Multiple sequence alignment - TraesCS7B01G170100

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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 TraesCS7B01G170100 chr7B 100.000 3280 0 0 1 3280 241579458 241576179 0.000000e+00 6058.0
1 TraesCS7B01G170100 chr7B 79.583 240 28 14 3054 3278 669974333 669974100 5.670000e-33 152.0
2 TraesCS7B01G170100 chr7D 96.500 2686 77 12 1 2679 262353253 262355928 0.000000e+00 4423.0
3 TraesCS7B01G170100 chr7D 95.148 371 15 2 2676 3043 262358036 262358406 1.700000e-162 582.0
4 TraesCS7B01G170100 chr7A 92.942 2777 127 31 1 2764 285424175 285426895 0.000000e+00 3978.0
5 TraesCS7B01G170100 chr7A 91.549 142 11 1 2766 2907 285426999 285427139 9.290000e-46 195.0
6 TraesCS7B01G170100 chr7A 83.708 178 18 8 3051 3222 290923740 290923912 1.220000e-34 158.0
7 TraesCS7B01G170100 chr4A 84.905 1941 172 40 715 2601 5832700 5834573 0.000000e+00 1849.0
8 TraesCS7B01G170100 chr4A 90.728 151 11 3 2905 3052 410364836 410364986 7.180000e-47 198.0
9 TraesCS7B01G170100 chr4D 89.514 391 40 1 966 1355 464178039 464177649 8.180000e-136 494.0
10 TraesCS7B01G170100 chr4D 83.936 249 31 5 2364 2604 464177594 464177347 2.550000e-56 230.0
11 TraesCS7B01G170100 chr4B 82.879 514 49 14 2118 2604 580010882 580010381 3.030000e-115 425.0
12 TraesCS7B01G170100 chr4B 79.498 239 33 12 3051 3278 483504920 483504687 4.380000e-34 156.0
13 TraesCS7B01G170100 chr4B 85.542 83 9 2 2370 2452 580037727 580037648 2.100000e-12 84.2
14 TraesCS7B01G170100 chr1B 94.170 223 13 0 3056 3278 21814665 21814887 1.130000e-89 340.0
15 TraesCS7B01G170100 chr1B 92.982 228 15 1 3051 3278 231347894 231347668 6.780000e-87 331.0
16 TraesCS7B01G170100 chr5B 91.946 149 10 2 2906 3052 13204144 13203996 1.190000e-49 207.0
17 TraesCS7B01G170100 chr5A 91.503 153 10 3 2903 3052 692261428 692261580 1.190000e-49 207.0
18 TraesCS7B01G170100 chr5A 89.542 153 13 3 2903 3052 386169519 386169671 1.200000e-44 191.0
19 TraesCS7B01G170100 chr5A 80.672 238 28 13 3051 3278 432002955 432002726 5.630000e-38 169.0
20 TraesCS7B01G170100 chr2D 90.667 150 13 1 2904 3052 79687754 79687903 7.180000e-47 198.0
21 TraesCS7B01G170100 chr2D 90.728 151 11 2 2905 3052 602714076 602713926 7.180000e-47 198.0
22 TraesCS7B01G170100 chr2B 90.667 150 11 3 2906 3052 426906884 426907033 2.580000e-46 196.0
23 TraesCS7B01G170100 chr1A 90.000 150 13 2 2905 3052 534256567 534256418 3.340000e-45 193.0
24 TraesCS7B01G170100 chr1A 92.453 53 2 1 33 83 448929591 448929643 1.260000e-09 75.0
25 TraesCS7B01G170100 chr3D 80.751 213 25 11 3056 3256 519675229 519675437 5.670000e-33 152.0
26 TraesCS7B01G170100 chr3A 79.149 235 33 14 3056 3278 469050583 469050813 7.330000e-32 148.0
27 TraesCS7B01G170100 chr6D 78.243 239 38 14 3051 3278 374816105 374815870 1.230000e-29 141.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G170100 chr7B 241576179 241579458 3279 True 6058.0 6058 100.0000 1 3280 1 chr7B.!!$R1 3279
1 TraesCS7B01G170100 chr7D 262353253 262358406 5153 False 2502.5 4423 95.8240 1 3043 2 chr7D.!!$F1 3042
2 TraesCS7B01G170100 chr7A 285424175 285427139 2964 False 2086.5 3978 92.2455 1 2907 2 chr7A.!!$F2 2906
3 TraesCS7B01G170100 chr4A 5832700 5834573 1873 False 1849.0 1849 84.9050 715 2601 1 chr4A.!!$F1 1886
4 TraesCS7B01G170100 chr4D 464177347 464178039 692 True 362.0 494 86.7250 966 2604 2 chr4D.!!$R1 1638
5 TraesCS7B01G170100 chr4B 580010381 580010882 501 True 425.0 425 82.8790 2118 2604 1 chr4B.!!$R2 486


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
246 254 0.109226 AGACTCTACGCTGGTTTCGC 60.109 55.0 0.00 0.0 0.00 4.70 F
470 480 0.251165 TACAAAGTTCTGCCAGGGCC 60.251 55.0 8.02 0.0 41.09 5.80 F
615 626 1.104630 AAGGTCTACCGCAGTAGCTC 58.895 55.0 1.96 0.0 44.87 4.09 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1870 1894 0.973632 ACGATCACTACCAGGCACAA 59.026 50.000 0.00 0.00 0.00 3.33 R
1892 1922 2.997897 ACACCTCCGCCTCCTCAC 60.998 66.667 0.00 0.00 0.00 3.51 R
2399 2468 5.700373 TGTCGACATCATCAAGATTTGTTGA 59.300 36.000 15.76 5.36 41.89 3.18 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
21 23 4.489679 AAATTTTGTCAGAAGCTCGACC 57.510 40.909 8.05 0.00 0.00 4.79
126 133 3.603532 ACTCGGATGTAGTACACTCGAA 58.396 45.455 22.00 11.79 36.17 3.71
246 254 0.109226 AGACTCTACGCTGGTTTCGC 60.109 55.000 0.00 0.00 0.00 4.70
252 260 4.090588 CGCTGGTTTCGCCCCCTA 62.091 66.667 0.00 0.00 36.04 3.53
273 281 2.514824 GGCGGACATTGGAGCTCC 60.515 66.667 26.78 26.78 0.00 4.70
284 292 0.832135 TGGAGCTCCAAGGTCTTCGT 60.832 55.000 33.41 0.00 44.35 3.85
303 311 2.288091 CGTAGATAGGAGGACGACGAGA 60.288 54.545 0.00 0.00 37.50 4.04
317 326 3.793144 GAGAAGGCGCCGCACTTG 61.793 66.667 23.20 0.00 0.00 3.16
