Multiple sequence alignment - TraesCS5B01G319800

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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 TraesCS5B01G319800 chr5B 100.000 3256 0 0 1 3256 504834609 504831354 0.000000e+00 6013.0
1 TraesCS5B01G319800 chr5B 85.882 85 10 2 1657 1740 532892176 532892093 4.470000e-14 89.8
2 TraesCS5B01G319800 chr5B 83.544 79 11 2 1663 1740 532878806 532878729 4.510000e-09 73.1
3 TraesCS5B01G319800 chr5A 92.049 3119 164 42 3 3064 531084514 531081423 0.000000e+00 4309.0
4 TraesCS5B01G319800 chr5A 78.261 138 22 7 1614 1747 417255814 417255947 7.490000e-12 82.4
5 TraesCS5B01G319800 chr5D 91.800 3122 171 48 3 3064 417628444 417625348 0.000000e+00 4268.0
6 TraesCS5B01G319800 chr5D 78.261 138 22 7 1614 1747 322005206 322005339 7.490000e-12 82.4
7 TraesCS5B01G319800 chr5D 83.544 79 11 2 1663 1740 438370140 438370063 4.510000e-09 73.1
8 TraesCS5B01G319800 chr7B 79.671 487 74 19 1376 1854 672765218 672764749 8.710000e-86 327.0
9 TraesCS5B01G319800 chr7B 87.562 201 15 6 3057 3256 745485963 745486154 1.180000e-54 224.0
10 TraesCS5B01G319800 chr7B 72.131 427 79 32 1484 1891 180041004 180040599 3.460000e-15 93.5
11 TraesCS5B01G319800 chr7B 78.906 128 23 4 1111 1236 672765374 672765249 2.080000e-12 84.2
12 TraesCS5B01G319800 chr7B 85.000 60 9 0 1142 1201 336647759 336647700 9.750000e-06 62.1
13 TraesCS5B01G319800 chr4B 92.891 211 12 3 3049 3256 586341119 586341329 1.470000e-78 303.0
14 TraesCS5B01G319800 chr6A 91.542 201 13 4 3058 3256 602079335 602079533 1.150000e-69 274.0
15 TraesCS5B01G319800 chr2D 90.594 202 16 3 3057 3256 632034773 632034573 6.930000e-67 265.0
16 TraesCS5B01G319800 chr2D 89.604 202 18 3 3057 3256 651109457 651109257 1.500000e-63 254.0
17 TraesCS5B01G319800 chr1D 90.196 204 15 5 3057 3256 27555309 27555107 8.960000e-66 261.0
18 TraesCS5B01G319800 chr1D 88.060 201 17 7 3057 3254 142662156 142662352 7.030000e-57 231.0
19 TraesCS5B01G319800 chr3A 88.235 204 19 5 3056 3256 516050 516251 4.200000e-59 239.0
20 TraesCS5B01G319800 chr7A 86.957 207 20 7 3054 3256 311233865 311233662 3.270000e-55 226.0
21 TraesCS5B01G319800 chr7A 78.906 128 23 4 1111 1236 688314136 688314011 2.080000e-12 84.2
22 TraesCS5B01G319800 chr7A 71.429 427 78 35 1486 1891 232024796 232025199 4.510000e-09 73.1
23 TraesCS5B01G319800 chr7A 86.667 60 8 0 1142 1201 200032964 200032905 2.100000e-07 67.6
24 TraesCS5B01G319800 chr7A 85.714 56 5 3 1142 1196 200065157 200065104 4.540000e-04 56.5
25 TraesCS5B01G319800 chr7D 92.727 55 2 2 1154 1207 595328766 595328713 9.690000e-11 78.7
26 TraesCS5B01G319800 chr7D 72.107 337 66 24 1565 1887 219637161 219637483 3.480000e-10 76.8
27 TraesCS5B01G319800 chr7D 86.667 60 8 0 1142 1201 191493554 191493495 2.100000e-07 67.6


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 TraesCS5B01G319800 chr5B 504831354 504834609 3255 True 6013.0 6013 100.0000 1 3256 1 chr5B.!!$R1 3255
1 TraesCS5B01G319800 chr5A 531081423 531084514 3091 True 4309.0 4309 92.0490 3 3064 1 chr5A.!!$R1 3061
2 TraesCS5B01G319800 chr5D 417625348 417628444 3096 True 4268.0 4268 91.8000 3 3064 1 chr5D.!!$R1 3061
3 TraesCS5B01G319800 chr7B 672764749 672765374 625 True 205.6 327 79.2885 1111 1854 2 chr7B.!!$R3 743

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
225 227 0.034198 TCGGGTCGTTTTGCTGATGA 59.966 50.000 0.00 0.0 0.0 2.92 F
381 393 0.034574 TGGTATGCATTCAAGGGCGT 60.035 50.000 3.54 0.0 0.0 5.68 F
1041 1063 1.065109 GTTTTGGTGTGCGGTGTCC 59.935 57.895 0.00 0.0 0.0 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1041 1063 0.108207 GATCCCTGCTCCCAGACATG 59.892 60.000 0.00 0.00 41.77 3.21 R
1313 1340 0.316522 AGCGATGTCGATCCATGAGG 59.683 55.000 6.60 0.00 43.02 3.86 R
2904 2985 1.334869 GATCGGCAACCATGGATTCAC 59.665 52.381 21.47 3.43 0.00 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
39 40 4.263572 CTCCCAACACCGCCACCA 62.264 66.667 0.00 0.00 0.00 4.17
135 136 4.090588 CGGGGCGAGGTTGGCTTA 62.091 66.667 0.00 0.00 34.31 3.09
