Multiple sequence alignment - TraesCS5B01G117100

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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 TraesCS5B01G117100 chr5B 100.000 3254 0 0 1 3254 206103738 206100485 0.000000e+00 6010
1 TraesCS5B01G117100 chr5A 92.627 2292 78 31 670 2915 264420859 264423105 0.000000e+00 3212
2 TraesCS5B01G117100 chr5D 92.719 2280 77 35 670 2909 205995124 205997354 0.000000e+00 3208
3 TraesCS5B01G117100 chr6B 98.514 673 4 4 1 670 192930602 192931271 0.000000e+00 1182
4 TraesCS5B01G117100 chr6B 98.366 673 5 4 1 670 599870542 599871211 0.000000e+00 1177
5 TraesCS5B01G117100 chr6B 98.077 676 10 3 1 673 11045027 11044352 0.000000e+00 1173
6 TraesCS5B01G117100 chr6B 98.068 673 7 4 1 670 599856374 599857043 0.000000e+00 1166
7 TraesCS5B01G117100 chr6B 95.167 269 13 0 2936 3204 715074271 715074003 3.000000e-115 425
8 TraesCS5B01G117100 chr6B 87.387 222 25 2 1322 1540 589129246 589129025 5.390000e-63 252
9 TraesCS5B01G117100 chr7A 98.368 674 7 4 1 670 610200047 610199374 0.000000e+00 1181
10 TraesCS5B01G117100 chrUn 98.068 673 7 4 1 670 357230787 357230118 0.000000e+00 1166
11 TraesCS5B01G117100 chr6A 98.068 673 7 5 1 670 577745502 577746171 0.000000e+00 1166
12 TraesCS5B01G117100 chr6A 94.796 269 14 0 2936 3204 605322938 605322670 1.400000e-113 420
13 TraesCS5B01G117100 chr6A 88.995 209 23 0 1332 1540 540145649 540145441 3.220000e-65 259
14 TraesCS5B01G117100 chr3B 98.068 673 7 4 1 670 765518917 765518248 0.000000e+00 1166
15 TraesCS5B01G117100 chr3B 94.139 273 16 0 2932 3204 540477189 540477461 1.810000e-112 416
16 TraesCS5B01G117100 chr3B 87.634 186 23 0 1333 1518 718850346 718850531 1.970000e-52 217
17 TraesCS5B01G117100 chr2A 97.368 684 11 5 1 681 454438690 454438011 0.000000e+00 1157
18 TraesCS5B01G117100 chr2B 95.167 269 13 0 2936 3204 592766919 592766651 3.000000e-115 425
19 TraesCS5B01G117100 chr7B 94.834 271 14 0 2934 3204 73180554 73180824 1.080000e-114 424
20 TraesCS5B01G117100 chr7B 94.505 273 15 0 2932 3204 653250469 653250197 3.880000e-114 422
21 TraesCS5B01G117100 chr7B 94.505 273 15 0 2932 3204 653301273 653301001 3.880000e-114 422
22 TraesCS5B01G117100 chr7B 94.139 273 16 0 2932 3204 653190287 653190015 1.810000e-112 416
23 TraesCS5B01G117100 chr1B 94.796 269 14 0 2936 3204 681794712 681794980 1.400000e-113 420
24 TraesCS5B01G117100 chr4D 90.826 218 20 0 1317 1534 65577852 65577635 3.180000e-75 292
25 TraesCS5B01G117100 chr4B 90.367 218 21 0 1317 1534 96272103 96271886 1.480000e-73 287
26 TraesCS5B01G117100 chr4A 91.038 212 19 0 1317 1528 530122135 530122346 1.480000e-73 287
27 TraesCS5B01G117100 chr6D 88.995 209 23 0 1332 1540 393936197 393935989 3.220000e-65 259


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 TraesCS5B01G117100 chr5B 206100485 206103738 3253 True 6010 6010 100.000 1 3254 1 chr5B.!!$R1 3253
1 TraesCS5B01G117100 chr5A 264420859 264423105 2246 False 3212 3212 92.627 670 2915 1 chr5A.!!$F1 2245
2 TraesCS5B01G117100 chr5D 205995124 205997354 2230 False 3208 3208 92.719 670 2909 1 chr5D.!!$F1 2239
3 TraesCS5B01G117100 chr6B 192930602 192931271 669 False 1182 1182 98.514 1 670 1 chr6B.!!$F1 669
4 TraesCS5B01G117100 chr6B 599870542 599871211 669 False 1177 1177 98.366 1 670 1 chr6B.!!$F3 669
5 TraesCS5B01G117100 chr6B 11044352 11045027 675 True 1173 1173 98.077 1 673 1 chr6B.!!$R1 672
6 TraesCS5B01G117100 chr6B 599856374 599857043 669 False 1166 1166 98.068 1 670 1 chr6B.!!$F2 669
7 TraesCS5B01G117100 chr7A 610199374 610200047 673 True 1181 1181 98.368 1 670 1 chr7A.!!$R1 669
8 TraesCS5B01G117100 chrUn 357230118 357230787 669 True 1166 1166 98.068 1 670 1 chrUn.!!$R1 669
9 TraesCS5B01G117100 chr6A 577745502 577746171 669 False 1166 1166 98.068 1 670 1 chr6A.!!$F1 669
10 TraesCS5B01G117100 chr3B 765518248 765518917 669 True 1166 1166 98.068 1 670 1 chr3B.!!$R1 669
11 TraesCS5B01G117100 chr2A 454438011 454438690 679 True 1157 1157 97.368 1 681 1 chr2A.!!$R1 680

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
940 965 0.173481 GGAGCCGCCTTTTCATTTCC 59.827 55.0 0.0 0.0 0.0 3.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2343 2380 0.332632 CCTCAGCCAATCCCAGGAAA 59.667 55.0 0.0 0.0 0.0 3.13 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
43 44 2.238646 TCCCGAGTGCCAAATGTAGATT 59.761 45.455 0.00 0.00 0.00 2.40
444 448 9.118300 CATGCAAAATTAAGGGGCAATAAATTA 57.882 29.630 0.00 0.00 38.08 1.40
602 606 2.288666 GCAATATGCTCGTTTCTGGGA 58.711 47.619 0.00 0.00 40.96 4.37
738 743 2.997315 TCCCGCTCCCTGTCTGTG 60.997 66.667 0.00 0.00 0.00 3.66
748 753 1.000283 CCCTGTCTGTGTGTCTGTCTC 60.000 57.143 0.00 0.00 0.00 3.36
749 754 1.000283 CCTGTCTGTGTGTCTGTCTCC 60.000 57.143 0.00 0.00 0.00 3.71
750 755 1.683385 CTGTCTGTGTGTCTGTCTCCA 59.317 52.381 0.00 0.00 0.00 3.86
751 756 2.298446 CTGTCTGTGTGTCTGTCTCCAT 59.702 50.000 0.00 0.00 0.00 3.41
752 757 2.297315 TGTCTGTGTGTCTGTCTCCATC 59.703 50.000 0.00 0.00 0.00 3.51