470 480 0.251165 TACAAAGTTCTGCCAGGGCC 60.251 55.000 8.02 0.00 41.09 5.80
516 527 5.277825 CGCAAGTTTTATTCAACAGTTCCA 58.722 37.500 0.00 0.00 0.00 3.53
544 555 1.202177 CGTTGCCTTGAATTCGATGGG 60.202 52.381 0.04 0.00 0.00 4.00
553 564 4.802051 TTCGATGGGCAGCCAGGC 62.802 66.667 15.19 1.84 43.27 4.85
578 589 2.359900 CATCTTTTCTTAGGCCTGCGT 58.640 47.619 17.99 0.00 0.00 5.24
580 591 3.688694 TCTTTTCTTAGGCCTGCGTTA 57.311 42.857 17.99 0.00 0.00 3.18
615 626 1.104630 AAGGTCTACCGCAGTAGCTC 58.895 55.000 1.96 0.00 44.87 4.09
776 791 4.184629 CCTTCTGATCGTAGGGTTTCTTG 58.815 47.826 0.78 0.00 0.00 3.02
1089 1110 2.417787 CCAGATGTTCGAGATGCTCACA 60.418 50.000 0.00 0.00 0.00 3.58
1320 1344 2.636412 CCTCGACTTCCTGCCGTCA 61.636 63.158 0.00 0.00 0.00 4.35
1323 1347 2.435059 GACTTCCTGCCGTCAGCC 60.435 66.667 0.00 0.00 42.71 4.85
1442 1466 4.907946 GCGATGCTACTACGCGTA 57.092 55.556 19.40 19.40 42.65 4.42
1863 1887 1.194781 AGAAGCTGGTGACGGTGGAT 61.195 55.000 0.00 0.00 39.64 3.41
1866 1890 2.436646 CTGGTGACGGTGGATGGC 60.437 66.667 0.00 0.00 0.00 4.40
1870 1894 1.302511 GTGACGGTGGATGGCAAGT 60.303 57.895 0.00 0.00 0.00 3.16
1892 1922 1.144057 GCCTGGTAGTGATCGTGGG 59.856 63.158 0.00 0.00 0.00 4.61
2126 2171 4.443063 TCGTTACAATCTCCATTATTCGCG 59.557 41.667 0.00 0.00 0.00 5.87
2130 2175 2.802247 CAATCTCCATTATTCGCGAGCA 59.198 45.455 9.59 0.00 0.00 4.26
2399 2468 6.102897 TCTCTTTTTCGTGAGAGAAGGAAT 57.897 37.500 0.86 0.00 43.90 3.01
2465 2544 6.483307 TCTTTGATTATCACCAATTAGCTCCG 59.517 38.462 0.00 0.00 0.00 4.63
2638 2721 2.512485 TGCTCGGTTCGTTAAACTCA 57.488 45.000 0.00 0.00 38.02 3.41
2653 2736 8.946085 TCGTTAAACTCATGATCATTAAAGCTT 58.054 29.630 5.16 0.00 0.00 3.74
2704 4898 3.987868 TCATTAAGTTGAGTGCTCACGTC 59.012 43.478 0.79 0.00 39.66 4.34
2708 4902 2.231529 AGTTGAGTGCTCACGTCTACT 58.768 47.619 0.79 0.00 39.66 2.57
2804 5100 2.071688 AGCTGAGTAGAACTGCAACG 57.928 50.000 0.00 0.00 35.29 4.10
2944 5241 9.651718 CCTTTTAGTTCGCATATAAGATTTGTC 57.348 33.333 0.00 0.00 0.00 3.18
2959 5256 2.708216 TTGTCTGAAGTCAAGCCACA 57.292 45.000 0.00 0.00 0.00 4.17
2967 5264 5.470098 TCTGAAGTCAAGCCACATAAAGTTC 59.530 40.000 0.00 0.00 0.00 3.01
2975 5272 3.059188 AGCCACATAAAGTTCGACAAACG 60.059 43.478 0.00 0.00 43.02 3.60
3043 5342 6.170675 AGATGCGTCATGACTTAAGTTTTC 57.829 37.500 22.95 8.71 0.00 2.29
3044 5343 5.700832 AGATGCGTCATGACTTAAGTTTTCA 59.299 36.000 22.95 3.68 0.00 2.69
3045 5344 5.940192 TGCGTCATGACTTAAGTTTTCAT 57.060 34.783 22.95 6.03 0.00 2.57
3046 5345 7.549134 AGATGCGTCATGACTTAAGTTTTCATA 59.451 33.333 22.95 0.00 0.00 2.15
3047 5346 7.609760 TGCGTCATGACTTAAGTTTTCATAT 57.390 32.000 22.95 0.00 0.00 1.78
3048 5347 8.039603 TGCGTCATGACTTAAGTTTTCATATT 57.960 30.769 22.95 0.00 0.00 1.28
3049 5348 7.962373 TGCGTCATGACTTAAGTTTTCATATTG 59.038 33.333 22.95 3.02 0.00 1.90
3050 5349 7.962918 GCGTCATGACTTAAGTTTTCATATTGT 59.037 33.333 22.95 0.00 0.00 2.71
3054 5353 9.702726 CATGACTTAAGTTTTCATATTGTACCG 57.297 33.333 10.02 0.00 0.00 4.02
3055 5354 9.661563 ATGACTTAAGTTTTCATATTGTACCGA 57.338 29.630 10.02 0.00 0.00 4.69
3056 5355 9.491675 TGACTTAAGTTTTCATATTGTACCGAA 57.508 29.630 10.02 0.00 0.00 4.30
3063 5362 8.635328 AGTTTTCATATTGTACCGAAAAAGGTT 58.365 29.630 0.00 0.00 43.00 3.50
3064 5363 9.251792 GTTTTCATATTGTACCGAAAAAGGTTT 57.748 29.630 0.00 0.00 43.00 3.27
3065 5364 9.819267 TTTTCATATTGTACCGAAAAAGGTTTT 57.181 25.926 0.00 0.00 43.00 2.43
3066 5365 9.465985 TTTCATATTGTACCGAAAAAGGTTTTC 57.534 29.630 3.82 3.82 43.00 2.29
3068 5367 3.337301 TGTACCGAAAAAGGTTTTCGC 57.663 42.857 23.61 14.26 46.89 4.70
3069 5368 2.033174 TGTACCGAAAAAGGTTTTCGCC 59.967 45.455 23.61 15.90 46.89 5.54
3070 5369 0.386476 ACCGAAAAAGGTTTTCGCCC 59.614 50.000 23.61 0.00 46.89 6.13
3071 5370 0.319211 CCGAAAAAGGTTTTCGCCCC 60.319 55.000 23.61 0.00 46.89 5.80
3072 5371 0.386113 CGAAAAAGGTTTTCGCCCCA 59.614 50.000 19.26 0.00 43.52 4.96
3073 5372 1.860676 GAAAAAGGTTTTCGCCCCAC 58.139 50.000 0.00 0.00 0.00 4.61
3074 5373 1.411246 GAAAAAGGTTTTCGCCCCACT 59.589 47.619 0.00 0.00 0.00 4.00
3075 5374 1.491668 AAAAGGTTTTCGCCCCACTT 58.508 45.000 0.00 0.00 0.00 3.16
3076 5375 1.491668 AAAGGTTTTCGCCCCACTTT 58.508 45.000 0.00 0.00 0.00 2.66
3077 5376 2.368311 AAGGTTTTCGCCCCACTTTA 57.632 45.000 0.00 0.00 0.00 1.85
3078 5377 2.597578 AGGTTTTCGCCCCACTTTAT 57.402 45.000 0.00 0.00 0.00 1.40
3079 5378 3.724732 AGGTTTTCGCCCCACTTTATA 57.275 42.857 0.00 0.00 0.00 0.98
3080 5379 4.036941 AGGTTTTCGCCCCACTTTATAA 57.963 40.909 0.00 0.00 0.00 0.98
3081 5380 4.409187 AGGTTTTCGCCCCACTTTATAAA 58.591 39.130 0.00 0.00 0.00 1.40
3082 5381 5.020795 AGGTTTTCGCCCCACTTTATAAAT 58.979 37.500 0.00 0.00 0.00 1.40
3083 5382 6.189133 AGGTTTTCGCCCCACTTTATAAATA 58.811 36.000 0.00 0.00 0.00 1.40
