Multiple sequence alignment - TraesCS6A01G211300

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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 TraesCS6A01G211300 chr6A 100.000 3472 0 0 1 3472 384313713 384317184 0.000000e+00 6412
1 TraesCS6A01G211300 chr6A 99.297 569 4 0 1 569 374008002 374007434 0.000000e+00 1029
2 TraesCS6A01G211300 chr6D 92.195 1499 53 18 570 2053 269804860 269806309 0.000000e+00 2061
3 TraesCS6A01G211300 chr6D 92.325 886 33 7 2057 2941 269806359 269807210 0.000000e+00 1227
4 TraesCS6A01G211300 chr6B 92.142 1349 62 17 570 1912 422565375 422566685 0.000000e+00 1864
5 TraesCS6A01G211300 chr6B 91.338 1166 86 8 2195 3350 422567339 422568499 0.000000e+00 1580
6 TraesCS6A01G211300 chr6B 99.118 567 5 0 1 567 216405655 216406221 0.000000e+00 1020
7 TraesCS6A01G211300 chr6B 96.330 109 4 0 2057 2165 422567069 422567177 2.750000e-41 180
8 TraesCS6A01G211300 chr2B 99.118 567 5 0 3 569 68972088 68971522 0.000000e+00 1020
9 TraesCS6A01G211300 chr2B 98.776 572 7 0 1 572 573956044 573956615 0.000000e+00 1018
10 TraesCS6A01G211300 chr2B 80.159 378 67 8 3083 3456 431775446 431775819 3.410000e-70 276
11 TraesCS6A01G211300 chr2B 88.136 177 21 0 2262 2438 513696572 513696748 9.760000e-51 211
12 TraesCS6A01G211300 chr2A 98.947 570 6 0 1 570 180084252 180084821 0.000000e+00 1020
13 TraesCS6A01G211300 chr2A 84.711 242 31 5 2262 2503 551481415 551481180 1.610000e-58 237
14 TraesCS6A01G211300 chr2A 83.884 242 29 8 2264 2503 551372303 551372070 4.510000e-54 222
15 TraesCS6A01G211300 chr2A 82.645 242 36 4 2262 2503 551467947 551467712 3.510000e-50 209
16 TraesCS6A01G211300 chr2A 87.571 177 22 0 2262 2438 551462059 551461883 4.540000e-49 206
17 TraesCS6A01G211300 chr2A 87.006 177 23 0 2262 2438 551446875 551446699 2.110000e-47 200
18 TraesCS6A01G211300 chr1A 97.966 590 9 3 3 589 119756216 119756805 0.000000e+00 1020
19 TraesCS6A01G211300 chr4B 98.946 569 6 0 1 569 345651412 345651980 0.000000e+00 1018
20 TraesCS6A01G211300 chr1B 98.946 569 6 0 1 569 355243198 355242630 0.000000e+00 1018
21 TraesCS6A01G211300 chr1B 98.946 569 6 0 1 569 423894690 423894122 0.000000e+00 1018
22 TraesCS6A01G211300 chr1D 82.415 381 56 8 3090 3467 204281482 204281110 4.320000e-84 322
23 TraesCS6A01G211300 chr4A 82.133 375 60 6 3094 3467 80160231 80160599 7.230000e-82 315
24 TraesCS6A01G211300 chr5D 82.535 355 57 5 3119 3471 34223210 34223561 1.210000e-79 307
