Multiple sequence alignment - TraesCS2A01G585100

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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 TraesCS2A01G585100 chr2A 100.000 3291 0 0 1 3291 776057317 776054027 0 6078
1 TraesCS2A01G585100 chr6A 96.663 3027 76 8 1 3014 157442618 157445632 0 5007
2 TraesCS2A01G585100 chr6A 96.304 3030 85 9 1 3017 396287621 396284606 0 4950
3 TraesCS2A01G585100 chr6A 96.168 3027 92 9 1 3014 592291606 592294621 0 4926
4 TraesCS2A01G585100 chr7A 95.677 3030 108 9 1 3017 699467205 699470224 0 4848
5 TraesCS2A01G585100 chr7A 94.895 999 30 6 1 987 512168064 512167075 0 1543
6 TraesCS2A01G585100 chr5A 95.155 3034 112 11 1 3017 563160864 563157849 0 4756
7 TraesCS2A01G585100 chr1D 94.785 3030 113 10 1 3014 476465043 476468043 0 4678
8 TraesCS2A01G585100 chr6D 94.836 3021 111 16 1 3003 83548802 83545809 0 4673
9 TraesCS2A01G585100 chr6D 94.290 3030 124 12 1 3013 77810957 77813954 0 4591
10 TraesCS2A01G585100 chr7D 94.640 3041 115 12 1 3017 102563111 102560095 0 4669
11 TraesCS2A01G585100 chr4D 94.488 3030 132 10 1 3014 484728911 484731921 0 4638
12 TraesCS2A01G585100 chr4A 95.930 2457 77 8 1 2444 41993589 41991143 0 3962
13 TraesCS2A01G585100 chr4A 95.497 1177 32 6 1 1165 583183560 583184727 0 1860
14 TraesCS2A01G585100 chr1B 88.187 2091 202 23 1 2080 83982268 83984324 0 2451
15 TraesCS2A01G585100 chr3A 95.245 1472 58 1 1 1460 749440458 749438987 0 2320


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 TraesCS2A01G585100 chr2A 776054027 776057317 3290 True 6078 6078 100.000 1 3291 1 chr2A.!!$R1 3290
1 TraesCS2A01G585100 chr6A 157442618 157445632 3014 False 5007 5007 96.663 1 3014 1 chr6A.!!$F1 3013
2 TraesCS2A01G585100 chr6A 396284606 396287621 3015 True 4950 4950 96.304 1 3017 1 chr6A.!!$R1 3016
3 TraesCS2A01G585100 chr6A 592291606 592294621 3015 False 4926 4926 96.168 1 3014 1 chr6A.!!$F2 3013
4 TraesCS2A01G585100 chr7A 699467205 699470224 3019 False 4848 4848 95.677 1 3017 1 chr7A.!!$F1 3016
5 TraesCS2A01G585100 chr7A 512167075 512168064 989 True 1543 1543 94.895 1 987 1 chr7A.!!$R1 986
6 TraesCS2A01G585100 chr5A 563157849 563160864 3015 True 4756 4756 95.155 1 3017 1 chr5A.!!$R1 3016
7 TraesCS2A01G585100 chr1D 476465043 476468043 3000 False 4678 4678 94.785 1 3014 1 chr1D.!!$F1 3013
8 TraesCS2A01G585100 chr6D 83545809 83548802 2993 True 4673 4673 94.836 1 3003 1 chr6D.!!$R1 3002
9 TraesCS2A01G585100 chr6D 77810957 77813954 2997 False 4591 4591 94.290 1 3013 1 chr6D.!!$F1 3012
10 TraesCS2A01G585100 chr7D 102560095 102563111 3016 True 4669 4669 94.640 1 3017 1 chr7D.!!$R1 3016
11 TraesCS2A01G585100 chr4D 484728911 484731921 3010 False 4638 4638 94.488 1 3014 1 chr4D.!!$F1 3013
12 TraesCS2A01G585100 chr4A 41991143 41993589 2446 True 3962 3962 95.930 1 2444 1 chr4A.!!$R1 2443
13 TraesCS2A01G585100 chr4A 583183560 583184727 1167 False 1860 1860 95.497 1 1165 1 chr4A.!!$F1 1164
14 TraesCS2A01G585100 chr1B 83982268 83984324 2056 False 2451 2451 88.187 1 2080 1 chr1B.!!$F1 2079
15 TraesCS2A01G585100 chr3A 749438987 749440458 1471 True 2320 2320 95.245 1 1460 1 chr3A.!!$R1 1459

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
601 603 0.396417 GAGGCTGCTGTAGAGGAGGA 60.396 60.0 10.48 0.0 38.1 3.71 F
1056 1082 0.034059 CTGTTGGACGCCTGAAGAGT 59.966 55.0 0.00 0.0 0.0 3.24 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2034 2069 0.031585 GCCTTTTCCAACCGGTGTTC 59.968 55.0 8.52 0.0 30.42 3.18 R
3034 3079 0.032416 TAGTCCCACCTCAGGTAGCC 60.032 60.0 0.00 0.0 32.11 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
94 95 1.561542 AGGATGGTTTGGCTTCTCGAT 59.438 47.619 0.00 0.00 0.00 3.59
113 114 4.035684 CGATGATGTCTACGACACGAAAT 58.964 43.478 0.00 0.00 45.65 2.17
133 134 2.666190 CGGGCCTACATGATGCGG 60.666 66.667 0.84 0.00 0.00 5.69
301 303 0.530650 ATGCCTTACGATGAGCGGTG 60.531 55.000 0.00 0.00 46.49 4.94
318 320 0.796312 GTGCACACCGTACATCAAGG 59.204 55.000 13.17 0.00 0.00 3.61
404 406 1.139734 GTCCGCTCTTGCTGATCGA 59.860 57.895 0.00 0.00 36.52 3.59
537 539 1.202687 GCATCGATTCTGATGGGTGGA 60.203 52.381 15.40 0.00 44.72 4.02
589 591 3.438017 CTACCGAGGCTGAGGCTGC 62.438 68.421 15.18 4.30 38.98 5.25
601 603 0.396417 GAGGCTGCTGTAGAGGAGGA 60.396 60.000 10.48 0.00 38.10 3.71
610 612 4.020543 GCTGTAGAGGAGGAAGAAGAGAA 58.979 47.826 0.00 0.00 0.00 2.87
611 613 4.097892 GCTGTAGAGGAGGAAGAAGAGAAG 59.902 50.000 0.00 0.00 0.00 2.85
612 614 5.505780 CTGTAGAGGAGGAAGAAGAGAAGA 58.494 45.833 0.00 0.00 0.00 2.87
613 615 5.893500 TGTAGAGGAGGAAGAAGAGAAGAA 58.106 41.667 0.00 0.00 0.00 2.52
614 616 5.949354 TGTAGAGGAGGAAGAAGAGAAGAAG 59.051 44.000 0.00 0.00 0.00 2.85
615 617 5.269554 AGAGGAGGAAGAAGAGAAGAAGA 57.730 43.478 0.00 0.00 0.00 2.87
616 618 5.650283 AGAGGAGGAAGAAGAGAAGAAGAA 58.350 41.667 0.00 0.00 0.00 2.52
617 619 5.716703 AGAGGAGGAAGAAGAGAAGAAGAAG 59.283 44.000 0.00 0.00 0.00 2.85