3084 5383 6.664384 AGGTTTTCGCCCCACTTTATAAATAA 59.336 34.615 0.00 0.00 0.00 1.40
3085 5384 7.178805 AGGTTTTCGCCCCACTTTATAAATAAA 59.821 33.333 0.00 0.00 0.00 1.40
3098 5397 4.632538 ATAAATAAAGCAACCACCGAGC 57.367 40.909 0.00 0.00 0.00 5.03
3099 5398 1.904287 AATAAAGCAACCACCGAGCA 58.096 45.000 0.00 0.00 0.00 4.26
3100 5399 1.165270 ATAAAGCAACCACCGAGCAC 58.835 50.000 0.00 0.00 0.00 4.40
3101 5400 0.179043 TAAAGCAACCACCGAGCACA 60.179 50.000 0.00 0.00 0.00 4.57
3102 5401 1.034838 AAAGCAACCACCGAGCACAA 61.035 50.000 0.00 0.00 0.00 3.33
3103 5402 1.724582 AAGCAACCACCGAGCACAAC 61.725 55.000 0.00 0.00 0.00 3.32
3104 5403 2.631428 CAACCACCGAGCACAACG 59.369 61.111 0.00 0.00 0.00 4.10
3105 5404 2.177580 CAACCACCGAGCACAACGT 61.178 57.895 0.00 0.00 0.00 3.99
3106 5405 1.450669 AACCACCGAGCACAACGTT 60.451 52.632 0.00 0.00 0.00 3.99
3107 5406 1.433837 AACCACCGAGCACAACGTTC 61.434 55.000 0.00 0.00 0.00 3.95
3108 5407 1.885388 CCACCGAGCACAACGTTCA 60.885 57.895 0.00 0.00 0.00 3.18
3109 5408 1.275657 CACCGAGCACAACGTTCAC 59.724 57.895 0.00 0.00 0.00 3.18
3110 5409 1.153529 ACCGAGCACAACGTTCACA 60.154 52.632 0.00 0.00 0.00 3.58
3111 5410 0.741574 ACCGAGCACAACGTTCACAA 60.742 50.000 0.00 0.00 0.00 3.33
3112 5411 0.042188 CCGAGCACAACGTTCACAAG 60.042 55.000 0.00 0.00 0.00 3.16
3113 5412 0.042188 CGAGCACAACGTTCACAAGG 60.042 55.000 0.00 0.00 0.00 3.61
3114 5413 1.014352 GAGCACAACGTTCACAAGGT 58.986 50.000 0.00 0.00 0.00 3.50
3115 5414 2.206750 GAGCACAACGTTCACAAGGTA 58.793 47.619 0.00 0.00 0.00 3.08
3116 5415 2.806244 GAGCACAACGTTCACAAGGTAT 59.194 45.455 0.00 0.00 0.00 2.73
3117 5416 2.806244 AGCACAACGTTCACAAGGTATC 59.194 45.455 0.00 0.00 0.00 2.24
3118 5417 2.546368 GCACAACGTTCACAAGGTATCA 59.454 45.455 0.00 0.00 0.00 2.15
3119 5418 3.188460 GCACAACGTTCACAAGGTATCAT 59.812 43.478 0.00 0.00 0.00 2.45
3120 5419 4.390603 GCACAACGTTCACAAGGTATCATA 59.609 41.667 0.00 0.00 0.00 2.15
3121 5420 5.670341 GCACAACGTTCACAAGGTATCATAC 60.670 44.000 0.00 0.00 0.00 2.39
3122 5421 5.407084 CACAACGTTCACAAGGTATCATACA 59.593 40.000 0.00 0.00 0.00 2.29
3123 5422 5.992829 ACAACGTTCACAAGGTATCATACAA 59.007 36.000 0.00 0.00 0.00 2.41
3124 5423 6.483974 ACAACGTTCACAAGGTATCATACAAA 59.516 34.615 0.00 0.00 0.00 2.83
3125 5424 7.012515 ACAACGTTCACAAGGTATCATACAAAA 59.987 33.333 0.00 0.00 0.00 2.44
3126 5425 6.894828 ACGTTCACAAGGTATCATACAAAAC 58.105 36.000 0.00 0.00 0.00 2.43
3127 5426 6.072893 ACGTTCACAAGGTATCATACAAAACC 60.073 38.462 0.00 0.00 0.00 3.27
3128 5427 6.617879 GTTCACAAGGTATCATACAAAACCC 58.382 40.000 0.00 0.00 32.10 4.11
3129 5428 5.882040 TCACAAGGTATCATACAAAACCCA 58.118 37.500 0.00 0.00 32.10 4.51
3130 5429 5.708230 TCACAAGGTATCATACAAAACCCAC 59.292 40.000 0.00 0.00 32.10 4.61
3131 5430 5.475220 CACAAGGTATCATACAAAACCCACA 59.525 40.000 0.00 0.00 32.10 4.17
3132 5431 6.015856 CACAAGGTATCATACAAAACCCACAA 60.016 38.462 0.00 0.00 32.10 3.33
3133 5432 6.551601 ACAAGGTATCATACAAAACCCACAAA 59.448 34.615 0.00 0.00 32.10 2.83
3134 5433 6.584185 AGGTATCATACAAAACCCACAAAC 57.416 37.500 0.00 0.00 32.10 2.93
3135 5434 6.071984 AGGTATCATACAAAACCCACAAACA 58.928 36.000 0.00 0.00 32.10 2.83
3136 5435 6.015772 AGGTATCATACAAAACCCACAAACAC 60.016 38.462 0.00 0.00 32.10 3.32
3137 5436 5.860941 ATCATACAAAACCCACAAACACA 57.139 34.783 0.00 0.00 0.00 3.72
3138 5437 5.000012 TCATACAAAACCCACAAACACAC 58.000 39.130 0.00 0.00 0.00 3.82
3139 5438 4.462834 TCATACAAAACCCACAAACACACA 59.537 37.500 0.00 0.00 0.00 3.72
3140 5439 3.033368 ACAAAACCCACAAACACACAC 57.967 42.857 0.00 0.00 0.00 3.82
3141 5440 2.365617 ACAAAACCCACAAACACACACA 59.634 40.909 0.00 0.00 0.00 3.72
3142 5441 3.181465 ACAAAACCCACAAACACACACAA 60.181 39.130 0.00 0.00 0.00 3.33
3143 5442 2.734276 AACCCACAAACACACACAAC 57.266 45.000 0.00 0.00 0.00 3.32
3144 5443 0.523966 ACCCACAAACACACACAACG 59.476 50.000 0.00 0.00 0.00 4.10
3145 5444 0.800300 CCCACAAACACACACAACGC 60.800 55.000 0.00 0.00 0.00 4.84
3146 5445 0.170116 CCACAAACACACACAACGCT 59.830 50.000 0.00 0.00 0.00 5.07
3147 5446 1.398739 CCACAAACACACACAACGCTA 59.601 47.619 0.00 0.00 0.00 4.26
3148 5447 2.436670 CACAAACACACACAACGCTAC 58.563 47.619 0.00 0.00 0.00 3.58
3149 5448 1.399089 ACAAACACACACAACGCTACC 59.601 47.619 0.00 0.00 0.00 3.18
3150 5449 0.653636 AAACACACACAACGCTACCG 59.346 50.000 0.00 0.00 41.14 4.02
3151 5450 1.768112 AACACACACAACGCTACCGC 61.768 55.000 0.00 0.00 38.22 5.68
3152 5451 2.107343 ACACACAACGCTACCGCA 59.893 55.556 0.00 0.00 38.22 5.69
3153 5452 1.954146 ACACACAACGCTACCGCAG 60.954 57.895 0.00 0.00 38.22 5.18
3167 5466 4.947147 GCAGGCACCGGTCCAACA 62.947 66.667 20.68 0.00 0.00 3.33
3168 5467 2.978010 CAGGCACCGGTCCAACAC 60.978 66.667 20.68 2.94 0.00 3.32