25 TraesCS6A01G211300 chr4D 81.471 367 62 6 3093 3456 408590263 408590626 2.620000e-76 296
26 TraesCS6A01G211300 chr3A 81.003 379 57 8 3095 3467 24969439 24969070 1.580000e-73 287
27 TraesCS6A01G211300 chr7D 81.370 365 50 17 3098 3458 269695059 269695409 7.340000e-72 281
28 TraesCS6A01G211300 chr7B 80.965 373 55 14 3098 3467 271068758 271069117 7.340000e-72 281
29 TraesCS6A01G211300 chr2D 88.636 176 20 0 2262 2437 435197482 435197657 7.550000e-52 215


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 TraesCS6A01G211300 chr6A 384313713 384317184 3471 False 6412 6412 100.000 1 3472 1 chr6A.!!$F1 3471
1 TraesCS6A01G211300 chr6A 374007434 374008002 568 True 1029 1029 99.297 1 569 1 chr6A.!!$R1 568
2 TraesCS6A01G211300 chr6D 269804860 269807210 2350 False 1644 2061 92.260 570 2941 2 chr6D.!!$F1 2371
3 TraesCS6A01G211300 chr6B 422565375 422568499 3124 False 1208 1864 93.270 570 3350 3 chr6B.!!$F2 2780
4 TraesCS6A01G211300 chr6B 216405655 216406221 566 False 1020 1020 99.118 1 567 1 chr6B.!!$F1 566
5 TraesCS6A01G211300 chr2B 68971522 68972088 566 True 1020 1020 99.118 3 569 1 chr2B.!!$R1 566
6 TraesCS6A01G211300 chr2B 573956044 573956615 571 False 1018 1018 98.776 1 572 1 chr2B.!!$F3 571
7 TraesCS6A01G211300 chr2A 180084252 180084821 569 False 1020 1020 98.947 1 570 1 chr2A.!!$F1 569
8 TraesCS6A01G211300 chr1A 119756216 119756805 589 False 1020 1020 97.966 3 589 1 chr1A.!!$F1 586
9 TraesCS6A01G211300 chr4B 345651412 345651980 568 False 1018 1018 98.946 1 569 1 chr4B.!!$F1 568
10 TraesCS6A01G211300 chr1B 355242630 355243198 568 True 1018 1018 98.946 1 569 1 chr1B.!!$R1 568
11 TraesCS6A01G211300 chr1B 423894122 423894690 568 True 1018 1018 98.946 1 569 1 chr1B.!!$R2 568

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
705 709 1.126846 GGTCGTGTCATCAAAAGCTCG 59.873 52.381 0.00 0.0 0.00 5.03 F
1068 1080 0.612744 GGCTGTTCAAGAGGAGCTCT 59.387 55.000 14.64 0.0 43.37 4.09 F
2101 2374 1.114627 ACGCATGAGAGGCATACAGA 58.885 50.000 2.50 0.0 34.82 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2102 2375 0.037975 GGTTCGACCATGTGTACGGT 60.038 55.0 0.0 0.0 38.42 4.83 R
2334 2763 0.041982 GTGTCCTCCCTCTCCTTCCT 59.958 60.0 0.0 0.0 0.00 3.36 R
3381 3821 0.036388 ATGTGTGGGACGACATGACC 60.036 55.0 0.0 0.0 31.47 4.02 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
333 334 6.426328 GTCCATCACATCATTCTCCTAATGAC 59.574 42.308 2.72 0.00 39.22 3.06
