Multiple sequence alignment - TraesCS6B01G405300

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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 TraesCS6B01G405300 chr6B 100.000 3242 0 0 1 3242 680645590 680648831 0.000000e+00 5987
1 TraesCS6B01G405300 chr6B 98.951 286 3 0 2957 3242 654751612 654751897 2.230000e-141 512
2 TraesCS6B01G405300 chr6B 97.651 298 4 2 2948 3242 686204611 686204908 2.890000e-140 508
3 TraesCS6B01G405300 chr2B 91.695 2685 179 29 284 2957 281422860 281420209 0.000000e+00 3683
4 TraesCS6B01G405300 chr2B 98.299 294 5 0 2949 3242 564948756 564949049 1.720000e-142 516
5 TraesCS6B01G405300 chr3B 91.037 2566 202 21 402 2957 74831106 74828559 0.000000e+00 3439
6 TraesCS6B01G405300 chr3B 87.273 2695 293 44 286 2957 295072654 295069987 0.000000e+00 3031
7 TraesCS6B01G405300 chr3B 97.627 295 5 1 2948 3242 593980135 593979843 3.730000e-139 505
8 TraesCS6B01G405300 chr3B 84.928 418 44 15 139 549 289854249 289854654 3.890000e-109 405
9 TraesCS6B01G405300 chr3B 95.833 216 9 0 317 532 71913036 71913251 1.850000e-92 350
10 TraesCS6B01G405300 chr1B 89.558 2691 234 33 286 2957 556073304 556070642 0.000000e+00 3369
11 TraesCS6B01G405300 chr1B 88.572 2704 265 33 271 2957 465588551 465585875 0.000000e+00 3241
12 TraesCS6B01G405300 chr1B 88.801 2518 251 27 453 2957 566778050 566775551 0.000000e+00 3059
13 TraesCS6B01G405300 chr7B 89.279 2705 247 31 271 2957 363002176 363004855 0.000000e+00 3349
14 TraesCS6B01G405300 chr7B 97.619 294 7 0 2949 3242 451687086 451687379 3.730000e-139 505
15 TraesCS6B01G405300 chr7B 96.091 307 11 1 2937 3242 650438613 650438307 1.740000e-137 499
16 TraesCS6B01G405300 chr7B 95.765 307 12 1 2937 3242 650396634 650396328 8.080000e-136 494
17 TraesCS6B01G405300 chr5B 88.804 2751 259 32 223 2957 370325083 370322366 0.000000e+00 3328
18 TraesCS6B01G405300 chr4B 88.338 2744 279 28 230 2957 569591515 569594233 0.000000e+00 3256
19 TraesCS6B01G405300 chr4B 96.739 552 14 1 1 552 412841319 412840772 0.000000e+00 917
20 TraesCS6B01G405300 chr4B 98.264 288 5 0 2955 3242 79709719 79709432 3.730000e-139 505
21 TraesCS6B01G405300 chrUn 98.621 290 4 0 2953 3242 124255065 124255354 6.200000e-142 514


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 TraesCS6B01G405300 chr6B 680645590 680648831 3241 False 5987 5987 100.000 1 3242 1 chr6B.!!$F2 3241
1 TraesCS6B01G405300 chr2B 281420209 281422860 2651 True 3683 3683 91.695 284 2957 1 chr2B.!!$R1 2673
2 TraesCS6B01G405300 chr3B 74828559 74831106 2547 True 3439 3439 91.037 402 2957 1 chr3B.!!$R1 2555
3 TraesCS6B01G405300 chr3B 295069987 295072654 2667 True 3031 3031 87.273 286 2957 1 chr3B.!!$R2 2671
4 TraesCS6B01G405300 chr1B 556070642 556073304 2662 True 3369 3369 89.558 286 2957 1 chr1B.!!$R2 2671
5 TraesCS6B01G405300 chr1B 465585875 465588551 2676 True 3241 3241 88.572 271 2957 1 chr1B.!!$R1 2686
6 TraesCS6B01G405300 chr1B 566775551 566778050 2499 True 3059 3059 88.801 453 2957 1 chr1B.!!$R3 2504
7 TraesCS6B01G405300 chr7B 363002176 363004855 2679 False 3349 3349 89.279 271 2957 1 chr7B.!!$F1 2686
8 TraesCS6B01G405300 chr5B 370322366 370325083 2717 True 3328 3328 88.804 223 2957 1 chr5B.!!$R1 2734
9 TraesCS6B01G405300 chr4B 569591515 569594233 2718 False 3256 3256 88.338 230 2957 1 chr4B.!!$F1 2727
10 TraesCS6B01G405300 chr4B 412840772 412841319 547 True 917 917 96.739 1 552 1 chr4B.!!$R2 551

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
953 970 0.753111 GGATTTCAGGGCCATTCGCT 60.753 55.0 6.18 0.0 38.67 4.93 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2746 2786 1.343142 ACGTCTGGTTCACATGCTACA 59.657 47.619 0.0 0.0 0.0 2.74 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
53 54 5.625311 GGCTTGTAAGATTTCGTTTCTGTTG 59.375 40.000 0.00 0.00 0.00 3.33
72 73 4.393680 TGTTGTCACTTGTGTAACCTGAAC 59.606 41.667 15.16 0.00 34.36 3.18
108 109 3.491356 CTGTTCGCATATGTGTGGTTTG 58.509 45.455 15.62 0.47 36.50 2.93
110 111 0.808125 TCGCATATGTGTGGTTTGGC 59.192 50.000 15.62 0.00 36.50 4.52
158 159 9.040259 AGCTATGTACCTGTGATATATGAATGT 57.960 33.333 0.00 0.00 0.00 2.71
159 160 9.091784 GCTATGTACCTGTGATATATGAATGTG 57.908 37.037 0.00 0.00 0.00 3.21
160 161 7.912056 ATGTACCTGTGATATATGAATGTGC 57.088 36.000 0.00 0.00 0.00 4.57
161 162 5.925969 TGTACCTGTGATATATGAATGTGCG 59.074 40.000 0.00 0.00 0.00 5.34
181 182 2.285892 CGTGCGTGTGTGTGTTTGATTA 60.286 45.455 0.00 0.00 0.00 1.75
539 550 1.069296 GCGTAAAAACCCCGTTGTACC 60.069 52.381 0.00 0.00 0.00 3.34
608 619 5.046288 ACCGTGTTAGGCTATAGACTAGT 57.954 43.478 15.00 6.99 36.91 2.57
741 758 4.221703 ACCATCTTCTCGGATATGGCTTAG 59.778 45.833 0.00 0.00 42.21 2.18
864 881 3.364068 GGCAGCGAGAAGTAGTTTTTGAC 60.364 47.826 0.00 0.00 0.00 3.18
890 907 3.582208 AGGCCTAGCTCTTATGATCCTTG 59.418 47.826 1.29 0.00 0.00 3.61
953 970 0.753111 GGATTTCAGGGCCATTCGCT 60.753 55.000 6.18 0.00 38.67 4.93
1153 1171 5.071115 GGATTTAGGTACAATGAGGAGAGCT 59.929 44.000 0.00 0.00 0.00 4.09
1432 1450 4.588951 TCAAGAGTGGAAAAGAGCTAGTGA 59.411 41.667 0.00 0.00 0.00 3.41
