 0.00 0.00 0.00 2.77
3238 3383 1.588674 AAGATGACGCCGAACACAAA 58.411 45.000 0.00 0.00 0.00 2.83
3239 3384 2.442212 TAAGATGACGCCGAACACAA 57.558 45.000 0.00 0.00 0.00 3.33
3240 3385 2.665649 ATAAGATGACGCCGAACACA 57.334 45.000 0.00 0.00 0.00 3.72
3241 3386 3.061403 CGTTATAAGATGACGCCGAACAC 60.061 47.826 0.00 0.00 35.52 3.32
3242 3387 3.110358 CGTTATAAGATGACGCCGAACA 58.890 45.455 0.00 0.00 35.52 3.18
3243 3388 3.179206 GTCGTTATAAGATGACGCCGAAC 59.821 47.826 0.00 0.00 41.37 3.95
3244 3389 3.065786 AGTCGTTATAAGATGACGCCGAA 59.934 43.478 0.00 0.00 41.37 4.30
3245 3390 2.615447 AGTCGTTATAAGATGACGCCGA 59.385 45.455 0.00 0.00 41.37 5.54
3246 3391 2.971915 GAGTCGTTATAAGATGACGCCG 59.028 50.000 0.00 0.00 41.37 6.46
3247 3392 4.023878 AGAGAGTCGTTATAAGATGACGCC 60.024 45.833 10.51 6.33 41.37 5.68
3248 3393 5.098218 AGAGAGTCGTTATAAGATGACGC 57.902 43.478 7.60 7.60 41.37 5.19
3249 3394 7.374754 CAGAAAGAGAGTCGTTATAAGATGACG 59.625 40.741 0.00 0.00 42.74 4.35
3250 3395 8.185505 ACAGAAAGAGAGTCGTTATAAGATGAC 58.814 37.037 4.90 4.90 36.11 3.06
3251 3396 8.282455 ACAGAAAGAGAGTCGTTATAAGATGA 57.718 34.615 0.00 0.00 0.00 2.92
3252 3397 9.440784 GTACAGAAAGAGAGTCGTTATAAGATG 57.559 37.037 0.00 0.00 0.00 2.90
3253 3398 8.623030 GGTACAGAAAGAGAGTCGTTATAAGAT 58.377 37.037 0.00 0.00 0.00 2.40
3254 3399 7.201591 CGGTACAGAAAGAGAGTCGTTATAAGA 60.202 40.741 0.00 0.00 0.00 2.10
3255 3400 6.906143 CGGTACAGAAAGAGAGTCGTTATAAG 59.094 42.308 0.00 0.00 0.00 1.73
3256 3401 6.676456 GCGGTACAGAAAGAGAGTCGTTATAA 60.676 42.308 0.00 0.00 0.00 0.98
3257 3402 5.220739 GCGGTACAGAAAGAGAGTCGTTATA 60.221 44.000 0.00 0.00 0.00 0.98
3258 3403 4.438472 GCGGTACAGAAAGAGAGTCGTTAT 60.438 45.833 0.00 0.00 0.00 1.89
3259 3404 3.120060 GCGGTACAGAAAGAGAGTCGTTA 60.120 47.826 0.00 0.00 0.00 3.18
3260 3405 2.351544 GCGGTACAGAAAGAGAGTCGTT 60.352 50.000 0.00 0.00 0.00 3.85
3261 3406 1.199558 GCGGTACAGAAAGAGAGTCGT 59.800 52.381 0.00 0.00 0.00 4.34
3262 3407 1.469308 AGCGGTACAGAAAGAGAGTCG 59.531 52.381 0.00 0.00 0.00 4.18
3263 3408 2.476519 CGAGCGGTACAGAAAGAGAGTC 60.477 54.545 0.00 0.00 0.00 3.36
3264 3409 1.469308 CGAGCGGTACAGAAAGAGAGT 59.531 52.381 0.00 0.00 0.00 3.24
3265 3410 1.738350 TCGAGCGGTACAGAAAGAGAG 59.262 52.381 0.00 0.00 0.00 3.20
3266 3411 1.817357 TCGAGCGGTACAGAAAGAGA 58.183 50.000 0.00 0.00 0.00 3.10
3267 3412 2.356382 AGATCGAGCGGTACAGAAAGAG 59.644 50.000 0.00 0.00 0.00 2.85