225 227 0.034198 TCGGGTCGTTTTGCTGATGA 59.966 50.000 0.00 0.00 0.00 2.92
229 231 2.293399 GGGTCGTTTTGCTGATGAACTT 59.707 45.455 0.00 0.00 0.00 2.66
231 233 2.721090 GTCGTTTTGCTGATGAACTTGC 59.279 45.455 0.00 0.00 0.00 4.01
286 289 9.594478 CACCTTTGTAAGTTCTTTTATTTTGGT 57.406 29.630 0.00 0.00 0.00 3.67
290 293 9.733219 TTTGTAAGTTCTTTTATTTTGGTACCG 57.267 29.630 7.57 0.00 0.00 4.02
291 294 8.449251 TGTAAGTTCTTTTATTTTGGTACCGT 57.551 30.769 7.57 0.00 0.00 4.83
293 296 6.947644 AGTTCTTTTATTTTGGTACCGTGT 57.052 33.333 7.57 0.00 0.00 4.49
346 357 4.337274 TCATACATACGACATTGAGACCGT 59.663 41.667 0.00 0.00 38.82 4.83
350 361 4.097437 ACATACGACATTGAGACCGTACAT 59.903 41.667 0.00 0.00 39.77 2.29
378 390 2.142356 TGGTGGTATGCATTCAAGGG 57.858 50.000 3.54 0.00 0.00 3.95
379 391 0.746659 GGTGGTATGCATTCAAGGGC 59.253 55.000 3.54 0.00 0.00 5.19
380 392 0.381801 GTGGTATGCATTCAAGGGCG 59.618 55.000 3.54 0.00 0.00 6.13
381 393 0.034574 TGGTATGCATTCAAGGGCGT 60.035 50.000 3.54 0.00 0.00 5.68
513 530 5.593010 ACTACTATCATGACTTTCTTCCGC 58.407 41.667 0.00 0.00 0.00 5.54
523 540 2.039084 ACTTTCTTCCGCTGACCATCTT 59.961 45.455 0.00 0.00 0.00 2.40
634 651 1.745489 GCGGGGAGTGATCCACAAC 60.745 63.158 0.00 0.00 36.74 3.32
743 761 2.373502 CCCTTGGAACATCCCTATCTCC 59.626 54.545 0.00 0.00 39.30 3.71
744 762 2.037772 CCTTGGAACATCCCTATCTCCG 59.962 54.545 0.00 0.00 39.30 4.63
832 854 3.379749 TTCGATCGACGCGCGGTTA 62.380 57.895 35.22 18.67 42.26 2.85
980 1002 1.417206 GCGCGTACGGTTGTTTAGG 59.583 57.895 18.39 0.00 40.57 2.69
994 1016 6.801862 CGGTTGTTTAGGTCTTGATTCATTTC 59.198 38.462 0.00 0.00 0.00 2.17
1012 1034 2.315925 TCGTGAGATGGATTTGGCTC 57.684 50.000 0.00 0.00 33.31 4.70
1040 1062 1.298041 CGTTTTGGTGTGCGGTGTC 60.298 57.895 0.00 0.00 0.00 3.67
1041 1063 1.065109 GTTTTGGTGTGCGGTGTCC 59.935 57.895 0.00 0.00 0.00 4.02
1046 1070 2.325082 GGTGTGCGGTGTCCATGTC 61.325 63.158 0.00 0.00 0.00 3.06
1313 1340 2.813908 CGCGGTGAACCTACAGGC 60.814 66.667 0.00 0.00 39.32 4.85
1424 1457 2.670148 GGAGATCCTGGGCCGTGTT 61.670 63.158 0.00 0.00 0.00 3.32
1529 1568 2.304056 CCTGCTCACCCACCTCCAT 61.304 63.158 0.00 0.00 0.00 3.41
1871 1910 2.256591 CGTGCTGTTGCTGGAGCTT 61.257 57.895 0.00 0.00 42.66 3.74
2106 2145 0.171231 CGTCGAGATGCTCAGGTTCA 59.829 55.000 0.00 0.00 0.00 3.18
2356 2395 9.722056 GATTAAGACGCAAATTCATGATTAGTT 57.278 29.630 0.00 0.00 0.00 2.24
2364 2406 8.788813 CGCAAATTCATGATTAGTTGTTCTTAC 58.211 33.333 8.80 0.00 0.00 2.34
2443 2489 1.185315 GGTGTTTGGTGATGGATGGG 58.815 55.000 0.00 0.00 0.00 4.00
2482 2528 0.546122 AATCCTCGTATTGGCCTGCA 59.454 50.000 3.32 0.00 0.00 4.41
2483 2529 0.546122 ATCCTCGTATTGGCCTGCAA 59.454 50.000 3.32 0.00 0.00 4.08
2563 2609 8.522178 TTATTTATTTATTTATTTGCCGGCCG 57.478 30.769 26.77 21.04 0.00 6.13
2598 2646 6.071952 AGCTTGAAAGGTATACATTGGTTGTG 60.072 38.462 3.11 0.00 35.46 3.33
2605 2653 5.646360 AGGTATACATTGGTTGTGTACTTGC 59.354 40.000 5.01 0.00 46.49 4.01
2668 2716 2.517959 TGGTTTCCATTCTCTTGCTGG 58.482 47.619 0.00 0.00 0.00 4.85
2672 2720 4.336713 GGTTTCCATTCTCTTGCTGGATAC 59.663 45.833 0.00 0.00 38.79 2.24
2680 2728 7.201679 CCATTCTCTTGCTGGATACTTAAACAG 60.202 40.741 0.00 0.00 37.61 3.16
2741 2789 9.881529 TGTGAGTTTAATTTTATACGTTGGTTC 57.118 29.630 0.00 0.00 0.00 3.62
2756 2804 4.738740 CGTTGGTTCCATATTCGAGTAGTC 59.261 45.833 0.00 0.00 0.00 2.59
2769 2817 3.804873 TCGAGTAGTCATCATCAGAGTCG 59.195 47.826 0.00 0.00 0.00 4.18
2787 2835 3.372206 AGTCGATGAAAGCTTCCATTTCG 59.628 43.478 0.00 0.50 39.10 3.46
2788 2836 3.370978 GTCGATGAAAGCTTCCATTTCGA 59.629 43.478 7.23 7.23 39.10 3.71
2789 2837 4.034510 GTCGATGAAAGCTTCCATTTCGAT 59.965 41.667 13.40 0.00 39.10 3.59
2790 2838 4.034394 TCGATGAAAGCTTCCATTTCGATG 59.966 41.667 7.23 0.00 39.10 3.84
2791 2839 4.201851 CGATGAAAGCTTCCATTTCGATGT 60.202 41.667 0.00 0.00 39.10 3.06
2792 2840 4.424061 TGAAAGCTTCCATTTCGATGTG 57.576 40.909 0.00 0.00 39.10 3.21
2801 2877 6.238456 GCTTCCATTTCGATGTGATAATGTCA 60.238 38.462 4.94 0.00 0.00 3.58
