Multiple sequence alignment - TraesCS3A01G195300

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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 TraesCS3A01G195300 chr3A 100.000 3445 0 0 1 3445 279437947 279434503 0.000000e+00 6362.0
1 TraesCS3A01G195300 chr3A 89.209 139 15 0 3208 3346 136129823 136129685 1.270000e-39 174.0
2 TraesCS3A01G195300 chr3A 89.431 123 12 1 3201 3323 715668933 715669054 1.660000e-33 154.0
3 TraesCS3A01G195300 chr3D 95.797 3236 89 18 1 3206 213995869 213999087 0.000000e+00 5179.0
4 TraesCS3A01G195300 chr3D 93.333 45 3 0 3385 3429 350128969 350129013 2.220000e-07 67.6
5 TraesCS3A01G195300 chr3B 96.628 2728 65 12 1 2723 330801967 330799262 0.000000e+00 4503.0
6 TraesCS3A01G195300 chr3B 80.597 536 46 22 2738 3219 330782815 330782284 9.090000e-96 361.0
7 TraesCS3A01G195300 chr3B 86.000 150 16 2 3201 3346 772369319 772369467 4.600000e-34 156.0
8 TraesCS3A01G195300 chr3B 84.416 154 20 3 3208 3357 765979874 765979721 7.700000e-32 148.0
9 TraesCS3A01G195300 chr3B 84.106 151 19 2 3200 3346 368734619 368734470 1.290000e-29 141.0
10 TraesCS3A01G195300 chr6B 87.990 1199 142 2 1052 2249 500894257 500895454 0.000000e+00 1415.0
11 TraesCS3A01G195300 chr6B 86.111 144 16 1 3208 3347 300073642 300073499 5.950000e-33 152.0
12 TraesCS3A01G195300 chr6B 84.848 132 13 4 2797 2927 107398251 107398376 3.610000e-25 126.0
13 TraesCS3A01G195300 chr6D 87.907 1199 143 2 1052 2249 322586949 322585752 0.000000e+00 1410.0
14 TraesCS3A01G195300 chr6D 87.594 1193 146 2 1057 2248 322572245 322571054 0.000000e+00 1382.0
15 TraesCS3A01G195300 chr6D 83.193 1184 191 7 1070 2247 136129501 136128320 0.000000e+00 1077.0
16 TraesCS3A01G195300 chr6A 87.583 1200 145 4 1052 2249 460006375 460005178 0.000000e+00 1387.0
17 TraesCS3A01G195300 chr6A 87.427 1193 148 2 1057 2248 459878385 459877194 0.000000e+00 1371.0
18 TraesCS3A01G195300 chr6A 83.235 1181 193 4 1071 2247 177265014 177266193 0.000000e+00 1079.0
19 TraesCS3A01G195300 chr1B 86.667 165 17 3 3201 3361 100910718 100910555 9.820000e-41 178.0
20 TraesCS3A01G195300 chr1B 84.810 158 20 1 3208 3361 15104663 15104506 4.600000e-34 156.0
21 TraesCS3A01G195300 chr1B 84.000 125 15 3 2804 2927 35602280 35602400 7.810000e-22 115.0
22 TraesCS3A01G195300 chr7A 85.443 158 19 1 3208 3361 691442644 691442801 9.890000e-36 161.0
23 TraesCS3A01G195300 chr7D 84.000 125 14 4 2804 2927 90249133 90249252 7.810000e-22 115.0
24 TraesCS3A01G195300 chr7D 97.059 34 0 1 3157 3189 45815214 45815247 4.800000e-04 56.5
25 TraesCS3A01G195300 chr4D 83.200 125 16 3 2804 2927 393003344 393003464 3.630000e-20 110.0
26 TraesCS3A01G195300 chr2A 83.200 125 16 3 2804 2927 107159126 107159006 3.630000e-20 110.0
27 TraesCS3A01G195300 chr2A 78.659 164 25 6 2804 2957 757979545 757979708 2.190000e-17 100.0
28 TraesCS3A01G195300 chr5A 82.400 125 17 3 2804 2927 99546413 99546293 1.690000e-18 104.0
29 TraesCS3A01G195300 chr5A 93.333 45 3 0 3385 3429 44952764 44952808 2.220000e-07 67.6
30 TraesCS3A01G195300 chr5A 91.837 49 3 1 3381 3429 268595960 268596007 2.220000e-07 67.6
31 TraesCS3A01G195300 chr5A 93.333 45 3 0 3385 3429 528596018 528595974 2.220000e-07 67.6
32 TraesCS3A01G195300 chr4A 90.789 76 7 0 2804 2879 651041820 651041895 6.080000e-18 102.0


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 TraesCS3A01G195300 chr3A 279434503 279437947 3444 True 6362 6362 100.000 1 3445 1 chr3A.!!$R2 3444
1 TraesCS3A01G195300 chr3D 213995869 213999087 3218 False 5179 5179 95.797 1 3206 1 chr3D.!!$F1 3205
2 TraesCS3A01G195300 chr3B 330799262 330801967 2705 True 4503 4503 96.628 1 2723 1 chr3B.!!$R2 2722
3 TraesCS3A01G195300 chr3B 330782284 330782815 531 True 361 361 80.597 2738 3219 1 chr3B.!!$R1 481
4 TraesCS3A01G195300 chr6B 500894257 500895454 1197 False 1415 1415 87.990 1052 2249 1 chr6B.!!$F2 1197
5 TraesCS3A01G195300 chr6D 322585752 322586949 1197 True 1410 1410 87.907 1052 2249 1 chr6D.!!$R3 1197
6 TraesCS3A01G195300 chr6D 322571054 322572245 1191 True 1382 1382 87.594 1057 2248 1 chr6D.!!$R2 1191
7 TraesCS3A01G195300 chr6D 136128320 136129501 1181 True 1077 1077 83.193 1070 2247 1 chr6D.!!$R1 1177