620 624 4.278919 TGCATGATGGGCAATACTGTAATG 59.721 41.667 0.00 0.00 38.54 1.90
663 667 1.636988 CTAAGCTAAACCGACCACCG 58.363 55.000 0.00 0.00 38.18 4.94
705 709 1.126846 GGTCGTGTCATCAAAAGCTCG 59.873 52.381 0.00 0.00 0.00 5.03
750 754 1.980232 TGCAGCCCTTTCCATGCAG 60.980 57.895 0.00 0.00 43.34 4.41
758 762 3.355378 CCCTTTCCATGCAGAACACATA 58.645 45.455 0.00 0.00 0.00 2.29
840 844 1.811778 AGATTGCCTGCATCCTCCTA 58.188 50.000 0.00 0.00 0.00 2.94
1068 1080 0.612744 GGCTGTTCAAGAGGAGCTCT 59.387 55.000 14.64 0.00 43.37 4.09
1185 1197 2.584391 GGTGCAGAAGAGGGACGGT 61.584 63.158 0.00 0.00 0.00 4.83
1378 1401 5.496133 TGCGAGTAGTTCCTATAACTGAC 57.504 43.478 0.74 0.00 0.00 3.51
1480 1505 6.984474 CCGTATTTTGGAGAGTATGAGCTTAA 59.016 38.462 0.00 0.00 0.00 1.85
1567 1592 4.502645 GTGTTGTTGTTTGGTAGATGTTGC 59.497 41.667 0.00 0.00 0.00 4.17
1629 1655 7.032580 CAGTTTGGTGTGAAGTAAATGTCAAA 58.967 34.615 0.00 0.00 0.00 2.69
1676 1702 6.318648 AGTTTTACTTCACATCTTCACTTGCA 59.681 34.615 0.00 0.00 0.00 4.08
1684 1710 4.060205 ACATCTTCACTTGCAAAAATGCC 58.940 39.130 0.00 0.00 0.00 4.40
1718 1744 6.033831 TCGACGTAATTCGACAAATAAAGGAC 59.966 38.462 0.00 0.00 43.01 3.85
1775 1802 2.498167 CAGAGTCCTGTTGTTTCCCTG 58.502 52.381 0.00 0.00 35.70 4.45
1814 1841 4.926238 AGTAGTGTGAGATTGAAGCGAAAG 59.074 41.667 0.00 0.00 0.00 2.62
1828 1855 2.919229 AGCGAAAGTCATAACGTTACCG 59.081 45.455 10.81 5.19 40.83 4.02
1915 2132 8.938883 TGTCCTGCTCTAGATAATAAAAAGGAT 58.061 33.333 0.00 0.00 33.01 3.24
1963 2190 5.941058 TCTTCAGAAGTCAGGACTAGTACAG 59.059 44.000 8.10 0.00 41.58 2.74
1964 2191 5.244189 TCAGAAGTCAGGACTAGTACAGT 57.756 43.478 8.10 0.00 41.58 3.55
1965 2192 6.370186 TCAGAAGTCAGGACTAGTACAGTA 57.630 41.667 8.10 0.00 41.58 2.74
1966 2193 6.171921 TCAGAAGTCAGGACTAGTACAGTAC 58.828 44.000 8.10 2.05 41.58 2.73
1967 2194 5.938710 CAGAAGTCAGGACTAGTACAGTACA 59.061 44.000 13.37 0.00 41.09 2.90
1976 2203 7.986320 CAGGACTAGTACAGTACAGTACACTAT 59.014 40.741 25.01 10.98 45.25 2.12
1985 2212 1.480954 ACAGTACACTATTCCTGCGGG 59.519 52.381 4.71 4.71 0.00 6.13
2012 2239 3.120095 CGCAATGTTGATGCAGAAGAGAA 60.120 43.478 0.00 0.00 44.01 2.87
2043 2270 1.923864 CGCATACAACTGACACGCATA 59.076 47.619 0.00 0.00 0.00 3.14
2053 2280 3.370978 ACTGACACGCATACACATTTAGC 59.629 43.478 0.00 0.00 0.00 3.09
2055 2282 4.749976 TGACACGCATACACATTTAGCTA 58.250 39.130 0.00 0.00 0.00 3.32