2806 2882 8.800972 CCATTTCGATGTGATAATGTCAAAAAG 58.199 33.333 4.94 0.00 38.90 2.27
2835 2911 7.147655 TGGAGCTTATTATCTCAGGGCATATAC 60.148 40.741 0.00 0.00 0.00 1.47
2842 2918 3.754965 TCTCAGGGCATATACATTTGGC 58.245 45.455 0.00 0.00 37.66 4.52
2854 2930 3.733443 ACATTTGGCTGGTTTGACTTC 57.267 42.857 0.00 0.00 0.00 3.01
2875 2951 3.010472 TCAGAAAAATGGAGGGAGCATGA 59.990 43.478 0.00 0.00 0.00 3.07
2883 2959 3.889815 TGGAGGGAGCATGATTTTACAG 58.110 45.455 0.00 0.00 0.00 2.74
2904 2985 6.576185 ACAGTAGGTTATGGTGGTATTAACG 58.424 40.000 0.00 0.00 0.00 3.18
2909 2990 6.655930 AGGTTATGGTGGTATTAACGTGAAT 58.344 36.000 3.06 3.06 0.00 2.57
2928 3009 1.788229 TCCATGGTTGCCGATCTCTA 58.212 50.000 12.58 0.00 0.00 2.43
2932 3013 3.313526 CCATGGTTGCCGATCTCTAAAAG 59.686 47.826 2.57 0.00 0.00 2.27
3079 3160 2.024176 TTCTAGAAATGGAGGCGTGC 57.976 50.000 1.68 0.00 0.00 5.34
3080 3161 0.178068 TCTAGAAATGGAGGCGTGCC 59.822 55.000 1.67 1.67 0.00 5.01
3081 3162 0.815615 CTAGAAATGGAGGCGTGCCC 60.816 60.000 7.39 0.00 36.58 5.36
3082 3163 2.265467 TAGAAATGGAGGCGTGCCCC 62.265 60.000 7.39 9.22 36.58 5.80
3083 3164 3.645268 GAAATGGAGGCGTGCCCCT 62.645 63.158 7.39 0.00 38.12 4.79
3084 3165 3.944250 AAATGGAGGCGTGCCCCTG 62.944 63.158 7.39 0.00 34.69 4.45
3111 3192 3.013276 CATCTTGATGATGCATGTGGC 57.987 47.619 2.46 0.00 44.96 5.01
3112 3193 1.395635 TCTTGATGATGCATGTGGCC 58.604 50.000 2.46 0.00 43.89 5.36
3113 3194 0.387929 CTTGATGATGCATGTGGCCC 59.612 55.000 2.46 0.00 43.89 5.80
3114 3195 0.032912 TTGATGATGCATGTGGCCCT 60.033 50.000 2.46 0.00 43.89 5.19
3115 3196 0.466739 TGATGATGCATGTGGCCCTC 60.467 55.000 2.46 0.00 43.89 4.30
3116 3197 0.178998 GATGATGCATGTGGCCCTCT 60.179 55.000 2.46 0.00 43.89 3.69
3117 3198 0.260816 ATGATGCATGTGGCCCTCTT 59.739 50.000 2.46 0.00 43.89 2.85
3118 3199 0.918258 TGATGCATGTGGCCCTCTTA 59.082 50.000 2.46 0.00 43.89 2.10
3119 3200 1.496001 TGATGCATGTGGCCCTCTTAT 59.504 47.619 2.46 0.00 43.89 1.73
3120 3201 2.091720 TGATGCATGTGGCCCTCTTATT 60.092 45.455 2.46 0.00 43.89 1.40
3121 3202 3.138098 TGATGCATGTGGCCCTCTTATTA 59.862 43.478 2.46 0.00 43.89 0.98
3122 3203 3.660970 TGCATGTGGCCCTCTTATTAA 57.339 42.857 0.00 0.00 43.89 1.40
3123 3204 4.183223 TGCATGTGGCCCTCTTATTAAT 57.817 40.909 0.00 0.00 43.89 1.40
3124 3205 5.317600 TGCATGTGGCCCTCTTATTAATA 57.682 39.130 0.00 0.00 43.89 0.98
3125 3206 5.700183 TGCATGTGGCCCTCTTATTAATAA 58.300 37.500 0.00 7.66 43.89 1.40
3126 3207 6.314120 TGCATGTGGCCCTCTTATTAATAAT 58.686 36.000 8.34 0.00 43.89 1.28
3127 3208 6.434028 TGCATGTGGCCCTCTTATTAATAATC 59.566 38.462 8.34 0.00 43.89 1.75
3128 3209 6.127619 GCATGTGGCCCTCTTATTAATAATCC 60.128 42.308 8.34 6.16 36.11 3.01
3129 3210 6.523035 TGTGGCCCTCTTATTAATAATCCA 57.477 37.500 8.34 8.23 0.00 3.41
3130 3211 6.542821 TGTGGCCCTCTTATTAATAATCCAG 58.457 40.000 8.34 5.47 0.00 3.86
3131 3212 6.331572 TGTGGCCCTCTTATTAATAATCCAGA 59.668 38.462 8.34 7.15 0.00 3.86
3132 3213 7.147213 TGTGGCCCTCTTATTAATAATCCAGAA 60.147 37.037 8.34 2.03 0.00 3.02
3133 3214 7.724061 GTGGCCCTCTTATTAATAATCCAGAAA 59.276 37.037 8.34 0.00 0.00 2.52
3134 3215 7.944554 TGGCCCTCTTATTAATAATCCAGAAAG 59.055 37.037 8.34 0.00 0.00 2.62
3135 3216 8.164070 GGCCCTCTTATTAATAATCCAGAAAGA 58.836 37.037 8.34 1.35 0.00 2.52
3136 3217 9.746457 GCCCTCTTATTAATAATCCAGAAAGAT 57.254 33.333 8.34 0.00 0.00 2.40
3150 3231 8.655935 ATCCAGAAAGATAACATCAAAAAGGT 57.344 30.769 0.00 0.00 0.00 3.50
3151 3232 8.110860 TCCAGAAAGATAACATCAAAAAGGTC 57.889 34.615 0.00 0.00 0.00 3.85
3152 3233 7.944554 TCCAGAAAGATAACATCAAAAAGGTCT 59.055 33.333 0.00 0.00 0.00 3.85
3153 3234 8.579863 CCAGAAAGATAACATCAAAAAGGTCTT 58.420 33.333 0.00 0.00 0.00 3.01
3158 3239 8.045176 AGATAACATCAAAAAGGTCTTACAGC 57.955 34.615 0.00 0.00 0.00 4.40
3159 3240 7.885399 AGATAACATCAAAAAGGTCTTACAGCT 59.115 33.333 0.00 0.00 0.00 4.24
3160 3241 5.948992 ACATCAAAAAGGTCTTACAGCTC 57.051 39.130 0.00 0.00 30.18 4.09
3161 3242 4.452455 ACATCAAAAAGGTCTTACAGCTCG 59.548 41.667 0.00 0.00 30.18 5.03