618 620 5.650283 AGGAGGAAGAAGAGAAGAAGAAGA 58.350 41.667 0.00 0.00 0.00 2.87
692 706 4.243008 TTTGCGACGTGCCCTCCA 62.243 61.111 0.00 0.00 45.60 3.86
956 982 1.600957 CTTTCATATGCAGCTGGACGG 59.399 52.381 17.12 6.05 0.00 4.79
959 985 0.462581 CATATGCAGCTGGACGGTGT 60.463 55.000 17.12 0.00 42.99 4.16
1049 1075 3.241530 TCTGCCTGTTGGACGCCT 61.242 61.111 0.00 0.00 34.57 5.52
1056 1082 0.034059 CTGTTGGACGCCTGAAGAGT 59.966 55.000 0.00 0.00 0.00 3.24
1150 1176 1.341852 TGGTTTCCGAGATGACGAACA 59.658 47.619 0.00 0.00 35.09 3.18
1165 1191 4.142838 TGACGAACAATGTCAATCTCATGC 60.143 41.667 0.00 0.00 42.99 4.06
1209 1235 0.037697 ACACGATTACGCCTGAGCAA 60.038 50.000 0.00 0.00 43.96 3.91
1546 1573 5.079689 TGAACCGTATTGACTAAGCATCA 57.920 39.130 0.00 0.00 0.00 3.07
1608 1638 1.272147 GGTTGGACAGGAGAAGGCAAT 60.272 52.381 0.00 0.00 0.00 3.56
1846 1876 5.604650 AGGATCTATCAAAGGGGAAGTACAG 59.395 44.000 0.00 0.00 0.00 2.74
1854 1884 3.689872 AGGGGAAGTACAGCAGAGATA 57.310 47.619 0.00 0.00 0.00 1.98
1933 1968 3.136992 TCCTTCTTTACTTTCCCGTTGGT 59.863 43.478 0.00 0.00 0.00 3.67
2284 2321 3.241156 CTCATCTCACCATCAGAGGGAT 58.759 50.000 8.48 0.00 36.39 3.85
2445 2483 5.250982 AGCTTGATGATGACATGACTTTGA 58.749 37.500 0.00 0.00 36.82 2.69
2580 2618 2.234661 CGGATGGCTAGCTTGGATCATA 59.765 50.000 15.72 0.00 0.00 2.15
2892 2937 7.425595 GTGCAGTTTACAGTAATTTTAGCGATC 59.574 37.037 0.00 0.00 0.00 3.69
2954 2999 4.260784 GGCATCTATTTCTGTAGTTTGGCG 60.261 45.833 0.00 0.00 0.00 5.69
2974 3019 1.891449 TTAACAGCACTGCAGCGCA 60.891 52.632 27.25 4.90 40.15 6.09
3017 3062 1.985447 CTATGCAGCGCCCAACACTG 61.985 60.000 2.29 0.00 34.48 3.66
3018 3063 2.746412 TATGCAGCGCCCAACACTGT 62.746 55.000 2.29 0.00 33.87 3.55
3019 3064 2.668212 GCAGCGCCCAACACTGTA 60.668 61.111 2.29 0.00 33.87 2.74
3020 3065 2.966309 GCAGCGCCCAACACTGTAC 61.966 63.158 2.29 0.00 33.87 2.90
3021 3066 1.301716 CAGCGCCCAACACTGTACT 60.302 57.895 2.29 0.00 0.00 2.73
3022 3067 1.004918 AGCGCCCAACACTGTACTC 60.005 57.895 2.29 0.00 0.00 2.59
3023 3068 2.033194 GCGCCCAACACTGTACTCC 61.033 63.158 0.00 0.00 0.00 3.85
3024 3069 1.671742 CGCCCAACACTGTACTCCT 59.328 57.895 0.00 0.00 0.00 3.69
3025 3070 0.389948 CGCCCAACACTGTACTCCTC 60.390 60.000 0.00 0.00 0.00 3.71
3026 3071 0.977395 GCCCAACACTGTACTCCTCT 59.023 55.000 0.00 0.00 0.00 3.69
3027 3072 1.338200 GCCCAACACTGTACTCCTCTG 60.338 57.143 0.00 0.00 0.00 3.35
3028 3073 1.338200 CCCAACACTGTACTCCTCTGC 60.338 57.143 0.00 0.00 0.00 4.26
3029 3074 1.670087 CCAACACTGTACTCCTCTGCG 60.670 57.143 0.00 0.00 0.00 5.18
3030 3075 1.000163 CAACACTGTACTCCTCTGCGT 60.000 52.381 0.00 0.00 0.00 5.24
3031 3076 1.329256 ACACTGTACTCCTCTGCGTT 58.671 50.000 0.00 0.00 0.00 4.84
3032 3077 1.000163 ACACTGTACTCCTCTGCGTTG 60.000 52.381 0.00 0.00 0.00 4.10
3033 3078 1.000163 CACTGTACTCCTCTGCGTTGT 60.000 52.381 0.00 0.00 0.00 3.32
3034 3079 1.000163 ACTGTACTCCTCTGCGTTGTG 60.000 52.381 0.00 0.00 0.00 3.33
3035 3080 0.317160 TGTACTCCTCTGCGTTGTGG 59.683 55.000 0.00 0.00 0.00 4.17
3036 3081 1.014564 GTACTCCTCTGCGTTGTGGC 61.015 60.000 0.00 0.00 0.00 5.01
3037 3082 1.185618 TACTCCTCTGCGTTGTGGCT 61.186 55.000 0.00 0.00 0.00 4.75
3038 3083 1.185618 ACTCCTCTGCGTTGTGGCTA 61.186 55.000 0.00 0.00 0.00 3.93
3039 3084 0.737715 CTCCTCTGCGTTGTGGCTAC 60.738 60.000 0.00 0.00 0.00 3.58
3040 3085 1.741770 CCTCTGCGTTGTGGCTACC 60.742 63.158 0.00 0.00 0.00 3.18
3041 3086 1.293498 CTCTGCGTTGTGGCTACCT 59.707 57.895 0.00 0.00 0.00 3.08
3042 3087 1.005037 TCTGCGTTGTGGCTACCTG 60.005 57.895 0.00 0.00 0.00 4.00
3043 3088 1.005037 CTGCGTTGTGGCTACCTGA 60.005 57.895 0.00 0.00 0.00 3.86
3044 3089 1.005037 TGCGTTGTGGCTACCTGAG 60.005 57.895 0.00 0.00 0.00 3.35
3045 3090 1.741770 GCGTTGTGGCTACCTGAGG 60.742 63.158 0.00 0.00 0.00 3.86
3046 3091 1.671742 CGTTGTGGCTACCTGAGGT 59.328 57.895 10.00 10.00 40.16 3.85
3047 3092 0.670546 CGTTGTGGCTACCTGAGGTG 60.671 60.000 15.83 5.54 36.19 4.00
3048 3093 0.321653 GTTGTGGCTACCTGAGGTGG 60.322 60.000 15.83 13.34 36.19 4.61
3049 3094 1.488705 TTGTGGCTACCTGAGGTGGG 61.489 60.000 15.83 8.22 36.19 4.61
3050 3095 1.612442 GTGGCTACCTGAGGTGGGA 60.612 63.158 15.83 0.00 36.19 4.37
3051 3096 1.612442 TGGCTACCTGAGGTGGGAC 60.612 63.158 15.83 9.86 36.19 4.46
3052 3097 1.306226 GGCTACCTGAGGTGGGACT 60.306 63.158 15.83 0.00 36.19 3.85
3053 3098 0.032416 GGCTACCTGAGGTGGGACTA 60.032 60.000 15.83 0.00 36.19 2.59
3054 3099 1.621622 GGCTACCTGAGGTGGGACTAA 60.622 57.143 15.83 0.00 36.19 2.24
3055 3100 2.185387 GCTACCTGAGGTGGGACTAAA 58.815 52.381 15.83 0.00 36.19 1.85
3056 3101 2.093606 GCTACCTGAGGTGGGACTAAAC 60.094 54.545 15.83 0.00 36.19 2.01
3057 3102 2.112279 ACCTGAGGTGGGACTAAACA 57.888 50.000 1.77 0.00 32.98 2.83
3058 3103 2.632537 ACCTGAGGTGGGACTAAACAT 58.367 47.619 1.77 0.00 32.98 2.71
3059 3104 3.798515 ACCTGAGGTGGGACTAAACATA 58.201 45.455 1.77 0.00 32.98 2.29
3060 3105 4.172807 ACCTGAGGTGGGACTAAACATAA 58.827 43.478 1.77 0.00 32.98 1.90