753 758 1.895798 TCTGTGTGTCTGTCTCCATCC 59.104 52.381 0.00 0.00 0.00 3.51
754 759 1.620323 CTGTGTGTCTGTCTCCATCCA 59.380 52.381 0.00 0.00 0.00 3.41
776 793 3.680920 TTCTCTCCCCTCCTCCGCC 62.681 68.421 0.00 0.00 0.00 6.13
940 965 0.173481 GGAGCCGCCTTTTCATTTCC 59.827 55.000 0.00 0.00 0.00 3.13
960 985 3.635510 CTTCTCGGGAGGAAGGGG 58.364 66.667 0.00 0.00 37.22 4.79
981 1006 2.677848 GGAGGGAGGGTTCTTGGC 59.322 66.667 0.00 0.00 0.00 4.52
982 1007 2.231380 GGAGGGAGGGTTCTTGGCA 61.231 63.158 0.00 0.00 0.00 4.92
983 1008 1.767692 GAGGGAGGGTTCTTGGCAA 59.232 57.895 0.00 0.00 0.00 4.52
984 1009 0.609406 GAGGGAGGGTTCTTGGCAAC 60.609 60.000 0.00 0.00 0.00 4.17
1039 1064 4.410400 GTGGGGGCGGAAGTGGAG 62.410 72.222 0.00 0.00 0.00 3.86
1660 1685 2.261729 TGTCCACCATGCTAGGTTACA 58.738 47.619 0.00 4.01 40.77 2.41
1767 1792 4.117661 AAGGAGGACGACGAGCGC 62.118 66.667 0.00 0.00 46.04 5.92
1770 1795 4.194720 GAGGACGACGAGCGCCAT 62.195 66.667 2.29 0.00 46.04 4.40
2012 2037 2.125106 GAACTACCCCAGCAGCGG 60.125 66.667 0.00 0.00 0.00 5.52
2286 2323 6.392354 GCATGATGAAAAACTCTGAATCCAA 58.608 36.000 0.00 0.00 0.00 3.53
2325 2362 2.444256 GCTAGTGGGGTGGGCTAGG 61.444 68.421 0.00 0.00 34.41 3.02
2332 2369 1.128188 GGGGTGGGCTAGGATCGAAT 61.128 60.000 0.00 0.00 0.00 3.34
2333 2370 0.321996 GGGTGGGCTAGGATCGAATC 59.678 60.000 0.00 0.00 0.00 2.52
2343 2380 2.990066 GGATCGAATCCTGGTGTCTT 57.010 50.000 0.00 0.00 46.19 3.01
2344 2381 3.268023 GGATCGAATCCTGGTGTCTTT 57.732 47.619 0.00 0.00 46.19 2.52
2748 2793 4.864247 CCAGGTATTTTTATGTGCTTGTGC 59.136 41.667 0.00 0.00 40.20 4.57
2752 2797 4.870123 ATTTTTATGTGCTTGTGCCTCA 57.130 36.364 0.00 0.00 38.71 3.86
2760 2805 0.109412 GCTTGTGCCTCATGCTGTTC 60.109 55.000 8.76 0.00 41.86 3.18
2761 2806 1.531423 CTTGTGCCTCATGCTGTTCT 58.469 50.000 0.00 0.00 42.00 3.01
2762 2807 2.703416 CTTGTGCCTCATGCTGTTCTA 58.297 47.619 0.00 0.00 42.00 2.10
2763 2808 2.099141 TGTGCCTCATGCTGTTCTAC 57.901 50.000 0.00 0.00 42.00 2.59
2764 2809 1.002366 GTGCCTCATGCTGTTCTACG 58.998 55.000 0.00 0.00 42.00 3.51
2765 2810 0.894835 TGCCTCATGCTGTTCTACGA 59.105 50.000 0.00 0.00 42.00 3.43
2766 2811 1.134995 TGCCTCATGCTGTTCTACGAG 60.135 52.381 0.00 0.00 42.00 4.18
2767 2812 1.804372 GCCTCATGCTGTTCTACGAGG 60.804 57.143 0.00 0.00 42.43 4.63
2768 2813 1.202463 CCTCATGCTGTTCTACGAGGG 60.202 57.143 0.00 0.00 37.07 4.30
2769 2814 0.175760 TCATGCTGTTCTACGAGGGC 59.824 55.000 0.00 0.00 0.00 5.19
2770 2815 1.141881 ATGCTGTTCTACGAGGGCG 59.858 57.895 0.00 0.00 44.79 6.13
2810 2877 3.748298 GCTTTTGTAGCGACTCCAATTC 58.252 45.455 0.00 0.00 40.71 2.17
2816 2883 3.384789 TGTAGCGACTCCAATTCTAGCAT 59.615 43.478 0.00 0.00 0.00 3.79
2824 2891 1.066605 CCAATTCTAGCATGTGCAGCC 59.933 52.381 7.83 0.00 45.16 4.85
2828 2895 0.325933 TCTAGCATGTGCAGCCAACT 59.674 50.000 7.83 0.00 45.16 3.16
2834 2901 0.322277 ATGTGCAGCCAACTGGAGAG 60.322 55.000 0.00 0.00 45.83 3.20
2843 2910 4.946157 CAGCCAACTGGAGAGACATATTTT 59.054 41.667 0.00 0.00 40.48 1.82
2872 2943 8.067751 TCATCTGTAGAAGTAGTAACAGCATT 57.932 34.615 0.00 0.00 39.33 3.56
2903 2974 7.659390 GCCATCTGCTAGTCACTTTCTAAATAT 59.341 37.037 0.00 0.00 36.87 1.28
2931 3002 8.685838 TTAAAACACTAGATGCACCTAAAAGT 57.314 30.769 0.00 0.00 0.00 2.66
2932 3003 6.560253 AAACACTAGATGCACCTAAAAGTG 57.440 37.500 7.79 7.79 40.88 3.16
2933 3004 5.228945 ACACTAGATGCACCTAAAAGTGT 57.771 39.130 9.02 9.02 40.04 3.55
2934 3005 5.621193 ACACTAGATGCACCTAAAAGTGTT 58.379 37.500 9.02 0.00 40.04 3.32
2935 3006 6.765403 ACACTAGATGCACCTAAAAGTGTTA 58.235 36.000 9.02 0.00 40.04 2.41
2936 3007 6.874134 ACACTAGATGCACCTAAAAGTGTTAG 59.126 38.462 9.02 0.00 40.04 2.34
2937 3008 6.313905 CACTAGATGCACCTAAAAGTGTTAGG 59.686 42.308 16.52 16.52 45.41 2.69
2938 3009 4.589908 AGATGCACCTAAAAGTGTTAGGG 58.410 43.478 21.15 12.10 44.47 3.53
2939 3010 2.510613 TGCACCTAAAAGTGTTAGGGC 58.489 47.619 21.15 19.76 44.47 5.19
2940 3011 2.158593 TGCACCTAAAAGTGTTAGGGCA 60.159 45.455 22.00 22.00 44.47 5.36
2941 3012 2.228103 GCACCTAAAAGTGTTAGGGCAC 59.772 50.000 21.15 8.00 44.47 5.01
2942 3013 2.482721 CACCTAAAAGTGTTAGGGCACG 59.517 50.000 21.15 5.20 44.47 5.34
2943 3014 2.105306 ACCTAAAAGTGTTAGGGCACGT 59.895 45.455 21.15 0.00 44.47 4.49
2944 3015 3.324556 ACCTAAAAGTGTTAGGGCACGTA 59.675 43.478 21.15 0.00 44.47 3.57
2945 3016 3.681417 CCTAAAAGTGTTAGGGCACGTAC 59.319 47.826 10.98 0.00 43.61 3.67
2946 3017 2.914695 AAAGTGTTAGGGCACGTACA 57.085 45.000 0.00 0.00 43.61 2.90
2947 3018 2.914695 AAGTGTTAGGGCACGTACAA 57.085 45.000 0.00 0.00 43.61 2.41
2948 3019 3.412237 AAGTGTTAGGGCACGTACAAT 57.588 42.857 0.00 0.00 43.61 2.71
2949 3020 2.695359 AGTGTTAGGGCACGTACAATG 58.305 47.619 0.00 0.00 43.61 2.82
2950 3021 1.735571 GTGTTAGGGCACGTACAATGG 59.264 52.381 0.00 0.00 0.00 3.16
2951 3022 1.348366 TGTTAGGGCACGTACAATGGT 59.652 47.619 0.00 0.00 0.00 3.55
2952 3023 2.224572 TGTTAGGGCACGTACAATGGTT 60.225 45.455 0.00 0.00 0.00 3.67
2953 3024 2.102070 TAGGGCACGTACAATGGTTG 57.898 50.000 0.00 0.00 0.00 3.77