2096 2369 2.158914 TGATAACACGCATGAGAGGCAT 60.159 45.455 2.50 0.00 37.85 4.40
2100 2373 1.215244 CACGCATGAGAGGCATACAG 58.785 55.000 2.50 0.00 34.82 2.74
2101 2374 1.114627 ACGCATGAGAGGCATACAGA 58.885 50.000 2.50 0.00 34.82 3.41
2102 2375 1.482182 ACGCATGAGAGGCATACAGAA 59.518 47.619 2.50 0.00 34.82 3.02
2103 2376 1.863454 CGCATGAGAGGCATACAGAAC 59.137 52.381 0.00 0.00 34.82 3.01
2104 2377 2.216898 GCATGAGAGGCATACAGAACC 58.783 52.381 0.00 0.00 34.82 3.62
2105 2378 2.477825 CATGAGAGGCATACAGAACCG 58.522 52.381 0.00 0.00 34.82 4.44
2106 2379 1.557099 TGAGAGGCATACAGAACCGT 58.443 50.000 0.00 0.00 0.00 4.83
2107 2380 2.730382 TGAGAGGCATACAGAACCGTA 58.270 47.619 0.00 0.00 0.00 4.02
2108 2381 2.426024 TGAGAGGCATACAGAACCGTAC 59.574 50.000 0.00 0.00 0.00 3.67
2109 2382 2.426024 GAGAGGCATACAGAACCGTACA 59.574 50.000 0.00 0.00 0.00 2.90
2110 2383 2.165845 AGAGGCATACAGAACCGTACAC 59.834 50.000 0.00 0.00 0.00 2.90
2111 2384 1.897133 AGGCATACAGAACCGTACACA 59.103 47.619 0.00 0.00 0.00 3.72
2112 2385 2.500098 AGGCATACAGAACCGTACACAT 59.500 45.455 0.00 0.00 0.00 3.21
2113 2386 2.607635 GGCATACAGAACCGTACACATG 59.392 50.000 0.00 0.00 0.00 3.21
2114 2387 2.607635 GCATACAGAACCGTACACATGG 59.392 50.000 0.00 0.00 36.82 3.66
2115 2388 3.857052 CATACAGAACCGTACACATGGT 58.143 45.455 0.00 0.00 46.63 3.55
2116 2389 2.450609 ACAGAACCGTACACATGGTC 57.549 50.000 0.00 0.00 43.69 4.02
2144 2434 4.497473 TCCTACTGCATTTTTGTTTCCG 57.503 40.909 0.00 0.00 0.00 4.30
2320 2749 2.841988 GGAGCCGAGGGAGCAGAT 60.842 66.667 0.00 0.00 0.00 2.90
2322 2751 2.364842 AGCCGAGGGAGCAGATGT 60.365 61.111 0.00 0.00 0.00 3.06
2334 2763 3.565482 GGAGCAGATGTTGTTGTTCAAGA 59.435 43.478 0.00 0.00 36.66 3.02
2438 2867 2.411904 CTCAAGGATATGAAGCTCCGC 58.588 52.381 0.00 0.00 36.62 5.54
2440 2869 0.753262 AAGGATATGAAGCTCCGCGT 59.247 50.000 4.92 0.00 36.62 6.01
2485 2914 2.434359 GTAAAGCCCGCGTCAGCT 60.434 61.111 4.92 7.62 42.40 4.24
2505 2934 4.288626 AGCTTTTTATCCAGGTGTAGGACA 59.711 41.667 0.00 0.00 38.13 4.02
2562 2991 7.962441 AGCAGGAATGGTTTTACTGTTTATTT 58.038 30.769 0.00 0.00 0.00 1.40
2590 3019 3.304123 CGTTGCGGAACACTAATTTTCCA 60.304 43.478 20.15 0.00 41.35 3.53
2601 3030 9.678941 GAACACTAATTTTCCAGAAGGTTTTAG 57.321 33.333 0.00 0.00 35.89 1.85
2602 3031 8.762481 ACACTAATTTTCCAGAAGGTTTTAGT 57.238 30.769 0.00 0.00 35.89 2.24
2695 3125 1.389555 GGCAAAATAAGGGTCCCTCG 58.610 55.000 12.07 0.00 30.89 4.63