1592 1610 2.029470 GCCCAGATGAAGAGATACCTCG 60.029 54.545 0.00 0.00 44.08 4.63
1659 1683 3.507233 TCAAATGCCCAAGTGATCAAGTC 59.493 43.478 0.00 0.00 0.00 3.01
1997 2021 4.514441 CCATGCTAGTCTTGAGCTTAATGG 59.486 45.833 0.00 0.00 40.76 3.16
2141 2165 5.104374 CACTTGCATTGTCTCTTTTGTTGT 58.896 37.500 0.00 0.00 0.00 3.32
2151 2175 5.048083 TGTCTCTTTTGTTGTGAGTGCTTTT 60.048 36.000 0.00 0.00 0.00 2.27
2231 2255 1.273098 GGACCCTGGTGGACTTAGAGA 60.273 57.143 0.00 0.00 38.00 3.10
2434 2468 7.879160 ACATGCTGAAATCAAATGTTATTTGGT 59.121 29.630 12.72 4.63 32.51 3.67
2511 2550 4.272018 GCTTGATGAGAATATGCGAACTGT 59.728 41.667 0.00 0.00 0.00 3.55
2566 2605 6.428771 ACATATTGCTTGCTTTGCTGAAATTT 59.571 30.769 0.00 0.00 0.00 1.82
2746 2786 2.224719 GCATGCTATGTTCCCTGGATCT 60.225 50.000 11.37 0.00 0.00 2.75
2765 2805 1.995484 CTGTAGCATGTGAACCAGACG 59.005 52.381 0.00 0.00 0.00 4.18
2892 2939 2.016318 GATCGGTGGCATGTGAAATCA 58.984 47.619 0.00 0.00 0.00 2.57
2917 2964 6.998673 AGGTTAGCTTGGGCAGTAATTAATAG 59.001 38.462 0.00 0.00 41.70 1.73
2963 3010 3.753294 GGTGTATACCATGTGAGGGAG 57.247 52.381 3.35 0.00 46.71 4.30
2964 3011 3.039011 GGTGTATACCATGTGAGGGAGT 58.961 50.000 3.35 0.00 46.71 3.85
2965 3012 3.454812 GGTGTATACCATGTGAGGGAGTT 59.545 47.826 3.35 0.00 46.71 3.01
2966 3013 4.443034 GGTGTATACCATGTGAGGGAGTTC 60.443 50.000 3.35 0.00 46.71 3.01
2967 3014 3.709653 TGTATACCATGTGAGGGAGTTCC 59.290 47.826 0.00 0.00 0.00 3.62
2968 3015 1.191535 TACCATGTGAGGGAGTTCCG 58.808 55.000 0.00 0.00 41.52 4.30
2969 3016 1.221840 CCATGTGAGGGAGTTCCGG 59.778 63.158 0.00 0.00 41.52 5.14
2970 3017 1.264749 CCATGTGAGGGAGTTCCGGA 61.265 60.000 0.00 0.00 41.52 5.14
2971 3018 0.108138 CATGTGAGGGAGTTCCGGAC 60.108 60.000 1.83 0.00 41.52 4.79
2972 3019 0.252284 ATGTGAGGGAGTTCCGGACT 60.252 55.000 1.83 4.69 42.70 3.85
2973 3020 0.406750 TGTGAGGGAGTTCCGGACTA 59.593 55.000 1.83 0.00 39.19 2.59
2974 3021 1.104630 GTGAGGGAGTTCCGGACTAG 58.895 60.000 1.83 0.00 39.19 2.57
2975 3022 0.033405 TGAGGGAGTTCCGGACTAGG 60.033 60.000 1.83 0.00 39.19 3.02
2976 3023 0.756070 GAGGGAGTTCCGGACTAGGG 60.756 65.000 1.83 0.00 39.19 3.53
2977 3024 1.761271 GGGAGTTCCGGACTAGGGG 60.761 68.421 1.83 0.00 39.19 4.79
2978 3025 1.761271 GGAGTTCCGGACTAGGGGG 60.761 68.421 1.83 0.00 39.19 5.40
2979 3026 1.001376 GAGTTCCGGACTAGGGGGT 59.999 63.158 1.83 0.00 39.19 4.95
2980 3027 1.305887 AGTTCCGGACTAGGGGGTG 60.306 63.158 1.83 0.00 36.65 4.61
2981 3028 1.611556 GTTCCGGACTAGGGGGTGT 60.612 63.158 1.83 0.00 0.00 4.16
2982 3029 1.305549 TTCCGGACTAGGGGGTGTC 60.306 63.158 1.83 0.00 0.00 3.67
2983 3030 2.762875 CCGGACTAGGGGGTGTCC 60.763 72.222 0.00 0.00 46.69 4.02
2985 3032 2.762875 GGACTAGGGGGTGTCCGG 60.763 72.222 0.00 0.00 42.51 5.14
2986 3033 2.361771 GACTAGGGGGTGTCCGGA 59.638 66.667 0.00 0.00 36.01 5.14
2987 3034 1.075450 GACTAGGGGGTGTCCGGAT 60.075 63.158 7.81 0.00 36.01 4.18
2988 3035 0.186873 GACTAGGGGGTGTCCGGATA 59.813 60.000 7.81 0.10 36.01 2.59
2989 3036 0.187851 ACTAGGGGGTGTCCGGATAG 59.812 60.000 7.81 5.89 36.01 2.08
2990 3037 1.152398 TAGGGGGTGTCCGGATAGC 60.152 63.158 20.91 20.91 36.01 2.97
2991 3038 2.668106 TAGGGGGTGTCCGGATAGCC 62.668 65.000 34.24 34.24 39.05 3.93
3009 3056 1.714794 CCGAACTATCATCATCGGCC 58.285 55.000 0.00 0.00 46.97 6.13
3010 3057 1.340658 CGAACTATCATCATCGGCCG 58.659 55.000 22.12 22.12 0.00 6.13
3011 3058 1.714794 GAACTATCATCATCGGCCGG 58.285 55.000 27.83 10.69 0.00 6.13
3012 3059 1.272490 GAACTATCATCATCGGCCGGA 59.728 52.381 27.83 16.64 0.00 5.14
3013 3060 0.603569 ACTATCATCATCGGCCGGAC 59.396 55.000 27.83 0.00 0.00 4.79
3014 3061 0.891373 CTATCATCATCGGCCGGACT 59.109 55.000 27.83 7.73 0.00 3.85
3015 3062 0.888619 TATCATCATCGGCCGGACTC 59.111 55.000 27.83 0.00 0.00 3.36
3016 3063 1.821061 ATCATCATCGGCCGGACTCC 61.821 60.000 27.83 0.00 0.00 3.85
3017 3064 2.443952 ATCATCGGCCGGACTCCA 60.444 61.111 27.83 4.46 0.00 3.86
3018 3065 2.063979 ATCATCGGCCGGACTCCAA 61.064 57.895 27.83 3.54 0.00 3.53
3019 3066 2.032860 ATCATCGGCCGGACTCCAAG 62.033 60.000 27.83 0.99 0.00 3.61
3020 3067 2.363795 ATCGGCCGGACTCCAAGA 60.364 61.111 27.83 1.69 0.00 3.02
3021 3068 2.722201 ATCGGCCGGACTCCAAGAC 61.722 63.158 27.83 0.00 0.00 3.01
3022 3069 3.382832 CGGCCGGACTCCAAGACT 61.383 66.667 20.10 0.00 0.00 3.24
3023 3070 2.050350 CGGCCGGACTCCAAGACTA 61.050 63.158 20.10 0.00 0.00 2.59
3024 3071 1.392710 CGGCCGGACTCCAAGACTAT 61.393 60.000 20.10 0.00 0.00 2.12
3025 3072 0.105039 GGCCGGACTCCAAGACTATG 59.895 60.000 5.05 0.00 0.00 2.23
3026 3073 1.112113 GCCGGACTCCAAGACTATGA 58.888 55.000 5.05 0.00 0.00 2.15
3027 3074 1.480954 GCCGGACTCCAAGACTATGAA 59.519 52.381 5.05 0.00 0.00 2.57
3028 3075 2.482142 GCCGGACTCCAAGACTATGAAG 60.482 54.545 5.05 0.00 0.00 3.02
3029 3076 3.024547 CCGGACTCCAAGACTATGAAGA 58.975 50.000 0.00 0.00 0.00 2.87
3030 3077 3.639094 CCGGACTCCAAGACTATGAAGAT 59.361 47.826 0.00 0.00 0.00 2.40
3031 3078 4.827835 CCGGACTCCAAGACTATGAAGATA 59.172 45.833 0.00 0.00 0.00 1.98
3032 3079 5.278561 CCGGACTCCAAGACTATGAAGATAC 60.279 48.000 0.00 0.00 0.00 2.24
3033 3080 5.299531 CGGACTCCAAGACTATGAAGATACA 59.700 44.000 0.00 0.00 0.00 2.29
