Multiple sequence alignment - TraesCS5A01G101500

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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 TraesCS5A01G101500 chr5A 100.000 3239 0 0 1 3239 149694117 149690879 0.000000e+00 5982.0
1 TraesCS5A01G101500 chr5A 97.045 2978 84 4 1 2977 522675567 522672593 0.000000e+00 5009.0
2 TraesCS5A01G101500 chr1A 96.032 2974 112 6 1 2971 565925953 565928923 0.000000e+00 4833.0
3 TraesCS5A01G101500 chr6A 95.337 2981 122 12 1 2971 391627677 391624704 0.000000e+00 4719.0
4 TraesCS5A01G101500 chr6A 95.113 266 12 1 2974 3239 479378929 479378665 5.000000e-113 418.0
5 TraesCS5A01G101500 chr6A 93.985 266 15 1 2974 3239 66088474 66088210 5.030000e-108 401.0
6 TraesCS5A01G101500 chr6A 93.985 266 15 1 2974 3239 97531403 97531139 5.030000e-108 401.0
7 TraesCS5A01G101500 chr6A 93.985 266 15 1 2974 3239 221610658 221610394 5.030000e-108 401.0
8 TraesCS5A01G101500 chr6B 96.928 2702 76 5 272 2971 522435070 522432374 0.000000e+00 4523.0
9 TraesCS5A01G101500 chr5B 96.779 2701 79 6 272 2970 663246176 663243482 0.000000e+00 4499.0
10 TraesCS5A01G101500 chr2A 96.744 2703 79 6 271 2971 761133419 761136114 0.000000e+00 4495.0
11 TraesCS5A01G101500 chr2A 94.361 266 14 1 2974 3239 714348580 714348844 1.080000e-109 407.0
12 TraesCS5A01G101500 chr2A 78.765 405 78 8 2803 3203 472416754 472417154 6.890000e-67 265.0
13 TraesCS5A01G101500 chr3B 96.522 2703 86 6 272 2971 545707436 545710133 0.000000e+00 4464.0
14 TraesCS5A01G101500 chr3B 96.077 2702 98 5 272 2971 292884896 292887591 0.000000e+00 4396.0
15 TraesCS5A01G101500 chr3B 88.601 386 38 4 69 449 794869939 794869555 6.330000e-127 464.0
16 TraesCS5A01G101500 chr3B 100.000 39 0 0 1 39 794869984 794869946 4.480000e-09 73.1
17 TraesCS5A01G101500 chr1B 96.522 2703 87 5 272 2971 37920874 37918176 0.000000e+00 4464.0
18 TraesCS5A01G101500 chr3A 92.506 427 27 2 3 425 724059522 724059097 9.940000e-170 606.0
19 TraesCS5A01G101500 chr3A 94.361 266 14 1 2974 3239 180059019 180059283 1.080000e-109 407.0
20 TraesCS5A01G101500 chrUn 88.962 453 34 4 3 449 45755821 45755379 2.200000e-151 545.0
21 TraesCS5A01G101500 chr7A 94.737 266 13 1 2974 3239 528982686 528982950 2.330000e-111 412.0
22 TraesCS5A01G101500 chr4A 95.000 260 12 1 2980 3239 512690245 512690503 1.080000e-109 407.0


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 TraesCS5A01G101500 chr5A 149690879 149694117 3238 True 5982 5982 100.000 1 3239 1 chr5A.!!$R1 3238
1 TraesCS5A01G101500 chr5A 522672593 522675567 2974 True 5009 5009 97.045 1 2977 1 chr5A.!!$R2 2976
2 TraesCS5A01G101500 chr1A 565925953 565928923 2970 False 4833 4833 96.032 1 2971 1 chr1A.!!$F1 2970
3 TraesCS5A01G101500 chr6A 391624704 391627677 2973 True 4719 4719 95.337 1 2971 1 chr6A.!!$R4 2970
4 TraesCS5A01G101500 chr6B 522432374 522435070 2696 True 4523 4523 96.928 272 2971 1 chr6B.!!$R1 2699
5 TraesCS5A01G101500 chr5B 663243482 663246176 2694 True 4499 4499 96.779 272 2970 1 chr5B.!!$R1 2698
6 TraesCS5A01G101500 chr2A 761133419 761136114 2695 False 4495 4495 96.744 271 2971 1 chr2A.!!$F3 2700
7 TraesCS5A01G101500 chr3B 545707436 545710133 2697 False 4464 4464 96.522 272 2971 1 chr3B.!!$F2 2699
8 TraesCS5A01G101500 chr3B 292884896 292887591 2695 False 4396 4396 96.077 272 2971 1 chr3B.!!$F1 2699
9 TraesCS5A01G101500 chr1B 37918176 37920874 2698 True 4464 4464 96.522 272 2971 1 chr1B.!!$R1 2699

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
729 731 0.322546 ATCGACTCCCCAAACAAGGC 60.323 55.0 0.0 0.0 0.00 4.35 F
1029 1031 0.680061 AGTTTCCTCGGTCCAGTGAC 59.320 55.0 0.0 0.0 40.98 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2236 2243 0.833287 GCCCTGGTGAAGATCTGCTA 59.167 55.0 1.43 0.0 0.0 3.49 R
3023 3037 0.038455 GGGATCTAGAGCGAGGCCTA 59.962 60.0 4.42 0.0 0.0 3.93 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
134 135 2.611224 GCTTGGTCATTTTGGCAGGAAG 60.611 50.000 0.00 0.00 0.00 3.46
155 156 2.483876 CCAGCGGTTATCATGATCGTT 58.516 47.619 12.53 5.12 0.00 3.85
299 300 3.710209 AATCTAGCACTTTGGAGCTGT 57.290 42.857 0.00 0.00 39.56 4.40
302 303 3.165875 TCTAGCACTTTGGAGCTGTAGT 58.834 45.455 0.00 0.00 39.56 2.73