3162 3243 2.806244 TCAAAAAGGTCTTACAGCTCGC 59.194 45.455 0.00 0.00 30.18 5.03
3163 3244 2.543777 AAAAGGTCTTACAGCTCGCA 57.456 45.000 0.00 0.00 30.18 5.10
3164 3245 2.543777 AAAGGTCTTACAGCTCGCAA 57.456 45.000 0.00 0.00 30.18 4.85
3165 3246 2.543777 AAGGTCTTACAGCTCGCAAA 57.456 45.000 0.00 0.00 30.18 3.68
3166 3247 1.797025 AGGTCTTACAGCTCGCAAAC 58.203 50.000 0.00 0.00 0.00 2.93
3167 3248 0.438830 GGTCTTACAGCTCGCAAACG 59.561 55.000 0.00 0.00 42.01 3.60
3168 3249 0.438830 GTCTTACAGCTCGCAAACGG 59.561 55.000 0.00 0.00 40.63 4.44
3169 3250 0.315886 TCTTACAGCTCGCAAACGGA 59.684 50.000 0.00 0.00 40.63 4.69
3170 3251 0.716108 CTTACAGCTCGCAAACGGAG 59.284 55.000 0.00 0.00 40.63 4.63
3171 3252 1.289109 TTACAGCTCGCAAACGGAGC 61.289 55.000 5.69 5.69 40.47 4.70
3179 3260 3.243855 GCAAACGGAGCGAAACAAA 57.756 47.368 0.00 0.00 0.00 2.83
3180 3261 1.120437 GCAAACGGAGCGAAACAAAG 58.880 50.000 0.00 0.00 0.00 2.77
3181 3262 1.533129 GCAAACGGAGCGAAACAAAGT 60.533 47.619 0.00 0.00 0.00 2.66
3182 3263 2.286536 GCAAACGGAGCGAAACAAAGTA 60.287 45.455 0.00 0.00 0.00 2.24
3183 3264 3.789459 GCAAACGGAGCGAAACAAAGTAA 60.789 43.478 0.00 0.00 0.00 2.24
3184 3265 3.872560 AACGGAGCGAAACAAAGTAAG 57.127 42.857 0.00 0.00 0.00 2.34
3185 3266 2.140717 ACGGAGCGAAACAAAGTAAGG 58.859 47.619 0.00 0.00 0.00 2.69
3186 3267 2.224113 ACGGAGCGAAACAAAGTAAGGA 60.224 45.455 0.00 0.00 0.00 3.36
3187 3268 2.803956 CGGAGCGAAACAAAGTAAGGAA 59.196 45.455 0.00 0.00 0.00 3.36
3188 3269 3.249080 CGGAGCGAAACAAAGTAAGGAAA 59.751 43.478 0.00 0.00 0.00 3.13
3189 3270 4.534168 GGAGCGAAACAAAGTAAGGAAAC 58.466 43.478 0.00 0.00 0.00 2.78
3190 3271 4.205323 AGCGAAACAAAGTAAGGAAACG 57.795 40.909 0.00 0.00 0.00 3.60
3191 3272 3.872771 AGCGAAACAAAGTAAGGAAACGA 59.127 39.130 0.00 0.00 0.00 3.85
3192 3273 3.964347 GCGAAACAAAGTAAGGAAACGAC 59.036 43.478 0.00 0.00 0.00 4.34
3193 3274 4.494526 GCGAAACAAAGTAAGGAAACGACA 60.495 41.667 0.00 0.00 0.00 4.35
3194 3275 5.561993 CGAAACAAAGTAAGGAAACGACAA 58.438 37.500 0.00 0.00 0.00 3.18
3195 3276 6.022821 CGAAACAAAGTAAGGAAACGACAAA 58.977 36.000 0.00 0.00 0.00 2.83
3196 3277 6.523893 CGAAACAAAGTAAGGAAACGACAAAA 59.476 34.615 0.00 0.00 0.00 2.44
3197 3278 7.060864 CGAAACAAAGTAAGGAAACGACAAAAA 59.939 33.333 0.00 0.00 0.00 1.94
3198 3279 7.806149 AACAAAGTAAGGAAACGACAAAAAG 57.194 32.000 0.00 0.00 0.00 2.27
3199 3280 6.916440 ACAAAGTAAGGAAACGACAAAAAGT 58.084 32.000 0.00 0.00 0.00 2.66
3200 3281 8.042944 ACAAAGTAAGGAAACGACAAAAAGTA 57.957 30.769 0.00 0.00 0.00 2.24
3201 3282 7.964559 ACAAAGTAAGGAAACGACAAAAAGTAC 59.035 33.333 0.00 0.00 0.00 2.73
3202 3283 7.614124 AAGTAAGGAAACGACAAAAAGTACA 57.386 32.000 0.00 0.00 0.00 2.90
3203 3284 7.242914 AGTAAGGAAACGACAAAAAGTACAG 57.757 36.000 0.00 0.00 0.00 2.74
3204 3285 5.494632 AAGGAAACGACAAAAAGTACAGG 57.505 39.130 0.00 0.00 0.00 4.00
3205 3286 3.314357 AGGAAACGACAAAAAGTACAGGC 59.686 43.478 0.00 0.00 0.00 4.85
3206 3287 3.285745 GAAACGACAAAAAGTACAGGCG 58.714 45.455 0.00 0.00 0.00 5.52
3207 3288 1.223187 ACGACAAAAAGTACAGGCGG 58.777 50.000 0.00 0.00 0.00 6.13
3208 3289 1.202557 ACGACAAAAAGTACAGGCGGA 60.203 47.619 0.00 0.00 0.00 5.54
3209 3290 1.193874 CGACAAAAAGTACAGGCGGAC 59.806 52.381 0.00 0.00 0.00 4.79
3210 3291 2.215196 GACAAAAAGTACAGGCGGACA 58.785 47.619 0.00 0.00 0.00 4.02
3211 3292 2.614983 GACAAAAAGTACAGGCGGACAA 59.385 45.455 0.00 0.00 0.00 3.18
3212 3293 3.219281 ACAAAAAGTACAGGCGGACAAT 58.781 40.909 0.00 0.00 0.00 2.71
3213 3294 4.391155 ACAAAAAGTACAGGCGGACAATA 58.609 39.130 0.00 0.00 0.00 1.90
3214 3295 4.822896 ACAAAAAGTACAGGCGGACAATAA 59.177 37.500 0.00 0.00 0.00 1.40
3215 3296 5.151389 CAAAAAGTACAGGCGGACAATAAC 58.849 41.667 0.00 0.00 0.00 1.89
3216 3297 3.688694 AAGTACAGGCGGACAATAACA 57.311 42.857 0.00 0.00 0.00 2.41
3217 3298 2.968675 AGTACAGGCGGACAATAACAC 58.031 47.619 0.00 0.00 0.00 3.32
3218 3299 2.004733 GTACAGGCGGACAATAACACC 58.995 52.381 0.00 0.00 0.00 4.16
3242 3323 6.696148 CCGATACGGTAATAAGATGGATAAGC 59.304 42.308 1.80 0.00 42.73 3.09