3034 3081 6.183360 CGGACTCCAAGACTATGAAGATACAA 60.183 42.308 0.00 0.00 0.00 2.41
3035 3082 7.206687 GGACTCCAAGACTATGAAGATACAAG 58.793 42.308 0.00 0.00 0.00 3.16
3036 3083 7.068839 GGACTCCAAGACTATGAAGATACAAGA 59.931 40.741 0.00 0.00 0.00 3.02
3037 3084 8.546083 ACTCCAAGACTATGAAGATACAAGAT 57.454 34.615 0.00 0.00 0.00 2.40
3038 3085 8.986991 ACTCCAAGACTATGAAGATACAAGATT 58.013 33.333 0.00 0.00 0.00 2.40
3039 3086 9.258826 CTCCAAGACTATGAAGATACAAGATTG 57.741 37.037 0.00 0.00 0.00 2.67
3040 3087 8.981659 TCCAAGACTATGAAGATACAAGATTGA 58.018 33.333 0.00 0.00 0.00 2.57
3041 3088 9.605275 CCAAGACTATGAAGATACAAGATTGAA 57.395 33.333 0.00 0.00 0.00 2.69
3048 3095 7.818493 TGAAGATACAAGATTGAAGACTTCG 57.182 36.000 10.56 0.00 34.37 3.79
3049 3096 7.378966 TGAAGATACAAGATTGAAGACTTCGT 58.621 34.615 10.56 1.87 34.37 3.85
3050 3097 7.542477 TGAAGATACAAGATTGAAGACTTCGTC 59.458 37.037 10.56 10.67 34.37 4.20
3051 3098 6.334202 AGATACAAGATTGAAGACTTCGTCC 58.666 40.000 10.56 2.18 32.18 4.79
3052 3099 3.665190 ACAAGATTGAAGACTTCGTCCC 58.335 45.455 10.56 0.53 32.18 4.46
3053 3100 2.656560 AGATTGAAGACTTCGTCCCG 57.343 50.000 10.56 0.00 32.18 5.14
3054 3101 1.893801 AGATTGAAGACTTCGTCCCGT 59.106 47.619 10.56 0.00 32.18 5.28
3055 3102 1.993370 GATTGAAGACTTCGTCCCGTG 59.007 52.381 10.56 0.00 32.18 4.94
3056 3103 0.748450 TTGAAGACTTCGTCCCGTGT 59.252 50.000 10.56 0.00 32.18 4.49
3057 3104 0.313043 TGAAGACTTCGTCCCGTGTC 59.687 55.000 10.56 0.00 32.18 3.67
3058 3105 0.388263 GAAGACTTCGTCCCGTGTCC 60.388 60.000 0.00 0.00 34.39 4.02
3059 3106 2.126580 GACTTCGTCCCGTGTCCG 60.127 66.667 0.00 0.00 0.00 4.79
3073 3120 4.910613 TCCGGATGGGACTTTCCT 57.089 55.556 0.00 0.00 40.94 3.36
3074 3121 3.098445 TCCGGATGGGACTTTCCTT 57.902 52.632 0.00 0.00 40.94 3.36
3075 3122 0.618458 TCCGGATGGGACTTTCCTTG 59.382 55.000 0.00 0.00 40.94 3.61
3076 3123 0.394352 CCGGATGGGACTTTCCTTGG 60.394 60.000 0.00 0.00 38.47 3.61
3077 3124 0.328258 CGGATGGGACTTTCCTTGGT 59.672 55.000 0.00 0.00 36.57 3.67
3078 3125 1.839424 GGATGGGACTTTCCTTGGTG 58.161 55.000 0.00 0.00 36.57 4.17
3079 3126 1.075536 GGATGGGACTTTCCTTGGTGT 59.924 52.381 0.00 0.00 36.57 4.16
3080 3127 2.162681 GATGGGACTTTCCTTGGTGTG 58.837 52.381 0.00 0.00 36.57 3.82
3081 3128 0.184933 TGGGACTTTCCTTGGTGTGG 59.815 55.000 0.00 0.00 36.57 4.17
3082 3129 0.476771 GGGACTTTCCTTGGTGTGGA 59.523 55.000 0.00 0.00 36.57 4.02
3083 3130 1.133606 GGGACTTTCCTTGGTGTGGAA 60.134 52.381 0.00 0.00 41.33 3.53
3084 3131 2.230660 GGACTTTCCTTGGTGTGGAAG 58.769 52.381 0.00 0.00 43.48 3.46
3085 3132 2.230660 GACTTTCCTTGGTGTGGAAGG 58.769 52.381 0.00 0.00 43.48 3.46
3086 3133 0.961753 CTTTCCTTGGTGTGGAAGGC 59.038 55.000 0.00 0.00 43.48 4.35
3087 3134 0.260230 TTTCCTTGGTGTGGAAGGCA 59.740 50.000 0.00 0.00 43.48 4.75
3088 3135 0.260230 TTCCTTGGTGTGGAAGGCAA 59.740 50.000 0.00 0.00 40.02 4.52
3089 3136 0.178992 TCCTTGGTGTGGAAGGCAAG 60.179 55.000 0.00 0.00 40.02 4.01
3090 3137 1.662044 CTTGGTGTGGAAGGCAAGC 59.338 57.895 0.00 0.00 0.00 4.01
3091 3138 0.825010 CTTGGTGTGGAAGGCAAGCT 60.825 55.000 0.00 0.00 0.00 3.74
3092 3139 0.823356 TTGGTGTGGAAGGCAAGCTC 60.823 55.000 0.00 0.00 0.00 4.09
3093 3140 2.328099 GGTGTGGAAGGCAAGCTCG 61.328 63.158 0.00 0.00 0.00 5.03
3094 3141 2.032528 TGTGGAAGGCAAGCTCGG 59.967 61.111 0.00 0.00 0.00 4.63
3095 3142 3.435186 GTGGAAGGCAAGCTCGGC 61.435 66.667 0.00 0.00 0.00 5.54
3097 3144 4.760047 GGAAGGCAAGCTCGGCGA 62.760 66.667 10.14 10.14 36.37 5.54
3098 3145 2.512515 GAAGGCAAGCTCGGCGAT 60.513 61.111 11.27 0.00 36.37 4.58
3099 3146 1.227263 GAAGGCAAGCTCGGCGATA 60.227 57.895 11.27 0.00 36.37 2.92
3100 3147 1.491505 GAAGGCAAGCTCGGCGATAC 61.492 60.000 11.27 5.93 36.37 2.24
3101 3148 3.330853 GGCAAGCTCGGCGATACG 61.331 66.667 11.27 0.00 0.00 3.06
3102 3149 3.330853 GCAAGCTCGGCGATACGG 61.331 66.667 11.27 0.00 0.00 4.02
3103 3150 2.411701 CAAGCTCGGCGATACGGA 59.588 61.111 11.27 0.00 0.00 4.69
3104 3151 1.007271 CAAGCTCGGCGATACGGAT 60.007 57.895 11.27 0.00 0.00 4.18
3105 3152 0.240145 CAAGCTCGGCGATACGGATA 59.760 55.000 11.27 0.00 0.00 2.59
3106 3153 1.135373 CAAGCTCGGCGATACGGATAT 60.135 52.381 11.27 0.00 0.00 1.63
3107 3154 0.452184 AGCTCGGCGATACGGATATG 59.548 55.000 11.27 0.00 0.00 1.78
3108 3155 0.170561 GCTCGGCGATACGGATATGT 59.829 55.000 11.27 0.00 0.00 2.29
3109 3156 1.399440 GCTCGGCGATACGGATATGTA 59.601 52.381 11.27 0.00 0.00 2.29
3110 3157 2.539142 GCTCGGCGATACGGATATGTAG 60.539 54.545 11.27 0.00 0.00 2.74
3111 3158 2.934553 CTCGGCGATACGGATATGTAGA 59.065 50.000 11.27 0.00 0.00 2.59
3112 3159 3.538591 TCGGCGATACGGATATGTAGAT 58.461 45.455 4.99 0.00 0.00 1.98
3113 3160 3.558829 TCGGCGATACGGATATGTAGATC 59.441 47.826 4.99 0.00 0.00 2.75
3114 3161 3.560481 CGGCGATACGGATATGTAGATCT 59.440 47.826 0.00 0.00 0.00 2.75
3115 3162 4.318903 CGGCGATACGGATATGTAGATCTC 60.319 50.000 0.00 0.00 0.00 2.75
3116 3163 4.023878 GGCGATACGGATATGTAGATCTCC 60.024 50.000 0.00 0.00 0.00 3.71
3117 3164 4.817464 GCGATACGGATATGTAGATCTCCT 59.183 45.833 0.00 0.00 0.00 3.69
3118 3165 5.990386 GCGATACGGATATGTAGATCTCCTA 59.010 44.000 0.00 0.00 0.00 2.94