3061 3106 4.225267 ACCTGAGGTGGGACTAAACATAAG 59.775 45.833 1.77 0.00 32.98 1.73
3062 3107 4.384208 CCTGAGGTGGGACTAAACATAAGG 60.384 50.000 0.00 0.00 0.00 2.69
3063 3108 3.521937 TGAGGTGGGACTAAACATAAGGG 59.478 47.826 0.00 0.00 0.00 3.95
3064 3109 3.778629 GAGGTGGGACTAAACATAAGGGA 59.221 47.826 0.00 0.00 0.00 4.20
3065 3110 4.180723 AGGTGGGACTAAACATAAGGGAA 58.819 43.478 0.00 0.00 0.00 3.97
3066 3111 4.227527 AGGTGGGACTAAACATAAGGGAAG 59.772 45.833 0.00 0.00 0.00 3.46
3067 3112 4.018688 GGTGGGACTAAACATAAGGGAAGT 60.019 45.833 0.00 0.00 0.00 3.01
3068 3113 4.941873 GTGGGACTAAACATAAGGGAAGTG 59.058 45.833 0.00 0.00 0.00 3.16
3069 3114 3.945921 GGGACTAAACATAAGGGAAGTGC 59.054 47.826 0.00 0.00 0.00 4.40
3070 3115 4.324331 GGGACTAAACATAAGGGAAGTGCT 60.324 45.833 0.00 0.00 0.00 4.40
3071 3116 5.254115 GGACTAAACATAAGGGAAGTGCTT 58.746 41.667 0.00 0.00 0.00 3.91
3072 3117 5.710567 GGACTAAACATAAGGGAAGTGCTTT 59.289 40.000 0.00 0.00 0.00 3.51
3073 3118 6.208797 GGACTAAACATAAGGGAAGTGCTTTT 59.791 38.462 0.00 0.00 0.00 2.27
3074 3119 7.255836 GGACTAAACATAAGGGAAGTGCTTTTT 60.256 37.037 0.00 0.00 0.00 1.94
3095 3140 6.769134 TTTTTAGGCTAATAAGGGAAGTGC 57.231 37.500 7.96 0.00 0.00 4.40
3096 3141 5.710409 TTTAGGCTAATAAGGGAAGTGCT 57.290 39.130 7.96 0.00 0.00 4.40
3097 3142 3.567478 AGGCTAATAAGGGAAGTGCTG 57.433 47.619 0.00 0.00 0.00 4.41
3098 3143 2.846827 AGGCTAATAAGGGAAGTGCTGT 59.153 45.455 0.00 0.00 0.00 4.40
3099 3144 4.037927 AGGCTAATAAGGGAAGTGCTGTA 58.962 43.478 0.00 0.00 0.00 2.74
3100 3145 4.127907 GGCTAATAAGGGAAGTGCTGTAC 58.872 47.826 0.00 0.00 0.00 2.90
3101 3146 4.383770 GGCTAATAAGGGAAGTGCTGTACA 60.384 45.833 0.00 0.00 0.00 2.90
3114 3159 2.817258 TGCTGTACACACAATAAAGCCC 59.183 45.455 0.00 0.00 32.64 5.19
3115 3160 2.159572 GCTGTACACACAATAAAGCCCG 60.160 50.000 0.00 0.00 33.22 6.13
3116 3161 3.331150 CTGTACACACAATAAAGCCCGA 58.669 45.455 0.00 0.00 33.22 5.14
3117 3162 3.938963 CTGTACACACAATAAAGCCCGAT 59.061 43.478 0.00 0.00 33.22 4.18
3118 3163 5.087391 TGTACACACAATAAAGCCCGATA 57.913 39.130 0.00 0.00 0.00 2.92
3119 3164 5.676552 TGTACACACAATAAAGCCCGATAT 58.323 37.500 0.00 0.00 0.00 1.63
3120 3165 6.818233 TGTACACACAATAAAGCCCGATATA 58.182 36.000 0.00 0.00 0.00 0.86
3121 3166 6.926826 TGTACACACAATAAAGCCCGATATAG 59.073 38.462 0.00 0.00 0.00 1.31
3122 3167 5.305585 ACACACAATAAAGCCCGATATAGG 58.694 41.667 0.00 0.00 0.00 2.57
3123 3168 5.163237 ACACACAATAAAGCCCGATATAGGT 60.163 40.000 0.84 0.00 0.00 3.08
3124 3169 5.179368 CACACAATAAAGCCCGATATAGGTG 59.821 44.000 0.84 0.00 0.00 4.00
3125 3170 4.695455 CACAATAAAGCCCGATATAGGTGG 59.305 45.833 0.84 0.00 0.00 4.61
3126 3171 4.261801 CAATAAAGCCCGATATAGGTGGG 58.738 47.826 0.84 2.97 46.22 4.61
3129 3174 4.225860 CCCGATATAGGTGGGCCA 57.774 61.111 0.00 0.00 35.82 5.36
3130 3175 2.696864 CCCGATATAGGTGGGCCAT 58.303 57.895 10.70 0.00 35.82 4.40
3131 3176 0.991920 CCCGATATAGGTGGGCCATT 59.008 55.000 10.70 3.78 35.82 3.16
3132 3177 1.340017 CCCGATATAGGTGGGCCATTG 60.340 57.143 10.70 0.00 35.82 2.82
3133 3178 1.340017 CCGATATAGGTGGGCCATTGG 60.340 57.143 10.70 1.16 37.19 3.16
3134 3179 1.351017 CGATATAGGTGGGCCATTGGT 59.649 52.381 10.70 0.00 37.19 3.67
3135 3180 2.224769 CGATATAGGTGGGCCATTGGTT 60.225 50.000 10.70 0.00 37.19 3.67
3136 3181 3.421844 GATATAGGTGGGCCATTGGTTC 58.578 50.000 10.70 0.00 37.19 3.62
3137 3182 1.308877 ATAGGTGGGCCATTGGTTCT 58.691 50.000 10.70 3.71 37.19 3.01
3138 3183 0.623723 TAGGTGGGCCATTGGTTCTC 59.376 55.000 10.70 0.00 37.19 2.87
3139 3184 2.046285 GGTGGGCCATTGGTTCTCG 61.046 63.158 10.70 0.00 34.09 4.04
3140 3185 1.303317 GTGGGCCATTGGTTCTCGT 60.303 57.895 10.70 0.00 0.00 4.18
3141 3186 0.035820 GTGGGCCATTGGTTCTCGTA 60.036 55.000 10.70 0.00 0.00 3.43
3142 3187 0.693622 TGGGCCATTGGTTCTCGTAA 59.306 50.000 0.00 0.00 0.00 3.18
3143 3188 1.283613 TGGGCCATTGGTTCTCGTAAT 59.716 47.619 0.00 0.00 0.00 1.89
3144 3189 2.506231 TGGGCCATTGGTTCTCGTAATA 59.494 45.455 0.00 0.00 0.00 0.98
3145 3190 3.137544 TGGGCCATTGGTTCTCGTAATAT 59.862 43.478 0.00 0.00 0.00 1.28
3146 3191 3.502211 GGGCCATTGGTTCTCGTAATATG 59.498 47.826 4.39 0.00 0.00 1.78
3147 3192 4.385825 GGCCATTGGTTCTCGTAATATGA 58.614 43.478 4.26 0.00 0.00 2.15
3148 3193 4.452455 GGCCATTGGTTCTCGTAATATGAG 59.548 45.833 4.26 3.15 32.57 2.90
3149 3194 4.452455 GCCATTGGTTCTCGTAATATGAGG 59.548 45.833 9.40 0.00 32.20 3.86
3150 3195 4.997395 CCATTGGTTCTCGTAATATGAGGG 59.003 45.833 9.40 0.00 32.20 4.30
3151 3196 3.746045 TGGTTCTCGTAATATGAGGGC 57.254 47.619 9.40 3.41 32.20 5.19
3152 3197 2.367567 TGGTTCTCGTAATATGAGGGCC 59.632 50.000 9.40 11.40 32.20 5.80
3153 3198 2.289506 GGTTCTCGTAATATGAGGGCCC 60.290 54.545 16.46 16.46 32.20 5.80
3154 3199 2.367567 GTTCTCGTAATATGAGGGCCCA 59.632 50.000 27.56 3.72 32.20 5.36
3155 3200 2.684943 TCTCGTAATATGAGGGCCCAA 58.315 47.619 27.56 12.94 32.20 4.12
3156 3201 2.367567 TCTCGTAATATGAGGGCCCAAC 59.632 50.000 27.56 18.37 32.20 3.77