3243 3324 7.416438 CCGATACGGTAATAAGATGGATAAGCT 60.416 40.741 1.80 0.00 42.73 3.74
3244 3325 7.974501 CGATACGGTAATAAGATGGATAAGCTT 59.025 37.037 3.48 3.48 0.00 3.74
3245 3326 9.303537 GATACGGTAATAAGATGGATAAGCTTC 57.696 37.037 0.00 0.00 0.00 3.86
3246 3327 6.465084 ACGGTAATAAGATGGATAAGCTTCC 58.535 40.000 0.00 0.00 36.24 3.46
3247 3328 6.270231 ACGGTAATAAGATGGATAAGCTTCCT 59.730 38.462 0.00 0.00 36.68 3.36
3248 3329 7.453752 ACGGTAATAAGATGGATAAGCTTCCTA 59.546 37.037 0.00 0.00 36.68 2.94
3249 3330 7.976734 CGGTAATAAGATGGATAAGCTTCCTAG 59.023 40.741 0.00 0.00 36.68 3.02
3250 3331 9.036980 GGTAATAAGATGGATAAGCTTCCTAGA 57.963 37.037 0.00 0.00 36.68 2.43
3251 3332 9.863845 GTAATAAGATGGATAAGCTTCCTAGAC 57.136 37.037 0.00 0.00 36.68 2.59
3252 3333 8.734593 AATAAGATGGATAAGCTTCCTAGACT 57.265 34.615 0.00 0.00 36.68 3.24
3253 3334 6.664428 AAGATGGATAAGCTTCCTAGACTC 57.336 41.667 0.00 0.00 36.68 3.36
3254 3335 5.083821 AGATGGATAAGCTTCCTAGACTCC 58.916 45.833 0.00 0.06 36.68 3.85
3255 3336 4.544564 TGGATAAGCTTCCTAGACTCCT 57.455 45.455 0.00 0.00 36.68 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 2.665000 CAGATCTGGTGGCGGTGT 59.335 61.111 15.38 0.00 0.00 4.16
39 40 2.665000 CACCCGTGTGCCAGATCT 59.335 61.111 0.00 0.00 35.31 2.75
120 121 0.738975 GATTTAAGCCAACCTCGCCC 59.261 55.000 0.00 0.00 0.00 6.13
135 136 0.691078 TAGCCGCCAGAGGAGGATTT 60.691 55.000 10.16 0.00 45.77 2.17
225 227 2.533266 ACACAGAGTCATCGCAAGTT 57.467 45.000 0.00 0.00 39.48 2.66
229 231 4.186856 TGATAAACACAGAGTCATCGCA 57.813 40.909 0.00 0.00 0.00 5.10
231 233 7.742151 TGAAAATGATAAACACAGAGTCATCG 58.258 34.615 0.00 0.00 0.00 3.84
313 316 3.058155 GTCGTATGTATGATCGTCTGCCT 60.058 47.826 0.00 0.00 0.00 4.75
314 317 3.235195 GTCGTATGTATGATCGTCTGCC 58.765 50.000 0.00 0.00 0.00 4.85
350 361 9.283768 CTTGAATGCATACCACCATAACTATAA 57.716 33.333 0.00 0.00 0.00 0.98
380 392 3.003763 AAGCCTCCCGGTCTCCAC 61.004 66.667 0.00 0.00 0.00 4.02
381 393 3.003173 CAAGCCTCCCGGTCTCCA 61.003 66.667 0.00 0.00 0.00 3.86
483 496 9.944376 AAGAAAGTCATGATAGTAGTTGCTAAA 57.056 29.630 0.00 0.00 0.00 1.85
507 524 2.005451 CTTCAAGATGGTCAGCGGAAG 58.995 52.381 8.42 8.42 31.02 3.46
513 530 3.930336 TGTGTAGCTTCAAGATGGTCAG 58.070 45.455 0.00 0.00 0.00 3.51
634 651 2.155279 TGGAGACTTCACTCTCGTCTG 58.845 52.381 0.00 0.00 38.07 3.51
832 854 0.457853 CGATGGACGACGTGTGGAAT 60.458 55.000 4.58 0.00 45.77 3.01
980 1002 5.582269 TCCATCTCACGAAATGAATCAAGAC 59.418 40.000 0.00 0.00 36.69 3.01
994 1016 1.938577 CTGAGCCAAATCCATCTCACG 59.061 52.381 0.00 0.00 32.73 4.35
1012 1034 0.854062 CACCAAAACGCATGCAACTG 59.146 50.000 19.57 8.66 0.00 3.16
1041 1063 0.108207 GATCCCTGCTCCCAGACATG 59.892 60.000 0.00 0.00 41.77 3.21
1046 1070 2.765807 ACGGATCCCTGCTCCCAG 60.766 66.667 6.06 0.00 38.85 4.45
1294 1321 2.813908 CTGTAGGTTCACCGCGCC 60.814 66.667 0.00 0.00 42.08 6.53
1303 1330 1.771255 GATCCATGAGGCCTGTAGGTT 59.229 52.381 12.00 3.29 37.57 3.50
1313 1340 0.316522 AGCGATGTCGATCCATGAGG 59.683 55.000 6.60 0.00 43.02 3.86
1424 1457 1.301716 GAGCAGGTTCTTGTGCCGA 60.302 57.895 0.00 0.00 40.81 5.54
1820 1859 2.045829 TCGCAGCTCTCGGAGACT 60.046 61.111 2.97 4.12 0.00 3.24
1919 1958 2.581354 GCCCACTGCACGATCTCT 59.419 61.111 0.00 0.00 40.77 3.10
2338 2377 7.801547 AAGAACAACTAATCATGAATTTGCG 57.198 32.000 0.00 0.00 0.00 4.85
2356 2395 8.659925 AATCAACAAAATGCAATGTAAGAACA 57.340 26.923 0.00 0.00 40.69 3.18
2390 2432 5.761003 TCATACGCTATGCAATTGAATTGG 58.239 37.500 18.52 4.10 40.57 3.16
2443 2489 5.522824 GGATTAACAACTCTTGGTACGATCC 59.477 44.000 0.00 0.00 34.70 3.36
2513 2559 7.848223 AAACATCACATATGATCGAACAAGA 57.152 32.000 10.38 0.00 44.13 3.02
2550 2596 1.624479 TAGGTCCGGCCGGCAAATAA 61.624 55.000 39.89 19.14 43.70 1.40
2551 2597 2.065185 TAGGTCCGGCCGGCAAATA 61.065 57.895 39.89 24.23 43.70 1.40
2552 2598 3.404438 TAGGTCCGGCCGGCAAAT 61.404 61.111 39.89 25.30 43.70 2.32
2553 2599 4.397832 GTAGGTCCGGCCGGCAAA 62.398 66.667 39.89 20.89 43.70 3.68
2563 2609 2.233186 ACCTTTCAAGCTACGTAGGTCC 59.767 50.000 26.16 9.03 30.42 4.46