3119 3166 6.073657 GCGATACGGATATGTAGATCTCCTAC 60.074 46.154 0.00 0.00 46.21 3.18
3120 3167 6.424509 CGATACGGATATGTAGATCTCCTACC 59.575 46.154 0.00 0.00 45.60 3.18
3121 3168 4.515361 ACGGATATGTAGATCTCCTACCG 58.485 47.826 17.76 17.76 45.60 4.02
3122 3169 4.019501 ACGGATATGTAGATCTCCTACCGT 60.020 45.833 18.68 18.68 45.60 4.83
3123 3170 4.942483 CGGATATGTAGATCTCCTACCGTT 59.058 45.833 0.00 0.00 45.60 4.44
3124 3171 5.163744 CGGATATGTAGATCTCCTACCGTTG 60.164 48.000 0.00 0.00 45.60 4.10
3125 3172 5.711036 GGATATGTAGATCTCCTACCGTTGT 59.289 44.000 0.00 0.00 45.60 3.32
3126 3173 6.883217 GGATATGTAGATCTCCTACCGTTGTA 59.117 42.308 0.00 0.00 45.60 2.41
3127 3174 7.392673 GGATATGTAGATCTCCTACCGTTGTAA 59.607 40.741 0.00 0.00 45.60 2.41
3128 3175 5.824904 TGTAGATCTCCTACCGTTGTAAC 57.175 43.478 0.00 0.00 45.60 2.50
3129 3176 4.641989 TGTAGATCTCCTACCGTTGTAACC 59.358 45.833 0.00 0.00 45.60 2.85
3130 3177 2.686915 AGATCTCCTACCGTTGTAACCG 59.313 50.000 0.00 0.00 0.00 4.44
3131 3178 2.198827 TCTCCTACCGTTGTAACCGA 57.801 50.000 0.00 0.00 0.00 4.69
3132 3179 1.812571 TCTCCTACCGTTGTAACCGAC 59.187 52.381 0.00 0.00 0.00 4.79
3133 3180 1.815003 CTCCTACCGTTGTAACCGACT 59.185 52.381 0.00 0.00 0.00 4.18
3134 3181 1.812571 TCCTACCGTTGTAACCGACTC 59.187 52.381 0.00 0.00 0.00 3.36
3135 3182 1.815003 CCTACCGTTGTAACCGACTCT 59.185 52.381 0.00 0.00 0.00 3.24
3136 3183 2.415090 CCTACCGTTGTAACCGACTCTG 60.415 54.545 0.00 0.00 0.00 3.35
3137 3184 1.035139 ACCGTTGTAACCGACTCTGT 58.965 50.000 0.00 0.00 0.00 3.41
3138 3185 1.269413 ACCGTTGTAACCGACTCTGTG 60.269 52.381 0.00 0.00 0.00 3.66
3139 3186 1.269413 CCGTTGTAACCGACTCTGTGT 60.269 52.381 0.00 0.00 0.00 3.72
3140 3187 2.030893 CCGTTGTAACCGACTCTGTGTA 60.031 50.000 0.00 0.00 0.00 2.90
3141 3188 3.550639 CCGTTGTAACCGACTCTGTGTAA 60.551 47.826 0.00 0.00 0.00 2.41
3142 3189 3.423206 CGTTGTAACCGACTCTGTGTAAC 59.577 47.826 0.00 0.00 37.35 2.50
3143 3190 3.648339 TGTAACCGACTCTGTGTAACC 57.352 47.619 0.00 0.00 34.36 2.85
3144 3191 2.297033 TGTAACCGACTCTGTGTAACCC 59.703 50.000 0.00 0.00 34.36 4.11
3145 3192 1.713297 AACCGACTCTGTGTAACCCT 58.287 50.000 0.00 0.00 34.36 4.34
3146 3193 2.592102 ACCGACTCTGTGTAACCCTA 57.408 50.000 0.00 0.00 34.36 3.53
3147 3194 2.444421 ACCGACTCTGTGTAACCCTAG 58.556 52.381 0.00 0.00 34.36 3.02
3148 3195 1.134560 CCGACTCTGTGTAACCCTAGC 59.865 57.143 0.00 0.00 34.36 3.42
3149 3196 1.134560 CGACTCTGTGTAACCCTAGCC 59.865 57.143 0.00 0.00 34.36 3.93
3150 3197 1.481363 GACTCTGTGTAACCCTAGCCC 59.519 57.143 0.00 0.00 34.36 5.19
3151 3198 1.078989 ACTCTGTGTAACCCTAGCCCT 59.921 52.381 0.00 0.00 34.36 5.19
3152 3199 1.757699 CTCTGTGTAACCCTAGCCCTC 59.242 57.143 0.00 0.00 34.36 4.30
3153 3200 1.361543 TCTGTGTAACCCTAGCCCTCT 59.638 52.381 0.00 0.00 34.36 3.69
3154 3201 1.757699 CTGTGTAACCCTAGCCCTCTC 59.242 57.143 0.00 0.00 34.36 3.20
3155 3202 1.121378 GTGTAACCCTAGCCCTCTCC 58.879 60.000 0.00 0.00 0.00 3.71
3156 3203 0.396695 TGTAACCCTAGCCCTCTCCG 60.397 60.000 0.00 0.00 0.00 4.63
3157 3204 1.114119 GTAACCCTAGCCCTCTCCGG 61.114 65.000 0.00 0.00 0.00 5.14
3158 3205 1.587522 TAACCCTAGCCCTCTCCGGT 61.588 60.000 0.00 0.00 0.00 5.28
3159 3206 2.840102 CCCTAGCCCTCTCCGGTG 60.840 72.222 0.00 0.00 0.00 4.94
3160 3207 2.042843 CCTAGCCCTCTCCGGTGT 60.043 66.667 0.00 0.00 0.00 4.16
3161 3208 2.128507 CCTAGCCCTCTCCGGTGTC 61.129 68.421 0.00 0.00 0.00 3.67
3162 3209 1.076632 CTAGCCCTCTCCGGTGTCT 60.077 63.158 0.00 0.00 0.00 3.41
3163 3210 0.183014 CTAGCCCTCTCCGGTGTCTA 59.817 60.000 0.00 0.05 0.00 2.59
3164 3211 0.851469 TAGCCCTCTCCGGTGTCTAT 59.149 55.000 0.00 0.00 0.00 1.98
3165 3212 0.851469 AGCCCTCTCCGGTGTCTATA 59.149 55.000 0.00 0.00 0.00 1.31
3166 3213 1.429687 AGCCCTCTCCGGTGTCTATAT 59.570 52.381 0.00 0.00 0.00 0.86
3167 3214 2.648304 AGCCCTCTCCGGTGTCTATATA 59.352 50.000 0.00 0.00 0.00 0.86
3168 3215 3.075582 AGCCCTCTCCGGTGTCTATATAA 59.924 47.826 0.00 0.00 0.00 0.98
3169 3216 3.830755 GCCCTCTCCGGTGTCTATATAAA 59.169 47.826 0.00 0.00 0.00 1.40
3170 3217 4.321824 GCCCTCTCCGGTGTCTATATAAAC 60.322 50.000 0.00 0.00 0.00 2.01
3171 3218 4.220163 CCCTCTCCGGTGTCTATATAAACC 59.780 50.000 0.00 0.68 0.00 3.27
3178 3225 4.251268 GGTGTCTATATAAACCGGATGGC 58.749 47.826 9.46 0.00 39.70 4.40
3179 3226 4.020485 GGTGTCTATATAAACCGGATGGCT 60.020 45.833 9.46 0.00 39.70 4.75
3180 3227 4.929808 GTGTCTATATAAACCGGATGGCTG 59.070 45.833 9.46 0.00 39.70 4.85
3181 3228 4.591498 TGTCTATATAAACCGGATGGCTGT 59.409 41.667 9.46 0.00 39.70 4.40
3182 3229 5.776208 TGTCTATATAAACCGGATGGCTGTA 59.224 40.000 9.46 0.00 39.70 2.74
3183 3230 6.071560 TGTCTATATAAACCGGATGGCTGTAG 60.072 42.308 9.46 2.29 39.70 2.74
3184 3231 6.014647 TCTATATAAACCGGATGGCTGTAGT 58.985 40.000 9.46 0.00 39.70 2.73
3185 3232 2.973694 TAAACCGGATGGCTGTAGTC 57.026 50.000 9.46 0.00 39.70 2.59
3186 3233 0.252197 AAACCGGATGGCTGTAGTCC 59.748 55.000 9.46 0.00 39.70 3.85
3187 3234 0.907704 AACCGGATGGCTGTAGTCCA 60.908 55.000 9.46 0.00 39.70 4.02
3188 3235 0.691078 ACCGGATGGCTGTAGTCCAT 60.691 55.000 9.46 7.32 46.35 3.41
3189 3236 1.338107 CCGGATGGCTGTAGTCCATA 58.662 55.000 0.00 0.00 43.90 2.74