3157 3202 2.368875 CTCGTAATATGAGGGCCCAACT 59.631 50.000 27.56 10.12 0.00 3.16
3158 3203 3.576982 CTCGTAATATGAGGGCCCAACTA 59.423 47.826 27.56 12.25 0.00 2.24
3159 3204 3.322828 TCGTAATATGAGGGCCCAACTAC 59.677 47.826 27.56 14.46 0.00 2.73
3160 3205 3.070446 CGTAATATGAGGGCCCAACTACA 59.930 47.826 27.56 15.72 0.00 2.74
3161 3206 3.864789 AATATGAGGGCCCAACTACAG 57.135 47.619 27.56 0.00 0.00 2.74
3162 3207 2.561209 TATGAGGGCCCAACTACAGA 57.439 50.000 27.56 10.20 0.00 3.41
3163 3208 1.207791 ATGAGGGCCCAACTACAGAG 58.792 55.000 27.56 0.00 0.00 3.35
3164 3209 1.222113 GAGGGCCCAACTACAGAGC 59.778 63.158 27.56 0.00 0.00 4.09
3165 3210 2.258748 GAGGGCCCAACTACAGAGCC 62.259 65.000 27.56 0.00 43.09 4.70
3166 3211 2.125106 GGCCCAACTACAGAGCCG 60.125 66.667 0.00 0.00 33.18 5.52
3167 3212 2.656069 GGCCCAACTACAGAGCCGA 61.656 63.158 0.00 0.00 33.18 5.54
3168 3213 1.295423 GCCCAACTACAGAGCCGAA 59.705 57.895 0.00 0.00 0.00 4.30
3169 3214 0.321298 GCCCAACTACAGAGCCGAAA 60.321 55.000 0.00 0.00 0.00 3.46
3170 3215 1.679032 GCCCAACTACAGAGCCGAAAT 60.679 52.381 0.00 0.00 0.00 2.17
3171 3216 2.711542 CCCAACTACAGAGCCGAAATT 58.288 47.619 0.00 0.00 0.00 1.82
3172 3217 3.869065 CCCAACTACAGAGCCGAAATTA 58.131 45.455 0.00 0.00 0.00 1.40
3173 3218 4.258543 CCCAACTACAGAGCCGAAATTAA 58.741 43.478 0.00 0.00 0.00 1.40
3174 3219 4.698304 CCCAACTACAGAGCCGAAATTAAA 59.302 41.667 0.00 0.00 0.00 1.52
3175 3220 5.391629 CCCAACTACAGAGCCGAAATTAAAC 60.392 44.000 0.00 0.00 0.00 2.01
3176 3221 5.313623 CAACTACAGAGCCGAAATTAAACG 58.686 41.667 0.00 0.00 0.00 3.60
3177 3222 4.813027 ACTACAGAGCCGAAATTAAACGA 58.187 39.130 0.00 0.00 0.00 3.85
3178 3223 5.416947 ACTACAGAGCCGAAATTAAACGAT 58.583 37.500 0.00 0.00 0.00 3.73
3179 3224 4.600012 ACAGAGCCGAAATTAAACGATG 57.400 40.909 0.00 0.00 0.00 3.84
3180 3225 4.250464 ACAGAGCCGAAATTAAACGATGA 58.750 39.130 0.00 0.00 0.00 2.92
3181 3226 4.876107 ACAGAGCCGAAATTAAACGATGAT 59.124 37.500 0.00 0.00 0.00 2.45
3182 3227 5.006746 ACAGAGCCGAAATTAAACGATGATC 59.993 40.000 0.00 0.00 0.00 2.92
3183 3228 5.235186 CAGAGCCGAAATTAAACGATGATCT 59.765 40.000 0.00 0.00 0.00 2.75
3184 3229 5.463724 AGAGCCGAAATTAAACGATGATCTC 59.536 40.000 0.00 0.00 0.00 2.75
3185 3230 5.360591 AGCCGAAATTAAACGATGATCTCT 58.639 37.500 0.00 0.00 0.00 3.10
3186 3231 5.235186 AGCCGAAATTAAACGATGATCTCTG 59.765 40.000 0.00 0.00 0.00 3.35
3187 3232 5.234329 GCCGAAATTAAACGATGATCTCTGA 59.766 40.000 0.00 0.00 0.00 3.27
3188 3233 6.238103 GCCGAAATTAAACGATGATCTCTGAA 60.238 38.462 0.00 0.00 0.00 3.02
3189 3234 7.340699 CCGAAATTAAACGATGATCTCTGAAG 58.659 38.462 0.00 0.00 0.00 3.02
3190 3235 7.222805 CCGAAATTAAACGATGATCTCTGAAGA 59.777 37.037 0.00 0.00 35.54 2.87
3191 3236 8.265315 CGAAATTAAACGATGATCTCTGAAGAG 58.735 37.037 0.58 0.58 43.36 2.85
3192 3237 7.475771 AATTAAACGATGATCTCTGAAGAGC 57.524 36.000 2.26 0.00 41.80 4.09
3193 3238 3.451141 AACGATGATCTCTGAAGAGCC 57.549 47.619 2.26 0.00 41.80 4.70
3194 3239 1.686052 ACGATGATCTCTGAAGAGCCC 59.314 52.381 2.26 0.00 41.80 5.19
3195 3240 1.000731 CGATGATCTCTGAAGAGCCCC 59.999 57.143 2.26 0.00 41.80 5.80
3196 3241 2.328319 GATGATCTCTGAAGAGCCCCT 58.672 52.381 2.26 0.00 41.80 4.79
3197 3242 3.505386 GATGATCTCTGAAGAGCCCCTA 58.495 50.000 2.26 0.00 41.80 3.53
3198 3243 3.404869 TGATCTCTGAAGAGCCCCTAA 57.595 47.619 2.26 0.00 41.80 2.69
3199 3244 3.724478 TGATCTCTGAAGAGCCCCTAAA 58.276 45.455 2.26 0.00 41.80 1.85
3200 3245 4.104086 TGATCTCTGAAGAGCCCCTAAAA 58.896 43.478 2.26 0.00 41.80 1.52
3201 3246 4.536090 TGATCTCTGAAGAGCCCCTAAAAA 59.464 41.667 2.26 0.00 41.80 1.94
3223 3268 7.969536 AAAAATCTCTGAAGAAAGACGATGA 57.030 32.000 0.00 0.00 34.49 2.92
3224 3269 7.593875 AAAATCTCTGAAGAAAGACGATGAG 57.406 36.000 0.00 0.00 34.49 2.90
3225 3270 4.710423 TCTCTGAAGAAAGACGATGAGG 57.290 45.455 0.00 0.00 0.00 3.86
3226 3271 3.445450 TCTCTGAAGAAAGACGATGAGGG 59.555 47.826 0.00 0.00 0.00 4.30
3227 3272 3.165875 TCTGAAGAAAGACGATGAGGGT 58.834 45.455 0.00 0.00 0.00 4.34
3228 3273 4.341487 TCTGAAGAAAGACGATGAGGGTA 58.659 43.478 0.00 0.00 0.00 3.69
3229 3274 4.158025 TCTGAAGAAAGACGATGAGGGTAC 59.842 45.833 0.00 0.00 0.00 3.34
3230 3275 3.119602 TGAAGAAAGACGATGAGGGTACG 60.120 47.826 0.00 0.00 0.00 3.67
3231 3276 2.444421 AGAAAGACGATGAGGGTACGT 58.556 47.619 0.00 0.00 42.84 3.57
3232 3277 2.163815 AGAAAGACGATGAGGGTACGTG 59.836 50.000 0.00 0.00 40.29 4.49
3233 3278 0.815734 AAGACGATGAGGGTACGTGG 59.184 55.000 0.00 0.00 40.29 4.94
3234 3279 1.035932 AGACGATGAGGGTACGTGGG 61.036 60.000 0.00 0.00 40.29 4.61
3235 3280 2.012902 GACGATGAGGGTACGTGGGG 62.013 65.000 0.00 0.00 40.29 4.96
3236 3281 1.755395 CGATGAGGGTACGTGGGGA 60.755 63.158 0.00 0.00 0.00 4.81
3237 3282 1.735376 CGATGAGGGTACGTGGGGAG 61.735 65.000 0.00 0.00 0.00 4.30
3238 3283 0.396695 GATGAGGGTACGTGGGGAGA 60.397 60.000 0.00 0.00 0.00 3.71
3239 3284 0.042131 ATGAGGGTACGTGGGGAGAA 59.958 55.000 0.00 0.00 0.00 2.87