2635 2683 3.909732 TGGAAACCAAGTTTGACTGGAT 58.090 40.909 0.00 0.00 35.77 3.41
2668 2716 8.774586 TCTCTTTGTTCTTGCTGTTTAAGTATC 58.225 33.333 0.00 0.00 0.00 2.24
2672 2720 8.749499 CAATTCTCTTTGTTCTTGCTGTTTAAG 58.251 33.333 0.00 0.00 0.00 1.85
2680 2728 5.224888 TCATGCAATTCTCTTTGTTCTTGC 58.775 37.500 0.00 0.00 39.43 4.01
2725 2773 8.665643 TCGAATATGGAACCAACGTATAAAAT 57.334 30.769 0.00 0.00 0.00 1.82
2726 2774 7.765360 ACTCGAATATGGAACCAACGTATAAAA 59.235 33.333 0.00 0.00 0.00 1.52
2727 2775 7.267128 ACTCGAATATGGAACCAACGTATAAA 58.733 34.615 0.00 0.00 0.00 1.40
2728 2776 6.808829 ACTCGAATATGGAACCAACGTATAA 58.191 36.000 0.00 0.00 0.00 0.98
2729 2777 6.395426 ACTCGAATATGGAACCAACGTATA 57.605 37.500 0.00 0.00 0.00 1.47
2730 2778 5.272283 ACTCGAATATGGAACCAACGTAT 57.728 39.130 0.00 0.00 0.00 3.06
2733 2781 4.679662 ACTACTCGAATATGGAACCAACG 58.320 43.478 0.00 2.81 0.00 4.10
2741 2789 7.094420 ACTCTGATGATGACTACTCGAATATGG 60.094 40.741 0.00 0.00 0.00 2.74
2769 2817 5.032863 CACATCGAAATGGAAGCTTTCATC 58.967 41.667 20.69 9.37 37.19 2.92
2787 2835 9.941664 CTCCATACTTTTTGACATTATCACATC 57.058 33.333 0.00 0.00 36.92 3.06
2788 2836 8.408601 GCTCCATACTTTTTGACATTATCACAT 58.591 33.333 0.00 0.00 36.92 3.21
2789 2837 7.611467 AGCTCCATACTTTTTGACATTATCACA 59.389 33.333 0.00 0.00 36.92 3.58
2790 2838 7.989826 AGCTCCATACTTTTTGACATTATCAC 58.010 34.615 0.00 0.00 36.92 3.06
2791 2839 8.579850 AAGCTCCATACTTTTTGACATTATCA 57.420 30.769 0.00 0.00 34.65 2.15
2801 2877 9.566432 CCTGAGATAATAAGCTCCATACTTTTT 57.434 33.333 0.00 0.00 37.34 1.94
2806 2882 5.046304 TGCCCTGAGATAATAAGCTCCATAC 60.046 44.000 0.00 0.00 37.34 2.39
2824 2900 2.559668 CCAGCCAAATGTATATGCCCTG 59.440 50.000 0.00 0.00 0.00 4.45
2835 2911 3.318839 TCTGAAGTCAAACCAGCCAAATG 59.681 43.478 0.00 0.00 0.00 2.32
2842 2918 6.147864 TCCATTTTTCTGAAGTCAAACCAG 57.852 37.500 0.00 0.00 0.00 4.00
2854 2930 3.359033 TCATGCTCCCTCCATTTTTCTG 58.641 45.455 0.00 0.00 0.00 3.02
2883 2959 6.572519 TCACGTTAATACCACCATAACCTAC 58.427 40.000 0.00 0.00 0.00 3.18
2904 2985 1.334869 GATCGGCAACCATGGATTCAC 59.665 52.381 21.47 3.43 0.00 3.18
2909 2990 1.788229 TAGAGATCGGCAACCATGGA 58.212 50.000 21.47 0.00 0.00 3.41
2954 3035 5.527214 TGTCATCTGTTCGTCAAATGTTTCT 59.473 36.000 0.00 0.00 0.00 2.52
2955 3036 5.747565 TGTCATCTGTTCGTCAAATGTTTC 58.252 37.500 0.00 0.00 0.00 2.78
2956 3037 5.749596 TGTCATCTGTTCGTCAAATGTTT 57.250 34.783 0.00 0.00 0.00 2.83
2957 3038 5.947228 ATGTCATCTGTTCGTCAAATGTT 57.053 34.783 0.00 0.00 0.00 2.71
2998 3079 3.793797 AACGCCTAAGCAAAAACTGTT 57.206 38.095 0.00 0.00 39.83 3.16
2999 3080 4.261447 CCTTAACGCCTAAGCAAAAACTGT 60.261 41.667 0.37 0.00 39.83 3.55
3002 3083 4.492791 TCCTTAACGCCTAAGCAAAAAC 57.507 40.909 0.37 0.00 39.83 2.43
3012 3093 3.695830 TGACAATCTTCCTTAACGCCT 57.304 42.857 0.00 0.00 0.00 5.52
3057 3138 3.190535 GCACGCCTCCATTTCTAGAAAAA 59.809 43.478 21.26 9.51 33.56 1.94
3061 3142 0.178068 GGCACGCCTCCATTTCTAGA 59.822 55.000 0.00 0.00 0.00 2.43
3064 3145 2.044946 GGGCACGCCTCCATTTCT 60.045 61.111 8.20 0.00 36.10 2.52
3065 3146 3.140814 GGGGCACGCCTCCATTTC 61.141 66.667 8.20 0.00 36.10 2.17
3066 3147 3.661648 AGGGGCACGCCTCCATTT 61.662 61.111 3.74 0.00 44.92 2.32
3067 3148 4.431131 CAGGGGCACGCCTCCATT 62.431 66.667 3.74 0.00 44.92 3.16
3092 3173 1.961394 GGCCACATGCATCATCAAGAT 59.039 47.619 0.00 0.00 43.89 2.40
3093 3174 1.395635 GGCCACATGCATCATCAAGA 58.604 50.000 0.00 0.00 43.89 3.02
3094 3175 0.387929 GGGCCACATGCATCATCAAG 59.612 55.000 4.39 0.00 43.89 3.02
3095 3176 0.032912 AGGGCCACATGCATCATCAA 60.033 50.000 6.18 0.00 43.89 2.57
3096 3177 0.466739 GAGGGCCACATGCATCATCA 60.467 55.000 6.18 0.00 43.89 3.07
3097 3178 0.178998 AGAGGGCCACATGCATCATC 60.179 55.000 6.18 0.00 43.89 2.92
3098 3179 0.260816 AAGAGGGCCACATGCATCAT 59.739 50.000 6.18 0.00 43.89 2.45
3099 3180 0.918258 TAAGAGGGCCACATGCATCA 59.082 50.000 6.18 0.00 43.89 3.07
3100 3181 2.283145 ATAAGAGGGCCACATGCATC 57.717 50.000 6.18 0.00 43.89 3.91