3190 3237 1.273606 CCGGATGGCTGTAGTCCATAG 59.726 57.143 0.00 5.94 43.90 2.23
3191 3238 1.273606 CGGATGGCTGTAGTCCATAGG 59.726 57.143 7.51 0.00 43.90 2.57
3192 3239 2.609747 GGATGGCTGTAGTCCATAGGA 58.390 52.381 7.51 0.00 43.90 2.94
3204 3251 4.859629 GTCCATAGGACGAACAACAATC 57.140 45.455 0.00 0.00 43.14 2.67
3205 3252 4.250464 GTCCATAGGACGAACAACAATCA 58.750 43.478 0.00 0.00 43.14 2.57
3206 3253 4.876107 GTCCATAGGACGAACAACAATCAT 59.124 41.667 0.00 0.00 43.14 2.45
3207 3254 6.046593 GTCCATAGGACGAACAACAATCATA 58.953 40.000 0.00 0.00 43.14 2.15
3208 3255 6.018994 GTCCATAGGACGAACAACAATCATAC 60.019 42.308 0.00 0.00 43.14 2.39
3209 3256 5.236478 CCATAGGACGAACAACAATCATACC 59.764 44.000 0.00 0.00 0.00 2.73
3210 3257 4.280436 AGGACGAACAACAATCATACCA 57.720 40.909 0.00 0.00 0.00 3.25
3211 3258 4.843728 AGGACGAACAACAATCATACCAT 58.156 39.130 0.00 0.00 0.00 3.55
3212 3259 5.984725 AGGACGAACAACAATCATACCATA 58.015 37.500 0.00 0.00 0.00 2.74
3213 3260 6.049149 AGGACGAACAACAATCATACCATAG 58.951 40.000 0.00 0.00 0.00 2.23
3214 3261 5.236478 GGACGAACAACAATCATACCATAGG 59.764 44.000 0.00 0.00 0.00 2.57
3215 3262 4.574828 ACGAACAACAATCATACCATAGGC 59.425 41.667 0.00 0.00 0.00 3.93
3216 3263 4.816385 CGAACAACAATCATACCATAGGCT 59.184 41.667 0.00 0.00 0.00 4.58
3217 3264 5.989168 CGAACAACAATCATACCATAGGCTA 59.011 40.000 0.00 0.00 0.00 3.93
3218 3265 6.146184 CGAACAACAATCATACCATAGGCTAG 59.854 42.308 0.00 0.00 0.00 3.42
3219 3266 5.308825 ACAACAATCATACCATAGGCTAGC 58.691 41.667 6.04 6.04 0.00 3.42
3220 3267 5.072329 ACAACAATCATACCATAGGCTAGCT 59.928 40.000 15.72 3.22 0.00 3.32
3221 3268 5.832539 ACAATCATACCATAGGCTAGCTT 57.167 39.130 15.72 10.11 0.00 3.74
3222 3269 5.799213 ACAATCATACCATAGGCTAGCTTC 58.201 41.667 15.72 0.00 0.00 3.86
3223 3270 5.545723 ACAATCATACCATAGGCTAGCTTCT 59.454 40.000 15.72 6.71 0.00 2.85
3224 3271 6.726299 ACAATCATACCATAGGCTAGCTTCTA 59.274 38.462 15.72 8.91 0.00 2.10
3225 3272 7.093552 ACAATCATACCATAGGCTAGCTTCTAG 60.094 40.741 15.72 3.93 0.00 2.43
3226 3273 5.265191 TCATACCATAGGCTAGCTTCTAGG 58.735 45.833 15.72 12.08 0.00 3.02
3227 3274 2.896039 ACCATAGGCTAGCTTCTAGGG 58.104 52.381 22.47 22.47 41.57 3.53
3228 3275 2.180308 ACCATAGGCTAGCTTCTAGGGT 59.820 50.000 23.48 23.48 43.27 4.34
3229 3276 3.243724 CCATAGGCTAGCTTCTAGGGTT 58.756 50.000 18.28 0.00 34.00 4.11
3230 3277 3.648545 CCATAGGCTAGCTTCTAGGGTTT 59.351 47.826 18.28 0.00 34.00 3.27
3231 3278 4.838986 CCATAGGCTAGCTTCTAGGGTTTA 59.161 45.833 18.28 0.00 34.00 2.01
3232 3279 5.046950 CCATAGGCTAGCTTCTAGGGTTTAG 60.047 48.000 18.28 0.00 34.00 1.85
3233 3280 2.701423 AGGCTAGCTTCTAGGGTTTAGC 59.299 50.000 15.72 0.00 34.32 3.09
3234 3281 2.224329 GGCTAGCTTCTAGGGTTTAGCC 60.224 54.545 15.72 15.56 44.26 3.93
3235 3282 2.701423 GCTAGCTTCTAGGGTTTAGCCT 59.299 50.000 7.70 5.72 37.43 4.58
3236 3283 3.243941 GCTAGCTTCTAGGGTTTAGCCTC 60.244 52.174 7.70 0.00 37.43 4.70
3237 3284 2.120312 AGCTTCTAGGGTTTAGCCTCC 58.880 52.381 3.32 0.00 37.43 4.30
3238 3285 2.120312 GCTTCTAGGGTTTAGCCTCCT 58.880 52.381 3.32 0.00 37.43 3.69
3239 3286 2.506231 GCTTCTAGGGTTTAGCCTCCTT 59.494 50.000 3.32 0.00 37.43 3.36
3240 3287 3.682999 GCTTCTAGGGTTTAGCCTCCTTG 60.683 52.174 3.32 0.00 37.43 3.61
3241 3288 3.484953 TCTAGGGTTTAGCCTCCTTGA 57.515 47.619 3.32 0.00 37.43 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
53 54 2.542595 CGGTTCAGGTTACACAAGTGAC 59.457 50.000 7.28 0.00 33.79 3.67
108 109 1.079336 GGGGACTACAGAACACGCC 60.079 63.158 0.00 0.00 0.00 5.68
110 111 1.167851 TACGGGGACTACAGAACACG 58.832 55.000 0.00 0.00 0.00 4.49
158 159 2.681894 AAACACACACACGCACGCA 61.682 52.632 0.00 0.00 0.00 5.24
159 160 2.099446 AAACACACACACGCACGC 59.901 55.556 0.00 0.00 0.00 5.34
160 161 0.027455 ATCAAACACACACACGCACG 59.973 50.000 0.00 0.00 0.00 5.34
161 162 2.187351 AATCAAACACACACACGCAC 57.813 45.000 0.00 0.00 0.00 5.34
533 544 6.517529 GCCAAAATGGTCAATTGTAGGTACAA 60.518 38.462 5.13 5.07 43.95 2.41
539 550 2.923020 GCGCCAAAATGGTCAATTGTAG 59.077 45.455 5.13 0.00 40.46 2.74
577 588 0.594602 CCTAACACGGTCACTCGACA 59.405 55.000 0.00 0.00 44.54 4.35
741 758 6.312180 TCGCATAAGCATGATGATCTGAATAC 59.688 38.462 0.00 0.00 42.27 1.89
864 881 4.037446 GGATCATAAGAGCTAGGCCTATCG 59.963 50.000 14.30 3.48 0.00 2.92
890 907 4.965200 ACATAAGGATGGCCTCTAGAAC 57.035 45.455 3.32 0.00 46.28 3.01
1048 1066 2.002018 TTCGGGTTTTCAGGCCACCT 62.002 55.000 5.01 0.00 0.00 4.00
1153 1171 4.882842 TCTGTTGTGGAGCATAGTTGTA 57.117 40.909 0.00 0.00 0.00 2.41
1432 1450 9.225436 GTTCTTCTCAATCTTCCTTACTTCATT 57.775 33.333 0.00 0.00 0.00 2.57
1507 1525 8.083828 ACCTCACATGTATGACTAGAAATCTT 57.916 34.615 0.00 0.00 0.00 2.40
1592 1610 3.804873 GGCTTCGAGTACATCTTCAATCC 59.195 47.826 0.00 0.00 0.00 3.01
1659 1683 5.067153 AGGAGTTGTAGATGATGAGTCTTCG 59.933 44.000 1.93 0.00 34.61 3.79
1677 1701 5.542251 AGCTTCTTCTACTTCTTCAGGAGTT 59.458 40.000 0.00 0.00 34.49 3.01
1783 1807 4.762016 TGGGGACATGCCATTGAC 57.238 55.556 8.20 0.00 38.95 3.18
2141 2165 5.108517 CAAGCAAAAACCTAAAAGCACTCA 58.891 37.500 0.00 0.00 0.00 3.41
2231 2255 1.600058 TGCTTCTCCTCATCCCCATT 58.400 50.000 0.00 0.00 0.00 3.16