2954 3025 0.398696 AGGGCACGTACAATGGTTGA 59.601 50.000 0.00 0.00 0.00 3.18
2955 3026 1.004277 AGGGCACGTACAATGGTTGAT 59.996 47.619 0.00 0.00 0.00 2.57
2956 3027 2.237643 AGGGCACGTACAATGGTTGATA 59.762 45.455 0.00 0.00 0.00 2.15
2957 3028 3.011119 GGGCACGTACAATGGTTGATAA 58.989 45.455 0.00 0.00 0.00 1.75
2958 3029 3.064820 GGGCACGTACAATGGTTGATAAG 59.935 47.826 0.00 0.00 0.00 1.73
2959 3030 3.936453 GGCACGTACAATGGTTGATAAGA 59.064 43.478 0.00 0.00 0.00 2.10
2960 3031 4.574828 GGCACGTACAATGGTTGATAAGAT 59.425 41.667 0.00 0.00 0.00 2.40
2961 3032 5.756347 GGCACGTACAATGGTTGATAAGATA 59.244 40.000 0.00 0.00 0.00 1.98
2962 3033 6.073765 GGCACGTACAATGGTTGATAAGATAG 60.074 42.308 0.00 0.00 0.00 2.08
2963 3034 6.479001 GCACGTACAATGGTTGATAAGATAGT 59.521 38.462 0.00 0.00 0.00 2.12
2964 3035 7.306632 GCACGTACAATGGTTGATAAGATAGTC 60.307 40.741 0.00 0.00 0.00 2.59
2965 3036 7.921214 CACGTACAATGGTTGATAAGATAGTCT 59.079 37.037 0.00 0.00 0.00 3.24
2966 3037 8.475639 ACGTACAATGGTTGATAAGATAGTCTT 58.524 33.333 0.00 0.00 40.35 3.01
2967 3038 9.961265 CGTACAATGGTTGATAAGATAGTCTTA 57.039 33.333 2.24 2.24 42.49 2.10
2983 3054 9.979578 AGATAGTCTTATCTTAAGTCTTGCATG 57.020 33.333 1.63 0.00 42.67 4.06
2984 3055 9.757227 GATAGTCTTATCTTAAGTCTTGCATGT 57.243 33.333 1.63 0.00 34.16 3.21
2987 3058 9.944376 AGTCTTATCTTAAGTCTTGCATGTAAA 57.056 29.630 1.63 0.00 0.00 2.01
2992 3063 7.899178 TCTTAAGTCTTGCATGTAAATTCGA 57.101 32.000 1.63 0.00 0.00 3.71
2993 3064 7.963981 TCTTAAGTCTTGCATGTAAATTCGAG 58.036 34.615 1.63 0.00 0.00 4.04
2994 3065 7.817478 TCTTAAGTCTTGCATGTAAATTCGAGA 59.183 33.333 1.63 0.00 0.00 4.04
2995 3066 6.992063 AAGTCTTGCATGTAAATTCGAGAT 57.008 33.333 0.00 0.00 0.00 2.75
2996 3067 6.355397 AGTCTTGCATGTAAATTCGAGATG 57.645 37.500 0.00 0.00 0.00 2.90
2997 3068 6.108687 AGTCTTGCATGTAAATTCGAGATGA 58.891 36.000 0.00 0.00 0.00 2.92
2998 3069 6.036517 AGTCTTGCATGTAAATTCGAGATGAC 59.963 38.462 0.00 0.00 0.00 3.06
2999 3070 5.874261 TCTTGCATGTAAATTCGAGATGACA 59.126 36.000 0.00 0.00 0.00 3.58
3000 3071 6.371271 TCTTGCATGTAAATTCGAGATGACAA 59.629 34.615 0.00 5.17 0.00 3.18
3001 3072 6.493449 TGCATGTAAATTCGAGATGACAAA 57.507 33.333 0.00 0.00 0.00 2.83
3002 3073 6.907741 TGCATGTAAATTCGAGATGACAAAA 58.092 32.000 0.00 0.00 0.00 2.44
3003 3074 7.366513 TGCATGTAAATTCGAGATGACAAAAA 58.633 30.769 0.00 0.00 0.00 1.94
3026 3097 8.650143 AAAAACATGTCTACTATGGGTCATTT 57.350 30.769 0.00 0.00 0.00 2.32
3027 3098 8.650143 AAAACATGTCTACTATGGGTCATTTT 57.350 30.769 0.00 0.00 0.00 1.82
3028 3099 8.650143 AAACATGTCTACTATGGGTCATTTTT 57.350 30.769 0.00 0.00 0.00 1.94
3071 3142 7.883391 TTAGTTGTTCCTAAAAACATGGTGA 57.117 32.000 0.00 0.00 38.83 4.02
3072 3143 6.391227 AGTTGTTCCTAAAAACATGGTGAG 57.609 37.500 0.00 0.00 38.83 3.51
3073 3144 6.126409 AGTTGTTCCTAAAAACATGGTGAGA 58.874 36.000 0.00 0.00 38.83 3.27
3074 3145 6.039382 AGTTGTTCCTAAAAACATGGTGAGAC 59.961 38.462 0.00 0.00 38.83 3.36
3075 3146 5.441500 TGTTCCTAAAAACATGGTGAGACA 58.558 37.500 0.00 0.00 34.31 3.41
3076 3147 5.888724 TGTTCCTAAAAACATGGTGAGACAA 59.111 36.000 0.00 0.00 34.31 3.18
3077 3148 6.378564 TGTTCCTAAAAACATGGTGAGACAAA 59.621 34.615 0.00 0.00 34.31 2.83
3078 3149 7.069331 TGTTCCTAAAAACATGGTGAGACAAAT 59.931 33.333 0.00 0.00 34.31 2.32
3079 3150 7.595819 TCCTAAAAACATGGTGAGACAAATT 57.404 32.000 0.00 0.00 0.00 1.82
3080 3151 8.698973 TCCTAAAAACATGGTGAGACAAATTA 57.301 30.769 0.00 0.00 0.00 1.40
3081 3152 9.308000 TCCTAAAAACATGGTGAGACAAATTAT 57.692 29.630 0.00 0.00 0.00 1.28
3089 3160 9.823647 ACATGGTGAGACAAATTATACTAAGAG 57.176 33.333 0.00 0.00 0.00 2.85
3128 3199 9.833182 CTTCTCTTAAATAAGAAAAGACAAGCC 57.167 33.333 9.63 0.00 40.91 4.35
3129 3200 9.574516 TTCTCTTAAATAAGAAAAGACAAGCCT 57.425 29.630 4.57 0.00 41.37 4.58
3130 3201 9.574516 TCTCTTAAATAAGAAAAGACAAGCCTT 57.425 29.630 4.57 0.00 41.37 4.35
3138 3209 6.969828 AGAAAAGACAAGCCTTATCTTACG 57.030 37.500 0.00 0.00 32.38 3.18
3139 3210 6.698380 AGAAAAGACAAGCCTTATCTTACGA 58.302 36.000 0.00 0.00 32.38 3.43
3140 3211 7.331791 AGAAAAGACAAGCCTTATCTTACGAT 58.668 34.615 0.00 0.00 32.38 3.73
3141 3212 7.824779 AGAAAAGACAAGCCTTATCTTACGATT 59.175 33.333 0.00 0.00 32.38 3.34
3142 3213 7.923414 AAAGACAAGCCTTATCTTACGATTT 57.077 32.000 0.00 0.00 32.38 2.17
3143 3214 7.541122 AAGACAAGCCTTATCTTACGATTTC 57.459 36.000 0.00 0.00 30.88 2.17
3144 3215 6.879400 AGACAAGCCTTATCTTACGATTTCT 58.121 36.000 0.00 0.00 0.00 2.52
3145 3216 6.981559 AGACAAGCCTTATCTTACGATTTCTC 59.018 38.462 0.00 0.00 0.00 2.87
3146 3217 6.879400 ACAAGCCTTATCTTACGATTTCTCT 58.121 36.000 0.00 0.00 0.00 3.10
3147 3218 6.981559 ACAAGCCTTATCTTACGATTTCTCTC 59.018 38.462 0.00 0.00 0.00 3.20
3148 3219 6.969993 AGCCTTATCTTACGATTTCTCTCT 57.030 37.500 0.00 0.00 0.00 3.10
3149 3220 7.354751 AGCCTTATCTTACGATTTCTCTCTT 57.645 36.000 0.00 0.00 0.00 2.85
3150 3221 7.430441 AGCCTTATCTTACGATTTCTCTCTTC 58.570 38.462 0.00 0.00 0.00 2.87
3151 3222 6.643360 GCCTTATCTTACGATTTCTCTCTTCC 59.357 42.308 0.00 0.00 0.00 3.46