2711 3141 3.200165 TCCCTCGAGTATGAGAGTGAGAA 59.800 47.826 12.31 0.00 38.28 2.87
2735 3165 5.363939 AGCTTTCCTGATCATGTTAGTAGC 58.636 41.667 0.00 0.00 0.00 3.58
2739 3169 3.706086 TCCTGATCATGTTAGTAGCTGCA 59.294 43.478 4.12 0.00 0.00 4.41
2775 3205 3.003275 GTGGTTGTGACGATGTGATGTTT 59.997 43.478 0.00 0.00 0.00 2.83
2805 3235 1.004277 GTTGGGCTCATGTTGTCCCTA 59.996 52.381 9.01 3.08 39.49 3.53
2814 3244 3.827876 TCATGTTGTCCCTAGTTACGTGA 59.172 43.478 0.00 0.00 33.64 4.35
2819 3249 5.711506 TGTTGTCCCTAGTTACGTGATCTTA 59.288 40.000 0.00 0.00 0.00 2.10
2832 3262 6.834168 ACGTGATCTTATCCCATTTTGTTT 57.166 33.333 0.00 0.00 0.00 2.83
2833 3263 7.931578 ACGTGATCTTATCCCATTTTGTTTA 57.068 32.000 0.00 0.00 0.00 2.01
2913 3343 7.500227 TCATGAATGAAATGAACTATCACCTCC 59.500 37.037 0.00 0.00 34.21 4.30
2972 3402 9.645059 ATGACTTACAATATACATCCGATTCAG 57.355 33.333 0.00 0.00 0.00 3.02
2974 3404 9.692749 GACTTACAATATACATCCGATTCAGAA 57.307 33.333 0.00 0.00 0.00 3.02
2979 3409 9.173021 ACAATATACATCCGATTCAGAAAAACA 57.827 29.630 0.00 0.00 0.00 2.83
2980 3410 9.438291 CAATATACATCCGATTCAGAAAAACAC 57.562 33.333 0.00 0.00 0.00 3.32
2983 3413 6.481954 ACATCCGATTCAGAAAAACACTAC 57.518 37.500 0.00 0.00 0.00 2.73
2988 3418 6.485313 TCCGATTCAGAAAAACACTACAACAT 59.515 34.615 0.00 0.00 0.00 2.71
3008 3442 9.376075 ACAACATCAGTTCATCTTATAACTCAG 57.624 33.333 0.00 0.00 35.28 3.35
3014 3448 9.025041 TCAGTTCATCTTATAACTCAGAACAGA 57.975 33.333 0.00 0.00 37.07 3.41
3033 3467 9.030452 AGAACAGAGAGAGTAAATGTGTATCTT 57.970 33.333 0.00 0.00 0.00 2.40
3035 3469 9.646427 AACAGAGAGAGTAAATGTGTATCTTTC 57.354 33.333 0.00 0.00 0.00 2.62
3036 3470 8.254508 ACAGAGAGAGTAAATGTGTATCTTTCC 58.745 37.037 0.00 0.00 0.00 3.13
3078 3517 2.606551 GCTGCTTGCAGAAAAACCTCTC 60.607 50.000 24.67 0.89 42.31 3.20
3107 3546 5.957132 ACATGTATTAAGGGCATCTCCAAT 58.043 37.500 0.00 0.00 36.21 3.16
3108 3547 5.771666 ACATGTATTAAGGGCATCTCCAATG 59.228 40.000 0.00 0.00 36.21 2.82
3114 3553 2.060275 AGGGCATCTCCAATGCTGATA 58.940 47.619 9.62 0.00 44.02 2.15
3117 3556 3.418995 GGCATCTCCAATGCTGATATGT 58.581 45.455 9.62 0.00 44.02 2.29
3127 3566 7.784037 TCCAATGCTGATATGTAAATTTGCTT 58.216 30.769 7.80 4.05 0.00 3.91
3130 3569 6.772360 TGCTGATATGTAAATTTGCTTCCA 57.228 33.333 7.80 3.32 0.00 3.53
3140 3579 1.974265 TTTGCTTCCACATTCGTCCA 58.026 45.000 0.00 0.00 0.00 4.02
3148 3587 1.374252 ACATTCGTCCACGGACAGC 60.374 57.895 16.23 0.00 44.77 4.40