8 TraesCS3A01G195300 chr6A 460005178 460006375 1197 True 1387 1387 87.583 1052 2249 1 chr6A.!!$R2 1197
9 TraesCS3A01G195300 chr6A 459877194 459878385 1191 True 1371 1371 87.427 1057 2248 1 chr6A.!!$R1 1191
10 TraesCS3A01G195300 chr6A 177265014 177266193 1179 False 1079 1079 83.235 1071 2247 1 chr6A.!!$F1 1176

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
43 44 0.471780 TGGTGAAGAGGAGGACAGCA 60.472 55.0 0.0 0.0 38.19 4.41 F
757 762 0.740868 CTTGTCGGTCATGCGATGGT 60.741 55.0 0.0 0.0 0.00 3.55 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1009 1014 1.000274 ACCTCTGCAAATGCGAAAACC 60.000 47.619 0.35 0.0 45.83 3.27 R
2482 2493 0.237498 GAAACCGCACAAGTACTGCC 59.763 55.000 0.00 0.0 0.00 4.85 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
17 18 2.518349 ACGTGGGGTTGTTGGCAG 60.518 61.111 0.00 0.00 0.00 4.85
43 44 0.471780 TGGTGAAGAGGAGGACAGCA 60.472 55.000 0.00 0.00 38.19 4.41
52 53 4.954118 AGGACAGCACGGGTGGGA 62.954 66.667 0.43 0.00 35.13 4.37
148 149 3.183237 GAAATACTTTTCGCACGCACT 57.817 42.857 0.00 0.00 32.49 4.40
201 202 4.078571 TCCAACCATCTAGTACCATCCTCT 60.079 45.833 0.00 0.00 0.00 3.69
281 282 3.777522 CCCACTTCATCCCTCTCTACTTT 59.222 47.826 0.00 0.00 0.00 2.66
368 373 1.211449 CTGCGCGTCTCTCTCTTGT 59.789 57.895 8.43 0.00 0.00 3.16
377 382 4.509616 CGTCTCTCTCTTGTCCTCTCTTA 58.490 47.826 0.00 0.00 0.00 2.10
594 599 7.388500 TGAAATTCTACGGTCGGTTAGAAATTT 59.612 33.333 7.27 0.00 33.03 1.82
595 600 8.776376 AAATTCTACGGTCGGTTAGAAATTTA 57.224 30.769 7.27 0.00 33.03 1.40
729 734 3.713826 AAGATCCGCCCTTTTTAGTGA 57.286 42.857 0.00 0.00 0.00 3.41
730 735 3.713826 AGATCCGCCCTTTTTAGTGAA 57.286 42.857 0.00 0.00 0.00 3.18
757 762 0.740868 CTTGTCGGTCATGCGATGGT 60.741 55.000 0.00 0.00 0.00 3.55
829 834 3.236632 AGAGCAATTGGAATTTTCGCC 57.763 42.857 7.72 0.00 0.00 5.54
832 837 1.653609 GCAATTGGAATTTTCGCCGAC 59.346 47.619 7.72 0.00 0.00 4.79
842 847 1.710013 TTTCGCCGACACATCTCTTC 58.290 50.000 0.00 0.00 0.00 2.87
849 854 3.624861 GCCGACACATCTCTTCAATTGAT 59.375 43.478 9.40 0.00 0.00 2.57
886 891 3.934457 TCACTTCGACTGATGTAAGCA 57.066 42.857 0.00 0.00 31.79 3.91
1009 1014 7.824289 TGGAGTTCTAAATCTAATTCACCACTG 59.176 37.037 0.00 0.00 0.00 3.66
1015 1020 9.010029 TCTAAATCTAATTCACCACTGGTTTTC 57.990 33.333 0.00 0.00 31.02 2.29
1021 1026 2.028130 TCACCACTGGTTTTCGCATTT 58.972 42.857 0.00 0.00 31.02 2.32
2111 2117 0.250209 CTTCAGGCCTGGGATGATCG 60.250 60.000 32.23 3.47 0.00 3.69
2456 2467 5.589855 TCTTTTGATGTCTTCTGTGCTTTGA 59.410 36.000 0.00 0.00 0.00 2.69
2482 2493 5.403897 TGCTTTTTGAGTCTACTGAAACG 57.596 39.130 0.00 0.00 29.10 3.60
2701 2712 3.308473 GCTACCCTGTTCTTCCCAATTCT 60.308 47.826 0.00 0.00 0.00 2.40
2710 2721 6.009589 TGTTCTTCCCAATTCTTGATGCTTA 58.990 36.000 0.00 0.00 0.00 3.09
2728 2739 5.476752 GCTTATTGCAGTCTAAGGAGTTG 57.523 43.478 12.12 0.00 42.31 3.16
2729 2740 4.938226 GCTTATTGCAGTCTAAGGAGTTGT 59.062 41.667 12.12 0.00 42.31 3.32
2730 2741 5.412904 GCTTATTGCAGTCTAAGGAGTTGTT 59.587 40.000 12.12 0.00 42.31 2.83
2731 2742 6.072452 GCTTATTGCAGTCTAAGGAGTTGTTT 60.072 38.462 12.12 0.00 42.31 2.83
2732 2743 5.695851 ATTGCAGTCTAAGGAGTTGTTTG 57.304 39.130 0.00 0.00 0.00 2.93
2733 2744 3.476552 TGCAGTCTAAGGAGTTGTTTGG 58.523 45.455 0.00 0.00 0.00 3.28
2734 2745 3.118038 TGCAGTCTAAGGAGTTGTTTGGT 60.118 43.478 0.00 0.00 0.00 3.67
2735 2746 3.883489 GCAGTCTAAGGAGTTGTTTGGTT 59.117 43.478 0.00 0.00 0.00 3.67
2736 2747 4.338400 GCAGTCTAAGGAGTTGTTTGGTTT 59.662 41.667 0.00 0.00 0.00 3.27
2788 2810 8.517878 CAAAGATTATCACATCAAGTTTGACCT 58.482 33.333 0.00 0.00 40.49 3.85
2790 2812 8.048534 AGATTATCACATCAAGTTTGACCTTG 57.951 34.615 0.00 0.00 42.57 3.61
2879 2928 0.895559 AGGCTTGCTAACTTGTGGCC 60.896 55.000 0.00 0.00 38.50 5.36
2882 2931 1.341209 GCTTGCTAACTTGTGGCCTTT 59.659 47.619 3.32 0.00 31.27 3.11
2887 2936 5.385509 TGCTAACTTGTGGCCTTTATTTC 57.614 39.130 3.32 0.00 31.27 2.17
2888 2937 4.830046 TGCTAACTTGTGGCCTTTATTTCA 59.170 37.500 3.32 0.00 31.27 2.69
2927 2976 2.299867 AGGTAAGCTTGGCAAAATGTGG 59.700 45.455 9.86 0.00 0.00 4.17