3152 3223 7.149307 CCTTATCTTACGATTTCTCTCTTCCC 58.851 42.308 0.00 0.00 0.00 3.97
3153 3224 5.538849 ATCTTACGATTTCTCTCTTCCCC 57.461 43.478 0.00 0.00 0.00 4.81
3154 3225 4.350245 TCTTACGATTTCTCTCTTCCCCA 58.650 43.478 0.00 0.00 0.00 4.96
3155 3226 4.159879 TCTTACGATTTCTCTCTTCCCCAC 59.840 45.833 0.00 0.00 0.00 4.61
3156 3227 1.555533 ACGATTTCTCTCTTCCCCACC 59.444 52.381 0.00 0.00 0.00 4.61
3157 3228 1.834263 CGATTTCTCTCTTCCCCACCT 59.166 52.381 0.00 0.00 0.00 4.00
3158 3229 2.159028 CGATTTCTCTCTTCCCCACCTC 60.159 54.545 0.00 0.00 0.00 3.85
3159 3230 2.415983 TTTCTCTCTTCCCCACCTCA 57.584 50.000 0.00 0.00 0.00 3.86
3160 3231 2.649742 TTCTCTCTTCCCCACCTCAT 57.350 50.000 0.00 0.00 0.00 2.90
3161 3232 2.166907 TCTCTCTTCCCCACCTCATC 57.833 55.000 0.00 0.00 0.00 2.92
3162 3233 1.362584 TCTCTCTTCCCCACCTCATCA 59.637 52.381 0.00 0.00 0.00 3.07
3163 3234 2.022625 TCTCTCTTCCCCACCTCATCAT 60.023 50.000 0.00 0.00 0.00 2.45
3164 3235 2.776536 CTCTCTTCCCCACCTCATCATT 59.223 50.000 0.00 0.00 0.00 2.57
3165 3236 3.192944 TCTCTTCCCCACCTCATCATTT 58.807 45.455 0.00 0.00 0.00 2.32
3166 3237 4.370776 TCTCTTCCCCACCTCATCATTTA 58.629 43.478 0.00 0.00 0.00 1.40
3167 3238 4.977739 TCTCTTCCCCACCTCATCATTTAT 59.022 41.667 0.00 0.00 0.00 1.40
3168 3239 5.072329 TCTCTTCCCCACCTCATCATTTATC 59.928 44.000 0.00 0.00 0.00 1.75
3169 3240 4.104738 TCTTCCCCACCTCATCATTTATCC 59.895 45.833 0.00 0.00 0.00 2.59
3170 3241 3.680169 TCCCCACCTCATCATTTATCCT 58.320 45.455 0.00 0.00 0.00 3.24
3171 3242 4.838403 TCCCCACCTCATCATTTATCCTA 58.162 43.478 0.00 0.00 0.00 2.94
3172 3243 4.597507 TCCCCACCTCATCATTTATCCTAC 59.402 45.833 0.00 0.00 0.00 3.18
3173 3244 4.563580 CCCCACCTCATCATTTATCCTACG 60.564 50.000 0.00 0.00 0.00 3.51
3174 3245 4.040461 CCCACCTCATCATTTATCCTACGT 59.960 45.833 0.00 0.00 0.00 3.57
3175 3246 4.991056 CCACCTCATCATTTATCCTACGTG 59.009 45.833 0.00 0.00 0.00 4.49
3176 3247 5.221441 CCACCTCATCATTTATCCTACGTGA 60.221 44.000 0.00 0.00 0.00 4.35
3177 3248 5.692204 CACCTCATCATTTATCCTACGTGAC 59.308 44.000 0.00 0.00 0.00 3.67
3178 3249 5.362717 ACCTCATCATTTATCCTACGTGACA 59.637 40.000 0.00 0.00 0.00 3.58
3179 3250 5.692204 CCTCATCATTTATCCTACGTGACAC 59.308 44.000 0.00 0.00 0.00 3.67
3180 3251 6.461648 CCTCATCATTTATCCTACGTGACACT 60.462 42.308 0.00 0.00 0.00 3.55
3181 3252 6.504398 TCATCATTTATCCTACGTGACACTC 58.496 40.000 0.00 0.00 0.00 3.51
3182 3253 6.321435 TCATCATTTATCCTACGTGACACTCT 59.679 38.462 0.00 0.00 0.00 3.24
3183 3254 6.525578 TCATTTATCCTACGTGACACTCTT 57.474 37.500 0.00 0.00 0.00 2.85
3184 3255 7.634671 TCATTTATCCTACGTGACACTCTTA 57.365 36.000 0.00 0.00 0.00 2.10
3185 3256 8.058667 TCATTTATCCTACGTGACACTCTTAA 57.941 34.615 0.00 0.00 0.00 1.85
3186 3257 8.188799 TCATTTATCCTACGTGACACTCTTAAG 58.811 37.037 0.00 0.00 0.00 1.85
3187 3258 7.692460 TTTATCCTACGTGACACTCTTAAGA 57.308 36.000 4.81 4.81 0.00 2.10
3188 3259 7.876936 TTATCCTACGTGACACTCTTAAGAT 57.123 36.000 5.44 0.00 0.00 2.40
3189 3260 8.969260 TTATCCTACGTGACACTCTTAAGATA 57.031 34.615 5.44 0.88 0.00 1.98
3190 3261 6.922247 TCCTACGTGACACTCTTAAGATAG 57.078 41.667 5.44 4.28 0.00 2.08
3191 3262 6.647229 TCCTACGTGACACTCTTAAGATAGA 58.353 40.000 5.44 0.00 0.00 1.98
3192 3263 7.108194 TCCTACGTGACACTCTTAAGATAGAA 58.892 38.462 5.44 0.00 0.00 2.10
3193 3264 7.065563 TCCTACGTGACACTCTTAAGATAGAAC 59.934 40.741 5.44 5.53 0.00 3.01
3194 3265 5.952033 ACGTGACACTCTTAAGATAGAACC 58.048 41.667 5.44 0.00 0.00 3.62
3195 3266 5.475909 ACGTGACACTCTTAAGATAGAACCA 59.524 40.000 5.44 0.00 0.00 3.67
3196 3267 6.153000 ACGTGACACTCTTAAGATAGAACCAT 59.847 38.462 5.44 0.00 0.00 3.55
3197 3268 7.036220 CGTGACACTCTTAAGATAGAACCATT 58.964 38.462 5.44 0.00 0.00 3.16
3198 3269 7.009631 CGTGACACTCTTAAGATAGAACCATTG 59.990 40.741 5.44 0.00 0.00 2.82
3199 3270 7.819900 GTGACACTCTTAAGATAGAACCATTGT 59.180 37.037 5.44 0.00 0.00 2.71
3200 3271 9.031537 TGACACTCTTAAGATAGAACCATTGTA 57.968 33.333 5.44 0.00 0.00 2.41
3201 3272 9.303537 GACACTCTTAAGATAGAACCATTGTAC 57.696 37.037 5.44 0.00 0.00 2.90
3202 3273 8.812972 ACACTCTTAAGATAGAACCATTGTACA 58.187 33.333 5.44 0.00 0.00 2.90
3203 3274 9.823647 CACTCTTAAGATAGAACCATTGTACAT 57.176 33.333 5.44 0.00 0.00 2.29
3208 3279 9.952030 TTAAGATAGAACCATTGTACATTGTGA 57.048 29.630 14.80 0.00 0.00 3.58
3210 3281 8.668510 AGATAGAACCATTGTACATTGTGATC 57.331 34.615 14.80 10.73 0.00 2.92
3211 3282 5.801350 AGAACCATTGTACATTGTGATCG 57.199 39.130 14.80 3.95 0.00 3.69
3212 3283 4.094887 AGAACCATTGTACATTGTGATCGC 59.905 41.667 14.80 0.00 0.00 4.58
3213 3284 2.351418 ACCATTGTACATTGTGATCGCG 59.649 45.455 14.80 0.00 0.00 5.87
3214 3285 2.607180 CCATTGTACATTGTGATCGCGA 59.393 45.455 13.09 13.09 0.00 5.87
3215 3286 3.302675 CCATTGTACATTGTGATCGCGAG 60.303 47.826 16.66 0.54 0.00 5.03
3216 3287 1.277326 TGTACATTGTGATCGCGAGC 58.723 50.000 19.12 19.12 0.00 5.03
3217 3288 1.277326 GTACATTGTGATCGCGAGCA 58.723 50.000 25.05 25.05 0.00 4.26
3218 3289 1.256376 GTACATTGTGATCGCGAGCAG 59.744 52.381 29.49 18.38 0.00 4.24