2434 2468 6.991938 ACATTTAAGACATGGCTTAAGCAAA 58.008 32.000 28.14 18.81 44.36 3.68
2511 2550 7.013750 TCACTAGTTTACATGGCATTCAACAAA 59.986 33.333 0.00 0.00 0.00 2.83
2566 2605 8.220755 AGCACTCAAAACTAATAACTTTCACA 57.779 30.769 0.00 0.00 0.00 3.58
2746 2786 1.343142 ACGTCTGGTTCACATGCTACA 59.657 47.619 0.00 0.00 0.00 2.74
2765 2805 4.213564 ACAGGAATCATCACTTCTCCAC 57.786 45.455 0.00 0.00 0.00 4.02
2892 2939 3.739401 AATTACTGCCCAAGCTAACCT 57.261 42.857 0.00 0.00 40.80 3.50
2917 2964 8.690680 TGGTTCGGCAATTACATTTTTATTAC 57.309 30.769 0.00 0.00 0.00 1.89
2935 2982 2.169769 ACATGGTATACACCTGGTTCGG 59.830 50.000 5.01 0.00 45.98 4.30
2957 3004 0.756070 CCCTAGTCCGGAACTCCCTC 60.756 65.000 5.23 0.00 39.55 4.30
2958 3005 1.310373 CCCTAGTCCGGAACTCCCT 59.690 63.158 5.23 0.05 39.55 4.20
2959 3006 1.761271 CCCCTAGTCCGGAACTCCC 60.761 68.421 5.23 0.00 39.55 4.30
2960 3007 1.761271 CCCCCTAGTCCGGAACTCC 60.761 68.421 5.23 0.00 39.55 3.85
2961 3008 1.001376 ACCCCCTAGTCCGGAACTC 59.999 63.158 5.23 0.00 39.55 3.01
2962 3009 1.305887 CACCCCCTAGTCCGGAACT 60.306 63.158 5.23 8.86 42.33 3.01
2963 3010 1.611474 GACACCCCCTAGTCCGGAAC 61.611 65.000 5.23 0.00 0.00 3.62
2964 3011 1.305549 GACACCCCCTAGTCCGGAA 60.306 63.158 5.23 0.00 0.00 4.30
2965 3012 2.361771 GACACCCCCTAGTCCGGA 59.638 66.667 0.00 0.00 0.00 5.14
2966 3013 2.762875 GGACACCCCCTAGTCCGG 60.763 72.222 0.00 0.00 44.23 5.14
2969 3016 0.186873 TATCCGGACACCCCCTAGTC 59.813 60.000 6.12 0.00 0.00 2.59
2970 3017 0.187851 CTATCCGGACACCCCCTAGT 59.812 60.000 6.12 0.00 0.00 2.57
2971 3018 1.186267 GCTATCCGGACACCCCCTAG 61.186 65.000 6.12 3.64 0.00 3.02
2972 3019 1.152398 GCTATCCGGACACCCCCTA 60.152 63.158 6.12 0.00 0.00 3.53
2973 3020 2.446036 GCTATCCGGACACCCCCT 60.446 66.667 6.12 0.00 0.00 4.79
2974 3021 3.557290 GGCTATCCGGACACCCCC 61.557 72.222 6.12 0.00 0.00 5.40
2986 3033 4.377839 CCGATGATGATAGTTCGGCTAT 57.622 45.455 0.00 1.08 43.91 2.97
2987 3034 3.850122 CCGATGATGATAGTTCGGCTA 57.150 47.619 0.00 0.00 43.91 3.93
2988 3035 2.732412 CCGATGATGATAGTTCGGCT 57.268 50.000 0.00 0.00 43.91 5.52
2991 3038 1.340658 CGGCCGATGATGATAGTTCG 58.659 55.000 24.07 0.00 0.00 3.95
2992 3039 1.272490 TCCGGCCGATGATGATAGTTC 59.728 52.381 30.73 0.00 0.00 3.01
2993 3040 1.000955 GTCCGGCCGATGATGATAGTT 59.999 52.381 30.73 0.00 0.00 2.24
2994 3041 0.603569 GTCCGGCCGATGATGATAGT 59.396 55.000 30.73 0.00 0.00 2.12
2995 3042 0.891373 AGTCCGGCCGATGATGATAG 59.109 55.000 30.73 6.27 0.00 2.08
2996 3043 0.888619 GAGTCCGGCCGATGATGATA 59.111 55.000 30.73 0.00 0.00 2.15
2997 3044 1.668294 GAGTCCGGCCGATGATGAT 59.332 57.895 30.73 6.58 0.00 2.45
2998 3045 2.498941 GGAGTCCGGCCGATGATGA 61.499 63.158 30.73 12.55 0.00 2.92
2999 3046 2.029666 GGAGTCCGGCCGATGATG 59.970 66.667 30.73 9.82 0.00 3.07
3000 3047 2.032860 CTTGGAGTCCGGCCGATGAT 62.033 60.000 30.73 9.58 0.00 2.45
3001 3048 2.682136 TTGGAGTCCGGCCGATGA 60.682 61.111 30.73 14.33 0.00 2.92
3002 3049 2.202932 CTTGGAGTCCGGCCGATG 60.203 66.667 30.73 11.63 0.00 3.84
3003 3050 2.363795 TCTTGGAGTCCGGCCGAT 60.364 61.111 30.73 12.65 0.00 4.18
3004 3051 2.488771 TAGTCTTGGAGTCCGGCCGA 62.489 60.000 30.73 10.38 0.00 5.54
3005 3052 1.392710 ATAGTCTTGGAGTCCGGCCG 61.393 60.000 21.04 21.04 0.00 6.13
3006 3053 0.105039 CATAGTCTTGGAGTCCGGCC 59.895 60.000 4.30 0.00 0.00 6.13
3007 3054 1.112113 TCATAGTCTTGGAGTCCGGC 58.888 55.000 4.30 0.00 0.00 6.13
3008 3055 3.024547 TCTTCATAGTCTTGGAGTCCGG 58.975 50.000 4.30 0.00 0.00 5.14
3009 3056 4.927978 ATCTTCATAGTCTTGGAGTCCG 57.072 45.455 4.30 0.00 0.00 4.79
3010 3057 6.716934 TGTATCTTCATAGTCTTGGAGTCC 57.283 41.667 0.73 0.73 0.00 3.85
3011 3058 8.001881 TCTTGTATCTTCATAGTCTTGGAGTC 57.998 38.462 0.00 0.00 0.00 3.36
3012 3059 7.962995 TCTTGTATCTTCATAGTCTTGGAGT 57.037 36.000 0.00 0.00 0.00 3.85
3013 3060 9.258826 CAATCTTGTATCTTCATAGTCTTGGAG 57.741 37.037 0.00 0.00 0.00 3.86
3014 3061 8.981659 TCAATCTTGTATCTTCATAGTCTTGGA 58.018 33.333 0.00 0.00 0.00 3.53
3015 3062 9.605275 TTCAATCTTGTATCTTCATAGTCTTGG 57.395 33.333 0.00 0.00 0.00 3.61
3022 3069 9.521503 CGAAGTCTTCAATCTTGTATCTTCATA 57.478 33.333 12.99 0.00 32.10 2.15
3023 3070 8.037758 ACGAAGTCTTCAATCTTGTATCTTCAT 58.962 33.333 12.99 0.00 29.74 2.57
3024 3071 7.378966 ACGAAGTCTTCAATCTTGTATCTTCA 58.621 34.615 12.99 0.00 29.74 3.02
3025 3072 7.820044 ACGAAGTCTTCAATCTTGTATCTTC 57.180 36.000 12.99 0.00 29.74 2.87
3056 3103 0.618458 CAAGGAAAGTCCCATCCGGA 59.382 55.000 6.61 6.61 40.78 5.14
3057 3104 0.394352 CCAAGGAAAGTCCCATCCGG 60.394 60.000 0.00 0.00 40.78 5.14
3058 3105 0.328258 ACCAAGGAAAGTCCCATCCG 59.672 55.000 0.00 0.00 40.78 4.18
3059 3106 1.075536 ACACCAAGGAAAGTCCCATCC 59.924 52.381 0.00 0.00 37.19 3.51
3060 3107 2.162681 CACACCAAGGAAAGTCCCATC 58.837 52.381 0.00 0.00 37.19 3.51
3061 3108 1.203050 CCACACCAAGGAAAGTCCCAT 60.203 52.381 0.00 0.00 37.19 4.00
3062 3109 0.184933 CCACACCAAGGAAAGTCCCA 59.815 55.000 0.00 0.00 37.19 4.37
3063 3110 0.476771 TCCACACCAAGGAAAGTCCC 59.523 55.000 0.00 0.00 37.19 4.46
3064 3111 2.230660 CTTCCACACCAAGGAAAGTCC 58.769 52.381 0.00 0.00 44.07 3.85