2949 2999 3.633986 GCAATGCTAGGCTAGAACCAAAT 59.366 43.478 25.37 5.30 0.00 2.32
2966 3016 6.841781 ACCAAATAGCCCCTAAATCTCTTA 57.158 37.500 0.00 0.00 0.00 2.10
3013 3063 5.700832 GTGTTGTGATTATTGTCACTCCAGA 59.299 40.000 8.31 0.00 46.70 3.86
3024 3074 2.096496 GTCACTCCAGATTTGGCAATCG 59.904 50.000 0.00 0.00 43.38 3.34
3087 3140 9.559958 CACTATCAGCTTTTTGTAAGTAATTGG 57.440 33.333 0.00 0.00 0.00 3.16
3092 3145 6.363357 CAGCTTTTTGTAAGTAATTGGCAGAC 59.637 38.462 0.00 0.00 0.00 3.51
3121 3186 0.179056 AGCGGCCTATTGCGTATGTT 60.179 50.000 0.00 0.00 42.61 2.71
3176 3241 1.153005 CTCCATGGAGCTTGGCCTC 60.153 63.158 28.45 0.00 35.31 4.70
3235 3300 3.941704 ATAAAAGGAAGAGAGGGGCAG 57.058 47.619 0.00 0.00 0.00 4.85
3236 3301 1.747444 AAAAGGAAGAGAGGGGCAGA 58.253 50.000 0.00 0.00 0.00 4.26
3237 3302 1.978361 AAAGGAAGAGAGGGGCAGAT 58.022 50.000 0.00 0.00 0.00 2.90
3238 3303 1.506025 AAGGAAGAGAGGGGCAGATC 58.494 55.000 0.00 0.00 0.00 2.75
3239 3304 0.399806 AGGAAGAGAGGGGCAGATCC 60.400 60.000 0.00 0.00 0.00 3.36
3240 3305 0.692419 GGAAGAGAGGGGCAGATCCA 60.692 60.000 0.00 0.00 36.21 3.41
3241 3306 1.207791 GAAGAGAGGGGCAGATCCAA 58.792 55.000 0.00 0.00 36.21 3.53
3242 3307 1.561542 GAAGAGAGGGGCAGATCCAAA 59.438 52.381 0.00 0.00 36.21 3.28
3243 3308 0.915364 AGAGAGGGGCAGATCCAAAC 59.085 55.000 0.00 0.00 36.21 2.93
3244 3309 0.620556 GAGAGGGGCAGATCCAAACA 59.379 55.000 0.00 0.00 36.21 2.83
3245 3310 1.004745 GAGAGGGGCAGATCCAAACAA 59.995 52.381 0.00 0.00 36.21 2.83
3246 3311 1.642762 AGAGGGGCAGATCCAAACAAT 59.357 47.619 0.00 0.00 36.21 2.71
3247 3312 2.027385 GAGGGGCAGATCCAAACAATC 58.973 52.381 0.00 0.00 36.21 2.67
3248 3313 1.642762 AGGGGCAGATCCAAACAATCT 59.357 47.619 0.00 0.00 36.21 2.40
3249 3314 2.043526 AGGGGCAGATCCAAACAATCTT 59.956 45.455 0.00 0.00 36.21 2.40
3250 3315 3.269381 AGGGGCAGATCCAAACAATCTTA 59.731 43.478 0.00 0.00 36.21 2.10
3251 3316 3.381590 GGGGCAGATCCAAACAATCTTAC 59.618 47.826 0.00 0.00 36.21 2.34
3252 3317 3.381590 GGGCAGATCCAAACAATCTTACC 59.618 47.826 0.00 0.00 36.21 2.85
3253 3318 3.381590 GGCAGATCCAAACAATCTTACCC 59.618 47.826 0.00 0.00 31.05 3.69
3254 3319 4.016444 GCAGATCCAAACAATCTTACCCA 58.984 43.478 0.00 0.00 31.05 4.51
3255 3320 4.646492 GCAGATCCAAACAATCTTACCCAT 59.354 41.667 0.00 0.00 31.05 4.00
3256 3321 5.221126 GCAGATCCAAACAATCTTACCCATC 60.221 44.000 0.00 0.00 31.05 3.51
3257 3322 5.300286 CAGATCCAAACAATCTTACCCATCC 59.700 44.000 0.00 0.00 31.05 3.51
3258 3323 4.666412 TCCAAACAATCTTACCCATCCA 57.334 40.909 0.00 0.00 0.00 3.41
3259 3324 5.205517 TCCAAACAATCTTACCCATCCAT 57.794 39.130 0.00 0.00 0.00 3.41
3260 3325 5.588845 TCCAAACAATCTTACCCATCCATT 58.411 37.500 0.00 0.00 0.00 3.16
3261 3326 6.736581 TCCAAACAATCTTACCCATCCATTA 58.263 36.000 0.00 0.00 0.00 1.90
3262 3327 7.185565 TCCAAACAATCTTACCCATCCATTAA 58.814 34.615 0.00 0.00 0.00 1.40
3263 3328 7.123547 TCCAAACAATCTTACCCATCCATTAAC 59.876 37.037 0.00 0.00 0.00 2.01
3264 3329 7.093552 CCAAACAATCTTACCCATCCATTAACA 60.094 37.037 0.00 0.00 0.00 2.41
3265 3330 8.310382 CAAACAATCTTACCCATCCATTAACAA 58.690 33.333 0.00 0.00 0.00 2.83
3266 3331 7.645058 ACAATCTTACCCATCCATTAACAAG 57.355 36.000 0.00 0.00 0.00 3.16
3267 3332 7.410174 ACAATCTTACCCATCCATTAACAAGA 58.590 34.615 0.00 0.00 0.00 3.02
3268 3333 8.061304 ACAATCTTACCCATCCATTAACAAGAT 58.939 33.333 0.00 0.00 33.97 2.40
3269 3334 8.571336 CAATCTTACCCATCCATTAACAAGATC 58.429 37.037 0.00 0.00 31.96 2.75
3270 3335 7.451731 TCTTACCCATCCATTAACAAGATCT 57.548 36.000 0.00 0.00 0.00 2.75
3271 3336 8.561536 TCTTACCCATCCATTAACAAGATCTA 57.438 34.615 0.00 0.00 0.00 1.98
3272 3337 8.998814 TCTTACCCATCCATTAACAAGATCTAA 58.001 33.333 0.00 0.00 0.00 2.10
3273 3338 9.799106 CTTACCCATCCATTAACAAGATCTAAT 57.201 33.333 0.00 0.00 0.00 1.73
3274 3339 9.573166 TTACCCATCCATTAACAAGATCTAATG 57.427 33.333 8.42 8.42 35.95 1.90
3280 3345 7.814264 CCATTAACAAGATCTAATGGCTCTT 57.186 36.000 17.91 0.00 44.56 2.85
3281 3346 8.908786 CCATTAACAAGATCTAATGGCTCTTA 57.091 34.615 17.91 0.00 44.56 2.10
3282 3347 9.342308 CCATTAACAAGATCTAATGGCTCTTAA 57.658 33.333 17.91 6.33 44.56 1.85
3285 3350 9.561069 TTAACAAGATCTAATGGCTCTTAATCC 57.439 33.333 0.00 0.00 0.00 3.01