3268 3413 2.366533 AGATCGAGCGGTACAGAAAGA 58.633 47.619 0.00 0.00 0.00 2.52
3269 3414 2.853731 AGATCGAGCGGTACAGAAAG 57.146 50.000 0.00 0.00 0.00 2.62
3270 3415 3.508762 GAAAGATCGAGCGGTACAGAAA 58.491 45.455 0.00 0.00 0.00 2.52
3271 3416 3.146618 GAAAGATCGAGCGGTACAGAA 57.853 47.619 0.00 0.00 0.00 3.02
3272 3417 2.846039 GAAAGATCGAGCGGTACAGA 57.154 50.000 0.00 0.00 0.00 3.41
3283 3428 6.850823 CTCTTTAGAGAGTCATCGAAAGATCG 59.149 42.308 18.60 10.76 45.86 3.69
3284 3429 7.138736 CCTCTTTAGAGAGTCATCGAAAGATC 58.861 42.308 18.60 0.00 46.92 2.75
3286 3431 5.946972 ACCTCTTTAGAGAGTCATCGAAAGA 59.053 40.000 17.90 17.90 46.59 2.52
3287 3432 6.202516 ACCTCTTTAGAGAGTCATCGAAAG 57.797 41.667 9.29 13.74 46.59 2.62
3288 3433 6.208797 TGAACCTCTTTAGAGAGTCATCGAAA 59.791 38.462 9.29 0.00 46.59 3.46
3289 3434 5.710567 TGAACCTCTTTAGAGAGTCATCGAA 59.289 40.000 9.29 0.00 46.59 3.71
3290 3435 5.254115 TGAACCTCTTTAGAGAGTCATCGA 58.746 41.667 9.29 0.00 46.59 3.59
3291 3436 5.568685 TGAACCTCTTTAGAGAGTCATCG 57.431 43.478 9.29 0.00 46.59 3.84
3292 3437 6.872920 ACATGAACCTCTTTAGAGAGTCATC 58.127 40.000 16.06 6.77 46.59 2.92
3293 3438 6.438741 TGACATGAACCTCTTTAGAGAGTCAT 59.561 38.462 9.29 9.36 46.59 3.06
3294 3439 5.775195 TGACATGAACCTCTTTAGAGAGTCA 59.225 40.000 9.29 7.60 46.59 3.41
3295 3440 6.274157 TGACATGAACCTCTTTAGAGAGTC 57.726 41.667 9.29 2.39 46.59 3.36
3296 3441 5.337169 GCTGACATGAACCTCTTTAGAGAGT 60.337 44.000 9.29 2.32 46.59 3.24
3298 3443 4.774726 AGCTGACATGAACCTCTTTAGAGA 59.225 41.667 8.32 0.00 44.74 3.10
3299 3444 4.869297 CAGCTGACATGAACCTCTTTAGAG 59.131 45.833 8.42 0.00 41.71 2.43
3300 3445 4.323028 CCAGCTGACATGAACCTCTTTAGA 60.323 45.833 17.39 0.00 0.00 2.10
3301 3446 3.937706 CCAGCTGACATGAACCTCTTTAG 59.062 47.826 17.39 0.00 0.00 1.85
3302 3447 3.307691 CCCAGCTGACATGAACCTCTTTA 60.308 47.826 17.39 0.00 0.00 1.85
3303 3448 2.553904 CCCAGCTGACATGAACCTCTTT 60.554 50.000 17.39 0.00 0.00 2.52
3304 3449 1.004044 CCCAGCTGACATGAACCTCTT 59.996 52.381 17.39 0.00 0.00 2.85
3305 3450 0.617413 CCCAGCTGACATGAACCTCT 59.383 55.000 17.39 0.00 0.00 3.69
3306 3451 0.393537 CCCCAGCTGACATGAACCTC 60.394 60.000 17.39 0.00 0.00 3.85
3307 3452 1.687612 CCCCAGCTGACATGAACCT 59.312 57.895 17.39 0.00 0.00 3.50
3308 3453 4.326255 CCCCAGCTGACATGAACC 57.674 61.111 17.39 0.00 0.00 3.62


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

AutoCloner maintained by Alex Coulton.