339 340 1.522668 CCTCGAATGGTTTGAGTGCA 58.477 50.000 6.28 0.00 39.16 4.57
449 451 6.642131 CCTGTTATTTTGTGGACAATGAACTG 59.358 38.462 0.00 3.39 35.55 3.16
653 655 6.382859 TCTGTCTGTCAGCCCATATTTACTTA 59.617 38.462 0.00 0.00 43.32 2.24
700 702 0.676184 CCTCCATGGACGACATCGAT 59.324 55.000 11.44 0.00 43.39 3.59
729 731 0.322546 ATCGACTCCCCAAACAAGGC 60.323 55.000 0.00 0.00 0.00 4.35
1015 1017 2.484264 ACGGCTATGCAGTTTCAGTTTC 59.516 45.455 0.00 0.00 32.29 2.78
1029 1031 0.680061 AGTTTCCTCGGTCCAGTGAC 59.320 55.000 0.00 0.00 40.98 3.67
1071 1073 5.121768 GCGGCTGTTCTCTAAACTGAATTTA 59.878 40.000 0.00 0.00 0.00 1.40
1137 1140 7.085052 AGCTTCTAACTGAAAAACGAGTTTT 57.915 32.000 8.02 8.02 43.88 2.43
1219 1222 7.118825 GGTTTCCGTAGAGTACTTATTTGCTTT 59.881 37.037 0.00 0.00 0.00 3.51
1256 1259 4.465632 TTGAGAGCAGCCGTCTATTTAA 57.534 40.909 0.00 0.00 0.00 1.52
1279 1282 5.772825 TTTGCTGTCCAGAAATATATGCC 57.227 39.130 0.00 0.00 0.00 4.40
1405 1408 2.519780 GAAAACCCGCACCCACCA 60.520 61.111 0.00 0.00 0.00 4.17
1665 1668 5.546499 TCTTACTTGCTTCCTTCCTTCCTAA 59.454 40.000 0.00 0.00 0.00 2.69
1825 1828 1.153086 GGATGCTGGATTCGGCTGT 60.153 57.895 6.33 0.00 45.25 4.40
1831 1834 0.813184 CTGGATTCGGCTGTTGCATT 59.187 50.000 0.00 0.00 41.91 3.56
1954 1957 8.086522 AGATATTCAACATAGCCATTGATTTGC 58.913 33.333 0.00 0.00 34.87 3.68
2236 2243 0.326264 GGTGTCAATCCAGTCCAGCT 59.674 55.000 0.00 0.00 0.00 4.24
2289 2296 5.948758 TGCCACCAGTCATGTTAATATTCAA 59.051 36.000 0.00 0.00 0.00 2.69
2464 2471 2.526888 ATAGAGAAGACGTGGGTCCA 57.473 50.000 0.00 0.00 44.54 4.02
2551 2560 7.546250 TCCAAAATGGATTGTAAAAAGGCTA 57.454 32.000 0.00 0.00 42.67 3.93
2554 2563 7.877612 CCAAAATGGATTGTAAAAAGGCTAAGT 59.122 33.333 0.00 0.00 40.96 2.24
2731 2744 0.961019 GGCTGATTCTTGTGCCACAA 59.039 50.000 10.31 10.31 44.34 3.33
2971 2985 8.773645 CACAAGTTGACATATTTCTTGTAGTGA 58.226 33.333 10.54 0.00 44.11 3.41
2973 2987 8.993121 CAAGTTGACATATTTCTTGTAGTGAGT 58.007 33.333 0.00 0.00 33.27 3.41
2977 2991 5.661458 ACATATTTCTTGTAGTGAGTCCCG 58.339 41.667 0.00 0.00 0.00 5.14
2978 2992 5.421056 ACATATTTCTTGTAGTGAGTCCCGA 59.579 40.000 0.00 0.00 0.00 5.14
2979 2993 4.884668 ATTTCTTGTAGTGAGTCCCGAA 57.115 40.909 0.00 0.00 0.00 4.30
2980 2994 3.655276 TTCTTGTAGTGAGTCCCGAAC 57.345 47.619 0.00 0.00 0.00 3.95
2981 2995 1.891150 TCTTGTAGTGAGTCCCGAACC 59.109 52.381 0.00 0.00 0.00 3.62
2982 2996 0.971386 TTGTAGTGAGTCCCGAACCC 59.029 55.000 0.00 0.00 0.00 4.11
2983 2997 0.178955 TGTAGTGAGTCCCGAACCCA 60.179 55.000 0.00 0.00 0.00 4.51
2984 2998 0.971386 GTAGTGAGTCCCGAACCCAA 59.029 55.000 0.00 0.00 0.00 4.12
2985 2999 0.971386 TAGTGAGTCCCGAACCCAAC 59.029 55.000 0.00 0.00 0.00 3.77
2986 3000 1.666872 GTGAGTCCCGAACCCAACG 60.667 63.158 0.00 0.00 0.00 4.10
2987 3001 1.833492 TGAGTCCCGAACCCAACGA 60.833 57.895 0.00 0.00 0.00 3.85
2988 3002 1.080025 GAGTCCCGAACCCAACGAG 60.080 63.158 0.00 0.00 0.00 4.18
2989 3003 1.530013 GAGTCCCGAACCCAACGAGA 61.530 60.000 0.00 0.00 0.00 4.04
2990 3004 1.080025 GTCCCGAACCCAACGAGAG 60.080 63.158 0.00 0.00 0.00 3.20
3000 3014 4.479945 AACCCAACGAGAGTGTTGTGTTC 61.480 47.826 5.96 0.00 43.72 3.18
3001 3015 6.902088 AACCCAACGAGAGTGTTGTGTTCA 62.902 45.833 5.96 0.00 43.72 3.18
3004 3018 3.735237 ACGAGAGTGTTGTGTTCATCT 57.265 42.857 0.00 0.00 46.97 2.90
3005 3019 3.643763 ACGAGAGTGTTGTGTTCATCTC 58.356 45.455 0.00 0.00 46.97 2.75
3006 3020 3.319405 ACGAGAGTGTTGTGTTCATCTCT 59.681 43.478 0.00 0.00 46.97 3.10
3007 3021 3.917380 CGAGAGTGTTGTGTTCATCTCTC 59.083 47.826 9.16 9.16 42.22 3.20
3008 3022 4.557496 CGAGAGTGTTGTGTTCATCTCTCA 60.557 45.833 16.47 0.00 44.35 3.27
3009 3023 4.626042 AGAGTGTTGTGTTCATCTCTCAC 58.374 43.478 0.00 0.00 36.85 3.51
3010 3024 4.343526 AGAGTGTTGTGTTCATCTCTCACT 59.656 41.667 0.00 0.00 36.85 3.41
3011 3025 5.028549 AGTGTTGTGTTCATCTCTCACTT 57.971 39.130 0.00 0.00 32.15 3.16
3012 3026 5.053145 AGTGTTGTGTTCATCTCTCACTTC 58.947 41.667 0.00 0.00 32.15 3.01
3013 3027 4.212214 GTGTTGTGTTCATCTCTCACTTCC 59.788 45.833 0.00 0.00 33.82 3.46
3014 3028 4.101585 TGTTGTGTTCATCTCTCACTTCCT 59.898 41.667 0.00 0.00 33.82 3.36
3015 3029 4.527509 TGTGTTCATCTCTCACTTCCTC 57.472 45.455 0.00 0.00 33.82 3.71