3065 3112 2.230660 CCTTCCACACCAAGGAAAGTC 58.769 52.381 0.00 0.00 44.07 3.01
3066 3113 1.754201 GCCTTCCACACCAAGGAAAGT 60.754 52.381 2.52 0.00 44.07 2.66
3067 3114 0.961753 GCCTTCCACACCAAGGAAAG 59.038 55.000 2.52 0.00 44.07 2.62
3068 3115 0.260230 TGCCTTCCACACCAAGGAAA 59.740 50.000 2.52 0.00 44.07 3.13
3069 3116 0.260230 TTGCCTTCCACACCAAGGAA 59.740 50.000 2.52 0.00 42.94 3.36
3070 3117 0.178992 CTTGCCTTCCACACCAAGGA 60.179 55.000 2.52 0.00 42.94 3.36
3071 3118 1.809567 GCTTGCCTTCCACACCAAGG 61.810 60.000 0.00 0.00 43.13 3.61
3072 3119 0.825010 AGCTTGCCTTCCACACCAAG 60.825 55.000 0.00 0.00 38.12 3.61
3073 3120 0.823356 GAGCTTGCCTTCCACACCAA 60.823 55.000 0.00 0.00 0.00 3.67
3074 3121 1.228245 GAGCTTGCCTTCCACACCA 60.228 57.895 0.00 0.00 0.00 4.17
3075 3122 2.328099 CGAGCTTGCCTTCCACACC 61.328 63.158 0.00 0.00 0.00 4.16
3076 3123 2.328099 CCGAGCTTGCCTTCCACAC 61.328 63.158 0.00 0.00 0.00 3.82
3077 3124 2.032528 CCGAGCTTGCCTTCCACA 59.967 61.111 0.00 0.00 0.00 4.17
3078 3125 3.435186 GCCGAGCTTGCCTTCCAC 61.435 66.667 0.00 0.00 0.00 4.02
3080 3127 2.644555 TATCGCCGAGCTTGCCTTCC 62.645 60.000 0.00 0.00 0.00 3.46
3081 3128 1.227263 TATCGCCGAGCTTGCCTTC 60.227 57.895 0.00 0.00 0.00 3.46
3082 3129 1.521681 GTATCGCCGAGCTTGCCTT 60.522 57.895 0.00 0.00 0.00 4.35
3083 3130 2.107141 GTATCGCCGAGCTTGCCT 59.893 61.111 0.00 0.00 0.00 4.75
3084 3131 3.330853 CGTATCGCCGAGCTTGCC 61.331 66.667 0.00 0.00 0.00 4.52
3085 3132 3.330853 CCGTATCGCCGAGCTTGC 61.331 66.667 0.00 0.00 0.00 4.01
3086 3133 0.240145 TATCCGTATCGCCGAGCTTG 59.760 55.000 0.00 0.00 0.00 4.01
3087 3134 1.135373 CATATCCGTATCGCCGAGCTT 60.135 52.381 0.00 0.00 0.00 3.74
3088 3135 0.452184 CATATCCGTATCGCCGAGCT 59.548 55.000 0.00 0.00 0.00 4.09
3089 3136 0.170561 ACATATCCGTATCGCCGAGC 59.829 55.000 0.00 0.00 0.00 5.03
3090 3137 2.934553 TCTACATATCCGTATCGCCGAG 59.065 50.000 0.00 0.00 0.00 4.63
3091 3138 2.976589 TCTACATATCCGTATCGCCGA 58.023 47.619 0.00 0.00 0.00 5.54
3092 3139 3.560481 AGATCTACATATCCGTATCGCCG 59.440 47.826 0.00 0.00 0.00 6.46
3093 3140 4.023878 GGAGATCTACATATCCGTATCGCC 60.024 50.000 0.00 0.00 30.60 5.54
3094 3141 4.817464 AGGAGATCTACATATCCGTATCGC 59.183 45.833 7.93 0.00 44.22 4.58
3095 3142 7.410800 GTAGGAGATCTACATATCCGTATCG 57.589 44.000 7.93 0.00 44.22 2.92
3107 3154 4.260948 CGGTTACAACGGTAGGAGATCTAC 60.261 50.000 0.00 0.00 45.78 2.59
3108 3155 3.879295 CGGTTACAACGGTAGGAGATCTA 59.121 47.826 0.00 0.00 0.00 1.98
3109 3156 2.686915 CGGTTACAACGGTAGGAGATCT 59.313 50.000 0.00 0.00 0.00 2.75
3110 3157 2.684881 TCGGTTACAACGGTAGGAGATC 59.315 50.000 0.00 0.00 0.00 2.75
3111 3158 2.424956 GTCGGTTACAACGGTAGGAGAT 59.575 50.000 0.00 0.00 0.00 2.75
3112 3159 1.812571 GTCGGTTACAACGGTAGGAGA 59.187 52.381 0.00 0.00 0.00 3.71
3113 3160 1.815003 AGTCGGTTACAACGGTAGGAG 59.185 52.381 0.00 0.00 0.00 3.69
3114 3161 1.812571 GAGTCGGTTACAACGGTAGGA 59.187 52.381 0.00 0.00 0.00 2.94
3115 3162 1.815003 AGAGTCGGTTACAACGGTAGG 59.185 52.381 0.00 0.00 0.00 3.18
3116 3163 2.227388 ACAGAGTCGGTTACAACGGTAG 59.773 50.000 0.00 0.00 0.00 3.18
3117 3164 2.030893 CACAGAGTCGGTTACAACGGTA 60.031 50.000 0.00 0.00 0.00 4.02
3118 3165 1.035139 ACAGAGTCGGTTACAACGGT 58.965 50.000 0.00 0.00 0.00 4.83
3119 3166 1.269413 ACACAGAGTCGGTTACAACGG 60.269 52.381 0.00 0.00 0.00 4.44
3120 3167 2.129823 ACACAGAGTCGGTTACAACG 57.870 50.000 0.00 0.00 0.00 4.10
3121 3168 3.737774 GGTTACACAGAGTCGGTTACAAC 59.262 47.826 0.00 0.00 0.00 3.32
3122 3169 3.243839 GGGTTACACAGAGTCGGTTACAA 60.244 47.826 0.00 0.00 0.00 2.41
3123 3170 2.297033 GGGTTACACAGAGTCGGTTACA 59.703 50.000 0.00 0.00 0.00 2.41
3124 3171 2.560105 AGGGTTACACAGAGTCGGTTAC 59.440 50.000 0.00 0.00 0.00 2.50
3125 3172 2.880443 AGGGTTACACAGAGTCGGTTA 58.120 47.619 0.00 0.00 0.00 2.85
3126 3173 1.713297 AGGGTTACACAGAGTCGGTT 58.287 50.000 0.00 0.00 0.00 4.44
3127 3174 2.444421 CTAGGGTTACACAGAGTCGGT 58.556 52.381 0.00 0.00 0.00 4.69
3128 3175 1.134560 GCTAGGGTTACACAGAGTCGG 59.865 57.143 0.00 0.00 0.00 4.79
3129 3176 1.134560 GGCTAGGGTTACACAGAGTCG 59.865 57.143 0.00 0.00 0.00 4.18
3130 3177 1.481363 GGGCTAGGGTTACACAGAGTC 59.519 57.143 0.00 0.00 0.00 3.36
3131 3178 1.078989 AGGGCTAGGGTTACACAGAGT 59.921 52.381 0.00 0.00 0.00 3.24
3132 3179 1.757699 GAGGGCTAGGGTTACACAGAG 59.242 57.143 0.00 0.00 0.00 3.35
3133 3180 1.361543 AGAGGGCTAGGGTTACACAGA 59.638 52.381 0.00 0.00 0.00 3.41
3134 3181 1.757699 GAGAGGGCTAGGGTTACACAG 59.242 57.143 0.00 0.00 0.00 3.66
3135 3182 1.621622 GGAGAGGGCTAGGGTTACACA 60.622 57.143 0.00 0.00 0.00 3.72
3136 3183 1.121378 GGAGAGGGCTAGGGTTACAC 58.879 60.000 0.00 0.00 0.00 2.90
3137 3184 0.396695 CGGAGAGGGCTAGGGTTACA 60.397 60.000 0.00 0.00 0.00 2.41
3138 3185 1.114119 CCGGAGAGGGCTAGGGTTAC 61.114 65.000 0.00 0.00 35.97 2.50
3139 3186 1.232216 CCGGAGAGGGCTAGGGTTA 59.768 63.158 0.00 0.00 35.97 2.85
3140 3187 2.041819 CCGGAGAGGGCTAGGGTT 60.042 66.667 0.00 0.00 35.97 4.11
3141 3188 3.357082 ACCGGAGAGGGCTAGGGT 61.357 66.667 9.46 0.00 46.96 4.34
3142 3189 2.840102 CACCGGAGAGGGCTAGGG 60.840 72.222 9.46 0.00 46.96 3.53