3219 3290 1.011463 CATTGTGATCGCGAGCAGC 60.011 57.895 29.49 21.62 43.95 5.25
3230 3301 3.134401 CGAGCAGCAGTGATCTTGT 57.866 52.632 0.00 0.00 36.92 3.16
3231 3302 1.436600 CGAGCAGCAGTGATCTTGTT 58.563 50.000 0.00 0.00 36.92 2.83
3232 3303 2.610433 CGAGCAGCAGTGATCTTGTTA 58.390 47.619 0.00 0.00 36.92 2.41
3233 3304 3.193263 CGAGCAGCAGTGATCTTGTTAT 58.807 45.455 0.00 0.00 36.92 1.89
3234 3305 3.244814 CGAGCAGCAGTGATCTTGTTATC 59.755 47.826 0.00 0.00 36.92 1.75
3235 3306 4.186926 GAGCAGCAGTGATCTTGTTATCA 58.813 43.478 0.00 0.00 36.10 2.15
3236 3307 4.190001 AGCAGCAGTGATCTTGTTATCAG 58.810 43.478 0.00 0.00 36.57 2.90
3237 3308 3.937706 GCAGCAGTGATCTTGTTATCAGT 59.062 43.478 0.00 0.00 39.59 3.41
3238 3309 5.105187 AGCAGCAGTGATCTTGTTATCAGTA 60.105 40.000 0.00 0.00 37.42 2.74
3239 3310 5.006165 GCAGCAGTGATCTTGTTATCAGTAC 59.994 44.000 0.00 0.00 37.42 2.73
3240 3311 5.521735 CAGCAGTGATCTTGTTATCAGTACC 59.478 44.000 0.00 0.00 37.42 3.34
3241 3312 4.504461 GCAGTGATCTTGTTATCAGTACCG 59.496 45.833 0.00 0.00 37.42 4.02
3242 3313 4.504461 CAGTGATCTTGTTATCAGTACCGC 59.496 45.833 0.00 0.00 37.42 5.68
3243 3314 3.802685 GTGATCTTGTTATCAGTACCGCC 59.197 47.826 0.00 0.00 36.57 6.13
3244 3315 3.449377 TGATCTTGTTATCAGTACCGCCA 59.551 43.478 0.00 0.00 32.18 5.69
3245 3316 3.965379 TCTTGTTATCAGTACCGCCAA 57.035 42.857 0.00 0.00 0.00 4.52
3246 3317 3.857052 TCTTGTTATCAGTACCGCCAAG 58.143 45.455 0.00 0.00 0.00 3.61
3247 3318 3.259876 TCTTGTTATCAGTACCGCCAAGT 59.740 43.478 0.00 0.00 31.97 3.16
3248 3319 3.688694 TGTTATCAGTACCGCCAAGTT 57.311 42.857 0.00 0.00 0.00 2.66
3249 3320 3.592059 TGTTATCAGTACCGCCAAGTTC 58.408 45.455 0.00 0.00 0.00 3.01
3250 3321 2.572191 TATCAGTACCGCCAAGTTCG 57.428 50.000 0.00 0.00 0.00 3.95
3251 3322 0.739813 ATCAGTACCGCCAAGTTCGC 60.740 55.000 0.00 0.00 0.00 4.70
3252 3323 1.374252 CAGTACCGCCAAGTTCGCT 60.374 57.895 0.00 0.00 0.00 4.93
3253 3324 1.080025 AGTACCGCCAAGTTCGCTC 60.080 57.895 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
444 448 4.474651 TGTCCATACATCATTCACCCTCTT 59.525 41.667 0.00 0.00 0.00 2.85
602 606 6.815089 TGTGTAAACAATGCTCATTTTCCTT 58.185 32.000 0.00 0.00 0.00 3.36
652 656 3.384668 CATGACTAGTAGAATGCCGTGG 58.615 50.000 3.59 0.00 0.00 4.94
723 728 2.047844 CACACAGACAGGGAGCGG 60.048 66.667 0.00 0.00 0.00 5.52
725 730 0.320247 CAGACACACAGACAGGGAGC 60.320 60.000 0.00 0.00 0.00 4.70
727 732 1.040646 GACAGACACACAGACAGGGA 58.959 55.000 0.00 0.00 0.00 4.20
730 735 1.683385 TGGAGACAGACACACAGACAG 59.317 52.381 0.00 0.00 35.01 3.51
748 753 1.063183 GGGGAGAGAAGGATGGATGG 58.937 60.000 0.00 0.00 0.00 3.51
749 754 1.977129 GAGGGGAGAGAAGGATGGATG 59.023 57.143 0.00 0.00 0.00 3.51
750 755 1.132560 GGAGGGGAGAGAAGGATGGAT 60.133 57.143 0.00 0.00 0.00 3.41
751 756 0.266152 GGAGGGGAGAGAAGGATGGA 59.734 60.000 0.00 0.00 0.00 3.41
752 757 0.267356 AGGAGGGGAGAGAAGGATGG 59.733 60.000 0.00 0.00 0.00 3.51
753 758 1.715785 GAGGAGGGGAGAGAAGGATG 58.284 60.000 0.00 0.00 0.00 3.51
754 759 0.565674 GGAGGAGGGGAGAGAAGGAT 59.434 60.000 0.00 0.00 0.00 3.24
955 980 2.461637 CCTCCCTCCCTTCCCCTT 59.538 66.667 0.00 0.00 0.00 3.95
960 985 0.621082 CAAGAACCCTCCCTCCCTTC 59.379 60.000 0.00 0.00 0.00 3.46
982 1007 1.444119 ATGCGCGTCCAACACTTGTT 61.444 50.000 8.43 0.00 39.12 2.83
983 1008 1.891919 ATGCGCGTCCAACACTTGT 60.892 52.632 8.43 0.00 0.00 3.16
984 1009 1.440850 CATGCGCGTCCAACACTTG 60.441 57.895 8.43 0.00 0.00 3.16
985 1010 2.616330 CCATGCGCGTCCAACACTT 61.616 57.895 8.43 0.00 0.00 3.16
986 1011 3.049674 CCATGCGCGTCCAACACT 61.050 61.111 8.43 0.00 0.00 3.55
987 1012 3.047280 TCCATGCGCGTCCAACAC 61.047 61.111 8.43 0.00 0.00 3.32
988 1013 3.047280 GTCCATGCGCGTCCAACA 61.047 61.111 8.43 0.00 0.00 3.33
989 1014 3.799755 GGTCCATGCGCGTCCAAC 61.800 66.667 8.43 0.00 0.00 3.77
990 1015 3.620419 ATGGTCCATGCGCGTCCAA 62.620 57.895 12.05 0.00 0.00 3.53
991 1016 4.094646 ATGGTCCATGCGCGTCCA 62.095 61.111 8.43 10.61 0.00 4.02
1206 1231 1.671054 CGACCCAATGAACCGCTGT 60.671 57.895 0.00 0.00 0.00 4.40
1211 1236 2.750888 GCGAGCGACCCAATGAACC 61.751 63.158 0.00 0.00 0.00 3.62
1704 1729 0.037697 TCATGAACGAACCGGGACTG 60.038 55.000 6.32 0.00 0.00 3.51
1767 1792 1.961277 GGGCGCGTTAGGATCATGG 60.961 63.158 8.43 0.00 0.00 3.66
1770 1795 1.153449 CTTGGGCGCGTTAGGATCA 60.153 57.895 8.43 0.00 0.00 2.92
2034 2059 2.124570 ATGCCGATGCTGGTGTCC 60.125 61.111 0.00 0.00 38.71 4.02
2084 2109 1.747709 CTCTTCTTCCGTACCTCCGA 58.252 55.000 0.00 0.00 0.00 4.55
2286 2323 3.124128 GCACGATTGCGATATGATCATGT 59.876 43.478 18.72 11.93 39.50 3.21
2325 2362 3.623510 GGAAAAGACACCAGGATTCGATC 59.376 47.826 0.00 0.00 0.00 3.69
2332 2369 0.771127 CCCAGGAAAAGACACCAGGA 59.229 55.000 0.00 0.00 35.28 3.86
2333 2370 0.771127 TCCCAGGAAAAGACACCAGG 59.229 55.000 0.00 0.00 33.48 4.45
2334 2371 2.821969 CAATCCCAGGAAAAGACACCAG 59.178 50.000 0.00 0.00 0.00 4.00
2335 2372 2.490718 CCAATCCCAGGAAAAGACACCA 60.491 50.000 0.00 0.00 0.00 4.17
2336 2373 2.171003 CCAATCCCAGGAAAAGACACC 58.829 52.381 0.00 0.00 0.00 4.16