3016 3030 4.155709 TGTGTTCATCTCTCACTTCCTCT 58.844 43.478 0.00 0.00 33.82 3.69
3017 3031 4.021632 TGTGTTCATCTCTCACTTCCTCTG 60.022 45.833 0.00 0.00 33.82 3.35
3018 3032 4.219507 GTGTTCATCTCTCACTTCCTCTGA 59.780 45.833 0.00 0.00 0.00 3.27
3019 3033 4.462132 TGTTCATCTCTCACTTCCTCTGAG 59.538 45.833 0.00 0.00 37.14 3.35
3020 3034 3.630168 TCATCTCTCACTTCCTCTGAGG 58.370 50.000 17.84 17.84 36.55 3.86
3021 3035 3.268072 TCATCTCTCACTTCCTCTGAGGA 59.732 47.826 22.30 22.30 44.10 3.71
3022 3036 3.080300 TCTCTCACTTCCTCTGAGGAC 57.920 52.381 25.62 0.00 45.78 3.85
3023 3037 2.647299 TCTCTCACTTCCTCTGAGGACT 59.353 50.000 25.62 11.27 45.78 3.85
3024 3038 3.847184 TCTCTCACTTCCTCTGAGGACTA 59.153 47.826 25.62 11.68 45.78 2.59
3025 3039 4.080582 TCTCTCACTTCCTCTGAGGACTAG 60.081 50.000 25.62 22.02 45.78 2.57
3026 3040 3.053991 TCTCACTTCCTCTGAGGACTAGG 60.054 52.174 25.62 17.00 45.78 3.02
3027 3041 1.754226 CACTTCCTCTGAGGACTAGGC 59.246 57.143 25.62 0.00 45.78 3.93
3028 3042 1.342574 ACTTCCTCTGAGGACTAGGCC 60.343 57.143 25.62 6.47 45.78 5.19
3029 3043 1.011595 TTCCTCTGAGGACTAGGCCT 58.988 55.000 25.62 20.19 45.78 5.19
3030 3044 1.063567 TTCCTCTGAGGACTAGGCCTC 60.064 57.143 34.62 34.62 45.78 4.70
3034 3048 3.439008 GAGGACTAGGCCTCGCTC 58.561 66.667 29.05 7.43 44.52 5.03
3035 3049 1.152839 GAGGACTAGGCCTCGCTCT 60.153 63.158 29.05 0.00 44.52 4.09
3036 3050 0.108963 GAGGACTAGGCCTCGCTCTA 59.891 60.000 29.05 0.00 44.52 2.43
3037 3051 0.109723 AGGACTAGGCCTCGCTCTAG 59.890 60.000 12.97 1.38 36.35 2.43
3038 3052 0.108963 GGACTAGGCCTCGCTCTAGA 59.891 60.000 9.68 0.00 35.00 2.43
3039 3053 1.271707 GGACTAGGCCTCGCTCTAGAT 60.272 57.143 9.68 0.00 35.00 1.98
3040 3054 2.081462 GACTAGGCCTCGCTCTAGATC 58.919 57.143 9.68 0.00 35.00 2.75
3041 3055 1.271707 ACTAGGCCTCGCTCTAGATCC 60.272 57.143 9.68 0.00 35.00 3.36
3042 3056 0.038455 TAGGCCTCGCTCTAGATCCC 59.962 60.000 9.68 0.00 0.00 3.85
3043 3057 1.228737 GGCCTCGCTCTAGATCCCT 60.229 63.158 0.00 0.00 0.00 4.20
3044 3058 0.830023 GGCCTCGCTCTAGATCCCTT 60.830 60.000 0.00 0.00 0.00 3.95
3045 3059 1.044611 GCCTCGCTCTAGATCCCTTT 58.955 55.000 0.00 0.00 0.00 3.11
3046 3060 1.270041 GCCTCGCTCTAGATCCCTTTG 60.270 57.143 0.00 0.00 0.00 2.77
3047 3061 2.035632 CCTCGCTCTAGATCCCTTTGT 58.964 52.381 0.00 0.00 0.00 2.83
3048 3062 2.432510 CCTCGCTCTAGATCCCTTTGTT 59.567 50.000 0.00 0.00 0.00 2.83
3049 3063 3.637229 CCTCGCTCTAGATCCCTTTGTTA 59.363 47.826 0.00 0.00 0.00 2.41
3050 3064 4.261825 CCTCGCTCTAGATCCCTTTGTTAG 60.262 50.000 0.00 0.00 0.00 2.34
3051 3065 3.637229 TCGCTCTAGATCCCTTTGTTAGG 59.363 47.826 0.00 0.00 44.33 2.69
3072 3086 3.690460 GGGGGCTCATGTTCTATAATGG 58.310 50.000 0.00 0.00 0.00 3.16
3073 3087 3.562176 GGGGGCTCATGTTCTATAATGGG 60.562 52.174 0.00 0.00 0.00 4.00
3078 3092 6.042638 GCTCATGTTCTATAATGGGCTAGA 57.957 41.667 0.00 0.00 45.14 2.43
3079 3093 6.648192 GCTCATGTTCTATAATGGGCTAGAT 58.352 40.000 0.00 0.00 45.14 1.98
3080 3094 7.108847 GCTCATGTTCTATAATGGGCTAGATT 58.891 38.462 0.00 0.00 45.14 2.40
3081 3095 7.609532 GCTCATGTTCTATAATGGGCTAGATTT 59.390 37.037 0.00 0.00 45.14 2.17
3082 3096 9.160496 CTCATGTTCTATAATGGGCTAGATTTC 57.840 37.037 0.00 0.00 0.00 2.17
3083 3097 8.103305 TCATGTTCTATAATGGGCTAGATTTCC 58.897 37.037 0.00 0.00 0.00 3.13
3084 3098 7.387265 TGTTCTATAATGGGCTAGATTTCCA 57.613 36.000 0.00 0.00 34.79 3.53
3085 3099 7.988937 TGTTCTATAATGGGCTAGATTTCCAT 58.011 34.615 0.00 0.00 42.52 3.41
3086 3100 7.884877 TGTTCTATAATGGGCTAGATTTCCATG 59.115 37.037 0.00 0.00 40.75 3.66
3087 3101 7.813087 TCTATAATGGGCTAGATTTCCATGA 57.187 36.000 0.00 0.00 40.75 3.07
3088 3102 8.397951 TCTATAATGGGCTAGATTTCCATGAT 57.602 34.615 0.00 2.36 40.75 2.45
3089 3103 8.489489 TCTATAATGGGCTAGATTTCCATGATC 58.511 37.037 0.00 0.00 40.75 2.92
3090 3104 5.595814 AATGGGCTAGATTTCCATGATCT 57.404 39.130 0.00 0.00 40.75 2.75
3091 3105 4.362470 TGGGCTAGATTTCCATGATCTG 57.638 45.455 5.81 0.00 35.56 2.90
3094 3108 3.080319 GCTAGATTTCCATGATCTGGCC 58.920 50.000 16.05 0.00 46.35 5.36
3095 3109 2.671896 AGATTTCCATGATCTGGCCC 57.328 50.000 0.00 0.00 45.52 5.80
3096 3110 1.146566 AGATTTCCATGATCTGGCCCC 59.853 52.381 0.00 0.00 45.52 5.80
3097 3111 0.178981 ATTTCCATGATCTGGCCCCG 60.179 55.000 0.00 0.00 45.52 5.73