3286 3351 7.385894 ACAAGATCTAATGGCTCTTAATCCT 57.614 36.000 0.00 0.00 0.00 3.24
3287 3352 7.810260 ACAAGATCTAATGGCTCTTAATCCTT 58.190 34.615 0.00 0.00 0.00 3.36
3288 3353 7.936301 ACAAGATCTAATGGCTCTTAATCCTTC 59.064 37.037 0.00 0.00 0.00 3.46
3289 3354 7.870426 AGATCTAATGGCTCTTAATCCTTCT 57.130 36.000 0.00 0.00 0.00 2.85
3290 3355 8.964533 AGATCTAATGGCTCTTAATCCTTCTA 57.035 34.615 0.00 0.00 0.00 2.10
3291 3356 9.559496 AGATCTAATGGCTCTTAATCCTTCTAT 57.441 33.333 0.00 0.00 0.00 1.98
3292 3357 9.598517 GATCTAATGGCTCTTAATCCTTCTATG 57.401 37.037 0.00 0.00 0.00 2.23
3293 3358 8.497910 TCTAATGGCTCTTAATCCTTCTATGT 57.502 34.615 0.00 0.00 0.00 2.29
3294 3359 8.938883 TCTAATGGCTCTTAATCCTTCTATGTT 58.061 33.333 0.00 0.00 0.00 2.71
3295 3360 9.566432 CTAATGGCTCTTAATCCTTCTATGTTT 57.434 33.333 0.00 0.00 0.00 2.83
3297 3362 9.920946 AATGGCTCTTAATCCTTCTATGTTTAA 57.079 29.630 0.00 0.00 0.00 1.52
3298 3363 8.732746 TGGCTCTTAATCCTTCTATGTTTAAC 57.267 34.615 0.00 0.00 0.00 2.01
3299 3364 8.325787 TGGCTCTTAATCCTTCTATGTTTAACA 58.674 33.333 0.00 0.00 0.00 2.41
3300 3365 8.613482 GGCTCTTAATCCTTCTATGTTTAACAC 58.387 37.037 0.00 0.00 0.00 3.32
3301 3366 9.384764 GCTCTTAATCCTTCTATGTTTAACACT 57.615 33.333 0.00 0.00 0.00 3.55
3303 3368 9.162764 TCTTAATCCTTCTATGTTTAACACTGC 57.837 33.333 0.00 0.00 0.00 4.40
3304 3369 6.759497 AATCCTTCTATGTTTAACACTGCC 57.241 37.500 0.00 0.00 0.00 4.85
3305 3370 5.235850 TCCTTCTATGTTTAACACTGCCA 57.764 39.130 0.00 0.00 0.00 4.92
3306 3371 5.626142 TCCTTCTATGTTTAACACTGCCAA 58.374 37.500 0.00 0.00 0.00 4.52
3307 3372 5.472137 TCCTTCTATGTTTAACACTGCCAAC 59.528 40.000 0.00 0.00 0.00 3.77
3308 3373 5.335661 CCTTCTATGTTTAACACTGCCAACC 60.336 44.000 0.00 0.00 0.00 3.77
3309 3374 4.720046 TCTATGTTTAACACTGCCAACCA 58.280 39.130 0.00 0.00 0.00 3.67
3310 3375 5.321102 TCTATGTTTAACACTGCCAACCAT 58.679 37.500 0.00 0.00 0.00 3.55
3311 3376 3.724508 TGTTTAACACTGCCAACCATG 57.275 42.857 0.00 0.00 0.00 3.66
3312 3377 2.223923 TGTTTAACACTGCCAACCATGC 60.224 45.455 0.00 0.00 0.00 4.06
3313 3378 1.697284 TTAACACTGCCAACCATGCA 58.303 45.000 0.00 0.00 37.17 3.96
3314 3379 1.921982 TAACACTGCCAACCATGCAT 58.078 45.000 0.00 0.00 38.22 3.96
3315 3380 1.050204 AACACTGCCAACCATGCATT 58.950 45.000 0.00 0.00 38.22 3.56
3316 3381 1.921982 ACACTGCCAACCATGCATTA 58.078 45.000 0.00 0.00 38.22 1.90
3317 3382 2.246469 ACACTGCCAACCATGCATTAA 58.754 42.857 0.00 0.00 38.22 1.40
3318 3383 2.231964 ACACTGCCAACCATGCATTAAG 59.768 45.455 0.00 0.00 38.22 1.85
3319 3384 1.205417 ACTGCCAACCATGCATTAAGC 59.795 47.619 0.00 0.00 45.96 3.09
3320 3385 0.536260 TGCCAACCATGCATTAAGCC 59.464 50.000 0.00 0.00 44.83 4.35
3321 3386 0.536260 GCCAACCATGCATTAAGCCA 59.464 50.000 0.00 0.00 44.83 4.75
3322 3387 1.740043 GCCAACCATGCATTAAGCCAC 60.740 52.381 0.00 0.00 44.83 5.01
3323 3388 1.826720 CCAACCATGCATTAAGCCACT 59.173 47.619 0.00 0.00 44.83 4.00
3324 3389 3.023119 CCAACCATGCATTAAGCCACTA 58.977 45.455 0.00 0.00 44.83 2.74
3325 3390 3.446873 CCAACCATGCATTAAGCCACTAA 59.553 43.478 0.00 0.00 44.83 2.24
3326 3391 4.440525 CCAACCATGCATTAAGCCACTAAG 60.441 45.833 0.00 0.00 44.83 2.18
3327 3392 4.235079 ACCATGCATTAAGCCACTAAGA 57.765 40.909 0.00 0.00 44.83 2.10
3328 3393 4.202441 ACCATGCATTAAGCCACTAAGAG 58.798 43.478 0.00 0.00 44.83 2.85
3329 3394 3.567164 CCATGCATTAAGCCACTAAGAGG 59.433 47.826 0.00 0.00 44.83 3.69
3338 3403 3.326836 GCCACTAAGAGGCCATCTATC 57.673 52.381 5.01 0.00 46.50 2.08
3339 3404 2.353208 GCCACTAAGAGGCCATCTATCG 60.353 54.545 5.01 0.34 46.50 2.92
3340 3405 2.353208 CCACTAAGAGGCCATCTATCGC 60.353 54.545 5.01 0.00 37.23 4.58
3341 3406 2.560542 CACTAAGAGGCCATCTATCGCT 59.439 50.000 5.01 0.00 37.23 4.93
3342 3407 3.759086 CACTAAGAGGCCATCTATCGCTA 59.241 47.826 5.01 0.00 37.23 4.26
3343 3408 4.218635 CACTAAGAGGCCATCTATCGCTAA 59.781 45.833 5.01 0.00 37.23 3.09
3344 3409 3.669251 AAGAGGCCATCTATCGCTAAC 57.331 47.619 5.01 0.00 37.23 2.34
3345 3410 1.896465 AGAGGCCATCTATCGCTAACC 59.104 52.381 5.01 0.00 36.10 2.85
3346 3411 1.618837 GAGGCCATCTATCGCTAACCA 59.381 52.381 5.01 0.00 0.00 3.67