2337 2374 1.546029 GCCAATCCCAGGAAAAGACAC 59.454 52.381 0.00 0.00 0.00 3.67
2338 2375 1.428912 AGCCAATCCCAGGAAAAGACA 59.571 47.619 0.00 0.00 0.00 3.41
2339 2376 1.821136 CAGCCAATCCCAGGAAAAGAC 59.179 52.381 0.00 0.00 0.00 3.01
2340 2377 1.710244 TCAGCCAATCCCAGGAAAAGA 59.290 47.619 0.00 0.00 0.00 2.52
2341 2378 2.097825 CTCAGCCAATCCCAGGAAAAG 58.902 52.381 0.00 0.00 0.00 2.27
2342 2379 1.272648 CCTCAGCCAATCCCAGGAAAA 60.273 52.381 0.00 0.00 0.00 2.29
2343 2380 0.332632 CCTCAGCCAATCCCAGGAAA 59.667 55.000 0.00 0.00 0.00 3.13
2344 2381 2.001803 CCTCAGCCAATCCCAGGAA 58.998 57.895 0.00 0.00 0.00 3.36
2737 2782 1.888018 GCATGAGGCACAAGCACAT 59.112 52.632 7.26 0.00 44.61 3.21
2748 2793 1.202463 CCCTCGTAGAACAGCATGAGG 60.202 57.143 0.00 3.32 42.07 3.86
2752 2797 1.141881 CGCCCTCGTAGAACAGCAT 59.858 57.895 0.00 0.00 34.09 3.79
2767 2812 3.757248 ATCATTGCCCCTCGACGCC 62.757 63.158 0.00 0.00 0.00 5.68
2768 2813 2.203070 ATCATTGCCCCTCGACGC 60.203 61.111 0.00 0.00 0.00 5.19
2769 2814 1.595382 GGATCATTGCCCCTCGACG 60.595 63.158 0.00 0.00 0.00 5.12
2770 2815 0.533755 CAGGATCATTGCCCCTCGAC 60.534 60.000 0.00 0.00 0.00 4.20
2771 2816 1.832219 CAGGATCATTGCCCCTCGA 59.168 57.895 0.00 0.00 0.00 4.04
2801 2868 3.276857 CTGCACATGCTAGAATTGGAGT 58.723 45.455 5.31 0.00 42.66 3.85
2810 2877 0.450583 CAGTTGGCTGCACATGCTAG 59.549 55.000 5.31 2.58 42.66 3.42
2816 2883 1.071987 CTCTCCAGTTGGCTGCACA 59.928 57.895 0.50 0.00 41.26 4.57
2843 2910 7.281324 GCTGTTACTACTTCTACAGATGAGAGA 59.719 40.741 0.00 0.00 40.24 3.10
2851 2918 7.891183 ACAAATGCTGTTACTACTTCTACAG 57.109 36.000 0.00 0.00 40.65 2.74
2915 2986 5.741011 CCCTAACACTTTTAGGTGCATCTA 58.259 41.667 1.47 1.47 39.86 1.98
2916 2987 4.589908 CCCTAACACTTTTAGGTGCATCT 58.410 43.478 4.13 4.13 39.86 2.90
2917 2988 3.128764 GCCCTAACACTTTTAGGTGCATC 59.871 47.826 13.98 0.00 39.86 3.91
2918 2989 3.089284 GCCCTAACACTTTTAGGTGCAT 58.911 45.455 13.98 0.00 39.86 3.96
2919 2990 2.158593 TGCCCTAACACTTTTAGGTGCA 60.159 45.455 16.11 16.11 41.54 4.57
2920 2991 2.228103 GTGCCCTAACACTTTTAGGTGC 59.772 50.000 8.84 11.10 39.86 5.01
2921 2992 2.482721 CGTGCCCTAACACTTTTAGGTG 59.517 50.000 8.84 0.00 39.86 4.00
2922 2993 2.105306 ACGTGCCCTAACACTTTTAGGT 59.895 45.455 8.84 0.00 39.86 3.08
2923 2994 2.774687 ACGTGCCCTAACACTTTTAGG 58.225 47.619 3.43 3.43 40.89 2.69
2924 2995 4.309099 TGTACGTGCCCTAACACTTTTAG 58.691 43.478 0.00 0.00 38.45 1.85
2925 2996 4.333913 TGTACGTGCCCTAACACTTTTA 57.666 40.909 0.00 0.00 38.45 1.52
2926 2997 3.196939 TGTACGTGCCCTAACACTTTT 57.803 42.857 0.00 0.00 38.45 2.27
2927 2998 2.914695 TGTACGTGCCCTAACACTTT 57.085 45.000 0.00 0.00 38.45 2.66
2928 2999 2.914695 TTGTACGTGCCCTAACACTT 57.085 45.000 0.00 0.00 38.45 3.16
2929 3000 2.614481 CCATTGTACGTGCCCTAACACT 60.614 50.000 0.00 0.00 38.45 3.55
2930 3001 1.735571 CCATTGTACGTGCCCTAACAC 59.264 52.381 0.00 0.00 37.19 3.32
2931 3002 1.348366 ACCATTGTACGTGCCCTAACA 59.652 47.619 0.00 0.00 0.00 2.41
2932 3003 2.103537 ACCATTGTACGTGCCCTAAC 57.896 50.000 0.00 0.00 0.00 2.34
2933 3004 2.038689 TCAACCATTGTACGTGCCCTAA 59.961 45.455 0.00 0.00 0.00 2.69
2934 3005 1.624312 TCAACCATTGTACGTGCCCTA 59.376 47.619 0.00 0.00 0.00 3.53
2935 3006 0.398696 TCAACCATTGTACGTGCCCT 59.601 50.000 0.00 0.00 0.00 5.19
2936 3007 1.459450 ATCAACCATTGTACGTGCCC 58.541 50.000 0.00 0.00 0.00 5.36
2937 3008 3.936453 TCTTATCAACCATTGTACGTGCC 59.064 43.478 0.00 0.00 0.00 5.01
2938 3009 5.734855 ATCTTATCAACCATTGTACGTGC 57.265 39.130 0.00 0.00 0.00 5.34
2939 3010 7.921214 AGACTATCTTATCAACCATTGTACGTG 59.079 37.037 0.00 0.00 0.00 4.49
2940 3011 8.008513 AGACTATCTTATCAACCATTGTACGT 57.991 34.615 0.00 0.00 0.00 3.57
2941 3012 8.873215 AAGACTATCTTATCAACCATTGTACG 57.127 34.615 0.00 0.00 34.42 3.67
2957 3028 9.979578 CATGCAAGACTTAAGATAAGACTATCT 57.020 33.333 10.09 0.00 45.21 1.98
2958 3029 9.757227 ACATGCAAGACTTAAGATAAGACTATC 57.243 33.333 10.09 0.00 35.10 2.08
2961 3032 9.944376 TTTACATGCAAGACTTAAGATAAGACT 57.056 29.630 10.09 0.83 0.00 3.24
2966 3037 9.594478 TCGAATTTACATGCAAGACTTAAGATA 57.406 29.630 10.09 0.00 0.00 1.98
2967 3038 8.492673 TCGAATTTACATGCAAGACTTAAGAT 57.507 30.769 10.09 0.00 0.00 2.40
2968 3039 7.817478 TCTCGAATTTACATGCAAGACTTAAGA 59.183 33.333 10.09 0.00 0.00 2.10
2969 3040 7.963981 TCTCGAATTTACATGCAAGACTTAAG 58.036 34.615 0.00 0.00 0.00 1.85
2970 3041 7.899178 TCTCGAATTTACATGCAAGACTTAA 57.101 32.000 0.00 0.00 0.00 1.85
2971 3042 7.763985 TCATCTCGAATTTACATGCAAGACTTA 59.236 33.333 0.00 0.00 0.00 2.24
2972 3043 6.595326 TCATCTCGAATTTACATGCAAGACTT 59.405 34.615 0.00 0.00 0.00 3.01
2973 3044 6.036517 GTCATCTCGAATTTACATGCAAGACT 59.963 38.462 0.00 0.00 0.00 3.24
2974 3045 6.183360 TGTCATCTCGAATTTACATGCAAGAC 60.183 38.462 0.00 0.00 0.00 3.01
2975 3046 5.874261 TGTCATCTCGAATTTACATGCAAGA 59.126 36.000 0.00 0.00 0.00 3.02
2976 3047 6.110543 TGTCATCTCGAATTTACATGCAAG 57.889 37.500 0.00 0.00 0.00 4.01
2977 3048 6.493449 TTGTCATCTCGAATTTACATGCAA 57.507 33.333 0.00 0.00 0.00 4.08