3098 3112 2.283143 TTTCCATGATCTGGCCCCGG 62.283 60.000 0.00 0.00 45.52 5.73
3099 3113 3.170672 CCATGATCTGGCCCCGGA 61.171 66.667 0.73 0.00 38.47 5.14
3100 3114 2.532532 CCATGATCTGGCCCCGGAT 61.533 63.158 0.73 8.36 44.02 4.18
3101 3115 1.457604 CATGATCTGGCCCCGGATT 59.542 57.895 0.73 0.00 41.66 3.01
3102 3116 0.607489 CATGATCTGGCCCCGGATTC 60.607 60.000 0.73 4.83 41.66 2.52
3103 3117 1.783250 ATGATCTGGCCCCGGATTCC 61.783 60.000 0.73 0.50 41.66 3.01
3104 3118 3.178611 ATCTGGCCCCGGATTCCC 61.179 66.667 0.73 0.00 38.80 3.97
3105 3119 3.739080 ATCTGGCCCCGGATTCCCT 62.739 63.158 0.73 0.00 38.80 4.20
3106 3120 3.878667 CTGGCCCCGGATTCCCTC 61.879 72.222 0.73 0.00 0.00 4.30
3109 3123 3.097162 GCCCCGGATTCCCTCCTT 61.097 66.667 0.73 0.00 42.47 3.36
3110 3124 3.121406 GCCCCGGATTCCCTCCTTC 62.121 68.421 0.73 0.00 42.47 3.46
3111 3125 1.692749 CCCCGGATTCCCTCCTTCA 60.693 63.158 0.73 0.00 42.47 3.02
3112 3126 1.527370 CCCGGATTCCCTCCTTCAC 59.473 63.158 0.73 0.00 42.47 3.18
3113 3127 1.271840 CCCGGATTCCCTCCTTCACA 61.272 60.000 0.73 0.00 42.47 3.58
3114 3128 0.839946 CCGGATTCCCTCCTTCACAT 59.160 55.000 0.00 0.00 42.47 3.21
3115 3129 1.202698 CCGGATTCCCTCCTTCACATC 60.203 57.143 0.00 0.00 42.47 3.06
3116 3130 1.765314 CGGATTCCCTCCTTCACATCT 59.235 52.381 0.00 0.00 42.47 2.90
3117 3131 2.224161 CGGATTCCCTCCTTCACATCTC 60.224 54.545 0.00 0.00 42.47 2.75
3118 3132 2.105649 GGATTCCCTCCTTCACATCTCC 59.894 54.545 0.00 0.00 41.29 3.71
3119 3133 2.649742 TTCCCTCCTTCACATCTCCT 57.350 50.000 0.00 0.00 0.00 3.69
3120 3134 2.166907 TCCCTCCTTCACATCTCCTC 57.833 55.000 0.00 0.00 0.00 3.71
3121 3135 0.749649 CCCTCCTTCACATCTCCTCG 59.250 60.000 0.00 0.00 0.00 4.63
3122 3136 1.479709 CCTCCTTCACATCTCCTCGT 58.520 55.000 0.00 0.00 0.00 4.18
3123 3137 1.827969 CCTCCTTCACATCTCCTCGTT 59.172 52.381 0.00 0.00 0.00 3.85
3124 3138 2.234908 CCTCCTTCACATCTCCTCGTTT 59.765 50.000 0.00 0.00 0.00 3.60
3125 3139 3.447586 CCTCCTTCACATCTCCTCGTTTA 59.552 47.826 0.00 0.00 0.00 2.01
3126 3140 4.100189 CCTCCTTCACATCTCCTCGTTTAT 59.900 45.833 0.00 0.00 0.00 1.40
3127 3141 5.263968 TCCTTCACATCTCCTCGTTTATC 57.736 43.478 0.00 0.00 0.00 1.75
3128 3142 4.045104 CCTTCACATCTCCTCGTTTATCG 58.955 47.826 0.00 0.00 41.41 2.92
3129 3143 4.440250 CCTTCACATCTCCTCGTTTATCGT 60.440 45.833 0.00 0.00 40.80 3.73
3130 3144 4.288670 TCACATCTCCTCGTTTATCGTC 57.711 45.455 0.00 0.00 40.80 4.20
3131 3145 3.692593 TCACATCTCCTCGTTTATCGTCA 59.307 43.478 0.00 0.00 40.80 4.35
3132 3146 4.338400 TCACATCTCCTCGTTTATCGTCAT 59.662 41.667 0.00 0.00 40.80 3.06
3133 3147 5.529800 TCACATCTCCTCGTTTATCGTCATA 59.470 40.000 0.00 0.00 40.80 2.15
3134 3148 6.206829 TCACATCTCCTCGTTTATCGTCATAT 59.793 38.462 0.00 0.00 40.80 1.78
3135 3149 6.306596 CACATCTCCTCGTTTATCGTCATATG 59.693 42.308 0.00 0.00 40.80 1.78
3136 3150 6.016192 ACATCTCCTCGTTTATCGTCATATGT 60.016 38.462 1.90 0.00 40.80 2.29
3137 3151 5.758924 TCTCCTCGTTTATCGTCATATGTG 58.241 41.667 1.90 0.00 40.80 3.21
3138 3152 5.529800 TCTCCTCGTTTATCGTCATATGTGA 59.470 40.000 1.90 2.84 40.80 3.58
3139 3153 5.758924 TCCTCGTTTATCGTCATATGTGAG 58.241 41.667 1.90 0.00 40.80 3.51
3140 3154 4.917998 CCTCGTTTATCGTCATATGTGAGG 59.082 45.833 5.86 5.86 40.66 3.86
3141 3155 4.295870 TCGTTTATCGTCATATGTGAGGC 58.704 43.478 7.23 0.00 39.48 4.70
3142 3156 3.428870 CGTTTATCGTCATATGTGAGGCC 59.571 47.826 7.23 0.00 39.48 5.19
3143 3157 4.632153 GTTTATCGTCATATGTGAGGCCT 58.368 43.478 3.86 3.86 39.48 5.19
3144 3158 4.955811 TTATCGTCATATGTGAGGCCTT 57.044 40.909 6.77 0.00 39.48 4.35
3145 3159 2.890808 TCGTCATATGTGAGGCCTTC 57.109 50.000 6.77 4.06 39.48 3.46
3146 3160 1.412710 TCGTCATATGTGAGGCCTTCC 59.587 52.381 6.77 0.14 39.48 3.46
3157 3171 0.548510 AGGCCTTCCTCTGCATTACC 59.451 55.000 0.00 0.00 38.72 2.85
3158 3172 0.466372 GGCCTTCCTCTGCATTACCC 60.466 60.000 0.00 0.00 0.00 3.69
3159 3173 0.466372 GCCTTCCTCTGCATTACCCC 60.466 60.000 0.00 0.00 0.00 4.95
3160 3174 1.216990 CCTTCCTCTGCATTACCCCT 58.783 55.000 0.00 0.00 0.00 4.79
3161 3175 1.141858 CCTTCCTCTGCATTACCCCTC 59.858 57.143 0.00 0.00 0.00 4.30
3162 3176 1.839994 CTTCCTCTGCATTACCCCTCA 59.160 52.381 0.00 0.00 0.00 3.86