3143 3190 2.042843 ACACCGGAGAGGGCTAGG 60.043 66.667 9.46 0.00 46.96 3.02
3144 3191 0.183014 TAGACACCGGAGAGGGCTAG 59.817 60.000 9.46 0.00 46.96 3.42
3145 3192 0.851469 ATAGACACCGGAGAGGGCTA 59.149 55.000 9.46 6.85 46.96 3.93
3146 3193 0.851469 TATAGACACCGGAGAGGGCT 59.149 55.000 9.46 4.41 46.96 5.19
3147 3194 1.926108 ATATAGACACCGGAGAGGGC 58.074 55.000 9.46 0.00 46.96 5.19
3148 3195 4.220163 GGTTTATATAGACACCGGAGAGGG 59.780 50.000 9.46 0.00 46.96 4.30
3149 3196 4.082895 CGGTTTATATAGACACCGGAGAGG 60.083 50.000 15.65 0.00 46.92 3.69
3150 3197 5.044428 CGGTTTATATAGACACCGGAGAG 57.956 47.826 15.65 0.00 46.92 3.20
3156 3203 4.020485 AGCCATCCGGTTTATATAGACACC 60.020 45.833 0.00 2.59 33.28 4.16
3157 3204 4.929808 CAGCCATCCGGTTTATATAGACAC 59.070 45.833 0.00 0.00 33.28 3.67
3158 3205 4.591498 ACAGCCATCCGGTTTATATAGACA 59.409 41.667 0.00 0.00 33.28 3.41
3159 3206 5.148651 ACAGCCATCCGGTTTATATAGAC 57.851 43.478 0.00 0.00 33.28 2.59
3160 3207 6.014647 ACTACAGCCATCCGGTTTATATAGA 58.985 40.000 0.00 0.00 33.28 1.98
3161 3208 6.282199 ACTACAGCCATCCGGTTTATATAG 57.718 41.667 0.00 0.00 33.28 1.31
3162 3209 5.186409 GGACTACAGCCATCCGGTTTATATA 59.814 44.000 0.00 0.00 33.28 0.86
3163 3210 4.020485 GGACTACAGCCATCCGGTTTATAT 60.020 45.833 0.00 0.00 33.28 0.86
3164 3211 3.322828 GGACTACAGCCATCCGGTTTATA 59.677 47.826 0.00 0.00 33.28 0.98
3165 3212 2.104281 GGACTACAGCCATCCGGTTTAT 59.896 50.000 0.00 0.00 33.28 1.40
3166 3213 1.483415 GGACTACAGCCATCCGGTTTA 59.517 52.381 0.00 0.00 33.28 2.01
3167 3214 0.252197 GGACTACAGCCATCCGGTTT 59.748 55.000 0.00 0.00 33.28 3.27
3168 3215 0.907704 TGGACTACAGCCATCCGGTT 60.908 55.000 0.00 0.00 35.06 4.44
3169 3216 0.691078 ATGGACTACAGCCATCCGGT 60.691 55.000 0.00 0.00 42.31 5.28
3170 3217 1.273606 CTATGGACTACAGCCATCCGG 59.726 57.143 0.00 0.00 44.70 5.14
3171 3218 1.273606 CCTATGGACTACAGCCATCCG 59.726 57.143 0.00 0.00 44.70 4.18
3172 3219 2.609747 TCCTATGGACTACAGCCATCC 58.390 52.381 0.00 0.00 44.70 3.51
3184 3231 4.545208 TGATTGTTGTTCGTCCTATGGA 57.455 40.909 0.00 0.00 0.00 3.41
3185 3232 5.236478 GGTATGATTGTTGTTCGTCCTATGG 59.764 44.000 0.00 0.00 0.00 2.74
3186 3233 5.815222 TGGTATGATTGTTGTTCGTCCTATG 59.185 40.000 0.00 0.00 0.00 2.23
3187 3234 5.984725 TGGTATGATTGTTGTTCGTCCTAT 58.015 37.500 0.00 0.00 0.00 2.57
3188 3235 5.408880 TGGTATGATTGTTGTTCGTCCTA 57.591 39.130 0.00 0.00 0.00 2.94
3189 3236 4.280436 TGGTATGATTGTTGTTCGTCCT 57.720 40.909 0.00 0.00 0.00 3.85
3190 3237 5.236478 CCTATGGTATGATTGTTGTTCGTCC 59.764 44.000 0.00 0.00 0.00 4.79
3191 3238 5.277345 GCCTATGGTATGATTGTTGTTCGTC 60.277 44.000 0.00 0.00 0.00 4.20
3192 3239 4.574828 GCCTATGGTATGATTGTTGTTCGT 59.425 41.667 0.00 0.00 0.00 3.85
3193 3240 4.816385 AGCCTATGGTATGATTGTTGTTCG 59.184 41.667 0.00 0.00 0.00 3.95
3194 3241 6.073003 GCTAGCCTATGGTATGATTGTTGTTC 60.073 42.308 2.29 0.00 0.00 3.18
3195 3242 5.765182 GCTAGCCTATGGTATGATTGTTGTT 59.235 40.000 2.29 0.00 0.00 2.83
3196 3243 5.072329 AGCTAGCCTATGGTATGATTGTTGT 59.928 40.000 12.13 0.00 0.00 3.32
3197 3244 5.555017 AGCTAGCCTATGGTATGATTGTTG 58.445 41.667 12.13 0.00 0.00 3.33
3198 3245 5.832539 AGCTAGCCTATGGTATGATTGTT 57.167 39.130 12.13 0.00 0.00 2.83
3199 3246 5.545723 AGAAGCTAGCCTATGGTATGATTGT 59.454 40.000 12.13 0.00 0.00 2.71
3200 3247 6.047511 AGAAGCTAGCCTATGGTATGATTG 57.952 41.667 12.13 0.00 0.00 2.67
3201 3248 6.382570 CCTAGAAGCTAGCCTATGGTATGATT 59.617 42.308 12.13 0.00 0.00 2.57
3202 3249 5.896678 CCTAGAAGCTAGCCTATGGTATGAT 59.103 44.000 12.13 0.00 0.00 2.45
3203 3250 5.265191 CCTAGAAGCTAGCCTATGGTATGA 58.735 45.833 12.13 0.00 0.00 2.15
3204 3251 4.404073 CCCTAGAAGCTAGCCTATGGTATG 59.596 50.000 12.13 0.00 0.00 2.39
3205 3252 4.046103 ACCCTAGAAGCTAGCCTATGGTAT 59.954 45.833 19.36 4.05 33.87 2.73
3206 3253 3.401683 ACCCTAGAAGCTAGCCTATGGTA 59.598 47.826 19.36 2.73 33.87 3.25
3207 3254 2.180308 ACCCTAGAAGCTAGCCTATGGT 59.820 50.000 12.13 15.16 31.76 3.55
3208 3255 2.896039 ACCCTAGAAGCTAGCCTATGG 58.104 52.381 12.13 14.55 0.00 2.74
3209 3256 4.965200 AAACCCTAGAAGCTAGCCTATG 57.035 45.455 12.13 3.90 0.00 2.23
3210 3257 4.528987 GCTAAACCCTAGAAGCTAGCCTAT 59.471 45.833 12.13 0.00 32.18 2.57
3211 3258 3.896272 GCTAAACCCTAGAAGCTAGCCTA 59.104 47.826 12.13 5.82 32.18 3.93
3212 3259 2.701423 GCTAAACCCTAGAAGCTAGCCT 59.299 50.000 12.13 4.79 32.18 4.58
3213 3260 2.224329 GGCTAAACCCTAGAAGCTAGCC 60.224 54.545 12.13 13.65 43.27 3.93
3214 3261 2.701423 AGGCTAAACCCTAGAAGCTAGC 59.299 50.000 6.62 6.62 40.58 3.42
3215 3262 3.322541 GGAGGCTAAACCCTAGAAGCTAG 59.677 52.174 0.00 0.00 40.58 3.42
3216 3263 3.052033 AGGAGGCTAAACCCTAGAAGCTA 60.052 47.826 0.00 0.00 40.58 3.32
3217 3264 2.120312 GGAGGCTAAACCCTAGAAGCT 58.880 52.381 0.00 0.00 40.58 3.74
3218 3265 2.120312 AGGAGGCTAAACCCTAGAAGC 58.880 52.381 0.00 0.00 40.58 3.86
3219 3266 3.775316 TCAAGGAGGCTAAACCCTAGAAG 59.225 47.826 0.00 0.00 40.58 2.85
3220 3267 3.798515 TCAAGGAGGCTAAACCCTAGAA 58.201 45.455 0.00 0.00 40.58 2.10
3221 3268 3.484953 TCAAGGAGGCTAAACCCTAGA 57.515 47.619 0.00 0.00 40.58 2.43


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

AutoCloner maintained by Alex Coulton.