3150 3589 3.642778 ATTCGTCCACGGACAGCGG 62.643 63.158 16.23 0.13 44.77 5.52
3155 3594 4.436998 CCACGGACAGCGGAGACC 62.437 72.222 0.00 0.00 0.00 3.85
3163 3602 2.203640 AGCGGAGACCAGTCCACA 60.204 61.111 0.00 0.00 36.23 4.17
3169 3608 0.039074 GAGACCAGTCCACAGACACG 60.039 60.000 0.00 0.00 46.15 4.49
3172 3611 1.046472 ACCAGTCCACAGACACGGAA 61.046 55.000 8.23 0.00 46.15 4.30
3174 3613 0.946221 CAGTCCACAGACACGGAAGC 60.946 60.000 0.00 0.00 46.15 3.86
3175 3614 1.069090 GTCCACAGACACGGAAGCA 59.931 57.895 0.00 0.00 42.99 3.91
3180 3619 1.115930 ACAGACACGGAAGCAGGAGT 61.116 55.000 0.00 0.00 0.00 3.85
3183 3622 1.863662 GACACGGAAGCAGGAGTCGA 61.864 60.000 0.00 0.00 0.00 4.20
3210 3649 3.119779 CCAACGTTACCCGCATACATTTT 60.120 43.478 0.00 0.00 41.42 1.82
3211 3650 4.094590 CCAACGTTACCCGCATACATTTTA 59.905 41.667 0.00 0.00 41.42 1.52
3222 3661 5.062809 CCGCATACATTTTAAACCGCATTTT 59.937 36.000 0.00 0.00 0.00 1.82
3225 3664 8.324567 CGCATACATTTTAAACCGCATTTTAAT 58.675 29.630 0.00 0.00 32.33 1.40
3254 3694 2.250188 GAAATTCATGCAAACCCGACG 58.750 47.619 0.00 0.00 0.00 5.12
3265 3705 2.024176 AACCCGACGGAATTCATCAG 57.976 50.000 17.49 0.00 0.00 2.90
3276 3716 6.051717 ACGGAATTCATCAGAGTTTGGATAG 58.948 40.000 7.93 0.00 0.00 2.08
3280 3720 8.960591 GGAATTCATCAGAGTTTGGATAGAAAA 58.039 33.333 7.93 0.00 0.00 2.29
3355 3795 8.955061 AGTTCAAATTCAACGAGATTAACATG 57.045 30.769 0.00 0.00 0.00 3.21
3356 3796 8.567948 AGTTCAAATTCAACGAGATTAACATGT 58.432 29.630 0.00 0.00 0.00 3.21
3357 3797 9.180678 GTTCAAATTCAACGAGATTAACATGTT 57.819 29.630 16.68 16.68 0.00 2.71
3358 3798 8.726650 TCAAATTCAACGAGATTAACATGTTG 57.273 30.769 21.42 5.59 40.85 3.33
3359 3799 8.349245 TCAAATTCAACGAGATTAACATGTTGT 58.651 29.630 21.42 9.57 40.47 3.32
3360 3800 8.967218 CAAATTCAACGAGATTAACATGTTGTT 58.033 29.630 21.42 12.02 43.88 2.83
3361 3801 8.728088 AATTCAACGAGATTAACATGTTGTTC 57.272 30.769 21.42 16.13 40.22 3.18
3362 3802 6.852858 TCAACGAGATTAACATGTTGTTCA 57.147 33.333 21.42 0.00 40.22 3.18
3363 3803 7.252965 TCAACGAGATTAACATGTTGTTCAA 57.747 32.000 21.42 7.65 40.22 2.69
3364 3804 7.129622 TCAACGAGATTAACATGTTGTTCAAC 58.870 34.615 21.42 13.05 40.22 3.18
3365 3805 6.612247 ACGAGATTAACATGTTGTTCAACA 57.388 33.333 21.42 18.46 40.22 3.33
3366 3806 7.022055 ACGAGATTAACATGTTGTTCAACAA 57.978 32.000 21.42 4.65 40.22 2.83
3367 3807 7.132213 ACGAGATTAACATGTTGTTCAACAAG 58.868 34.615 21.42 17.72 40.22 3.16