3163 3177 1.204146 TCCTCTGCATTACCCCTCAC 58.796 55.000 0.00 0.00 0.00 3.51
3164 3178 1.207791 CCTCTGCATTACCCCTCACT 58.792 55.000 0.00 0.00 0.00 3.41
3165 3179 1.561542 CCTCTGCATTACCCCTCACTT 59.438 52.381 0.00 0.00 0.00 3.16
3166 3180 2.420687 CCTCTGCATTACCCCTCACTTC 60.421 54.545 0.00 0.00 0.00 3.01
3167 3181 1.207089 TCTGCATTACCCCTCACTTCG 59.793 52.381 0.00 0.00 0.00 3.79
3168 3182 0.251916 TGCATTACCCCTCACTTCGG 59.748 55.000 0.00 0.00 0.00 4.30
3169 3183 1.095807 GCATTACCCCTCACTTCGGC 61.096 60.000 0.00 0.00 0.00 5.54
3170 3184 0.463833 CATTACCCCTCACTTCGGCC 60.464 60.000 0.00 0.00 0.00 6.13
3171 3185 0.620700 ATTACCCCTCACTTCGGCCT 60.621 55.000 0.00 0.00 0.00 5.19
3172 3186 1.550130 TTACCCCTCACTTCGGCCTG 61.550 60.000 0.00 0.00 0.00 4.85
3173 3187 2.741878 TACCCCTCACTTCGGCCTGT 62.742 60.000 0.00 0.00 0.00 4.00
3174 3188 2.046892 CCCTCACTTCGGCCTGTG 60.047 66.667 0.00 7.63 35.68 3.66
3175 3189 2.046892 CCTCACTTCGGCCTGTGG 60.047 66.667 16.63 8.14 35.15 4.17
3185 3199 2.753029 GCCTGTGGCTCAAGACCT 59.247 61.111 0.73 0.00 46.69 3.85
3186 3200 1.073897 GCCTGTGGCTCAAGACCTT 59.926 57.895 0.73 0.00 46.69 3.50
3187 3201 0.957888 GCCTGTGGCTCAAGACCTTC 60.958 60.000 0.73 0.00 46.69 3.46
3188 3202 0.397941 CCTGTGGCTCAAGACCTTCA 59.602 55.000 0.00 0.00 0.00 3.02
3189 3203 1.202806 CCTGTGGCTCAAGACCTTCAA 60.203 52.381 0.00 0.00 0.00 2.69
3190 3204 2.553904 CCTGTGGCTCAAGACCTTCAAT 60.554 50.000 0.00 0.00 0.00 2.57
3191 3205 2.486982 CTGTGGCTCAAGACCTTCAATG 59.513 50.000 0.00 0.00 0.00 2.82
3192 3206 2.158623 TGTGGCTCAAGACCTTCAATGT 60.159 45.455 0.00 0.00 0.00 2.71
3193 3207 2.227388 GTGGCTCAAGACCTTCAATGTG 59.773 50.000 0.00 0.00 0.00 3.21
3194 3208 2.106338 TGGCTCAAGACCTTCAATGTGA 59.894 45.455 0.00 0.00 0.00 3.58
3195 3209 3.149196 GGCTCAAGACCTTCAATGTGAA 58.851 45.455 0.00 0.00 34.79 3.18
3205 3219 4.012319 CTTCAATGTGAAGCCGAAGATG 57.988 45.455 5.13 0.00 46.03 2.90
3206 3220 3.333029 TCAATGTGAAGCCGAAGATGA 57.667 42.857 0.00 0.00 0.00 2.92
3207 3221 3.877559 TCAATGTGAAGCCGAAGATGAT 58.122 40.909 0.00 0.00 0.00 2.45
3208 3222 3.873361 TCAATGTGAAGCCGAAGATGATC 59.127 43.478 0.00 0.00 0.00 2.92
3209 3223 3.548745 ATGTGAAGCCGAAGATGATCA 57.451 42.857 0.00 0.00 0.00 2.92
3210 3224 3.333029 TGTGAAGCCGAAGATGATCAA 57.667 42.857 0.00 0.00 0.00 2.57
3211 3225 3.264947 TGTGAAGCCGAAGATGATCAAG 58.735 45.455 0.00 0.00 0.00 3.02
3212 3226 2.611292 GTGAAGCCGAAGATGATCAAGG 59.389 50.000 0.00 0.00 0.00 3.61
3213 3227 2.216898 GAAGCCGAAGATGATCAAGGG 58.783 52.381 0.00 0.00 0.00 3.95
3214 3228 0.471617 AGCCGAAGATGATCAAGGGG 59.528 55.000 0.00 0.00 0.00 4.79
3215 3229 1.169034 GCCGAAGATGATCAAGGGGC 61.169 60.000 0.00 5.20 0.00 5.80
3216 3230 0.882042 CCGAAGATGATCAAGGGGCG 60.882 60.000 0.00 0.38 0.00 6.13
3217 3231 0.104855 CGAAGATGATCAAGGGGCGA 59.895 55.000 0.00 0.00 0.00 5.54
3218 3232 1.587547 GAAGATGATCAAGGGGCGAC 58.412 55.000 0.00 0.00 0.00 5.19
3219 3233 0.911769 AAGATGATCAAGGGGCGACA 59.088 50.000 0.00 0.00 0.00 4.35
3220 3234 0.179000 AGATGATCAAGGGGCGACAC 59.821 55.000 0.00 0.00 0.00 3.67
3221 3235 1.153369 ATGATCAAGGGGCGACACG 60.153 57.895 0.00 0.00 40.46 4.49
3233 3247 3.298126 CGACACGCAGAGTACAGAG 57.702 57.895 0.00 0.00 0.00 3.35
3234 3248 0.179187 CGACACGCAGAGTACAGAGG 60.179 60.000 0.00 0.00 0.00 3.69
3235 3249 0.882474 GACACGCAGAGTACAGAGGT 59.118 55.000 0.00 0.00 0.00 3.85
3236 3250 0.598562 ACACGCAGAGTACAGAGGTG 59.401 55.000 0.00 0.00 0.00 4.00
3237 3251 0.734253 CACGCAGAGTACAGAGGTGC 60.734 60.000 0.00 0.00 0.00 5.01
3238 3252 1.153745 CGCAGAGTACAGAGGTGCC 60.154 63.158 0.00 0.00 0.00 5.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
134 135 0.792640 CGATCATGATAACCGCTGGC 59.207 55.000 8.54 0.00 0.00 4.85
155 156 0.761323 TTCCACCTCCGTTCACTCCA 60.761 55.000 0.00 0.00 0.00 3.86
299 300 6.094325 CGAGGGGCAACAATTTATTTACACTA 59.906 38.462 0.00 0.00 39.74 2.74
302 303 5.010933 TCGAGGGGCAACAATTTATTTACA 58.989 37.500 0.00 0.00 39.74 2.41
372 374 5.564550 AGGAATGCAGAGTTTATGTGAGTT 58.435 37.500 0.00 0.00 0.00 3.01
449 451 5.187186 TCATATATTTAGGAACGGAGGGAGC 59.813 44.000 0.00 0.00 0.00 4.70
700 702 1.486211 GGGAGTCGATTTCCTCCTCA 58.514 55.000 16.77 0.00 45.46 3.86