3169 5468 3.484806 AGGCACCGGTCCAACACA 61.485 61.111 20.68 0.00 0.00 3.72
3170 5469 3.284449 GGCACCGGTCCAACACAC 61.284 66.667 2.59 0.00 0.00 3.82
3171 5470 3.284449 GCACCGGTCCAACACACC 61.284 66.667 2.59 0.00 0.00 4.16
3172 5471 2.593436 CACCGGTCCAACACACCC 60.593 66.667 2.59 0.00 0.00 4.61
3173 5472 2.770904 ACCGGTCCAACACACCCT 60.771 61.111 0.00 0.00 0.00 4.34
3174 5473 2.032071 CCGGTCCAACACACCCTC 59.968 66.667 0.00 0.00 0.00 4.30
3175 5474 2.813726 CCGGTCCAACACACCCTCA 61.814 63.158 0.00 0.00 0.00 3.86
3176 5475 1.597027 CGGTCCAACACACCCTCAC 60.597 63.158 0.00 0.00 0.00 3.51
3177 5476 1.529796 GGTCCAACACACCCTCACA 59.470 57.895 0.00 0.00 0.00 3.58
3178 5477 0.106918 GGTCCAACACACCCTCACAA 60.107 55.000 0.00 0.00 0.00 3.33
3179 5478 1.683629 GGTCCAACACACCCTCACAAA 60.684 52.381 0.00 0.00 0.00 2.83
3180 5479 1.404035 GTCCAACACACCCTCACAAAC 59.596 52.381 0.00 0.00 0.00 2.93
3181 5480 1.004862 TCCAACACACCCTCACAAACA 59.995 47.619 0.00 0.00 0.00 2.83
3182 5481 2.031120 CCAACACACCCTCACAAACAT 58.969 47.619 0.00 0.00 0.00 2.71
3183 5482 3.117851 TCCAACACACCCTCACAAACATA 60.118 43.478 0.00 0.00 0.00 2.29
3184 5483 3.634448 CCAACACACCCTCACAAACATAA 59.366 43.478 0.00 0.00 0.00 1.90
3185 5484 4.261572 CCAACACACCCTCACAAACATAAG 60.262 45.833 0.00 0.00 0.00 1.73
3186 5485 3.486383 ACACACCCTCACAAACATAAGG 58.514 45.455 0.00 0.00 0.00 2.69
3187 5486 3.117663 ACACACCCTCACAAACATAAGGT 60.118 43.478 0.00 0.00 0.00 3.50
3188 5487 3.888930 CACACCCTCACAAACATAAGGTT 59.111 43.478 0.00 0.00 42.98 3.50
3189 5488 4.023193 CACACCCTCACAAACATAAGGTTC 60.023 45.833 0.00 0.00 39.29 3.62
3190 5489 4.141287 CACCCTCACAAACATAAGGTTCA 58.859 43.478 0.00 0.00 39.29 3.18
3191 5490 4.216257 CACCCTCACAAACATAAGGTTCAG 59.784 45.833 0.00 0.00 39.29 3.02
3192 5491 3.191371 CCCTCACAAACATAAGGTTCAGC 59.809 47.826 0.00 0.00 39.29 4.26
3193 5492 4.074970 CCTCACAAACATAAGGTTCAGCT 58.925 43.478 0.00 0.00 39.29 4.24
3194 5493 4.083110 CCTCACAAACATAAGGTTCAGCTG 60.083 45.833 7.63 7.63 39.29 4.24
3195 5494 4.460263 TCACAAACATAAGGTTCAGCTGT 58.540 39.130 14.67 0.00 39.29 4.40
3196 5495 4.275689 TCACAAACATAAGGTTCAGCTGTG 59.724 41.667 14.67 5.09 42.10 3.66
3197 5496 3.569701 ACAAACATAAGGTTCAGCTGTGG 59.430 43.478 14.67 0.00 39.29 4.17
3198 5497 2.496899 ACATAAGGTTCAGCTGTGGG 57.503 50.000 14.67 0.00 0.00 4.61
3199 5498 1.098050 CATAAGGTTCAGCTGTGGGC 58.902 55.000 14.67 2.49 42.19 5.36
3200 5499 0.698238 ATAAGGTTCAGCTGTGGGCA 59.302 50.000 14.67 0.00 44.79 5.36
3201 5500 0.250727 TAAGGTTCAGCTGTGGGCAC 60.251 55.000 14.67 4.12 44.79 5.01
3202 5501 2.203337 GGTTCAGCTGTGGGCACA 60.203 61.111 14.67 0.00 44.79 4.57
3203 5502 1.827789 GGTTCAGCTGTGGGCACAA 60.828 57.895 14.67 0.00 44.79 3.33
3204 5503 1.360192 GTTCAGCTGTGGGCACAAC 59.640 57.895 14.67 5.00 44.79 3.32
3205 5504 1.077140 TTCAGCTGTGGGCACAACA 60.077 52.632 14.67 0.00 44.79 3.33
3206 5505 0.467844 TTCAGCTGTGGGCACAACAT 60.468 50.000 14.67 0.00 44.79 2.71
3207 5506 0.399833 TCAGCTGTGGGCACAACATA 59.600 50.000 14.67 0.00 44.79 2.29
3208 5507 1.202867 TCAGCTGTGGGCACAACATAA 60.203 47.619 14.67 0.00 44.79 1.90
3209 5508 1.068333 CAGCTGTGGGCACAACATAAC 60.068 52.381 5.25 0.00 44.79 1.89
3210 5509 0.958091 GCTGTGGGCACAACATAACA 59.042 50.000 0.00 0.00 41.33 2.41
3211 5510 1.339610 GCTGTGGGCACAACATAACAA 59.660 47.619 0.00 0.00 41.33 2.83
3212 5511 2.607771 GCTGTGGGCACAACATAACAAG 60.608 50.000 0.00 0.00 41.33 3.16
3213 5512 1.339610 TGTGGGCACAACATAACAAGC 59.660 47.619 0.00 0.00 38.56 4.01
3214 5513 1.613437 GTGGGCACAACATAACAAGCT 59.387 47.619 0.00 0.00 0.00 3.74
3215 5514 1.612950 TGGGCACAACATAACAAGCTG 59.387 47.619 0.00 0.00 0.00 4.24
3216 5515 1.885887 GGGCACAACATAACAAGCTGA 59.114 47.619 0.00 0.00 0.00 4.26
3217 5516 2.295909 GGGCACAACATAACAAGCTGAA 59.704 45.455 0.00 0.00 0.00 3.02
3218 5517 3.308530 GGCACAACATAACAAGCTGAAC 58.691 45.455 0.00 0.00 0.00 3.18
3219 5518 3.243367 GGCACAACATAACAAGCTGAACA 60.243 43.478 0.00 0.00 0.00 3.18
3220 5519 3.730715 GCACAACATAACAAGCTGAACAC 59.269 43.478 0.00 0.00 0.00 3.32
3221 5520 4.733230 GCACAACATAACAAGCTGAACACA 60.733 41.667 0.00 0.00 0.00 3.72
3222 5521 5.522456 CACAACATAACAAGCTGAACACAT 58.478 37.500 0.00 0.00 0.00 3.21
3223 5522 5.400188 CACAACATAACAAGCTGAACACATG 59.600 40.000 0.00 0.00 0.00 3.21
3224 5523 4.164822 ACATAACAAGCTGAACACATGC 57.835 40.909 0.00 0.00 0.00 4.06
3225 5524 2.967459 TAACAAGCTGAACACATGCG 57.033 45.000 0.00 0.00 0.00 4.73
3226 5525 0.318107 AACAAGCTGAACACATGCGC 60.318 50.000 0.00 0.00 0.00 6.09
3227 5526 1.283487 CAAGCTGAACACATGCGCA 59.717 52.632 14.96 14.96 0.00 6.09
3228 5527 1.000233 CAAGCTGAACACATGCGCAC 61.000 55.000 14.90 0.00 0.00 5.34