3240 3285 0.613853 TGAGGGTACGTGGGGAGAAG 60.614 60.000 0.00 0.00 0.00 2.85
3241 3286 0.324091 GAGGGTACGTGGGGAGAAGA 60.324 60.000 0.00 0.00 0.00 2.87
3242 3287 0.115745 AGGGTACGTGGGGAGAAGAA 59.884 55.000 0.00 0.00 0.00 2.52
3243 3288 0.535797 GGGTACGTGGGGAGAAGAAG 59.464 60.000 0.00 0.00 0.00 2.85
3244 3289 0.108281 GGTACGTGGGGAGAAGAAGC 60.108 60.000 0.00 0.00 0.00 3.86
3245 3290 0.896226 GTACGTGGGGAGAAGAAGCT 59.104 55.000 0.00 0.00 0.00 3.74
3246 3291 1.135053 GTACGTGGGGAGAAGAAGCTC 60.135 57.143 0.00 0.00 0.00 4.09
3247 3292 0.832135 ACGTGGGGAGAAGAAGCTCA 60.832 55.000 0.00 0.00 36.62 4.26
3248 3293 0.390472 CGTGGGGAGAAGAAGCTCAC 60.390 60.000 0.00 0.00 37.59 3.51
3249 3294 0.390472 GTGGGGAGAAGAAGCTCACG 60.390 60.000 0.00 0.00 39.24 4.35
3250 3295 1.448717 GGGGAGAAGAAGCTCACGC 60.449 63.158 0.00 0.00 39.24 5.34
3251 3296 1.293498 GGGAGAAGAAGCTCACGCA 59.707 57.895 0.00 0.00 39.10 5.24
3252 3297 1.016653 GGGAGAAGAAGCTCACGCAC 61.017 60.000 0.00 0.00 39.10 5.34
3253 3298 0.319900 GGAGAAGAAGCTCACGCACA 60.320 55.000 0.00 0.00 39.10 4.57
3254 3299 1.066914 GAGAAGAAGCTCACGCACAG 58.933 55.000 0.00 0.00 39.10 3.66
3255 3300 0.676184 AGAAGAAGCTCACGCACAGA 59.324 50.000 0.00 0.00 39.10 3.41
3256 3301 0.787183 GAAGAAGCTCACGCACAGAC 59.213 55.000 0.00 0.00 39.10 3.51
3257 3302 0.104855 AAGAAGCTCACGCACAGACA 59.895 50.000 0.00 0.00 39.10 3.41
3258 3303 0.598680 AGAAGCTCACGCACAGACAC 60.599 55.000 0.00 0.00 39.10 3.67
3259 3304 1.560860 GAAGCTCACGCACAGACACC 61.561 60.000 0.00 0.00 39.10 4.16
3260 3305 3.406361 GCTCACGCACAGACACCG 61.406 66.667 0.00 0.00 35.78 4.94
3261 3306 2.335011 CTCACGCACAGACACCGA 59.665 61.111 0.00 0.00 0.00 4.69
3262 3307 1.080501 CTCACGCACAGACACCGAT 60.081 57.895 0.00 0.00 0.00 4.18
3263 3308 0.170339 CTCACGCACAGACACCGATA 59.830 55.000 0.00 0.00 0.00 2.92
3264 3309 0.109458 TCACGCACAGACACCGATAC 60.109 55.000 0.00 0.00 0.00 2.24
3265 3310 1.154093 ACGCACAGACACCGATACG 60.154 57.895 0.00 0.00 0.00 3.06
3266 3311 1.154093 CGCACAGACACCGATACGT 60.154 57.895 0.00 0.00 0.00 3.57
3267 3312 1.132199 CGCACAGACACCGATACGTC 61.132 60.000 0.00 0.00 0.00 4.34
3278 3323 1.965083 CGATACGTCGGATGGTGATC 58.035 55.000 0.00 1.41 44.00 2.92
3279 3324 1.535896 CGATACGTCGGATGGTGATCT 59.464 52.381 0.00 0.00 44.00 2.75
3280 3325 2.412977 CGATACGTCGGATGGTGATCTC 60.413 54.545 0.00 0.00 44.00 2.75
3281 3326 0.942252 TACGTCGGATGGTGATCTCG 59.058 55.000 0.00 0.00 0.00 4.04
3282 3327 0.746923 ACGTCGGATGGTGATCTCGA 60.747 55.000 1.77 0.00 32.35 4.04
3283 3328 0.040870 CGTCGGATGGTGATCTCGAG 60.041 60.000 5.93 5.93 34.21 4.04
3284 3329 0.318275 GTCGGATGGTGATCTCGAGC 60.318 60.000 7.81 0.00 34.21 5.03
3285 3330 0.466372 TCGGATGGTGATCTCGAGCT 60.466 55.000 7.81 0.00 31.64 4.09
3286 3331 0.318529 CGGATGGTGATCTCGAGCTG 60.319 60.000 7.81 0.00 0.00 4.24
3287 3332 1.035923 GGATGGTGATCTCGAGCTGA 58.964 55.000 7.81 0.00 0.00 4.26
3288 3333 1.617850 GGATGGTGATCTCGAGCTGAT 59.382 52.381 7.81 0.00 0.00 2.90
3289 3334 2.609984 GGATGGTGATCTCGAGCTGATG 60.610 54.545 7.81 0.00 0.00 3.07
3290 3335 0.749049 TGGTGATCTCGAGCTGATGG 59.251 55.000 7.81 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
113 114 1.752198 GCATCATGTAGGCCCGGTA 59.248 57.895 0.00 0.00 0.00 4.02
133 134 3.644738 TCGTTATTACCATCCCCTTCTCC 59.355 47.826 0.00 0.00 0.00 3.71
301 303 1.359848 CTCCTTGATGTACGGTGTGC 58.640 55.000 0.00 0.00 0.00 4.57
404 406 0.398522 TATGTGTCTCCGGCCTCCAT 60.399 55.000 0.00 0.00 0.00 3.41
589 591 5.505780 TCTTCTCTTCTTCCTCCTCTACAG 58.494 45.833 0.00 0.00 0.00 2.74
601 603 8.923270 TCTTCTTCTTCTTCTTCTTCTCTTCTT 58.077 33.333 0.00 0.00 0.00 2.52
610 612 6.239858 CCTTTCCCTCTTCTTCTTCTTCTTCT 60.240 42.308 0.00 0.00 0.00 2.85
611 613 5.937540 CCTTTCCCTCTTCTTCTTCTTCTTC 59.062 44.000 0.00 0.00 0.00 2.87
612 614 5.608860 TCCTTTCCCTCTTCTTCTTCTTCTT 59.391 40.000 0.00 0.00 0.00 2.52
613 615 5.158889 TCCTTTCCCTCTTCTTCTTCTTCT 58.841 41.667 0.00 0.00 0.00 2.85
614 616 5.491323 TCCTTTCCCTCTTCTTCTTCTTC 57.509 43.478 0.00 0.00 0.00 2.87
615 617 5.913946 TTCCTTTCCCTCTTCTTCTTCTT 57.086 39.130 0.00 0.00 0.00 2.52
616 618 5.747545 GCTTTCCTTTCCCTCTTCTTCTTCT 60.748 44.000 0.00 0.00 0.00 2.85
617 619 4.457603 GCTTTCCTTTCCCTCTTCTTCTTC 59.542 45.833 0.00 0.00 0.00 2.87
618 620 4.141158 TGCTTTCCTTTCCCTCTTCTTCTT 60.141 41.667 0.00 0.00 0.00 2.52
692 706 3.496337 GGATCACATCATCAGTGGCATCT 60.496 47.826 0.00 0.00 37.58 2.90
956 982 1.265095 CTGTGATCCTGCAACACACAC 59.735 52.381 10.22 7.38 39.17 3.82
959 985 2.865119 ATCTGTGATCCTGCAACACA 57.135 45.000 12.59 12.59 41.27 3.72
1049 1075 5.825593 AGGATTAAACCTGACACTCTTCA 57.174 39.130 3.01 0.00 39.01 3.02
1056 1082 6.381498 TCATACCAAGGATTAAACCTGACA 57.619 37.500 4.85 0.00 40.49 3.58
1150 1176 3.959293 TCTGGTGCATGAGATTGACATT 58.041 40.909 0.00 0.00 0.00 2.71
1371 1398 2.353208 CGCATAAGCCAGAGATCCCTAC 60.353 54.545 0.00 0.00 37.52 3.18
1608 1638 3.526899 TGTCCCAGTCCTTTATCTTCCA 58.473 45.455 0.00 0.00 0.00 3.53