729 731 7.175641 AGGAAAAACATCACAGTAAGGATCAAG 59.824 37.037 0.00 0.00 0.00 3.02
993 995 1.442769 ACTGAAACTGCATAGCCGTG 58.557 50.000 0.00 0.00 0.00 4.94
1029 1031 2.610232 CCGCAGAAATCCAAAAACAGGG 60.610 50.000 0.00 0.00 0.00 4.45
1137 1140 7.041107 GGCCAACTTGAAATTATGAGCATAAA 58.959 34.615 0.00 0.00 36.90 1.40
1219 1222 4.062293 CTCTCAAACCGTACATCCAAACA 58.938 43.478 0.00 0.00 0.00 2.83
1256 1259 5.244626 GGGCATATATTTCTGGACAGCAAAT 59.755 40.000 11.56 11.56 0.00 2.32
1279 1282 5.308825 AGGAATATAATCAAGTGAAGCCGG 58.691 41.667 0.00 0.00 0.00 6.13
1665 1668 2.030027 TCCCCAGATGTCACTTCACT 57.970 50.000 0.00 0.00 0.00 3.41
2236 2243 0.833287 GCCCTGGTGAAGATCTGCTA 59.167 55.000 1.43 0.00 0.00 3.49
2311 2318 7.615365 TCTTCTCTATTTGGGCAATACAAACAT 59.385 33.333 0.00 0.00 40.25 2.71
2320 2327 3.244422 ACACGTCTTCTCTATTTGGGCAA 60.244 43.478 0.00 0.00 0.00 4.52
2551 2560 5.710099 TGCTTCGATTTCTTATTTGGGACTT 59.290 36.000 0.00 0.00 0.00 3.01
2554 2563 6.582677 TTTGCTTCGATTTCTTATTTGGGA 57.417 33.333 0.00 0.00 0.00 4.37
2603 2613 1.213537 CAGGCCCAACAATTCAGCG 59.786 57.895 0.00 0.00 0.00 5.18
2731 2744 0.740868 CATCCGACGTGGCAATCTGT 60.741 55.000 0.00 0.00 37.80 3.41
2971 2985 1.532316 TCTCGTTGGGTTCGGGACT 60.532 57.895 0.00 0.00 32.69 3.85
2973 2987 1.532316 ACTCTCGTTGGGTTCGGGA 60.532 57.895 0.00 0.00 36.37 5.14
2983 2997 4.051922 GAGATGAACACAACACTCTCGTT 58.948 43.478 0.00 0.00 0.00 3.85
2984 2998 3.319405 AGAGATGAACACAACACTCTCGT 59.681 43.478 0.00 0.00 35.44 4.18
2985 2999 3.906998 AGAGATGAACACAACACTCTCG 58.093 45.455 0.00 0.00 35.44 4.04
2986 3000 4.683781 GTGAGAGATGAACACAACACTCTC 59.316 45.833 0.00 0.00 45.70 3.20
2987 3001 4.343526 AGTGAGAGATGAACACAACACTCT 59.656 41.667 0.00 0.00 37.42 3.24
2988 3002 4.626042 AGTGAGAGATGAACACAACACTC 58.374 43.478 0.00 0.00 37.05 3.51
2989 3003 4.679373 AGTGAGAGATGAACACAACACT 57.321 40.909 0.00 0.00 37.05 3.55
2990 3004 4.212214 GGAAGTGAGAGATGAACACAACAC 59.788 45.833 0.00 0.00 37.05 3.32
2991 3005 4.101585 AGGAAGTGAGAGATGAACACAACA 59.898 41.667 0.00 0.00 37.05 3.33
2992 3006 4.636249 AGGAAGTGAGAGATGAACACAAC 58.364 43.478 0.00 0.00 37.05 3.32
2993 3007 4.590647 AGAGGAAGTGAGAGATGAACACAA 59.409 41.667 0.00 0.00 37.05 3.33
2994 3008 4.021632 CAGAGGAAGTGAGAGATGAACACA 60.022 45.833 0.00 0.00 37.05 3.72
2995 3009 4.219507 TCAGAGGAAGTGAGAGATGAACAC 59.780 45.833 0.00 0.00 35.15 3.32
2996 3010 4.411013 TCAGAGGAAGTGAGAGATGAACA 58.589 43.478 0.00 0.00 0.00 3.18
2997 3011 4.142182 CCTCAGAGGAAGTGAGAGATGAAC 60.142 50.000 11.62 0.00 43.65 3.18
2998 3012 4.022603 CCTCAGAGGAAGTGAGAGATGAA 58.977 47.826 11.62 0.00 43.65 2.57
2999 3013 3.268072 TCCTCAGAGGAAGTGAGAGATGA 59.732 47.826 17.67 0.00 42.51 2.92
3000 3014 3.630168 TCCTCAGAGGAAGTGAGAGATG 58.370 50.000 17.67 0.00 42.51 2.90
3011 3025 2.730033 AGGCCTAGTCCTCAGAGGA 58.270 57.895 15.98 15.98 43.43 3.71
3018 3032 0.109723 CTAGAGCGAGGCCTAGTCCT 59.890 60.000 14.88 13.27 39.67 3.85
3019 3033 0.108963 TCTAGAGCGAGGCCTAGTCC 59.891 60.000 14.88 6.63 33.96 3.85
3020 3034 2.081462 GATCTAGAGCGAGGCCTAGTC 58.919 57.143 14.88 10.43 33.96 2.59
3021 3035 1.271707 GGATCTAGAGCGAGGCCTAGT 60.272 57.143 14.88 1.19 33.96 2.57
3022 3036 1.459450 GGATCTAGAGCGAGGCCTAG 58.541 60.000 4.42 6.97 33.73 3.02
3023 3037 0.038455 GGGATCTAGAGCGAGGCCTA 59.962 60.000 4.42 0.00 0.00 3.93
3024 3038 1.228737 GGGATCTAGAGCGAGGCCT 60.229 63.158 3.86 3.86 0.00 5.19
3025 3039 0.830023 AAGGGATCTAGAGCGAGGCC 60.830 60.000 1.16 0.00 0.00 5.19
3026 3040 1.044611 AAAGGGATCTAGAGCGAGGC 58.955 55.000 1.16 0.00 0.00 4.70
3027 3041 2.035632 ACAAAGGGATCTAGAGCGAGG 58.964 52.381 1.16 0.00 0.00 4.63
3028 3042 3.810310 AACAAAGGGATCTAGAGCGAG 57.190 47.619 1.16 0.00 0.00 5.03
3029 3043 3.637229 CCTAACAAAGGGATCTAGAGCGA 59.363 47.826 1.16 0.00 42.32 4.93
3030 3044 3.983741 CCTAACAAAGGGATCTAGAGCG 58.016 50.000 1.16 0.00 42.32 5.03
3051 3065 3.562176 CCCATTATAGAACATGAGCCCCC 60.562 52.174 0.00 0.00 0.00 5.40
3052 3066 3.690460 CCCATTATAGAACATGAGCCCC 58.310 50.000 0.00 0.00 0.00 5.80
3053 3067 3.084786 GCCCATTATAGAACATGAGCCC 58.915 50.000 0.00 0.00 0.00 5.19
3054 3068 4.026356 AGCCCATTATAGAACATGAGCC 57.974 45.455 0.00 0.00 0.00 4.70