3229 5528 1.446516 AAGCTGAACACATGCGCACA 61.447 50.000 14.90 3.62 0.00 4.57
3230 5529 1.008652 GCTGAACACATGCGCACAA 60.009 52.632 14.90 0.00 0.00 3.33
3231 5530 1.000233 GCTGAACACATGCGCACAAG 61.000 55.000 14.90 8.75 0.00 3.16
3232 5531 0.587768 CTGAACACATGCGCACAAGA 59.412 50.000 14.90 0.00 0.00 3.02
3233 5532 0.307453 TGAACACATGCGCACAAGAC 59.693 50.000 14.90 3.62 0.00 3.01
3234 5533 0.307453 GAACACATGCGCACAAGACA 59.693 50.000 14.90 0.00 0.00 3.41
3235 5534 0.737804 AACACATGCGCACAAGACAA 59.262 45.000 14.90 0.00 0.00 3.18
3236 5535 0.029300 ACACATGCGCACAAGACAAC 59.971 50.000 14.90 0.00 0.00 3.32
3237 5536 0.029167 CACATGCGCACAAGACAACA 59.971 50.000 14.90 0.00 0.00 3.33
3238 5537 0.029300 ACATGCGCACAAGACAACAC 59.971 50.000 14.90 0.00 0.00 3.32
3239 5538 0.029167 CATGCGCACAAGACAACACA 59.971 50.000 14.90 0.00 0.00 3.72
3240 5539 0.953727 ATGCGCACAAGACAACACAT 59.046 45.000 14.90 0.00 0.00 3.21
3241 5540 1.587547 TGCGCACAAGACAACACATA 58.412 45.000 5.66 0.00 0.00 2.29
3242 5541 1.943340 TGCGCACAAGACAACACATAA 59.057 42.857 5.66 0.00 0.00 1.90
3243 5542 2.356069 TGCGCACAAGACAACACATAAA 59.644 40.909 5.66 0.00 0.00 1.40
3244 5543 2.719046 GCGCACAAGACAACACATAAAC 59.281 45.455 0.30 0.00 0.00 2.01
3245 5544 2.964123 CGCACAAGACAACACATAAACG 59.036 45.455 0.00 0.00 0.00 3.60
3246 5545 3.296628 GCACAAGACAACACATAAACGG 58.703 45.455 0.00 0.00 0.00 4.44
3247 5546 3.296628 CACAAGACAACACATAAACGGC 58.703 45.455 0.00 0.00 0.00 5.68
3248 5547 2.032377 ACAAGACAACACATAAACGGCG 60.032 45.455 4.80 4.80 0.00 6.46
3249 5548 2.157834 AGACAACACATAAACGGCGA 57.842 45.000 16.62 0.00 0.00 5.54
3250 5549 2.695359 AGACAACACATAAACGGCGAT 58.305 42.857 16.62 0.00 0.00 4.58
3251 5550 2.415168 AGACAACACATAAACGGCGATG 59.585 45.455 16.62 9.99 0.00 3.84
3252 5551 1.466950 ACAACACATAAACGGCGATGG 59.533 47.619 16.62 4.09 0.00 3.51
3253 5552 0.450184 AACACATAAACGGCGATGGC 59.550 50.000 16.62 0.00 38.90 4.40
3270 5569 3.480133 CGGCGGGGAAGGGAAGAT 61.480 66.667 0.00 0.00 0.00 2.40
3271 5570 2.511403 GGCGGGGAAGGGAAGATC 59.489 66.667 0.00 0.00 0.00 2.75
3272 5571 2.073101 GGCGGGGAAGGGAAGATCT 61.073 63.158 0.00 0.00 0.00 2.75
3273 5572 0.763223 GGCGGGGAAGGGAAGATCTA 60.763 60.000 0.00 0.00 0.00 1.98
3274 5573 1.129058 GCGGGGAAGGGAAGATCTAA 58.871 55.000 0.00 0.00 0.00 2.10
3275 5574 1.700186 GCGGGGAAGGGAAGATCTAAT 59.300 52.381 0.00 0.00 0.00 1.73
3276 5575 2.289756 GCGGGGAAGGGAAGATCTAATC 60.290 54.545 0.00 0.00 0.00 1.75
3277 5576 2.303311 CGGGGAAGGGAAGATCTAATCC 59.697 54.545 5.02 5.02 34.85 3.01
3278 5577 3.327439 GGGGAAGGGAAGATCTAATCCA 58.673 50.000 14.18 0.00 37.46 3.41
3279 5578 3.329225 GGGGAAGGGAAGATCTAATCCAG 59.671 52.174 14.18 0.00 37.46 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
8 9 3.616956 ATCAAATGGTCGAGCTTCTGA 57.383 42.857 16.64 12.33 0.00 3.27
9 10 4.872691 ACTTATCAAATGGTCGAGCTTCTG 59.127 41.667 16.64 6.83 0.00 3.02
100 104 2.928116 GTGTACTACATCCGAGTTTGCC 59.072 50.000 0.00 0.00 0.00 4.52
126 133 2.507407 AACGGAATGTGGTGGCTATT 57.493 45.000 0.00 0.00 0.00 1.73
160 167 8.967664 TGTGTACTACTTTTCTTTGGTAATGT 57.032 30.769 0.00 0.00 0.00 2.71
161 168 9.878599 CTTGTGTACTACTTTTCTTTGGTAATG 57.121 33.333 0.00 0.00 0.00 1.90
162 169 9.623000 ACTTGTGTACTACTTTTCTTTGGTAAT 57.377 29.630 0.00 0.00 0.00 1.89
224 232 2.408704 CGAAACCAGCGTAGAGTCTTTG 59.591 50.000 0.00 0.00 0.00 2.77
252 260 1.153086 GCTCCAATGTCCGCCTCAT 60.153 57.895 0.00 0.00 0.00 2.90
273 281 4.276431 GTCCTCCTATCTACGAAGACCTTG 59.724 50.000 0.00 0.00 33.57 3.61
284 292 3.244146 CCTTCTCGTCGTCCTCCTATCTA 60.244 52.174 0.00 0.00 0.00 1.98
470 480 4.382147 GCTGTCTAGTTTAGGACTTCAGGG 60.382 50.000 0.00 0.00 39.86 4.45
474 484 3.180613 GCGCTGTCTAGTTTAGGACTTC 58.819 50.000 0.00 0.00 39.86 3.01
544 555 2.203181 GATGGAGAGCCTGGCTGC 60.203 66.667 28.82 17.41 39.88 5.25
553 564 4.450053 CAGGCCTAAGAAAAGATGGAGAG 58.550 47.826 3.98 0.00 0.00 3.20
776 791 3.802685 CCAACGATCTCCCTCGAAAATAC 59.197 47.826 0.00 0.00 41.12 1.89
1810 1834 1.274728 CCTGTCTGTTCTGTCCTCCAG 59.725 57.143 0.00 0.00 42.97 3.86
1866 1890 2.254546 TCACTACCAGGCACAACTTG 57.745 50.000 0.00 0.00 0.00 3.16
1870 1894 0.973632 ACGATCACTACCAGGCACAA 59.026 50.000 0.00 0.00 0.00 3.33
1892 1922 2.997897 ACACCTCCGCCTCCTCAC 60.998 66.667 0.00 0.00 0.00 3.51
2130 2175 7.107639 ACAAGTGCAAAATTAGTACCACTTT 57.892 32.000 7.02 0.00 40.39 2.66
2399 2468 5.700373 TGTCGACATCATCAAGATTTGTTGA 59.300 36.000 15.76 5.36 41.89 3.18
2465 2544 7.174253 TGACCTGAAGTGGTGTTAATAAATGAC 59.826 37.037 0.00 0.00 41.00 3.06
2638 2721 6.949352 ATCGAACCAAGCTTTAATGATCAT 57.051 33.333 1.18 1.18 0.00 2.45
2804 5100 6.821160 TGAAAGTTTCAATTTTGGGAAAGGTC 59.179 34.615 15.92 0.00 36.59 3.85
2852 5148 5.047872 CCATGAAGTCATCCATGTTCAAACA 60.048 40.000 0.00 0.00 38.69 2.83