3368 3808 7.132213 CGAGATTAACATGTTGTTCAACAAGT 58.868 34.615 21.42 18.28 40.22 3.16
3369 3809 7.643764 CGAGATTAACATGTTGTTCAACAAGTT 59.356 33.333 28.64 28.64 43.93 2.66
3370 3810 9.301153 GAGATTAACATGTTGTTCAACAAGTTT 57.699 29.630 29.87 19.90 40.37 2.66
3371 3811 9.651913 AGATTAACATGTTGTTCAACAAGTTTT 57.348 25.926 29.87 22.06 40.37 2.43
3374 3814 7.721286 AACATGTTGTTCAACAAGTTTTTCA 57.279 28.000 23.92 6.55 40.37 2.69
3375 3815 7.903995 ACATGTTGTTCAACAAGTTTTTCAT 57.096 28.000 19.72 0.00 39.00 2.57
3376 3816 7.741198 ACATGTTGTTCAACAAGTTTTTCATG 58.259 30.769 19.95 19.95 39.00 3.07
3377 3817 7.601886 ACATGTTGTTCAACAAGTTTTTCATGA 59.398 29.630 24.96 0.00 39.00 3.07
3378 3818 7.953158 TGTTGTTCAACAAGTTTTTCATGAA 57.047 28.000 14.73 3.38 39.00 2.57
3379 3819 7.791949 TGTTGTTCAACAAGTTTTTCATGAAC 58.208 30.769 7.89 8.96 44.15 3.18
3380 3820 6.624710 TGTTCAACAAGTTTTTCATGAACG 57.375 33.333 7.89 0.00 45.84 3.95
3381 3821 5.574830 TGTTCAACAAGTTTTTCATGAACGG 59.425 36.000 7.89 0.00 45.84 4.44
3382 3822 4.677584 TCAACAAGTTTTTCATGAACGGG 58.322 39.130 7.89 0.00 32.38 5.28
3383 3823 4.158764 TCAACAAGTTTTTCATGAACGGGT 59.841 37.500 7.89 0.00 32.38 5.28
3384 3824 4.301637 ACAAGTTTTTCATGAACGGGTC 57.698 40.909 7.89 0.00 32.38 4.46
3385 3825 3.697045 ACAAGTTTTTCATGAACGGGTCA 59.303 39.130 7.89 0.00 41.67 4.02
3392 3832 3.436001 ATGAACGGGTCATGTCGTC 57.564 52.632 7.93 6.69 45.69 4.20
3393 3833 0.108329 ATGAACGGGTCATGTCGTCC 60.108 55.000 7.93 1.41 45.69 4.79
3394 3834 1.447314 GAACGGGTCATGTCGTCCC 60.447 63.158 10.64 9.05 38.78 4.46
3395 3835 2.162338 GAACGGGTCATGTCGTCCCA 62.162 60.000 14.48 0.00 42.76 4.37
3396 3836 2.125673 CGGGTCATGTCGTCCCAC 60.126 66.667 14.48 0.00 42.76 4.61
3397 3837 2.938086 CGGGTCATGTCGTCCCACA 61.938 63.158 14.48 0.00 42.76 4.17
3398 3838 1.375523 GGGTCATGTCGTCCCACAC 60.376 63.158 11.12 0.00 42.22 3.82
3399 3839 1.369692 GGTCATGTCGTCCCACACA 59.630 57.895 0.00 0.00 0.00 3.72
3400 3840 0.036388 GGTCATGTCGTCCCACACAT 60.036 55.000 0.00 0.00 33.29 3.21
3401 3841 1.206132 GGTCATGTCGTCCCACACATA 59.794 52.381 0.00 0.00 31.78 2.29
3402 3842 2.268298 GTCATGTCGTCCCACACATAC 58.732 52.381 0.00 0.00 31.78 2.39
3403 3843 2.094182 GTCATGTCGTCCCACACATACT 60.094 50.000 0.00 0.00 31.78 2.12
3404 3844 2.094234 TCATGTCGTCCCACACATACTG 60.094 50.000 0.00 0.00 31.78 2.74
3405 3845 0.037697 TGTCGTCCCACACATACTGC 60.038 55.000 0.00 0.00 0.00 4.40