2978 3049 6.493449 TTTGTCATCTCGAATTTACATGCA 57.507 33.333 0.00 0.00 0.00 3.96
2979 3050 7.795431 TTTTTGTCATCTCGAATTTACATGC 57.205 32.000 0.00 0.00 0.00 4.06
3001 3072 8.650143 AAATGACCCATAGTAGACATGTTTTT 57.350 30.769 0.00 0.00 0.00 1.94
3002 3073 8.650143 AAAATGACCCATAGTAGACATGTTTT 57.350 30.769 0.00 0.00 0.00 2.43
3003 3074 8.650143 AAAAATGACCCATAGTAGACATGTTT 57.350 30.769 0.00 0.00 0.00 2.83
3045 3116 8.919145 TCACCATGTTTTTAGGAACAACTAATT 58.081 29.630 0.00 0.00 42.29 1.40
3046 3117 8.472007 TCACCATGTTTTTAGGAACAACTAAT 57.528 30.769 0.00 0.00 42.29 1.73
3047 3118 7.776030 TCTCACCATGTTTTTAGGAACAACTAA 59.224 33.333 0.00 0.00 42.29 2.24
3048 3119 7.227910 GTCTCACCATGTTTTTAGGAACAACTA 59.772 37.037 0.00 0.00 42.29 2.24
3049 3120 6.039382 GTCTCACCATGTTTTTAGGAACAACT 59.961 38.462 0.00 0.00 42.29 3.16
3050 3121 6.183360 TGTCTCACCATGTTTTTAGGAACAAC 60.183 38.462 0.00 0.00 42.29 3.32
3051 3122 5.888724 TGTCTCACCATGTTTTTAGGAACAA 59.111 36.000 0.00 0.00 42.29 2.83
3052 3123 5.441500 TGTCTCACCATGTTTTTAGGAACA 58.558 37.500 0.00 0.00 43.08 3.18
3053 3124 6.385649 TTGTCTCACCATGTTTTTAGGAAC 57.614 37.500 0.00 0.00 0.00 3.62
3054 3125 7.595819 ATTTGTCTCACCATGTTTTTAGGAA 57.404 32.000 0.00 0.00 0.00 3.36
3055 3126 7.595819 AATTTGTCTCACCATGTTTTTAGGA 57.404 32.000 0.00 0.00 0.00 2.94
3063 3134 9.823647 CTCTTAGTATAATTTGTCTCACCATGT 57.176 33.333 0.00 0.00 0.00 3.21
3103 3174 9.574516 AGGCTTGTCTTTTCTTATTTAAGAGAA 57.425 29.630 0.71 2.51 42.66 2.87
3104 3175 9.574516 AAGGCTTGTCTTTTCTTATTTAAGAGA 57.425 29.630 0.00 0.00 42.66 3.10
3112 3183 9.099454 CGTAAGATAAGGCTTGTCTTTTCTTAT 57.901 33.333 34.20 17.49 42.88 1.73
3113 3184 8.308931 TCGTAAGATAAGGCTTGTCTTTTCTTA 58.691 33.333 34.20 19.22 45.01 2.10
3114 3185 7.159372 TCGTAAGATAAGGCTTGTCTTTTCTT 58.841 34.615 34.20 18.69 45.01 2.52
3115 3186 6.698380 TCGTAAGATAAGGCTTGTCTTTTCT 58.302 36.000 34.20 19.00 45.01 2.52
3116 3187 6.963049 TCGTAAGATAAGGCTTGTCTTTTC 57.037 37.500 34.20 26.35 45.01 2.29
3133 3204 4.434520 GTGGGGAAGAGAGAAATCGTAAG 58.565 47.826 0.00 0.00 0.00 2.34
3134 3205 3.197116 GGTGGGGAAGAGAGAAATCGTAA 59.803 47.826 0.00 0.00 0.00 3.18
3135 3206 2.764572 GGTGGGGAAGAGAGAAATCGTA 59.235 50.000 0.00 0.00 0.00 3.43
3136 3207 1.555533 GGTGGGGAAGAGAGAAATCGT 59.444 52.381 0.00 0.00 0.00 3.73
3137 3208 1.834263 AGGTGGGGAAGAGAGAAATCG 59.166 52.381 0.00 0.00 0.00 3.34
3138 3209 2.840651 TGAGGTGGGGAAGAGAGAAATC 59.159 50.000 0.00 0.00 0.00 2.17
3139 3210 2.921221 TGAGGTGGGGAAGAGAGAAAT 58.079 47.619 0.00 0.00 0.00 2.17
3140 3211 2.415983 TGAGGTGGGGAAGAGAGAAA 57.584 50.000 0.00 0.00 0.00 2.52
3141 3212 2.225624 TGATGAGGTGGGGAAGAGAGAA 60.226 50.000 0.00 0.00 0.00 2.87
3142 3213 1.362584 TGATGAGGTGGGGAAGAGAGA 59.637 52.381 0.00 0.00 0.00 3.10
3143 3214 1.871418 TGATGAGGTGGGGAAGAGAG 58.129 55.000 0.00 0.00 0.00 3.20
3144 3215 2.575921 ATGATGAGGTGGGGAAGAGA 57.424 50.000 0.00 0.00 0.00 3.10
3145 3216 3.659183 AAATGATGAGGTGGGGAAGAG 57.341 47.619 0.00 0.00 0.00 2.85
3146 3217 4.104738 GGATAAATGATGAGGTGGGGAAGA 59.895 45.833 0.00 0.00 0.00 2.87
3147 3218 4.105377 AGGATAAATGATGAGGTGGGGAAG 59.895 45.833 0.00 0.00 0.00 3.46
3148 3219 4.054369 AGGATAAATGATGAGGTGGGGAA 58.946 43.478 0.00 0.00 0.00 3.97
3149 3220 3.680169 AGGATAAATGATGAGGTGGGGA 58.320 45.455 0.00 0.00 0.00 4.81
3150 3221 4.563580 CGTAGGATAAATGATGAGGTGGGG 60.564 50.000 0.00 0.00 0.00 4.96
3151 3222 4.040461 ACGTAGGATAAATGATGAGGTGGG 59.960 45.833 0.00 0.00 0.00 4.61
3152 3223 4.991056 CACGTAGGATAAATGATGAGGTGG 59.009 45.833 0.00 0.00 0.00 4.61
3153 3224 5.692204 GTCACGTAGGATAAATGATGAGGTG 59.308 44.000 0.00 0.00 0.00 4.00
3154 3225 5.362717 TGTCACGTAGGATAAATGATGAGGT 59.637 40.000 0.00 0.00 0.00 3.85
3155 3226 5.692204 GTGTCACGTAGGATAAATGATGAGG 59.308 44.000 0.00 0.00 0.00 3.86
3156 3227 6.507900 AGTGTCACGTAGGATAAATGATGAG 58.492 40.000 0.00 0.00 0.00 2.90
3157 3228 6.321435 AGAGTGTCACGTAGGATAAATGATGA 59.679 38.462 0.00 0.00 0.00 2.92
3158 3229 6.507900 AGAGTGTCACGTAGGATAAATGATG 58.492 40.000 0.00 0.00 0.00 3.07
3159 3230 6.716934 AGAGTGTCACGTAGGATAAATGAT 57.283 37.500 0.00 0.00 0.00 2.45
3160 3231 6.525578 AAGAGTGTCACGTAGGATAAATGA 57.474 37.500 0.00 0.00 0.00 2.57
3161 3232 8.188799 TCTTAAGAGTGTCACGTAGGATAAATG 58.811 37.037 0.00 0.00 0.00 2.32
3162 3233 8.289939 TCTTAAGAGTGTCACGTAGGATAAAT 57.710 34.615 0.00 0.00 0.00 1.40
3163 3234 7.692460 TCTTAAGAGTGTCACGTAGGATAAA 57.308 36.000 0.00 0.00 0.00 1.40
3164 3235 7.876936 ATCTTAAGAGTGTCACGTAGGATAA 57.123 36.000 11.53 0.00 0.00 1.75
3165 3236 8.427276 TCTATCTTAAGAGTGTCACGTAGGATA 58.573 37.037 11.53 6.66 0.00 2.59
3166 3237 7.281098 TCTATCTTAAGAGTGTCACGTAGGAT 58.719 38.462 11.53 5.94 0.00 3.24
3167 3238 6.647229 TCTATCTTAAGAGTGTCACGTAGGA 58.353 40.000 11.53 0.00 0.00 2.94
3168 3239 6.922247 TCTATCTTAAGAGTGTCACGTAGG 57.078 41.667 11.53 0.00 0.00 3.18
3169 3240 7.148289 TGGTTCTATCTTAAGAGTGTCACGTAG 60.148 40.741 11.53 5.39 0.00 3.51