2944 5241 5.615544 CGAACTTTATGTGGCTTGACTTCAG 60.616 44.000 0.00 0.00 0.00 3.02
3043 5342 7.487180 CGAAAACCTTTTTCGGTACAATATG 57.513 36.000 20.78 0.00 45.17 1.78
3054 5353 1.411246 AGTGGGGCGAAAACCTTTTTC 59.589 47.619 1.93 1.93 0.00 2.29
3055 5354 1.491668 AGTGGGGCGAAAACCTTTTT 58.508 45.000 0.00 0.00 0.00 1.94
3056 5355 1.491668 AAGTGGGGCGAAAACCTTTT 58.508 45.000 0.00 0.00 0.00 2.27
3057 5356 1.491668 AAAGTGGGGCGAAAACCTTT 58.508 45.000 0.00 0.00 0.00 3.11
3058 5357 2.368311 TAAAGTGGGGCGAAAACCTT 57.632 45.000 0.00 0.00 0.00 3.50
3059 5358 2.597578 ATAAAGTGGGGCGAAAACCT 57.402 45.000 0.00 0.00 0.00 3.50
3060 5359 4.787260 TTTATAAAGTGGGGCGAAAACC 57.213 40.909 0.00 0.00 0.00 3.27
3061 5360 7.009815 GCTTTATTTATAAAGTGGGGCGAAAAC 59.990 37.037 18.51 0.69 46.78 2.43
3062 5361 7.036829 GCTTTATTTATAAAGTGGGGCGAAAA 58.963 34.615 18.51 0.00 46.78 2.29
3063 5362 6.153000 TGCTTTATTTATAAAGTGGGGCGAAA 59.847 34.615 18.51 0.00 46.78 3.46
3064 5363 5.652891 TGCTTTATTTATAAAGTGGGGCGAA 59.347 36.000 18.51 0.00 46.78 4.70
3065 5364 5.194432 TGCTTTATTTATAAAGTGGGGCGA 58.806 37.500 18.51 0.76 46.78 5.54
3066 5365 5.508200 TGCTTTATTTATAAAGTGGGGCG 57.492 39.130 18.51 0.00 46.78 6.13
3067 5366 6.046593 GGTTGCTTTATTTATAAAGTGGGGC 58.953 40.000 18.51 9.14 46.78 5.80
3068 5367 7.039270 GTGGTTGCTTTATTTATAAAGTGGGG 58.961 38.462 18.51 0.99 46.78 4.96
3069 5368 7.039270 GGTGGTTGCTTTATTTATAAAGTGGG 58.961 38.462 18.51 1.28 46.78 4.61
3070 5369 6.750039 CGGTGGTTGCTTTATTTATAAAGTGG 59.250 38.462 18.51 1.56 46.78 4.00
3071 5370 7.531716 TCGGTGGTTGCTTTATTTATAAAGTG 58.468 34.615 18.51 2.11 46.78 3.16
3072 5371 7.627726 GCTCGGTGGTTGCTTTATTTATAAAGT 60.628 37.037 18.51 0.00 46.78 2.66
3074 5373 6.151312 TGCTCGGTGGTTGCTTTATTTATAAA 59.849 34.615 0.00 0.00 0.00 1.40
3075 5374 5.648526 TGCTCGGTGGTTGCTTTATTTATAA 59.351 36.000 0.00 0.00 0.00 0.98
3076 5375 5.065474 GTGCTCGGTGGTTGCTTTATTTATA 59.935 40.000 0.00 0.00 0.00 0.98
3077 5376 4.013728 TGCTCGGTGGTTGCTTTATTTAT 58.986 39.130 0.00 0.00 0.00 1.40
3078 5377 3.189702 GTGCTCGGTGGTTGCTTTATTTA 59.810 43.478 0.00 0.00 0.00 1.40
3079 5378 2.030274 GTGCTCGGTGGTTGCTTTATTT 60.030 45.455 0.00 0.00 0.00 1.40
3080 5379 1.539827 GTGCTCGGTGGTTGCTTTATT 59.460 47.619 0.00 0.00 0.00 1.40
3081 5380 1.165270 GTGCTCGGTGGTTGCTTTAT 58.835 50.000 0.00 0.00 0.00 1.40
3082 5381 0.179043 TGTGCTCGGTGGTTGCTTTA 60.179 50.000 0.00 0.00 0.00 1.85
3083 5382 1.034838 TTGTGCTCGGTGGTTGCTTT 61.035 50.000 0.00 0.00 0.00 3.51
3084 5383 1.453015 TTGTGCTCGGTGGTTGCTT 60.453 52.632 0.00 0.00 0.00 3.91
3085 5384 2.186826 GTTGTGCTCGGTGGTTGCT 61.187 57.895 0.00 0.00 0.00 3.91
3086 5385 2.331451 GTTGTGCTCGGTGGTTGC 59.669 61.111 0.00 0.00 0.00 4.17
3087 5386 1.711060 AACGTTGTGCTCGGTGGTTG 61.711 55.000 0.00 0.00 0.00 3.77
3088 5387 1.433837 GAACGTTGTGCTCGGTGGTT 61.434 55.000 5.00 0.00 0.00 3.67
3089 5388 1.885850 GAACGTTGTGCTCGGTGGT 60.886 57.895 5.00 0.00 0.00 4.16
3090 5389 1.885388 TGAACGTTGTGCTCGGTGG 60.885 57.895 5.00 0.00 0.00 4.61
3091 5390 1.275657 GTGAACGTTGTGCTCGGTG 59.724 57.895 5.00 0.00 0.00 4.94
3092 5391 0.741574 TTGTGAACGTTGTGCTCGGT 60.742 50.000 5.00 0.00 0.00 4.69
3093 5392 0.042188 CTTGTGAACGTTGTGCTCGG 60.042 55.000 5.00 0.00 0.00 4.63
3094 5393 0.042188 CCTTGTGAACGTTGTGCTCG 60.042 55.000 5.00 0.00 0.00 5.03
3095 5394 1.014352 ACCTTGTGAACGTTGTGCTC 58.986 50.000 5.00 0.00 0.00 4.26
3096 5395 2.319136 TACCTTGTGAACGTTGTGCT 57.681 45.000 5.00 0.00 0.00 4.40
3097 5396 2.546368 TGATACCTTGTGAACGTTGTGC 59.454 45.455 5.00 0.00 0.00 4.57
3098 5397 5.407084 TGTATGATACCTTGTGAACGTTGTG 59.593 40.000 5.00 0.00 0.00 3.33
3099 5398 5.543714 TGTATGATACCTTGTGAACGTTGT 58.456 37.500 5.00 0.00 0.00 3.32
3100 5399 6.474819 TTGTATGATACCTTGTGAACGTTG 57.525 37.500 5.00 0.00 0.00 4.10
3101 5400 7.357303 GTTTTGTATGATACCTTGTGAACGTT 58.643 34.615 0.00 0.00 0.00 3.99
3102 5401 6.072893 GGTTTTGTATGATACCTTGTGAACGT 60.073 38.462 0.00 0.00 0.00 3.99
3103 5402 6.311723 GGTTTTGTATGATACCTTGTGAACG 58.688 40.000 0.00 0.00 0.00 3.95
3104 5403 6.207810 TGGGTTTTGTATGATACCTTGTGAAC 59.792 38.462 0.00 0.00 0.00 3.18
3105 5404 6.207810 GTGGGTTTTGTATGATACCTTGTGAA 59.792 38.462 0.00 0.00 0.00 3.18
3106 5405 5.708230 GTGGGTTTTGTATGATACCTTGTGA 59.292 40.000 0.00 0.00 0.00 3.58
3107 5406 5.475220 TGTGGGTTTTGTATGATACCTTGTG 59.525 40.000 0.00 0.00 0.00 3.33
3108 5407 5.636123 TGTGGGTTTTGTATGATACCTTGT 58.364 37.500 0.00 0.00 0.00 3.16
3109 5408 6.582677 TTGTGGGTTTTGTATGATACCTTG 57.417 37.500 0.00 0.00 0.00 3.61
3110 5409 6.551601 TGTTTGTGGGTTTTGTATGATACCTT 59.448 34.615 0.00 0.00 0.00 3.50
3111 5410 6.015772 GTGTTTGTGGGTTTTGTATGATACCT 60.016 38.462 0.00 0.00 0.00 3.08