3101 3182 2.761786 AATAAGAGGGCCACATGCAT 57.238 45.000 6.18 0.00 43.89 3.96
3102 3183 3.660970 TTAATAAGAGGGCCACATGCA 57.339 42.857 6.18 0.00 43.89 3.96
3103 3184 6.127619 GGATTATTAATAAGAGGGCCACATGC 60.128 42.308 13.15 0.00 40.16 4.06
3104 3185 6.947733 TGGATTATTAATAAGAGGGCCACATG 59.052 38.462 13.15 0.00 0.00 3.21
3105 3186 7.018550 TCTGGATTATTAATAAGAGGGCCACAT 59.981 37.037 13.15 0.00 0.00 3.21
3106 3187 6.331572 TCTGGATTATTAATAAGAGGGCCACA 59.668 38.462 13.15 2.34 0.00 4.17
3107 3188 6.779860 TCTGGATTATTAATAAGAGGGCCAC 58.220 40.000 13.15 0.00 0.00 5.01
3108 3189 7.401060 TTCTGGATTATTAATAAGAGGGCCA 57.599 36.000 13.15 12.57 0.00 5.36
3109 3190 8.164070 TCTTTCTGGATTATTAATAAGAGGGCC 58.836 37.037 13.15 0.00 0.00 5.80
3110 3191 9.746457 ATCTTTCTGGATTATTAATAAGAGGGC 57.254 33.333 13.15 1.56 0.00 5.19
3124 3205 9.093458 ACCTTTTTGATGTTATCTTTCTGGATT 57.907 29.630 0.00 0.00 0.00 3.01
3125 3206 8.655935 ACCTTTTTGATGTTATCTTTCTGGAT 57.344 30.769 0.00 0.00 0.00 3.41
3126 3207 7.944554 AGACCTTTTTGATGTTATCTTTCTGGA 59.055 33.333 0.00 0.00 0.00 3.86
3127 3208 8.115490 AGACCTTTTTGATGTTATCTTTCTGG 57.885 34.615 0.00 0.00 0.00 3.86
3132 3213 8.515414 GCTGTAAGACCTTTTTGATGTTATCTT 58.485 33.333 0.00 0.00 34.07 2.40
3133 3214 7.885399 AGCTGTAAGACCTTTTTGATGTTATCT 59.115 33.333 0.00 0.00 34.07 1.98
3134 3215 8.045176 AGCTGTAAGACCTTTTTGATGTTATC 57.955 34.615 0.00 0.00 34.07 1.75
3135 3216 7.148407 CGAGCTGTAAGACCTTTTTGATGTTAT 60.148 37.037 0.00 0.00 34.07 1.89
3136 3217 6.147164 CGAGCTGTAAGACCTTTTTGATGTTA 59.853 38.462 0.00 0.00 34.07 2.41
3137 3218 5.049405 CGAGCTGTAAGACCTTTTTGATGTT 60.049 40.000 0.00 0.00 34.07 2.71
3138 3219 4.452455 CGAGCTGTAAGACCTTTTTGATGT 59.548 41.667 0.00 0.00 34.07 3.06
3139 3220 4.670221 GCGAGCTGTAAGACCTTTTTGATG 60.670 45.833 0.00 0.00 34.07 3.07
3140 3221 3.437049 GCGAGCTGTAAGACCTTTTTGAT 59.563 43.478 0.00 0.00 34.07 2.57
3141 3222 2.806244 GCGAGCTGTAAGACCTTTTTGA 59.194 45.455 0.00 0.00 34.07 2.69
3142 3223 2.548057 TGCGAGCTGTAAGACCTTTTTG 59.452 45.455 0.00 0.00 34.07 2.44
3143 3224 2.846193 TGCGAGCTGTAAGACCTTTTT 58.154 42.857 0.00 0.00 34.07 1.94
3144 3225 2.543777 TGCGAGCTGTAAGACCTTTT 57.456 45.000 0.00 0.00 34.07 2.27
3145 3226 2.543777 TTGCGAGCTGTAAGACCTTT 57.456 45.000 0.00 0.00 34.07 3.11
3146 3227 2.143925 GTTTGCGAGCTGTAAGACCTT 58.856 47.619 0.00 0.00 34.07 3.50
3147 3228 1.797025 GTTTGCGAGCTGTAAGACCT 58.203 50.000 0.00 0.00 34.07 3.85
3148 3229 0.438830 CGTTTGCGAGCTGTAAGACC 59.561 55.000 0.00 0.00 41.33 3.85
3149 3230 0.438830 CCGTTTGCGAGCTGTAAGAC 59.561 55.000 0.00 0.00 41.33 3.01
3150 3231 0.315886 TCCGTTTGCGAGCTGTAAGA 59.684 50.000 0.00 0.00 41.33 2.10
3151 3232 0.716108 CTCCGTTTGCGAGCTGTAAG 59.284 55.000 0.00 0.00 41.33 2.34
3152 3233 1.289109 GCTCCGTTTGCGAGCTGTAA 61.289 55.000 0.00 0.00 41.33 2.41
3153 3234 1.736645 GCTCCGTTTGCGAGCTGTA 60.737 57.895 0.00 0.00 41.33 2.74
3154 3235 3.044305 GCTCCGTTTGCGAGCTGT 61.044 61.111 0.00 0.00 41.33 4.40
3161 3242 1.120437 CTTTGTTTCGCTCCGTTTGC 58.880 50.000 0.00 0.00 0.00 3.68
3162 3243 2.468532 ACTTTGTTTCGCTCCGTTTG 57.531 45.000 0.00 0.00 0.00 2.93
3163 3244 3.002965 CCTTACTTTGTTTCGCTCCGTTT 59.997 43.478 0.00 0.00 0.00 3.60
3164 3245 2.546789 CCTTACTTTGTTTCGCTCCGTT 59.453 45.455 0.00 0.00 0.00 4.44
3165 3246 2.140717 CCTTACTTTGTTTCGCTCCGT 58.859 47.619 0.00 0.00 0.00 4.69
3166 3247 2.409975 TCCTTACTTTGTTTCGCTCCG 58.590 47.619 0.00 0.00 0.00 4.63
3167 3248 4.534168 GTTTCCTTACTTTGTTTCGCTCC 58.466 43.478 0.00 0.00 0.00 4.70
3168 3249 4.025480 TCGTTTCCTTACTTTGTTTCGCTC 60.025 41.667 0.00 0.00 0.00 5.03
3169 3250 3.872771 TCGTTTCCTTACTTTGTTTCGCT 59.127 39.130 0.00 0.00 0.00 4.93
3170 3251 3.964347 GTCGTTTCCTTACTTTGTTTCGC 59.036 43.478 0.00 0.00 0.00 4.70
3171 3252 5.146482 TGTCGTTTCCTTACTTTGTTTCG 57.854 39.130 0.00 0.00 0.00 3.46
3172 3253 7.800015 TTTTGTCGTTTCCTTACTTTGTTTC 57.200 32.000 0.00 0.00 0.00 2.78
3173 3254 7.868922 ACTTTTTGTCGTTTCCTTACTTTGTTT 59.131 29.630 0.00 0.00 0.00 2.83