1846 1876 1.552792 GCCCTACCCTGATATCTCTGC 59.447 57.143 3.98 0.00 0.00 4.26
1854 1884 1.762460 CTCCGTGCCCTACCCTGAT 60.762 63.158 0.00 0.00 0.00 2.90
1933 1968 5.645929 AGCCATTCAAACATGTGTAATACGA 59.354 36.000 0.00 0.00 0.00 3.43
2034 2069 0.031585 GCCTTTTCCAACCGGTGTTC 59.968 55.000 8.52 0.00 30.42 3.18
2185 2222 4.058817 GGCAACCGAGAAGATTCGATAAT 58.941 43.478 0.00 0.00 43.03 1.28
2445 2483 2.049433 CCGAAGTTGAGCGTCCGT 60.049 61.111 0.00 0.00 0.00 4.69
2598 2642 1.627834 CTCTTCCTGCACTTCCTCCTT 59.372 52.381 0.00 0.00 0.00 3.36
2892 2937 4.214971 AGCACTCACATAACTTGCTTGAAG 59.785 41.667 0.00 0.00 40.66 3.02
2938 2983 4.822896 TGTTAACCGCCAAACTACAGAAAT 59.177 37.500 2.48 0.00 0.00 2.17
2954 2999 1.207593 CGCTGCAGTGCTGTTAACC 59.792 57.895 21.31 5.37 0.00 2.85
2974 3019 2.672996 GCATCGCCTGGGTGTTGT 60.673 61.111 11.37 0.00 0.00 3.32
3017 3062 1.014564 GCCACAACGCAGAGGAGTAC 61.015 60.000 0.00 0.00 0.00 2.73
3018 3063 1.185618 AGCCACAACGCAGAGGAGTA 61.186 55.000 0.00 0.00 0.00 2.59
3019 3064 1.185618 TAGCCACAACGCAGAGGAGT 61.186 55.000 0.00 0.00 0.00 3.85
3020 3065 0.737715 GTAGCCACAACGCAGAGGAG 60.738 60.000 0.00 0.00 0.00 3.69
3021 3066 1.292223 GTAGCCACAACGCAGAGGA 59.708 57.895 0.00 0.00 0.00 3.71
3022 3067 1.741770 GGTAGCCACAACGCAGAGG 60.742 63.158 0.00 0.00 0.00 3.69
3023 3068 1.016130 CAGGTAGCCACAACGCAGAG 61.016 60.000 0.00 0.00 0.00 3.35
3024 3069 1.005037 CAGGTAGCCACAACGCAGA 60.005 57.895 0.00 0.00 0.00 4.26
3025 3070 1.005037 TCAGGTAGCCACAACGCAG 60.005 57.895 0.00 0.00 0.00 5.18
3026 3071 1.005037 CTCAGGTAGCCACAACGCA 60.005 57.895 0.00 0.00 0.00 5.24
3027 3072 1.741770 CCTCAGGTAGCCACAACGC 60.742 63.158 0.00 0.00 0.00 4.84
3028 3073 0.670546 CACCTCAGGTAGCCACAACG 60.671 60.000 0.00 0.00 32.11 4.10
3029 3074 0.321653 CCACCTCAGGTAGCCACAAC 60.322 60.000 0.00 0.00 32.11 3.32
3030 3075 1.488705 CCCACCTCAGGTAGCCACAA 61.489 60.000 0.00 0.00 32.11 3.33
3031 3076 1.918293 CCCACCTCAGGTAGCCACA 60.918 63.158 0.00 0.00 32.11 4.17
3032 3077 1.612442 TCCCACCTCAGGTAGCCAC 60.612 63.158 0.00 0.00 32.11 5.01
3033 3078 1.612442 GTCCCACCTCAGGTAGCCA 60.612 63.158 0.00 0.00 32.11 4.75
3034 3079 0.032416 TAGTCCCACCTCAGGTAGCC 60.032 60.000 0.00 0.00 32.11 3.93
3035 3080 1.861982 TTAGTCCCACCTCAGGTAGC 58.138 55.000 0.00 0.00 32.11 3.58
3036 3081 3.170717 TGTTTAGTCCCACCTCAGGTAG 58.829 50.000 0.00 0.00 32.11 3.18
3037 3082 3.263369 TGTTTAGTCCCACCTCAGGTA 57.737 47.619 0.00 0.00 32.11 3.08
3038 3083 2.112279 TGTTTAGTCCCACCTCAGGT 57.888 50.000 0.00 0.00 35.62 4.00
3039 3084 4.384208 CCTTATGTTTAGTCCCACCTCAGG 60.384 50.000 0.00 0.00 0.00 3.86
3040 3085 4.384208 CCCTTATGTTTAGTCCCACCTCAG 60.384 50.000 0.00 0.00 0.00 3.35
3041 3086 3.521937 CCCTTATGTTTAGTCCCACCTCA 59.478 47.826 0.00 0.00 0.00 3.86
3042 3087 3.778629 TCCCTTATGTTTAGTCCCACCTC 59.221 47.826 0.00 0.00 0.00 3.85
3043 3088 3.810623 TCCCTTATGTTTAGTCCCACCT 58.189 45.455 0.00 0.00 0.00 4.00
3044 3089 4.018688 ACTTCCCTTATGTTTAGTCCCACC 60.019 45.833 0.00 0.00 0.00 4.61
3045 3090 4.941873 CACTTCCCTTATGTTTAGTCCCAC 59.058 45.833 0.00 0.00 0.00 4.61
3046 3091 4.566907 GCACTTCCCTTATGTTTAGTCCCA 60.567 45.833 0.00 0.00 0.00 4.37
3047 3092 3.945921 GCACTTCCCTTATGTTTAGTCCC 59.054 47.826 0.00 0.00 0.00 4.46
3048 3093 4.844884 AGCACTTCCCTTATGTTTAGTCC 58.155 43.478 0.00 0.00 0.00 3.85
3049 3094 6.819397 AAAGCACTTCCCTTATGTTTAGTC 57.181 37.500 0.00 0.00 0.00 2.59
3050 3095 7.597288 AAAAAGCACTTCCCTTATGTTTAGT 57.403 32.000 0.00 0.00 0.00 2.24
3072 3117 6.377146 CAGCACTTCCCTTATTAGCCTAAAAA 59.623 38.462 0.00 0.00 0.00 1.94
3073 3118 5.885912 CAGCACTTCCCTTATTAGCCTAAAA 59.114 40.000 0.00 0.00 0.00 1.52
3074 3119 5.045140 ACAGCACTTCCCTTATTAGCCTAAA 60.045 40.000 0.00 0.00 0.00 1.85
3075 3120 4.473559 ACAGCACTTCCCTTATTAGCCTAA 59.526 41.667 0.00 0.00 0.00 2.69
3076 3121 4.037927 ACAGCACTTCCCTTATTAGCCTA 58.962 43.478 0.00 0.00 0.00 3.93
3077 3122 2.846827 ACAGCACTTCCCTTATTAGCCT 59.153 45.455 0.00 0.00 0.00 4.58
3078 3123 3.283259 ACAGCACTTCCCTTATTAGCC 57.717 47.619 0.00 0.00 0.00 3.93
3079 3124 4.571176 GTGTACAGCACTTCCCTTATTAGC 59.429 45.833 0.00 0.00 44.41 3.09
3093 3138 2.817258 GGGCTTTATTGTGTGTACAGCA 59.183 45.455 0.00 0.00 38.23 4.41
3094 3139 2.159572 CGGGCTTTATTGTGTGTACAGC 60.160 50.000 0.00 0.00 38.23 4.40
3095 3140 3.331150 TCGGGCTTTATTGTGTGTACAG 58.669 45.455 0.00 0.00 38.23 2.74
3096 3141 3.404224 TCGGGCTTTATTGTGTGTACA 57.596 42.857 0.00 0.00 34.31 2.90
3097 3142 6.367969 CCTATATCGGGCTTTATTGTGTGTAC 59.632 42.308 0.00 0.00 0.00 2.90
3098 3143 6.042322 ACCTATATCGGGCTTTATTGTGTGTA 59.958 38.462 0.00 0.00 0.00 2.90
3099 3144 5.163237 ACCTATATCGGGCTTTATTGTGTGT 60.163 40.000 0.00 0.00 0.00 3.72
3100 3145 5.179368 CACCTATATCGGGCTTTATTGTGTG 59.821 44.000 0.00 0.00 0.00 3.82
3101 3146 5.305585 CACCTATATCGGGCTTTATTGTGT 58.694 41.667 0.00 0.00 0.00 3.72
3102 3147 4.695455 CCACCTATATCGGGCTTTATTGTG 59.305 45.833 0.00 0.00 0.00 3.33