3347 3412 1.344763 AGGCCATCTATCGCTAACCAC 59.655 52.381 5.01 0.00 0.00 4.16
3348 3413 1.608283 GGCCATCTATCGCTAACCACC 60.608 57.143 0.00 0.00 0.00 4.61
3349 3414 1.935300 GCCATCTATCGCTAACCACCG 60.935 57.143 0.00 0.00 0.00 4.94
3350 3415 1.419374 CATCTATCGCTAACCACCGC 58.581 55.000 0.00 0.00 0.00 5.68
3351 3416 1.037493 ATCTATCGCTAACCACCGCA 58.963 50.000 0.00 0.00 0.00 5.69
3352 3417 0.384309 TCTATCGCTAACCACCGCAG 59.616 55.000 0.00 0.00 0.00 5.18
3353 3418 0.102481 CTATCGCTAACCACCGCAGT 59.898 55.000 0.00 0.00 0.00 4.40
3354 3419 0.533491 TATCGCTAACCACCGCAGTT 59.467 50.000 0.00 0.00 0.00 3.16
3355 3420 0.533491 ATCGCTAACCACCGCAGTTA 59.467 50.000 0.00 0.00 0.00 2.24
3356 3421 0.317799 TCGCTAACCACCGCAGTTAA 59.682 50.000 0.00 0.00 0.00 2.01
3357 3422 1.149987 CGCTAACCACCGCAGTTAAA 58.850 50.000 0.00 0.00 0.00 1.52
3358 3423 1.532007 CGCTAACCACCGCAGTTAAAA 59.468 47.619 0.00 0.00 0.00 1.52
3359 3424 2.031857 CGCTAACCACCGCAGTTAAAAA 60.032 45.455 0.00 0.00 0.00 1.94
3380 3445 5.485662 AAATTTACCTCTGCTAACATCGC 57.514 39.130 0.00 0.00 0.00 4.58
3381 3446 3.603158 TTTACCTCTGCTAACATCGCA 57.397 42.857 0.00 0.00 35.80 5.10
3382 3447 2.579207 TACCTCTGCTAACATCGCAC 57.421 50.000 0.00 0.00 33.19 5.34
3383 3448 0.458543 ACCTCTGCTAACATCGCACG 60.459 55.000 0.00 0.00 33.19 5.34
3384 3449 1.633171 CTCTGCTAACATCGCACGC 59.367 57.895 0.00 0.00 33.19 5.34
3385 3450 1.756375 CTCTGCTAACATCGCACGCC 61.756 60.000 0.00 0.00 33.19 5.68
3386 3451 2.813179 CTGCTAACATCGCACGCCC 61.813 63.158 0.00 0.00 33.19 6.13
3387 3452 3.573491 GCTAACATCGCACGCCCC 61.573 66.667 0.00 0.00 0.00 5.80
3388 3453 2.125310 CTAACATCGCACGCCCCA 60.125 61.111 0.00 0.00 0.00 4.96
3389 3454 2.435234 TAACATCGCACGCCCCAC 60.435 61.111 0.00 0.00 0.00 4.61
3419 3484 4.473520 CGTTCCTCCCGCAGCCAT 62.474 66.667 0.00 0.00 0.00 4.40
3420 3485 2.044946 GTTCCTCCCGCAGCCATT 60.045 61.111 0.00 0.00 0.00 3.16
3421 3486 2.115291 GTTCCTCCCGCAGCCATTC 61.115 63.158 0.00 0.00 0.00 2.67
3422 3487 3.680620 TTCCTCCCGCAGCCATTCG 62.681 63.158 0.00 0.00 0.00 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
17 18 3.423154 CCTCTTCACCAACCGCGC 61.423 66.667 0.00 0.00 0.00 6.86
20 21 0.037232 GTCCTCCTCTTCACCAACCG 60.037 60.000 0.00 0.00 0.00 4.44
30 31 2.681778 CCCGTGCTGTCCTCCTCT 60.682 66.667 0.00 0.00 0.00 3.69
43 44 2.524887 TCGACCTTTCCCACCCGT 60.525 61.111 0.00 0.00 0.00 5.28
52 53 2.657237 CTGACCGGCTCGACCTTT 59.343 61.111 0.00 0.00 35.61 3.11
368 373 4.830046 GTGCAGATCCAGTATAAGAGAGGA 59.170 45.833 0.00 0.00 0.00 3.71
377 382 4.663334 TCCTATACGTGCAGATCCAGTAT 58.337 43.478 0.00 0.00 33.29 2.12
594 599 2.291346 TGATGAACTCTCACGTCCCCTA 60.291 50.000 0.00 0.00 33.30 3.53
595 600 1.187087 GATGAACTCTCACGTCCCCT 58.813 55.000 0.00 0.00 33.30 4.79
729 734 4.745125 CGCATGACCGACAAGTAATCTATT 59.255 41.667 0.00 0.00 0.00 1.73
730 735 4.037565 TCGCATGACCGACAAGTAATCTAT 59.962 41.667 0.00 0.00 31.36 1.98
805 810 4.795278 GCGAAAATTCCAATTGCTCTACTG 59.205 41.667 0.00 0.00 0.00 2.74
812 817 1.653609 GTCGGCGAAAATTCCAATTGC 59.346 47.619 12.92 0.00 0.00 3.56
829 834 4.564372 ACGATCAATTGAAGAGATGTGTCG 59.436 41.667 13.09 15.22 0.00 4.35
832 837 8.134905 TGATTACGATCAATTGAAGAGATGTG 57.865 34.615 13.09 0.00 39.29 3.21
842 847 5.300752 AGGCTACCTGATTACGATCAATTG 58.699 41.667 0.00 0.00 41.55 2.32
849 854 3.362706 AGTGAAGGCTACCTGATTACGA 58.637 45.455 0.00 0.00 32.13 3.43
1009 1014 1.000274 ACCTCTGCAAATGCGAAAACC 60.000 47.619 0.35 0.00 45.83 3.27
1015 1020 2.032550 CCAATCTACCTCTGCAAATGCG 59.967 50.000 0.35 0.00 45.83 4.73
1021 1026 4.342378 GTGATACTCCAATCTACCTCTGCA 59.658 45.833 0.00 0.00 0.00 4.41
2111 2117 3.149196 TCTTCAAGTCAAGGTTGATGCC 58.851 45.455 0.00 0.00 39.73 4.40
2456 2467 7.432252 CGTTTCAGTAGACTCAAAAAGCAAAAT 59.568 33.333 0.00 0.00 0.00 1.82
2482 2493 0.237498 GAAACCGCACAAGTACTGCC 59.763 55.000 0.00 0.00 0.00 4.85
2710 2721 4.520492 CCAAACAACTCCTTAGACTGCAAT 59.480 41.667 0.00 0.00 0.00 3.56
2724 2735 6.095580 ACAAACCAAACAAAAACCAAACAACT 59.904 30.769 0.00 0.00 0.00 3.16
2726 2737 6.094881 TCACAAACCAAACAAAAACCAAACAA 59.905 30.769 0.00 0.00 0.00 2.83