3174 3255 7.372714 ACTTTTTGTCGTTTCCTTACTTTGTT 58.627 30.769 0.00 0.00 0.00 2.83
3175 3256 6.916440 ACTTTTTGTCGTTTCCTTACTTTGT 58.084 32.000 0.00 0.00 0.00 2.83
3176 3257 7.964011 TGTACTTTTTGTCGTTTCCTTACTTTG 59.036 33.333 0.00 0.00 0.00 2.77
3177 3258 8.042944 TGTACTTTTTGTCGTTTCCTTACTTT 57.957 30.769 0.00 0.00 0.00 2.66
3178 3259 7.201670 CCTGTACTTTTTGTCGTTTCCTTACTT 60.202 37.037 0.00 0.00 0.00 2.24
3179 3260 6.259387 CCTGTACTTTTTGTCGTTTCCTTACT 59.741 38.462 0.00 0.00 0.00 2.24
3180 3261 6.424683 CCTGTACTTTTTGTCGTTTCCTTAC 58.575 40.000 0.00 0.00 0.00 2.34
3181 3262 5.007921 GCCTGTACTTTTTGTCGTTTCCTTA 59.992 40.000 0.00 0.00 0.00 2.69
3182 3263 4.201980 GCCTGTACTTTTTGTCGTTTCCTT 60.202 41.667 0.00 0.00 0.00 3.36
3183 3264 3.314357 GCCTGTACTTTTTGTCGTTTCCT 59.686 43.478 0.00 0.00 0.00 3.36
3184 3265 3.624900 GCCTGTACTTTTTGTCGTTTCC 58.375 45.455 0.00 0.00 0.00 3.13
3185 3266 3.285745 CGCCTGTACTTTTTGTCGTTTC 58.714 45.455 0.00 0.00 0.00 2.78
3186 3267 2.032426 CCGCCTGTACTTTTTGTCGTTT 59.968 45.455 0.00 0.00 0.00 3.60
3187 3268 1.600485 CCGCCTGTACTTTTTGTCGTT 59.400 47.619 0.00 0.00 0.00 3.85
3188 3269 1.202557 TCCGCCTGTACTTTTTGTCGT 60.203 47.619 0.00 0.00 0.00 4.34
3189 3270 1.193874 GTCCGCCTGTACTTTTTGTCG 59.806 52.381 0.00 0.00 0.00 4.35
3190 3271 2.215196 TGTCCGCCTGTACTTTTTGTC 58.785 47.619 0.00 0.00 0.00 3.18
3191 3272 2.335316 TGTCCGCCTGTACTTTTTGT 57.665 45.000 0.00 0.00 0.00 2.83
3192 3273 3.915437 ATTGTCCGCCTGTACTTTTTG 57.085 42.857 0.00 0.00 0.00 2.44
3193 3274 4.822896 TGTTATTGTCCGCCTGTACTTTTT 59.177 37.500 0.00 0.00 0.00 1.94
3194 3275 4.214758 GTGTTATTGTCCGCCTGTACTTTT 59.785 41.667 0.00 0.00 0.00 2.27
3195 3276 3.749609 GTGTTATTGTCCGCCTGTACTTT 59.250 43.478 0.00 0.00 0.00 2.66
3196 3277 3.332034 GTGTTATTGTCCGCCTGTACTT 58.668 45.455 0.00 0.00 0.00 2.24
3197 3278 2.354403 GGTGTTATTGTCCGCCTGTACT 60.354 50.000 0.00 0.00 0.00 2.73
3198 3279 2.004733 GGTGTTATTGTCCGCCTGTAC 58.995 52.381 0.00 0.00 0.00 2.90
3199 3280 1.404449 CGGTGTTATTGTCCGCCTGTA 60.404 52.381 0.00 0.00 37.90 2.74
3200 3281 0.672401 CGGTGTTATTGTCCGCCTGT 60.672 55.000 0.00 0.00 37.90 4.00
3201 3282 0.390603 TCGGTGTTATTGTCCGCCTG 60.391 55.000 0.00 0.00 43.35 4.85
3202 3283 0.539986 ATCGGTGTTATTGTCCGCCT 59.460 50.000 0.00 0.00 43.35 5.52
3203 3284 1.862827 GTATCGGTGTTATTGTCCGCC 59.137 52.381 0.00 0.00 43.35 6.13
3204 3285 1.519758 CGTATCGGTGTTATTGTCCGC 59.480 52.381 0.00 0.00 43.35 5.54
3205 3286 2.121786 CCGTATCGGTGTTATTGTCCG 58.878 52.381 0.00 0.00 42.73 4.79
3218 3299 7.481642 AGCTTATCCATCTTATTACCGTATCG 58.518 38.462 0.00 0.00 0.00 2.92
3219 3300 9.303537 GAAGCTTATCCATCTTATTACCGTATC 57.696 37.037 0.00 0.00 0.00 2.24
3220 3301 8.258708 GGAAGCTTATCCATCTTATTACCGTAT 58.741 37.037 0.00 0.00 39.42 3.06
3221 3302 7.453752 AGGAAGCTTATCCATCTTATTACCGTA 59.546 37.037 7.20 0.00 42.27 4.02
3222 3303 6.270231 AGGAAGCTTATCCATCTTATTACCGT 59.730 38.462 7.20 0.00 42.27 4.83
3223 3304 6.702329 AGGAAGCTTATCCATCTTATTACCG 58.298 40.000 7.20 0.00 42.27 4.02
3224 3305 9.036980 TCTAGGAAGCTTATCCATCTTATTACC 57.963 37.037 7.20 0.00 42.27 2.85
3225 3306 9.863845 GTCTAGGAAGCTTATCCATCTTATTAC 57.136 37.037 7.20 0.00 42.27 1.89
3226 3307 9.830186 AGTCTAGGAAGCTTATCCATCTTATTA 57.170 33.333 7.20 0.00 42.27 0.98
3227 3308 8.734593 AGTCTAGGAAGCTTATCCATCTTATT 57.265 34.615 7.20 0.00 42.27 1.40
3228 3309 7.398904 GGAGTCTAGGAAGCTTATCCATCTTAT 59.601 40.741 7.20 0.00 42.27 1.73
3229 3310 6.722129 GGAGTCTAGGAAGCTTATCCATCTTA 59.278 42.308 7.20 0.00 42.27 2.10
3230 3311 5.542251 GGAGTCTAGGAAGCTTATCCATCTT 59.458 44.000 7.20 0.00 42.27 2.40
3231 3312 5.083821 GGAGTCTAGGAAGCTTATCCATCT 58.916 45.833 7.20 0.00 42.27 2.90
3232 3313 5.083821 AGGAGTCTAGGAAGCTTATCCATC 58.916 45.833 7.20 0.00 42.27 3.51
3233 3314 5.086598 AGGAGTCTAGGAAGCTTATCCAT 57.913 43.478 7.20 0.00 42.27 3.41
3234 3315 4.544564 AGGAGTCTAGGAAGCTTATCCA 57.455 45.455 7.20 0.00 42.27 3.41


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

AutoCloner maintained by Alex Coulton.