3112 5411 6.153756 GTGTTTGTGGGTTTTGTATGATACC 58.846 40.000 0.00 0.00 0.00 2.73
3113 5412 6.639279 GTGTGTTTGTGGGTTTTGTATGATAC 59.361 38.462 0.00 0.00 0.00 2.24
3114 5413 6.321435 TGTGTGTTTGTGGGTTTTGTATGATA 59.679 34.615 0.00 0.00 0.00 2.15
3115 5414 5.127845 TGTGTGTTTGTGGGTTTTGTATGAT 59.872 36.000 0.00 0.00 0.00 2.45
3116 5415 4.462834 TGTGTGTTTGTGGGTTTTGTATGA 59.537 37.500 0.00 0.00 0.00 2.15
3117 5416 4.564769 GTGTGTGTTTGTGGGTTTTGTATG 59.435 41.667 0.00 0.00 0.00 2.39
3118 5417 4.220821 TGTGTGTGTTTGTGGGTTTTGTAT 59.779 37.500 0.00 0.00 0.00 2.29
3119 5418 3.572682 TGTGTGTGTTTGTGGGTTTTGTA 59.427 39.130 0.00 0.00 0.00 2.41
3120 5419 2.365617 TGTGTGTGTTTGTGGGTTTTGT 59.634 40.909 0.00 0.00 0.00 2.83
3121 5420 3.032017 TGTGTGTGTTTGTGGGTTTTG 57.968 42.857 0.00 0.00 0.00 2.44
3122 5421 3.394719 GTTGTGTGTGTTTGTGGGTTTT 58.605 40.909 0.00 0.00 0.00 2.43
3123 5422 2.608261 CGTTGTGTGTGTTTGTGGGTTT 60.608 45.455 0.00 0.00 0.00 3.27
3124 5423 1.068194 CGTTGTGTGTGTTTGTGGGTT 60.068 47.619 0.00 0.00 0.00 4.11
3125 5424 0.523966 CGTTGTGTGTGTTTGTGGGT 59.476 50.000 0.00 0.00 0.00 4.51
3126 5425 0.800300 GCGTTGTGTGTGTTTGTGGG 60.800 55.000 0.00 0.00 0.00 4.61
3127 5426 0.170116 AGCGTTGTGTGTGTTTGTGG 59.830 50.000 0.00 0.00 0.00 4.17
3128 5427 2.436670 GTAGCGTTGTGTGTGTTTGTG 58.563 47.619 0.00 0.00 0.00 3.33
3129 5428 1.399089 GGTAGCGTTGTGTGTGTTTGT 59.601 47.619 0.00 0.00 0.00 2.83
3130 5429 1.593551 CGGTAGCGTTGTGTGTGTTTG 60.594 52.381 6.07 0.00 0.00 2.93
3131 5430 0.653636 CGGTAGCGTTGTGTGTGTTT 59.346 50.000 6.07 0.00 0.00 2.83
3132 5431 1.768112 GCGGTAGCGTTGTGTGTGTT 61.768 55.000 16.63 0.00 0.00 3.32
3133 5432 2.241880 GCGGTAGCGTTGTGTGTGT 61.242 57.895 16.63 0.00 0.00 3.72
3134 5433 2.549282 GCGGTAGCGTTGTGTGTG 59.451 61.111 16.63 0.00 0.00 3.82
3145 5444 4.814294 GACCGGTGCCTGCGGTAG 62.814 72.222 14.63 0.00 36.01 3.18
3150 5449 4.947147 TGTTGGACCGGTGCCTGC 62.947 66.667 24.47 13.57 0.00 4.85
3151 5450 2.978010 GTGTTGGACCGGTGCCTG 60.978 66.667 24.47 0.00 0.00 4.85
3152 5451 3.484806 TGTGTTGGACCGGTGCCT 61.485 61.111 24.47 0.00 0.00 4.75
3153 5452 3.284449 GTGTGTTGGACCGGTGCC 61.284 66.667 24.47 18.61 0.00 5.01
3154 5453 3.284449 GGTGTGTTGGACCGGTGC 61.284 66.667 20.69 20.69 0.00 5.01
3155 5454 2.593436 GGGTGTGTTGGACCGGTG 60.593 66.667 14.63 0.00 33.89 4.94
3156 5455 2.770904 AGGGTGTGTTGGACCGGT 60.771 61.111 6.92 6.92 33.89 5.28
3157 5456 2.032071 GAGGGTGTGTTGGACCGG 59.968 66.667 0.00 0.00 33.89 5.28
3158 5457 1.597027 GTGAGGGTGTGTTGGACCG 60.597 63.158 0.00 0.00 33.89 4.79
3159 5458 0.106918 TTGTGAGGGTGTGTTGGACC 60.107 55.000 0.00 0.00 0.00 4.46
3160 5459 1.404035 GTTTGTGAGGGTGTGTTGGAC 59.596 52.381 0.00 0.00 0.00 4.02
3161 5460 1.004862 TGTTTGTGAGGGTGTGTTGGA 59.995 47.619 0.00 0.00 0.00 3.53
3162 5461 1.468985 TGTTTGTGAGGGTGTGTTGG 58.531 50.000 0.00 0.00 0.00 3.77
3163 5462 4.261572 CCTTATGTTTGTGAGGGTGTGTTG 60.262 45.833 0.00 0.00 0.00 3.33
3164 5463 3.888930 CCTTATGTTTGTGAGGGTGTGTT 59.111 43.478 0.00 0.00 0.00 3.32
3165 5464 3.117663 ACCTTATGTTTGTGAGGGTGTGT 60.118 43.478 0.00 0.00 33.51 3.72
3166 5465 3.486383 ACCTTATGTTTGTGAGGGTGTG 58.514 45.455 0.00 0.00 33.51 3.82
3167 5466 3.876309 ACCTTATGTTTGTGAGGGTGT 57.124 42.857 0.00 0.00 33.51 4.16
3168 5467 4.141287 TGAACCTTATGTTTGTGAGGGTG 58.859 43.478 0.00 0.00 37.29 4.61
3169 5468 4.398319 CTGAACCTTATGTTTGTGAGGGT 58.602 43.478 0.00 0.00 37.29 4.34
3170 5469 3.191371 GCTGAACCTTATGTTTGTGAGGG 59.809 47.826 0.00 0.00 37.29 4.30
3171 5470 4.074970 AGCTGAACCTTATGTTTGTGAGG 58.925 43.478 0.00 0.00 37.29 3.86
3172 5471 4.516698 ACAGCTGAACCTTATGTTTGTGAG 59.483 41.667 23.35 0.00 37.29 3.51
3173 5472 4.275689 CACAGCTGAACCTTATGTTTGTGA 59.724 41.667 23.35 0.00 41.37 3.58
3174 5473 4.539870 CACAGCTGAACCTTATGTTTGTG 58.460 43.478 23.35 0.00 37.29 3.33
3175 5474 3.569701 CCACAGCTGAACCTTATGTTTGT 59.430 43.478 23.35 0.00 37.29 2.83
3176 5475 3.057315 CCCACAGCTGAACCTTATGTTTG 60.057 47.826 23.35 2.92 37.29 2.93
3177 5476 3.157087 CCCACAGCTGAACCTTATGTTT 58.843 45.455 23.35 0.00 37.29 2.83
3178 5477 2.795329 CCCACAGCTGAACCTTATGTT 58.205 47.619 23.35 0.00 40.81 2.71
3179 5478 1.614317 GCCCACAGCTGAACCTTATGT 60.614 52.381 23.35 0.00 38.99 2.29
3180 5479 1.098050 GCCCACAGCTGAACCTTATG 58.902 55.000 23.35 5.94 38.99 1.90
3181 5480 0.698238 TGCCCACAGCTGAACCTTAT 59.302 50.000 23.35 0.00 44.23 1.73
3182 5481 0.250727 GTGCCCACAGCTGAACCTTA 60.251 55.000 23.35 0.00 44.23 2.69
3183 5482 1.529244 GTGCCCACAGCTGAACCTT 60.529 57.895 23.35 0.00 44.23 3.50
3184 5483 2.113986 GTGCCCACAGCTGAACCT 59.886 61.111 23.35 0.00 44.23 3.50
3185 5484 1.827789 TTGTGCCCACAGCTGAACC 60.828 57.895 23.35 6.11 42.94 3.62