3170 3241 6.656270 TGGTTCTATCTTAAGAGTGTCACGTA 59.344 38.462 11.53 0.00 0.00 3.57
3171 3242 5.475909 TGGTTCTATCTTAAGAGTGTCACGT 59.524 40.000 11.53 0.00 0.00 4.49
3172 3243 5.950883 TGGTTCTATCTTAAGAGTGTCACG 58.049 41.667 11.53 0.00 0.00 4.35
3173 3244 7.819900 ACAATGGTTCTATCTTAAGAGTGTCAC 59.180 37.037 11.53 0.00 0.00 3.67
3174 3245 7.907389 ACAATGGTTCTATCTTAAGAGTGTCA 58.093 34.615 11.53 5.15 0.00 3.58
3175 3246 9.303537 GTACAATGGTTCTATCTTAAGAGTGTC 57.696 37.037 11.53 0.89 0.00 3.67
3176 3247 8.812972 TGTACAATGGTTCTATCTTAAGAGTGT 58.187 33.333 11.53 3.43 0.00 3.55
3177 3248 9.823647 ATGTACAATGGTTCTATCTTAAGAGTG 57.176 33.333 11.53 6.28 0.00 3.51
3182 3253 9.952030 TCACAATGTACAATGGTTCTATCTTAA 57.048 29.630 15.20 0.00 0.00 1.85
3184 3255 9.113838 GATCACAATGTACAATGGTTCTATCTT 57.886 33.333 15.20 0.00 0.00 2.40
3185 3256 7.439356 CGATCACAATGTACAATGGTTCTATCT 59.561 37.037 15.20 0.00 0.00 1.98
3186 3257 7.567571 CGATCACAATGTACAATGGTTCTATC 58.432 38.462 15.20 8.76 0.00 2.08
3187 3258 6.017934 GCGATCACAATGTACAATGGTTCTAT 60.018 38.462 15.20 1.56 0.00 1.98
3188 3259 5.293324 GCGATCACAATGTACAATGGTTCTA 59.707 40.000 15.20 0.00 0.00 2.10
3189 3260 4.094887 GCGATCACAATGTACAATGGTTCT 59.905 41.667 15.20 0.00 0.00 3.01
3190 3261 4.342772 GCGATCACAATGTACAATGGTTC 58.657 43.478 15.20 7.66 0.00 3.62
3191 3262 3.181511 CGCGATCACAATGTACAATGGTT 60.182 43.478 15.20 0.00 0.00 3.67
3192 3263 2.351418 CGCGATCACAATGTACAATGGT 59.649 45.455 15.20 3.40 0.00 3.55
3193 3264 2.607180 TCGCGATCACAATGTACAATGG 59.393 45.455 15.20 4.74 0.00 3.16
3194 3265 3.842439 GCTCGCGATCACAATGTACAATG 60.842 47.826 10.36 9.42 0.00 2.82
3195 3266 2.285220 GCTCGCGATCACAATGTACAAT 59.715 45.455 10.36 0.00 0.00 2.71
3196 3267 1.658596 GCTCGCGATCACAATGTACAA 59.341 47.619 10.36 0.00 0.00 2.41
3197 3268 1.277326 GCTCGCGATCACAATGTACA 58.723 50.000 10.36 0.00 0.00 2.90
3198 3269 1.256376 CTGCTCGCGATCACAATGTAC 59.744 52.381 10.36 0.00 0.00 2.90
3199 3270 1.559831 CTGCTCGCGATCACAATGTA 58.440 50.000 10.36 0.00 0.00 2.29
3200 3271 1.699656 GCTGCTCGCGATCACAATGT 61.700 55.000 10.36 0.00 0.00 2.71
3201 3272 1.011463 GCTGCTCGCGATCACAATG 60.011 57.895 10.36 0.23 0.00 2.82
3202 3273 1.426816 CTGCTGCTCGCGATCACAAT 61.427 55.000 10.36 0.00 43.27 2.71
3203 3274 2.048316 TGCTGCTCGCGATCACAA 60.048 55.556 10.36 0.00 43.27 3.33
3204 3275 2.507769 CTGCTGCTCGCGATCACA 60.508 61.111 10.36 11.69 43.27 3.58
3205 3276 2.507992 ACTGCTGCTCGCGATCAC 60.508 61.111 10.36 7.40 43.27 3.06
3206 3277 2.288788 ATCACTGCTGCTCGCGATCA 62.289 55.000 10.36 11.67 43.27 2.92
3207 3278 1.547292 GATCACTGCTGCTCGCGATC 61.547 60.000 10.36 6.00 43.27 3.69
3208 3279 1.591059 GATCACTGCTGCTCGCGAT 60.591 57.895 10.36 0.00 43.27 4.58
3209 3280 2.202663 GATCACTGCTGCTCGCGA 60.203 61.111 9.26 9.26 43.27 5.87
3210 3281 1.808799 AAGATCACTGCTGCTCGCG 60.809 57.895 0.00 0.00 43.27 5.87
3211 3282 1.018226 ACAAGATCACTGCTGCTCGC 61.018 55.000 0.00 0.00 39.77 5.03
3212 3283 1.436600 AACAAGATCACTGCTGCTCG 58.563 50.000 0.00 0.00 0.00 5.03
3213 3284 4.186926 TGATAACAAGATCACTGCTGCTC 58.813 43.478 0.00 0.00 30.75 4.26
3214 3285 4.190001 CTGATAACAAGATCACTGCTGCT 58.810 43.478 0.00 0.00 32.39 4.24
3215 3286 3.937706 ACTGATAACAAGATCACTGCTGC 59.062 43.478 0.00 0.00 32.39 5.25
3216 3287 5.521735 GGTACTGATAACAAGATCACTGCTG 59.478 44.000 0.00 0.00 32.39 4.41
3217 3288 5.665459 GGTACTGATAACAAGATCACTGCT 58.335 41.667 0.00 0.00 32.39 4.24
3218 3289 4.504461 CGGTACTGATAACAAGATCACTGC 59.496 45.833 0.00 0.00 32.39 4.40
3219 3290 4.504461 GCGGTACTGATAACAAGATCACTG 59.496 45.833 5.68 0.00 32.39 3.66
3220 3291 4.441634 GGCGGTACTGATAACAAGATCACT 60.442 45.833 5.68 0.00 32.39 3.41
3221 3292 3.802685 GGCGGTACTGATAACAAGATCAC 59.197 47.826 5.68 0.00 32.39 3.06
3222 3293 3.449377 TGGCGGTACTGATAACAAGATCA 59.551 43.478 5.68 0.00 34.64 2.92
3223 3294 4.054780 TGGCGGTACTGATAACAAGATC 57.945 45.455 5.68 0.00 0.00 2.75
3224 3295 4.081087 ACTTGGCGGTACTGATAACAAGAT 60.081 41.667 23.60 12.53 37.75 2.40
3225 3296 3.259876 ACTTGGCGGTACTGATAACAAGA 59.740 43.478 23.60 0.76 37.75 3.02
3226 3297 3.596214 ACTTGGCGGTACTGATAACAAG 58.404 45.455 18.87 18.87 39.60 3.16
3227 3298 3.688694 ACTTGGCGGTACTGATAACAA 57.311 42.857 5.68 3.90 0.00 2.83
3228 3299 3.592059 GAACTTGGCGGTACTGATAACA 58.408 45.455 5.68 0.00 0.00 2.41
3229 3300 2.601763 CGAACTTGGCGGTACTGATAAC 59.398 50.000 5.68 0.00 0.00 1.89
3230 3301 2.883574 CGAACTTGGCGGTACTGATAA 58.116 47.619 5.68 0.00 0.00 1.75
3231 3302 1.470285 GCGAACTTGGCGGTACTGATA 60.470 52.381 5.68 0.00 0.00 2.15
3232 3303 0.739813 GCGAACTTGGCGGTACTGAT 60.740 55.000 5.68 0.00 0.00 2.90
3233 3304 1.373748 GCGAACTTGGCGGTACTGA 60.374 57.895 5.68 0.00 0.00 3.41
3234 3305 1.352156 GAGCGAACTTGGCGGTACTG 61.352 60.000 0.00 0.00 39.81 2.74
3235 3306 1.080025 GAGCGAACTTGGCGGTACT 60.080 57.895 0.00 0.00 39.81 2.73
3236 3307 3.471399 GAGCGAACTTGGCGGTAC 58.529 61.111 0.00 0.00 39.81 3.34


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

AutoCloner maintained by Alex Coulton.