2727 2738 5.588648 TCACAAACCAAACAAAAACCAAACA 59.411 32.000 0.00 0.00 0.00 2.83
2728 2739 5.910166 GTCACAAACCAAACAAAAACCAAAC 59.090 36.000 0.00 0.00 0.00 2.93
2729 2740 5.823045 AGTCACAAACCAAACAAAAACCAAA 59.177 32.000 0.00 0.00 0.00 3.28
2730 2741 5.368989 AGTCACAAACCAAACAAAAACCAA 58.631 33.333 0.00 0.00 0.00 3.67
2731 2742 4.962155 AGTCACAAACCAAACAAAAACCA 58.038 34.783 0.00 0.00 0.00 3.67
2732 2743 6.647481 AGTTAGTCACAAACCAAACAAAAACC 59.353 34.615 0.00 0.00 30.35 3.27
2733 2744 7.646446 AGTTAGTCACAAACCAAACAAAAAC 57.354 32.000 0.00 0.00 30.35 2.43
2734 2745 8.664211 AAAGTTAGTCACAAACCAAACAAAAA 57.336 26.923 0.00 0.00 30.35 1.94
2735 2746 9.413048 CTAAAGTTAGTCACAAACCAAACAAAA 57.587 29.630 0.00 0.00 30.35 2.44
2736 2747 7.542824 GCTAAAGTTAGTCACAAACCAAACAAA 59.457 33.333 0.32 0.00 33.32 2.83
2788 2810 2.828520 TGGCTTGAACCAAACACTTCAA 59.171 40.909 0.00 0.00 36.55 2.69
2790 2812 2.165437 TGTGGCTTGAACCAAACACTTC 59.835 45.455 12.25 0.00 42.70 3.01
2792 2814 1.750778 CTGTGGCTTGAACCAAACACT 59.249 47.619 12.25 0.00 42.70 3.55
2793 2815 1.476488 ACTGTGGCTTGAACCAAACAC 59.524 47.619 0.00 0.00 42.70 3.32
2853 2879 6.223120 CCACAAGTTAGCAAGCCTAAAAATT 58.777 36.000 0.00 0.00 37.75 1.82
2854 2880 5.783111 CCACAAGTTAGCAAGCCTAAAAAT 58.217 37.500 0.00 0.00 37.75 1.82
2857 2883 2.556622 GCCACAAGTTAGCAAGCCTAAA 59.443 45.455 0.00 0.00 37.75 1.85
2887 2936 8.345565 GCTTACCTATGGTTAGTTCATTCATTG 58.654 37.037 4.95 0.00 35.12 2.82
2888 2937 8.275040 AGCTTACCTATGGTTAGTTCATTCATT 58.725 33.333 4.95 0.00 35.12 2.57
2904 2953 4.160252 CCACATTTTGCCAAGCTTACCTAT 59.840 41.667 0.00 0.00 0.00 2.57
2908 2957 2.068519 GCCACATTTTGCCAAGCTTAC 58.931 47.619 0.00 0.00 0.00 2.34
2927 2976 2.332063 TGGTTCTAGCCTAGCATTGC 57.668 50.000 0.00 0.00 0.00 3.56
2966 3016 8.677300 ACACATTATCGCTGAAACTCAATATTT 58.323 29.630 0.00 0.00 0.00 1.40
2972 3022 4.754618 ACAACACATTATCGCTGAAACTCA 59.245 37.500 0.00 0.00 0.00 3.41
3013 3063 1.137404 GCACGAGCGATTGCCAAAT 59.863 52.632 0.00 0.00 44.31 2.32
3024 3074 3.851105 GCCTGATATTTTCATGCACGAGC 60.851 47.826 0.00 0.00 43.27 5.03
3087 3140 1.262683 GCCGCTAATGAGAATGTCTGC 59.737 52.381 0.00 0.00 0.00 4.26
3092 3145 3.120060 GCAATAGGCCGCTAATGAGAATG 60.120 47.826 0.00 0.00 36.11 2.67
3176 3241 9.710900 ATAGTTAGCTTTTGAAAATCCTTTTGG 57.289 29.630 0.00 0.00 42.21 3.28
3207 3272 5.544562 CCCTCTCTTCCTTTTATAGGGGTAG 59.455 48.000 0.00 0.00 44.86 3.18
3208 3273 5.474199 CCCTCTCTTCCTTTTATAGGGGTA 58.526 45.833 0.00 0.00 44.86 3.69
3212 3277 3.716872 TGCCCCTCTCTTCCTTTTATAGG 59.283 47.826 0.00 0.00 46.27 2.57
3213 3278 4.656112 TCTGCCCCTCTCTTCCTTTTATAG 59.344 45.833 0.00 0.00 0.00 1.31
3216 3281 2.915869 TCTGCCCCTCTCTTCCTTTTA 58.084 47.619 0.00 0.00 0.00 1.52
3217 3282 1.747444 TCTGCCCCTCTCTTCCTTTT 58.253 50.000 0.00 0.00 0.00 2.27
3218 3283 1.843206 GATCTGCCCCTCTCTTCCTTT 59.157 52.381 0.00 0.00 0.00 3.11
3219 3284 1.506025 GATCTGCCCCTCTCTTCCTT 58.494 55.000 0.00 0.00 0.00 3.36
3220 3285 0.399806 GGATCTGCCCCTCTCTTCCT 60.400 60.000 0.00 0.00 0.00 3.36
3221 3286 0.692419 TGGATCTGCCCCTCTCTTCC 60.692 60.000 0.00 0.00 34.97 3.46
3222 3287 1.207791 TTGGATCTGCCCCTCTCTTC 58.792 55.000 0.00 0.00 34.97 2.87
3223 3288 1.283321 GTTTGGATCTGCCCCTCTCTT 59.717 52.381 0.00 0.00 34.97 2.85
3224 3289 0.915364 GTTTGGATCTGCCCCTCTCT 59.085 55.000 0.00 0.00 34.97 3.10
3225 3290 0.620556 TGTTTGGATCTGCCCCTCTC 59.379 55.000 0.00 0.00 34.97 3.20
3226 3291 1.075601 TTGTTTGGATCTGCCCCTCT 58.924 50.000 0.00 0.00 34.97 3.69
3227 3292 2.027385 GATTGTTTGGATCTGCCCCTC 58.973 52.381 0.00 0.00 34.97 4.30
3228 3293 1.642762 AGATTGTTTGGATCTGCCCCT 59.357 47.619 0.00 0.00 32.79 4.79
3229 3294 2.149973 AGATTGTTTGGATCTGCCCC 57.850 50.000 0.00 0.00 32.79 5.80
3230 3295 3.381590 GGTAAGATTGTTTGGATCTGCCC 59.618 47.826 0.00 0.00 34.24 5.36
3231 3296 3.381590 GGGTAAGATTGTTTGGATCTGCC 59.618 47.826 0.00 0.00 34.24 4.85
3232 3297 4.016444 TGGGTAAGATTGTTTGGATCTGC 58.984 43.478 0.00 0.00 34.24 4.26
3233 3298 5.300286 GGATGGGTAAGATTGTTTGGATCTG 59.700 44.000 0.00 0.00 34.24 2.90
3234 3299 5.044179 TGGATGGGTAAGATTGTTTGGATCT 60.044 40.000 0.00 0.00 35.43 2.75