3186 5485 1.360192 GTTGTGCCCACAGCTGAAC 59.640 57.895 23.35 8.64 42.94 3.18
3187 5486 0.467844 ATGTTGTGCCCACAGCTGAA 60.468 50.000 23.35 0.00 42.94 3.02
3188 5487 0.399833 TATGTTGTGCCCACAGCTGA 59.600 50.000 23.35 0.00 42.94 4.26
3189 5488 1.068333 GTTATGTTGTGCCCACAGCTG 60.068 52.381 13.48 13.48 42.94 4.24
3190 5489 1.247567 GTTATGTTGTGCCCACAGCT 58.752 50.000 14.73 5.13 42.94 4.24
3191 5490 0.958091 TGTTATGTTGTGCCCACAGC 59.042 50.000 8.11 8.11 42.94 4.40
3192 5491 2.607771 GCTTGTTATGTTGTGCCCACAG 60.608 50.000 1.02 0.00 42.94 3.66
3193 5492 1.339610 GCTTGTTATGTTGTGCCCACA 59.660 47.619 0.00 0.00 39.98 4.17
3194 5493 1.613437 AGCTTGTTATGTTGTGCCCAC 59.387 47.619 0.00 0.00 0.00 4.61
3195 5494 1.612950 CAGCTTGTTATGTTGTGCCCA 59.387 47.619 0.00 0.00 0.00 5.36
3196 5495 1.885887 TCAGCTTGTTATGTTGTGCCC 59.114 47.619 0.00 0.00 0.00 5.36
3197 5496 3.243367 TGTTCAGCTTGTTATGTTGTGCC 60.243 43.478 0.00 0.00 0.00 5.01
3198 5497 3.730715 GTGTTCAGCTTGTTATGTTGTGC 59.269 43.478 0.00 0.00 0.00 4.57
3199 5498 4.919206 TGTGTTCAGCTTGTTATGTTGTG 58.081 39.130 0.00 0.00 0.00 3.33
3200 5499 5.522456 CATGTGTTCAGCTTGTTATGTTGT 58.478 37.500 0.00 0.00 0.00 3.32
3201 5500 4.383649 GCATGTGTTCAGCTTGTTATGTTG 59.616 41.667 0.00 0.00 0.00 3.33
3202 5501 4.549458 GCATGTGTTCAGCTTGTTATGTT 58.451 39.130 0.00 0.00 0.00 2.71
3203 5502 3.365264 CGCATGTGTTCAGCTTGTTATGT 60.365 43.478 0.00 0.00 0.00 2.29
3204 5503 3.165890 CGCATGTGTTCAGCTTGTTATG 58.834 45.455 0.00 0.00 0.00 1.90
3205 5504 2.414559 GCGCATGTGTTCAGCTTGTTAT 60.415 45.455 0.30 0.00 0.00 1.89
3206 5505 1.069296 GCGCATGTGTTCAGCTTGTTA 60.069 47.619 0.30 0.00 0.00 2.41
3207 5506 0.318107 GCGCATGTGTTCAGCTTGTT 60.318 50.000 0.30 0.00 0.00 2.83
3208 5507 1.283793 GCGCATGTGTTCAGCTTGT 59.716 52.632 0.30 0.00 0.00 3.16
3209 5508 1.000233 GTGCGCATGTGTTCAGCTTG 61.000 55.000 15.91 0.00 0.00 4.01
3210 5509 1.283793 GTGCGCATGTGTTCAGCTT 59.716 52.632 15.91 0.00 0.00 3.74
3211 5510 1.446516 TTGTGCGCATGTGTTCAGCT 61.447 50.000 15.91 0.00 0.00 4.24
3212 5511 1.000233 CTTGTGCGCATGTGTTCAGC 61.000 55.000 15.91 0.00 0.00 4.26
3213 5512 0.587768 TCTTGTGCGCATGTGTTCAG 59.412 50.000 15.91 2.17 0.00 3.02
3214 5513 0.307453 GTCTTGTGCGCATGTGTTCA 59.693 50.000 15.91 1.77 0.00 3.18
3215 5514 0.307453 TGTCTTGTGCGCATGTGTTC 59.693 50.000 15.91 0.00 0.00 3.18
3216 5515 0.737804 TTGTCTTGTGCGCATGTGTT 59.262 45.000 15.91 0.00 0.00 3.32
3217 5516 0.029300 GTTGTCTTGTGCGCATGTGT 59.971 50.000 15.91 0.00 0.00 3.72
3218 5517 0.029167 TGTTGTCTTGTGCGCATGTG 59.971 50.000 15.91 6.77 0.00 3.21
3219 5518 0.029300 GTGTTGTCTTGTGCGCATGT 59.971 50.000 15.91 0.00 0.00 3.21
3220 5519 0.029167 TGTGTTGTCTTGTGCGCATG 59.971 50.000 15.91 7.59 0.00 4.06
3221 5520 0.953727 ATGTGTTGTCTTGTGCGCAT 59.046 45.000 15.91 0.00 0.00 4.73
3222 5521 1.587547 TATGTGTTGTCTTGTGCGCA 58.412 45.000 5.66 5.66 0.00 6.09
3223 5522 2.679355 TTATGTGTTGTCTTGTGCGC 57.321 45.000 0.00 0.00 0.00 6.09
3224 5523 2.964123 CGTTTATGTGTTGTCTTGTGCG 59.036 45.455 0.00 0.00 0.00 5.34
3225 5524 3.296628 CCGTTTATGTGTTGTCTTGTGC 58.703 45.455 0.00 0.00 0.00 4.57
3226 5525 3.296628 GCCGTTTATGTGTTGTCTTGTG 58.703 45.455 0.00 0.00 0.00 3.33
3227 5526 2.032377 CGCCGTTTATGTGTTGTCTTGT 60.032 45.455 0.00 0.00 0.00 3.16
3228 5527 2.222213 TCGCCGTTTATGTGTTGTCTTG 59.778 45.455 0.00 0.00 0.00 3.02
3229 5528 2.485903 TCGCCGTTTATGTGTTGTCTT 58.514 42.857 0.00 0.00 0.00 3.01
3230 5529 2.157834 TCGCCGTTTATGTGTTGTCT 57.842 45.000 0.00 0.00 0.00 3.41
3231 5530 2.475519 CCATCGCCGTTTATGTGTTGTC 60.476 50.000 0.00 0.00 0.00 3.18
3232 5531 1.466950 CCATCGCCGTTTATGTGTTGT 59.533 47.619 0.00 0.00 0.00 3.32
3233 5532 1.793714 GCCATCGCCGTTTATGTGTTG 60.794 52.381 0.00 0.00 0.00 3.33
3234 5533 0.450184 GCCATCGCCGTTTATGTGTT 59.550 50.000 0.00 0.00 0.00 3.32
3235 5534 1.701545 CGCCATCGCCGTTTATGTGT 61.702 55.000 0.00 0.00 0.00 3.72
3236 5535 1.011242 CGCCATCGCCGTTTATGTG 60.011 57.895 0.00 0.00 0.00 3.21
3237 5536 2.177580 CCGCCATCGCCGTTTATGT 61.178 57.895 0.00 0.00 0.00 2.29
3238 5537 2.631428 CCGCCATCGCCGTTTATG 59.369 61.111 0.00 0.00 0.00 1.90
3239 5538 3.276846 GCCGCCATCGCCGTTTAT 61.277 61.111 0.00 0.00 0.00 1.40
3253 5552 3.462199 GATCTTCCCTTCCCCGCCG 62.462 68.421 0.00 0.00 0.00 6.46
3254 5553 0.763223 TAGATCTTCCCTTCCCCGCC 60.763 60.000 0.00 0.00 0.00 6.13
3255 5554 1.129058 TTAGATCTTCCCTTCCCCGC 58.871 55.000 0.00 0.00 0.00 6.13
3256 5555 2.303311 GGATTAGATCTTCCCTTCCCCG 59.697 54.545 0.00 0.00 0.00 5.73
3257 5556 3.327439 TGGATTAGATCTTCCCTTCCCC 58.673 50.000 10.39 0.00 0.00 4.81
3258 5557 4.632327 CTGGATTAGATCTTCCCTTCCC 57.368 50.000 10.39 0.43 0.00 3.97



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

AutoCloner maintained by Alex Coulton.