3103 3148 4.263331 CCCACCTATATCGGGCTTTATTGT 60.263 45.833 0.00 0.00 31.89 2.71
3104 3149 4.261801 CCCACCTATATCGGGCTTTATTG 58.738 47.826 0.00 0.00 31.89 1.90
3105 3150 4.569719 CCCACCTATATCGGGCTTTATT 57.430 45.455 0.00 0.00 31.89 1.40
3112 3157 0.991920 AATGGCCCACCTATATCGGG 59.008 55.000 0.00 0.00 43.42 5.14
3113 3158 1.340017 CCAATGGCCCACCTATATCGG 60.340 57.143 0.00 0.00 36.63 4.18
3114 3159 1.351017 ACCAATGGCCCACCTATATCG 59.649 52.381 0.00 0.00 36.63 2.92
3115 3160 3.074538 AGAACCAATGGCCCACCTATATC 59.925 47.826 0.00 0.00 36.63 1.63
3116 3161 3.063650 AGAACCAATGGCCCACCTATAT 58.936 45.455 0.00 0.00 36.63 0.86
3117 3162 2.441750 GAGAACCAATGGCCCACCTATA 59.558 50.000 0.00 0.00 36.63 1.31
3118 3163 1.215423 GAGAACCAATGGCCCACCTAT 59.785 52.381 0.00 0.00 36.63 2.57
3119 3164 0.623723 GAGAACCAATGGCCCACCTA 59.376 55.000 0.00 0.00 36.63 3.08
3120 3165 1.384191 GAGAACCAATGGCCCACCT 59.616 57.895 0.00 0.00 36.63 4.00
3121 3166 2.046285 CGAGAACCAATGGCCCACC 61.046 63.158 0.00 0.00 0.00 4.61
3122 3167 0.035820 TACGAGAACCAATGGCCCAC 60.036 55.000 0.00 0.00 0.00 4.61
3123 3168 0.693622 TTACGAGAACCAATGGCCCA 59.306 50.000 0.00 0.00 0.00 5.36
3124 3169 2.052782 ATTACGAGAACCAATGGCCC 57.947 50.000 0.00 0.00 0.00 5.80
3125 3170 4.385825 TCATATTACGAGAACCAATGGCC 58.614 43.478 0.00 0.00 0.00 5.36
3126 3171 4.452455 CCTCATATTACGAGAACCAATGGC 59.548 45.833 0.00 0.00 31.84 4.40
3127 3172 4.997395 CCCTCATATTACGAGAACCAATGG 59.003 45.833 0.00 0.00 31.84 3.16
3128 3173 4.452455 GCCCTCATATTACGAGAACCAATG 59.548 45.833 0.00 0.00 31.84 2.82
3129 3174 4.505039 GGCCCTCATATTACGAGAACCAAT 60.505 45.833 0.00 0.00 31.84 3.16
3130 3175 3.181458 GGCCCTCATATTACGAGAACCAA 60.181 47.826 0.00 0.00 31.84 3.67
3131 3176 2.367567 GGCCCTCATATTACGAGAACCA 59.632 50.000 0.00 0.00 31.84 3.67
3132 3177 2.289506 GGGCCCTCATATTACGAGAACC 60.290 54.545 17.04 0.00 31.84 3.62
3133 3178 2.367567 TGGGCCCTCATATTACGAGAAC 59.632 50.000 25.70 0.00 31.84 3.01
3134 3179 2.684943 TGGGCCCTCATATTACGAGAA 58.315 47.619 25.70 0.00 31.84 2.87
3135 3180 2.367567 GTTGGGCCCTCATATTACGAGA 59.632 50.000 25.70 0.00 31.84 4.04
3136 3181 2.368875 AGTTGGGCCCTCATATTACGAG 59.631 50.000 25.70 0.00 0.00 4.18
3137 3182 2.404559 AGTTGGGCCCTCATATTACGA 58.595 47.619 25.70 0.00 0.00 3.43
3138 3183 2.930826 AGTTGGGCCCTCATATTACG 57.069 50.000 25.70 0.00 0.00 3.18
3139 3184 4.347000 TCTGTAGTTGGGCCCTCATATTAC 59.653 45.833 25.70 15.90 0.00 1.89
3140 3185 4.562767 TCTGTAGTTGGGCCCTCATATTA 58.437 43.478 25.70 0.00 0.00 0.98
3141 3186 3.392616 CTCTGTAGTTGGGCCCTCATATT 59.607 47.826 25.70 5.21 0.00 1.28
3142 3187 2.975489 CTCTGTAGTTGGGCCCTCATAT 59.025 50.000 25.70 7.07 0.00 1.78
3143 3188 2.398588 CTCTGTAGTTGGGCCCTCATA 58.601 52.381 25.70 9.90 0.00 2.15
3144 3189 1.207791 CTCTGTAGTTGGGCCCTCAT 58.792 55.000 25.70 11.02 0.00 2.90
3145 3190 1.553690 GCTCTGTAGTTGGGCCCTCA 61.554 60.000 25.70 6.76 0.00 3.86
3146 3191 1.222113 GCTCTGTAGTTGGGCCCTC 59.778 63.158 25.70 16.31 0.00 4.30
3147 3192 2.301738 GGCTCTGTAGTTGGGCCCT 61.302 63.158 25.70 5.02 37.12 5.19
3148 3193 2.272471 GGCTCTGTAGTTGGGCCC 59.728 66.667 17.59 17.59 37.12 5.80
3149 3194 2.125106 CGGCTCTGTAGTTGGGCC 60.125 66.667 0.00 0.00 39.43 5.80
3150 3195 0.321298 TTTCGGCTCTGTAGTTGGGC 60.321 55.000 0.00 0.00 0.00 5.36
3151 3196 2.403252 ATTTCGGCTCTGTAGTTGGG 57.597 50.000 0.00 0.00 0.00 4.12
3152 3197 5.628134 GTTTAATTTCGGCTCTGTAGTTGG 58.372 41.667 0.00 0.00 0.00 3.77
3153 3198 5.119588 TCGTTTAATTTCGGCTCTGTAGTTG 59.880 40.000 0.00 0.00 0.00 3.16
3154 3199 5.232463 TCGTTTAATTTCGGCTCTGTAGTT 58.768 37.500 0.00 0.00 0.00 2.24
3155 3200 4.813027 TCGTTTAATTTCGGCTCTGTAGT 58.187 39.130 0.00 0.00 0.00 2.73
3156 3201 5.518847 TCATCGTTTAATTTCGGCTCTGTAG 59.481 40.000 0.00 0.00 0.00 2.74
3157 3202 5.412640 TCATCGTTTAATTTCGGCTCTGTA 58.587 37.500 0.00 0.00 0.00 2.74
3158 3203 4.250464 TCATCGTTTAATTTCGGCTCTGT 58.750 39.130 0.00 0.00 0.00 3.41
3159 3204 4.857871 TCATCGTTTAATTTCGGCTCTG 57.142 40.909 0.00 0.00 0.00 3.35
3160 3205 5.360591 AGATCATCGTTTAATTTCGGCTCT 58.639 37.500 0.00 0.00 0.00 4.09
3161 3206 5.463724 AGAGATCATCGTTTAATTTCGGCTC 59.536 40.000 0.00 0.00 0.00 4.70
3162 3207 5.235186 CAGAGATCATCGTTTAATTTCGGCT 59.765 40.000 0.00 0.00 0.00 5.52
3163 3208 5.234329 TCAGAGATCATCGTTTAATTTCGGC 59.766 40.000 0.00 0.00 0.00 5.54
3164 3209 6.828502 TCAGAGATCATCGTTTAATTTCGG 57.171 37.500 0.00 0.00 0.00 4.30
3165 3210 8.120030 TCTTCAGAGATCATCGTTTAATTTCG 57.880 34.615 0.00 0.00 0.00 3.46
3166 3211 8.061268 GCTCTTCAGAGATCATCGTTTAATTTC 58.939 37.037 8.09 0.00 44.74 2.17
3167 3212 7.011857 GGCTCTTCAGAGATCATCGTTTAATTT 59.988 37.037 8.09 0.00 44.74 1.82
3168 3213 6.481644 GGCTCTTCAGAGATCATCGTTTAATT 59.518 38.462 8.09 0.00 44.74 1.40
3169 3214 5.988561 GGCTCTTCAGAGATCATCGTTTAAT 59.011 40.000 8.09 0.00 44.74 1.40
3170 3215 5.352284 GGCTCTTCAGAGATCATCGTTTAA 58.648 41.667 8.09 0.00 44.74 1.52