3235 3300 5.200483 TGGATGGGTAAGATTGTTTGGATC 58.800 41.667 0.00 0.00 0.00 3.36
3236 3301 5.205517 TGGATGGGTAAGATTGTTTGGAT 57.794 39.130 0.00 0.00 0.00 3.41
3237 3302 4.666412 TGGATGGGTAAGATTGTTTGGA 57.334 40.909 0.00 0.00 0.00 3.53
3238 3303 5.937975 AATGGATGGGTAAGATTGTTTGG 57.062 39.130 0.00 0.00 0.00 3.28
3239 3304 7.835822 TGTTAATGGATGGGTAAGATTGTTTG 58.164 34.615 0.00 0.00 0.00 2.93
3240 3305 8.429237 TTGTTAATGGATGGGTAAGATTGTTT 57.571 30.769 0.00 0.00 0.00 2.83
3241 3306 7.893302 TCTTGTTAATGGATGGGTAAGATTGTT 59.107 33.333 0.00 0.00 0.00 2.83
3242 3307 7.410174 TCTTGTTAATGGATGGGTAAGATTGT 58.590 34.615 0.00 0.00 0.00 2.71
3243 3308 7.880160 TCTTGTTAATGGATGGGTAAGATTG 57.120 36.000 0.00 0.00 0.00 2.67
3244 3309 8.506083 AGATCTTGTTAATGGATGGGTAAGATT 58.494 33.333 0.00 0.00 34.74 2.40
3245 3310 8.050316 AGATCTTGTTAATGGATGGGTAAGAT 57.950 34.615 0.00 0.00 36.62 2.40
3246 3311 7.451731 AGATCTTGTTAATGGATGGGTAAGA 57.548 36.000 0.00 0.00 0.00 2.10
3247 3312 9.799106 ATTAGATCTTGTTAATGGATGGGTAAG 57.201 33.333 0.00 0.00 0.00 2.34
3248 3313 9.573166 CATTAGATCTTGTTAATGGATGGGTAA 57.427 33.333 0.00 0.00 34.92 2.85
3259 3324 9.561069 GGATTAAGAGCCATTAGATCTTGTTAA 57.439 33.333 0.00 0.00 35.09 2.01
3260 3325 8.938883 AGGATTAAGAGCCATTAGATCTTGTTA 58.061 33.333 0.00 0.00 35.09 2.41
3261 3326 7.810260 AGGATTAAGAGCCATTAGATCTTGTT 58.190 34.615 0.00 0.00 35.09 2.83
3262 3327 7.385894 AGGATTAAGAGCCATTAGATCTTGT 57.614 36.000 0.00 0.00 35.09 3.16
3263 3328 8.156165 AGAAGGATTAAGAGCCATTAGATCTTG 58.844 37.037 0.00 0.00 35.09 3.02
3264 3329 8.273923 AGAAGGATTAAGAGCCATTAGATCTT 57.726 34.615 0.00 0.00 37.13 2.40
3265 3330 7.870426 AGAAGGATTAAGAGCCATTAGATCT 57.130 36.000 0.00 0.00 32.29 2.75
3266 3331 9.598517 CATAGAAGGATTAAGAGCCATTAGATC 57.401 37.037 0.00 0.00 32.29 2.75
3267 3332 9.110382 ACATAGAAGGATTAAGAGCCATTAGAT 57.890 33.333 0.00 0.00 32.29 1.98
3268 3333 8.497910 ACATAGAAGGATTAAGAGCCATTAGA 57.502 34.615 0.00 0.00 32.29 2.10
3269 3334 9.566432 AAACATAGAAGGATTAAGAGCCATTAG 57.434 33.333 0.00 0.00 32.29 1.73
3271 3336 9.920946 TTAAACATAGAAGGATTAAGAGCCATT 57.079 29.630 0.00 0.00 32.29 3.16
3272 3337 9.343539 GTTAAACATAGAAGGATTAAGAGCCAT 57.656 33.333 0.00 0.00 32.29 4.40
3273 3338 8.325787 TGTTAAACATAGAAGGATTAAGAGCCA 58.674 33.333 0.00 0.00 32.29 4.75
3274 3339 8.613482 GTGTTAAACATAGAAGGATTAAGAGCC 58.387 37.037 0.00 0.00 0.00 4.70
3275 3340 9.384764 AGTGTTAAACATAGAAGGATTAAGAGC 57.615 33.333 0.00 0.00 0.00 4.09
3277 3342 9.162764 GCAGTGTTAAACATAGAAGGATTAAGA 57.837 33.333 0.00 0.00 0.00 2.10
3278 3343 8.398665 GGCAGTGTTAAACATAGAAGGATTAAG 58.601 37.037 0.00 0.00 0.00 1.85
3279 3344 7.885922 TGGCAGTGTTAAACATAGAAGGATTAA 59.114 33.333 0.00 0.00 0.00 1.40
3280 3345 7.398829 TGGCAGTGTTAAACATAGAAGGATTA 58.601 34.615 0.00 0.00 0.00 1.75
3281 3346 6.245408 TGGCAGTGTTAAACATAGAAGGATT 58.755 36.000 0.00 0.00 0.00 3.01
3282 3347 5.815581 TGGCAGTGTTAAACATAGAAGGAT 58.184 37.500 0.00 0.00 0.00 3.24
3283 3348 5.235850 TGGCAGTGTTAAACATAGAAGGA 57.764 39.130 0.00 0.00 0.00 3.36
3284 3349 5.335661 GGTTGGCAGTGTTAAACATAGAAGG 60.336 44.000 0.00 0.00 0.00 3.46
3285 3350 5.240623 TGGTTGGCAGTGTTAAACATAGAAG 59.759 40.000 0.00 0.00 0.00 2.85
3286 3351 5.133941 TGGTTGGCAGTGTTAAACATAGAA 58.866 37.500 0.00 0.00 0.00 2.10
3287 3352 4.720046 TGGTTGGCAGTGTTAAACATAGA 58.280 39.130 0.00 0.00 0.00 1.98
3288 3353 5.401550 CATGGTTGGCAGTGTTAAACATAG 58.598 41.667 10.39 4.31 31.04 2.23
3289 3354 4.321601 GCATGGTTGGCAGTGTTAAACATA 60.322 41.667 10.39 0.09 31.04 2.29
3290 3355 3.554752 GCATGGTTGGCAGTGTTAAACAT 60.555 43.478 6.30 6.30 32.28 2.71
3291 3356 2.223923 GCATGGTTGGCAGTGTTAAACA 60.224 45.455 0.00 2.46 0.00 2.83
3292 3357 2.223923 TGCATGGTTGGCAGTGTTAAAC 60.224 45.455 0.00 0.00 36.11 2.01
3293 3358 2.034878 TGCATGGTTGGCAGTGTTAAA 58.965 42.857 0.00 0.00 36.11 1.52
3294 3359 1.697284 TGCATGGTTGGCAGTGTTAA 58.303 45.000 0.00 0.00 36.11 2.01
3295 3360 1.921982 ATGCATGGTTGGCAGTGTTA 58.078 45.000 0.00 0.00 45.68 2.41
3296 3361 1.050204 AATGCATGGTTGGCAGTGTT 58.950 45.000 0.00 0.00 45.68 3.32
3297 3362 1.921982 TAATGCATGGTTGGCAGTGT 58.078 45.000 0.00 0.00 45.68 3.55