3055 3069 6.042638 TCTAGCCCATTATAGAACATGAGC 57.957 41.667 0.00 0.00 0.00 4.26
3056 3070 9.160496 GAAATCTAGCCCATTATAGAACATGAG 57.840 37.037 0.00 0.00 32.05 2.90
3057 3071 8.103305 GGAAATCTAGCCCATTATAGAACATGA 58.897 37.037 0.00 0.00 32.05 3.07
3058 3072 7.884877 TGGAAATCTAGCCCATTATAGAACATG 59.115 37.037 0.00 0.00 32.05 3.21
3059 3073 7.988937 TGGAAATCTAGCCCATTATAGAACAT 58.011 34.615 0.00 0.00 32.05 2.71
3060 3074 7.387265 TGGAAATCTAGCCCATTATAGAACA 57.613 36.000 0.00 0.00 32.05 3.18
3061 3075 8.103305 TCATGGAAATCTAGCCCATTATAGAAC 58.897 37.037 0.00 0.00 38.53 3.01
3062 3076 8.218423 TCATGGAAATCTAGCCCATTATAGAA 57.782 34.615 0.00 0.00 38.53 2.10
3063 3077 7.813087 TCATGGAAATCTAGCCCATTATAGA 57.187 36.000 0.00 0.00 38.53 1.98
3064 3078 8.492782 AGATCATGGAAATCTAGCCCATTATAG 58.507 37.037 0.00 0.00 38.53 1.31
3065 3079 8.270030 CAGATCATGGAAATCTAGCCCATTATA 58.730 37.037 0.00 0.00 38.53 0.98
3066 3080 7.117397 CAGATCATGGAAATCTAGCCCATTAT 58.883 38.462 0.00 0.00 38.53 1.28
3067 3081 6.479006 CAGATCATGGAAATCTAGCCCATTA 58.521 40.000 0.00 0.00 38.53 1.90
3068 3082 5.322754 CAGATCATGGAAATCTAGCCCATT 58.677 41.667 0.00 0.00 38.53 3.16
3069 3083 4.919793 CAGATCATGGAAATCTAGCCCAT 58.080 43.478 0.00 0.00 41.05 4.00
3070 3084 4.362470 CAGATCATGGAAATCTAGCCCA 57.638 45.455 0.00 0.00 32.24 5.36
3083 3097 0.607489 GAATCCGGGGCCAGATCATG 60.607 60.000 4.39 0.00 0.00 3.07
3084 3098 1.763770 GAATCCGGGGCCAGATCAT 59.236 57.895 4.39 0.00 0.00 2.45
3085 3099 2.452064 GGAATCCGGGGCCAGATCA 61.452 63.158 4.39 0.00 0.00 2.92
3086 3100 2.432123 GGAATCCGGGGCCAGATC 59.568 66.667 4.39 0.50 0.00 2.75
3087 3101 3.178611 GGGAATCCGGGGCCAGAT 61.179 66.667 4.39 3.83 0.00 2.90
3088 3102 4.431524 AGGGAATCCGGGGCCAGA 62.432 66.667 4.39 0.89 38.33 3.86
3089 3103 3.878667 GAGGGAATCCGGGGCCAG 61.879 72.222 4.39 0.00 38.33 4.85
3098 3112 3.044894 AGGAGATGTGAAGGAGGGAATC 58.955 50.000 0.00 0.00 0.00 2.52
3099 3113 3.044894 GAGGAGATGTGAAGGAGGGAAT 58.955 50.000 0.00 0.00 0.00 3.01
3100 3114 2.472029 GAGGAGATGTGAAGGAGGGAA 58.528 52.381 0.00 0.00 0.00 3.97
3101 3115 1.686428 CGAGGAGATGTGAAGGAGGGA 60.686 57.143 0.00 0.00 0.00 4.20
3102 3116 0.749649 CGAGGAGATGTGAAGGAGGG 59.250 60.000 0.00 0.00 0.00 4.30
3103 3117 1.479709 ACGAGGAGATGTGAAGGAGG 58.520 55.000 0.00 0.00 0.00 4.30
3104 3118 3.601443 AAACGAGGAGATGTGAAGGAG 57.399 47.619 0.00 0.00 0.00 3.69
3105 3119 4.202020 CGATAAACGAGGAGATGTGAAGGA 60.202 45.833 0.00 0.00 45.77 3.36
3106 3120 4.045104 CGATAAACGAGGAGATGTGAAGG 58.955 47.826 0.00 0.00 45.77 3.46
3107 3121 4.673441 ACGATAAACGAGGAGATGTGAAG 58.327 43.478 0.00 0.00 45.77 3.02
3108 3122 4.157105 TGACGATAAACGAGGAGATGTGAA 59.843 41.667 0.00 0.00 45.77 3.18
3109 3123 3.692593 TGACGATAAACGAGGAGATGTGA 59.307 43.478 0.00 0.00 45.77 3.58
3110 3124 4.028852 TGACGATAAACGAGGAGATGTG 57.971 45.455 0.00 0.00 45.77 3.21
3111 3125 4.920640 ATGACGATAAACGAGGAGATGT 57.079 40.909 0.00 0.00 45.77 3.06
3112 3126 6.306596 CACATATGACGATAAACGAGGAGATG 59.693 42.308 10.38 0.00 45.77 2.90
3113 3127 6.206829 TCACATATGACGATAAACGAGGAGAT 59.793 38.462 10.38 0.00 45.77 2.75
3114 3128 5.529800 TCACATATGACGATAAACGAGGAGA 59.470 40.000 10.38 0.00 45.77 3.71
3115 3129 5.758924 TCACATATGACGATAAACGAGGAG 58.241 41.667 10.38 0.00 45.77 3.69
3116 3130 5.278315 CCTCACATATGACGATAAACGAGGA 60.278 44.000 10.38 0.00 45.77 3.71
3117 3131 4.917998 CCTCACATATGACGATAAACGAGG 59.082 45.833 10.38 6.21 45.77 4.63
3118 3132 4.383052 GCCTCACATATGACGATAAACGAG 59.617 45.833 10.38 1.36 45.77 4.18
3119 3133 4.295870 GCCTCACATATGACGATAAACGA 58.704 43.478 10.38 0.00 45.77 3.85
3121 3135 4.632153 AGGCCTCACATATGACGATAAAC 58.368 43.478 10.38 0.00 0.00 2.01
3122 3136 4.955811 AGGCCTCACATATGACGATAAA 57.044 40.909 10.38 0.00 0.00 1.40
3123 3137 4.262463 GGAAGGCCTCACATATGACGATAA 60.262 45.833 5.23 0.00 0.00 1.75
3124 3138 3.258372 GGAAGGCCTCACATATGACGATA 59.742 47.826 5.23 0.00 0.00 2.92
3125 3139 2.037772 GGAAGGCCTCACATATGACGAT 59.962 50.000 5.23 0.00 0.00 3.73
3126 3140 1.412710 GGAAGGCCTCACATATGACGA 59.587 52.381 5.23 4.63 0.00 4.20
3127 3141 1.414181 AGGAAGGCCTCACATATGACG 59.586 52.381 5.23 0.00 42.19 4.35