3171 3216 4.202161 GGGCTCTTCAGAGATCATCGTTTA 60.202 45.833 8.09 0.00 44.74 2.01
3172 3217 3.431486 GGGCTCTTCAGAGATCATCGTTT 60.431 47.826 8.09 0.00 44.74 3.60
3173 3218 2.102252 GGGCTCTTCAGAGATCATCGTT 59.898 50.000 8.09 0.00 44.74 3.85
3174 3219 1.686052 GGGCTCTTCAGAGATCATCGT 59.314 52.381 8.09 0.00 44.74 3.73
3175 3220 1.000731 GGGGCTCTTCAGAGATCATCG 59.999 57.143 8.09 0.00 44.74 3.84
3176 3221 2.328319 AGGGGCTCTTCAGAGATCATC 58.672 52.381 8.09 0.00 44.74 2.92
3177 3222 2.493099 AGGGGCTCTTCAGAGATCAT 57.507 50.000 8.09 0.00 44.74 2.45
3178 3223 3.404869 TTAGGGGCTCTTCAGAGATCA 57.595 47.619 8.09 0.00 44.74 2.92
3179 3224 4.762289 TTTTAGGGGCTCTTCAGAGATC 57.238 45.455 8.09 0.00 44.74 2.75
3199 3244 7.118971 CCTCATCGTCTTTCTTCAGAGATTTTT 59.881 37.037 0.00 0.00 0.00 1.94
3200 3245 6.593382 CCTCATCGTCTTTCTTCAGAGATTTT 59.407 38.462 0.00 0.00 0.00 1.82
3201 3246 6.105333 CCTCATCGTCTTTCTTCAGAGATTT 58.895 40.000 0.00 0.00 0.00 2.17
3202 3247 5.395103 CCCTCATCGTCTTTCTTCAGAGATT 60.395 44.000 0.00 0.00 0.00 2.40
3203 3248 4.099266 CCCTCATCGTCTTTCTTCAGAGAT 59.901 45.833 0.00 0.00 0.00 2.75
3204 3249 3.445450 CCCTCATCGTCTTTCTTCAGAGA 59.555 47.826 0.00 0.00 0.00 3.10
3205 3250 3.194542 ACCCTCATCGTCTTTCTTCAGAG 59.805 47.826 0.00 0.00 0.00 3.35
3206 3251 3.165875 ACCCTCATCGTCTTTCTTCAGA 58.834 45.455 0.00 0.00 0.00 3.27
3207 3252 3.601443 ACCCTCATCGTCTTTCTTCAG 57.399 47.619 0.00 0.00 0.00 3.02
3208 3253 3.119602 CGTACCCTCATCGTCTTTCTTCA 60.120 47.826 0.00 0.00 0.00 3.02
3209 3254 3.119566 ACGTACCCTCATCGTCTTTCTTC 60.120 47.826 0.00 0.00 32.26 2.87
3210 3255 2.824341 ACGTACCCTCATCGTCTTTCTT 59.176 45.455 0.00 0.00 32.26 2.52
3211 3256 2.163815 CACGTACCCTCATCGTCTTTCT 59.836 50.000 0.00 0.00 35.62 2.52
3212 3257 2.527100 CACGTACCCTCATCGTCTTTC 58.473 52.381 0.00 0.00 35.62 2.62
3213 3258 1.203994 CCACGTACCCTCATCGTCTTT 59.796 52.381 0.00 0.00 35.62 2.52
3214 3259 0.815734 CCACGTACCCTCATCGTCTT 59.184 55.000 0.00 0.00 35.62 3.01
3215 3260 1.035932 CCCACGTACCCTCATCGTCT 61.036 60.000 0.00 0.00 35.62 4.18
3216 3261 1.436336 CCCACGTACCCTCATCGTC 59.564 63.158 0.00 0.00 35.62 4.20
3217 3262 2.056223 CCCCACGTACCCTCATCGT 61.056 63.158 0.00 0.00 38.34 3.73
3218 3263 1.735376 CTCCCCACGTACCCTCATCG 61.735 65.000 0.00 0.00 0.00 3.84
3219 3264 0.396695 TCTCCCCACGTACCCTCATC 60.397 60.000 0.00 0.00 0.00 2.92
3220 3265 0.042131 TTCTCCCCACGTACCCTCAT 59.958 55.000 0.00 0.00 0.00 2.90
3221 3266 0.613853 CTTCTCCCCACGTACCCTCA 60.614 60.000 0.00 0.00 0.00 3.86
3222 3267 0.324091 TCTTCTCCCCACGTACCCTC 60.324 60.000 0.00 0.00 0.00 4.30
3223 3268 0.115745 TTCTTCTCCCCACGTACCCT 59.884 55.000 0.00 0.00 0.00 4.34
3224 3269 0.535797 CTTCTTCTCCCCACGTACCC 59.464 60.000 0.00 0.00 0.00 3.69
3225 3270 0.108281 GCTTCTTCTCCCCACGTACC 60.108 60.000 0.00 0.00 0.00 3.34
3226 3271 0.896226 AGCTTCTTCTCCCCACGTAC 59.104 55.000 0.00 0.00 0.00 3.67
3227 3272 1.183549 GAGCTTCTTCTCCCCACGTA 58.816 55.000 0.00 0.00 0.00 3.57
3228 3273 0.832135 TGAGCTTCTTCTCCCCACGT 60.832 55.000 0.00 0.00 32.22 4.49
3229 3274 0.390472 GTGAGCTTCTTCTCCCCACG 60.390 60.000 0.00 0.00 32.22 4.94
3230 3275 0.390472 CGTGAGCTTCTTCTCCCCAC 60.390 60.000 0.00 0.00 32.22 4.61
3231 3276 1.975327 CGTGAGCTTCTTCTCCCCA 59.025 57.895 0.00 0.00 32.22 4.96
3232 3277 4.921834 CGTGAGCTTCTTCTCCCC 57.078 61.111 0.00 0.00 32.22 4.81
3244 3289 0.170339 TATCGGTGTCTGTGCGTGAG 59.830 55.000 0.00 0.00 0.00 3.51
3245 3290 0.109458 GTATCGGTGTCTGTGCGTGA 60.109 55.000 0.00 0.00 0.00 4.35
3246 3291 1.403225 CGTATCGGTGTCTGTGCGTG 61.403 60.000 0.00 0.00 0.00 5.34
3247 3292 1.154093 CGTATCGGTGTCTGTGCGT 60.154 57.895 0.00 0.00 0.00 5.24
3248 3293 1.132199 GACGTATCGGTGTCTGTGCG 61.132 60.000 0.00 0.00 32.37 5.34
3249 3294 1.132199 CGACGTATCGGTGTCTGTGC 61.132 60.000 0.00 0.00 44.99 4.57
3250 3295 2.926074 CGACGTATCGGTGTCTGTG 58.074 57.895 0.00 0.00 44.99 3.66
3260 3305 2.412977 CGAGATCACCATCCGACGTATC 60.413 54.545 0.00 0.00 0.00 2.24
3261 3306 1.535896 CGAGATCACCATCCGACGTAT 59.464 52.381 0.00 0.00 0.00 3.06
3262 3307 0.942252 CGAGATCACCATCCGACGTA 59.058 55.000 0.00 0.00 0.00 3.57
3263 3308 0.746923 TCGAGATCACCATCCGACGT 60.747 55.000 0.00 0.00 31.04 4.34
3264 3309 0.040870 CTCGAGATCACCATCCGACG 60.041 60.000 6.58 0.00 32.03 5.12
3265 3310 0.318275 GCTCGAGATCACCATCCGAC 60.318 60.000 18.75 0.00 32.03 4.79
3266 3311 0.466372 AGCTCGAGATCACCATCCGA 60.466 55.000 18.75 0.00 33.42 4.55
3267 3312 0.318529 CAGCTCGAGATCACCATCCG 60.319 60.000 18.75 0.00 0.00 4.18
3268 3313 1.035923 TCAGCTCGAGATCACCATCC 58.964 55.000 18.75 0.00 0.00 3.51
3269 3314 2.609984 CCATCAGCTCGAGATCACCATC 60.610 54.545 18.75 0.00 0.00 3.51
3270 3315 1.343789 CCATCAGCTCGAGATCACCAT 59.656 52.381 18.75 0.00 0.00 3.55
3271 3316 0.749049 CCATCAGCTCGAGATCACCA 59.251 55.000 18.75 0.00 0.00 4.17
3272 3317 3.584586 CCATCAGCTCGAGATCACC 57.415 57.895 18.75 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.