3298 3363 2.883574 CTTAATGCATGGTTGGCAGTG 58.116 47.619 0.00 0.00 45.68 3.66
3299 3364 1.205417 GCTTAATGCATGGTTGGCAGT 59.795 47.619 0.00 0.00 45.68 4.40
3300 3365 1.472026 GGCTTAATGCATGGTTGGCAG 60.472 52.381 0.00 0.00 45.68 4.85
3301 3366 0.536260 GGCTTAATGCATGGTTGGCA 59.464 50.000 0.00 0.00 46.66 4.92
3302 3367 0.536260 TGGCTTAATGCATGGTTGGC 59.464 50.000 0.00 4.44 45.15 4.52
3303 3368 1.826720 AGTGGCTTAATGCATGGTTGG 59.173 47.619 0.00 0.00 45.15 3.77
3304 3369 4.398988 TCTTAGTGGCTTAATGCATGGTTG 59.601 41.667 0.00 0.00 45.15 3.77
3305 3370 4.599041 TCTTAGTGGCTTAATGCATGGTT 58.401 39.130 0.00 0.00 45.15 3.67
3306 3371 4.202441 CTCTTAGTGGCTTAATGCATGGT 58.798 43.478 0.00 0.00 45.15 3.55
3307 3372 3.567164 CCTCTTAGTGGCTTAATGCATGG 59.433 47.826 0.00 0.00 45.15 3.66
3308 3373 3.004106 GCCTCTTAGTGGCTTAATGCATG 59.996 47.826 17.01 0.00 46.38 4.06
3309 3374 3.217626 GCCTCTTAGTGGCTTAATGCAT 58.782 45.455 17.01 0.00 46.38 3.96
3310 3375 2.643551 GCCTCTTAGTGGCTTAATGCA 58.356 47.619 17.01 0.00 46.38 3.96
3313 3378 9.409839 CGATAGATGGCCTCTTAGTGGCTTAAT 62.410 44.444 22.25 14.39 44.81 1.40
3314 3379 8.190385 CGATAGATGGCCTCTTAGTGGCTTAA 62.190 46.154 22.25 10.77 44.81 1.85
3315 3380 6.786546 CGATAGATGGCCTCTTAGTGGCTTA 61.787 48.000 22.25 13.48 44.81 3.09
3316 3381 6.070600 CGATAGATGGCCTCTTAGTGGCTT 62.071 50.000 22.25 11.97 44.81 4.35
3317 3382 4.627448 CGATAGATGGCCTCTTAGTGGCT 61.627 52.174 22.25 6.06 44.81 4.75
3318 3383 2.353208 CGATAGATGGCCTCTTAGTGGC 60.353 54.545 16.14 16.14 44.74 5.01
3319 3384 2.353208 GCGATAGATGGCCTCTTAGTGG 60.353 54.545 3.32 0.00 35.28 4.00
3320 3385 2.560542 AGCGATAGATGGCCTCTTAGTG 59.439 50.000 3.32 0.00 35.28 2.74
3321 3386 2.883026 AGCGATAGATGGCCTCTTAGT 58.117 47.619 3.32 0.00 35.28 2.24
3322 3387 4.381079 GGTTAGCGATAGATGGCCTCTTAG 60.381 50.000 3.32 1.33 35.28 2.18
3323 3388 3.510360 GGTTAGCGATAGATGGCCTCTTA 59.490 47.826 3.32 0.00 35.28 2.10
3324 3389 2.300437 GGTTAGCGATAGATGGCCTCTT 59.700 50.000 3.32 0.00 35.28 2.85
3325 3390 1.896465 GGTTAGCGATAGATGGCCTCT 59.104 52.381 3.32 7.14 38.06 3.69
3326 3391 1.618837 TGGTTAGCGATAGATGGCCTC 59.381 52.381 3.32 0.00 39.76 4.70
3327 3392 1.344763 GTGGTTAGCGATAGATGGCCT 59.655 52.381 3.32 0.00 39.76 5.19
3328 3393 1.608283 GGTGGTTAGCGATAGATGGCC 60.608 57.143 0.00 0.00 39.76 5.36
3329 3394 1.797025 GGTGGTTAGCGATAGATGGC 58.203 55.000 0.00 0.00 39.76 4.40
3339 3404 3.629438 TTTTTAACTGCGGTGGTTAGC 57.371 42.857 0.00 0.00 31.94 3.09
3356 3421 6.072175 TGCGATGTTAGCAGAGGTAAATTTTT 60.072 34.615 0.00 0.00 40.01 1.94
3357 3422 5.414454 TGCGATGTTAGCAGAGGTAAATTTT 59.586 36.000 0.00 0.00 40.01 1.82
3358 3423 4.941263 TGCGATGTTAGCAGAGGTAAATTT 59.059 37.500 0.00 0.00 40.01 1.82
3359 3424 4.332819 GTGCGATGTTAGCAGAGGTAAATT 59.667 41.667 0.00 0.00 46.10 1.82
3360 3425 3.871594 GTGCGATGTTAGCAGAGGTAAAT 59.128 43.478 0.00 0.00 46.10 1.40
3361 3426 3.259064 GTGCGATGTTAGCAGAGGTAAA 58.741 45.455 0.00 0.00 46.10 2.01
3362 3427 2.734175 CGTGCGATGTTAGCAGAGGTAA 60.734 50.000 0.00 0.00 46.10 2.85
3363 3428 1.202256 CGTGCGATGTTAGCAGAGGTA 60.202 52.381 0.00 0.00 46.10 3.08
3364 3429 0.458543 CGTGCGATGTTAGCAGAGGT 60.459 55.000 0.00 0.00 46.10 3.85
3365 3430 1.756375 GCGTGCGATGTTAGCAGAGG 61.756 60.000 0.00 0.00 46.10 3.69
3366 3431 1.633171 GCGTGCGATGTTAGCAGAG 59.367 57.895 0.00 0.00 46.10 3.35
3367 3432 1.809619 GGCGTGCGATGTTAGCAGA 60.810 57.895 0.00 0.00 46.10 4.26
3368 3433 2.703409 GGCGTGCGATGTTAGCAG 59.297 61.111 0.00 0.00 46.10 4.24
3369 3434 2.817834 GGGCGTGCGATGTTAGCA 60.818 61.111 0.00 0.00 42.99 3.49
3370 3435 3.573491 GGGGCGTGCGATGTTAGC 61.573 66.667 0.00 0.00 0.00 3.09
3371 3436 2.125310 TGGGGCGTGCGATGTTAG 60.125 61.111 0.00 0.00 0.00 2.34
3372 3437 2.435234 GTGGGGCGTGCGATGTTA 60.435 61.111 0.00 0.00 0.00 2.41
3402 3467 3.976701 AATGGCTGCGGGAGGAACG 62.977 63.158 0.00 0.00 0.00 3.95
3403 3468 2.044946 AATGGCTGCGGGAGGAAC 60.045 61.111 0.00 0.00 0.00 3.62
3404 3469 2.272146 GAATGGCTGCGGGAGGAA 59.728 61.111 0.00 0.00 0.00 3.36
3405 3470 4.161295 CGAATGGCTGCGGGAGGA 62.161 66.667 0.00 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.