3139 3153 0.466372 GGGTAATGCAGAGGAAGGCC 60.466 60.000 0.00 0.00 0.00 5.19
3140 3154 0.466372 GGGGTAATGCAGAGGAAGGC 60.466 60.000 0.00 0.00 0.00 4.35
3141 3155 1.141858 GAGGGGTAATGCAGAGGAAGG 59.858 57.143 0.00 0.00 0.00 3.46
3142 3156 1.839994 TGAGGGGTAATGCAGAGGAAG 59.160 52.381 0.00 0.00 0.00 3.46
3143 3157 1.559682 GTGAGGGGTAATGCAGAGGAA 59.440 52.381 0.00 0.00 0.00 3.36
3144 3158 1.204146 GTGAGGGGTAATGCAGAGGA 58.796 55.000 0.00 0.00 0.00 3.71
3145 3159 1.207791 AGTGAGGGGTAATGCAGAGG 58.792 55.000 0.00 0.00 0.00 3.69
3146 3160 2.739932 CGAAGTGAGGGGTAATGCAGAG 60.740 54.545 0.00 0.00 0.00 3.35
3147 3161 1.207089 CGAAGTGAGGGGTAATGCAGA 59.793 52.381 0.00 0.00 0.00 4.26
3148 3162 1.656652 CGAAGTGAGGGGTAATGCAG 58.343 55.000 0.00 0.00 0.00 4.41
3149 3163 0.251916 CCGAAGTGAGGGGTAATGCA 59.748 55.000 0.00 0.00 0.00 3.96
3150 3164 1.095807 GCCGAAGTGAGGGGTAATGC 61.096 60.000 0.00 0.00 0.00 3.56
3151 3165 0.463833 GGCCGAAGTGAGGGGTAATG 60.464 60.000 0.00 0.00 0.00 1.90
3152 3166 0.620700 AGGCCGAAGTGAGGGGTAAT 60.621 55.000 0.00 0.00 0.00 1.89
3153 3167 1.229400 AGGCCGAAGTGAGGGGTAA 60.229 57.895 0.00 0.00 0.00 2.85
3154 3168 1.987855 CAGGCCGAAGTGAGGGGTA 60.988 63.158 0.00 0.00 0.00 3.69
3155 3169 3.322466 CAGGCCGAAGTGAGGGGT 61.322 66.667 0.00 0.00 0.00 4.95
3156 3170 3.322466 ACAGGCCGAAGTGAGGGG 61.322 66.667 0.00 0.00 0.00 4.79
3157 3171 2.046892 CACAGGCCGAAGTGAGGG 60.047 66.667 17.67 0.00 37.97 4.30
3158 3172 2.046892 CCACAGGCCGAAGTGAGG 60.047 66.667 22.35 9.27 37.97 3.86
3159 3173 2.743928 GCCACAGGCCGAAGTGAG 60.744 66.667 22.35 14.98 44.06 3.51
3169 3183 0.397941 TGAAGGTCTTGAGCCACAGG 59.602 55.000 0.00 0.00 0.00 4.00
3170 3184 2.260844 TTGAAGGTCTTGAGCCACAG 57.739 50.000 0.00 0.00 0.00 3.66
3171 3185 2.158623 ACATTGAAGGTCTTGAGCCACA 60.159 45.455 0.00 0.00 0.00 4.17
3172 3186 2.227388 CACATTGAAGGTCTTGAGCCAC 59.773 50.000 0.00 0.00 0.00 5.01
3173 3187 2.106338 TCACATTGAAGGTCTTGAGCCA 59.894 45.455 0.00 0.00 0.00 4.75
3174 3188 2.783135 TCACATTGAAGGTCTTGAGCC 58.217 47.619 0.00 0.00 0.00 4.70
3185 3199 3.673902 TCATCTTCGGCTTCACATTGAA 58.326 40.909 0.00 0.00 34.79 2.69
3186 3200 3.333029 TCATCTTCGGCTTCACATTGA 57.667 42.857 0.00 0.00 0.00 2.57
3187 3201 3.624410 TGATCATCTTCGGCTTCACATTG 59.376 43.478 0.00 0.00 0.00 2.82
3188 3202 3.877559 TGATCATCTTCGGCTTCACATT 58.122 40.909 0.00 0.00 0.00 2.71
3189 3203 3.548745 TGATCATCTTCGGCTTCACAT 57.451 42.857 0.00 0.00 0.00 3.21
3190 3204 3.264947 CTTGATCATCTTCGGCTTCACA 58.735 45.455 0.00 0.00 0.00 3.58
3191 3205 2.611292 CCTTGATCATCTTCGGCTTCAC 59.389 50.000 0.00 0.00 0.00 3.18
3192 3206 2.420547 CCCTTGATCATCTTCGGCTTCA 60.421 50.000 0.00 0.00 0.00 3.02
3193 3207 2.216898 CCCTTGATCATCTTCGGCTTC 58.783 52.381 0.00 0.00 0.00 3.86
3194 3208 1.133976 CCCCTTGATCATCTTCGGCTT 60.134 52.381 0.00 0.00 0.00 4.35
3195 3209 0.471617 CCCCTTGATCATCTTCGGCT 59.528 55.000 0.00 0.00 0.00 5.52
3196 3210 1.169034 GCCCCTTGATCATCTTCGGC 61.169 60.000 0.00 0.00 0.00 5.54
3197 3211 0.882042 CGCCCCTTGATCATCTTCGG 60.882 60.000 0.00 0.00 0.00 4.30
3198 3212 0.104855 TCGCCCCTTGATCATCTTCG 59.895 55.000 0.00 0.00 0.00 3.79
3199 3213 1.134401 TGTCGCCCCTTGATCATCTTC 60.134 52.381 0.00 0.00 0.00 2.87
3200 3214 0.911769 TGTCGCCCCTTGATCATCTT 59.088 50.000 0.00 0.00 0.00 2.40
3201 3215 0.179000 GTGTCGCCCCTTGATCATCT 59.821 55.000 0.00 0.00 0.00 2.90
3202 3216 1.154205 CGTGTCGCCCCTTGATCATC 61.154 60.000 0.00 0.00 0.00 2.92
3203 3217 1.153369 CGTGTCGCCCCTTGATCAT 60.153 57.895 0.00 0.00 0.00 2.45
3204 3218 2.264480 CGTGTCGCCCCTTGATCA 59.736 61.111 0.00 0.00 0.00 2.92
3215 3229 0.179187 CCTCTGTACTCTGCGTGTCG 60.179 60.000 0.00 0.00 0.00 4.35
3216 3230 0.882474 ACCTCTGTACTCTGCGTGTC 59.118 55.000 0.00 0.00 0.00 3.67
3217 3231 0.598562 CACCTCTGTACTCTGCGTGT 59.401 55.000 0.00 0.00 0.00 4.49
3218 3232 0.734253 GCACCTCTGTACTCTGCGTG 60.734 60.000 0.00 0.00 0.00 5.34
3219 3233 1.587054 GCACCTCTGTACTCTGCGT 59.413 57.895 0.00 0.00 0.00 5.24
3220 3234 1.153745 GGCACCTCTGTACTCTGCG 60.154 63.158 0.00 0.00 0.00 5.18
3221 3235 4.921834 GGCACCTCTGTACTCTGC 57.078 61.111 0.00 0.00 0.00 4.26


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

AutoCloner maintained by Alex Coulton.