3406 3846 0.739813 GTCGTCCCACACATACTGCC 60.740 60.000 0.00 0.00 0.00 4.85
3407 3847 1.449601 CGTCCCACACATACTGCCC 60.450 63.158 0.00 0.00 0.00 5.36
3408 3848 1.077716 GTCCCACACATACTGCCCC 60.078 63.158 0.00 0.00 0.00 5.80
3409 3849 1.229820 TCCCACACATACTGCCCCT 60.230 57.895 0.00 0.00 0.00 4.79
3410 3850 0.844661 TCCCACACATACTGCCCCTT 60.845 55.000 0.00 0.00 0.00 3.95
3411 3851 0.394352 CCCACACATACTGCCCCTTC 60.394 60.000 0.00 0.00 0.00 3.46
3412 3852 0.327924 CCACACATACTGCCCCTTCA 59.672 55.000 0.00 0.00 0.00 3.02
3413 3853 1.271871 CCACACATACTGCCCCTTCAA 60.272 52.381 0.00 0.00 0.00 2.69
3414 3854 1.812571 CACACATACTGCCCCTTCAAC 59.187 52.381 0.00 0.00 0.00 3.18
3415 3855 1.705186 ACACATACTGCCCCTTCAACT 59.295 47.619 0.00 0.00 0.00 3.16
3416 3856 2.108250 ACACATACTGCCCCTTCAACTT 59.892 45.455 0.00 0.00 0.00 2.66
3417 3857 2.489329 CACATACTGCCCCTTCAACTTG 59.511 50.000 0.00 0.00 0.00 3.16
3418 3858 2.375174 ACATACTGCCCCTTCAACTTGA 59.625 45.455 0.00 0.00 0.00 3.02
3419 3859 2.561478 TACTGCCCCTTCAACTTGAC 57.439 50.000 0.00 0.00 0.00 3.18
3420 3860 0.178990 ACTGCCCCTTCAACTTGACC 60.179 55.000 0.00 0.00 0.00 4.02
3421 3861 0.895559 CTGCCCCTTCAACTTGACCC 60.896 60.000 0.00 0.00 0.00 4.46
3422 3862 1.971695 GCCCCTTCAACTTGACCCG 60.972 63.158 0.00 0.00 0.00 5.28
3423 3863 1.758592 CCCCTTCAACTTGACCCGA 59.241 57.895 0.00 0.00 0.00 5.14
3424 3864 0.605589 CCCCTTCAACTTGACCCGAC 60.606 60.000 0.00 0.00 0.00 4.79
3425 3865 0.107831 CCCTTCAACTTGACCCGACA 59.892 55.000 0.00 0.00 0.00 4.35
3426 3866 1.512926 CCTTCAACTTGACCCGACAG 58.487 55.000 0.00 0.00 0.00 3.51
3427 3867 1.202651 CCTTCAACTTGACCCGACAGT 60.203 52.381 0.00 0.00 0.00 3.55
3428 3868 1.867233 CTTCAACTTGACCCGACAGTG 59.133 52.381 0.00 0.00 0.00 3.66
3429 3869 0.828022 TCAACTTGACCCGACAGTGT 59.172 50.000 0.00 0.00 0.00 3.55
3430 3870 2.033372 TCAACTTGACCCGACAGTGTA 58.967 47.619 0.00 0.00 0.00 2.90
3431 3871 2.631062 TCAACTTGACCCGACAGTGTAT 59.369 45.455 0.00 0.00 0.00 2.29
3432 3872 3.827876 TCAACTTGACCCGACAGTGTATA 59.172 43.478 0.00 0.00 0.00 1.47
3433 3873 4.464951 TCAACTTGACCCGACAGTGTATAT 59.535 41.667 0.00 0.00 0.00 0.86
3434 3874 5.653330 TCAACTTGACCCGACAGTGTATATA 59.347 40.000 0.00 0.00 0.00 0.86
3435 3875 5.511234 ACTTGACCCGACAGTGTATATAC 57.489 43.478 5.89 5.89 0.00 1.47
3436 3876 4.036027 ACTTGACCCGACAGTGTATATACG 59.964 45.833 8.33 0.00 0.00 3.06
3437 3877 3.544684 TGACCCGACAGTGTATATACGT 58.455 45.455 8.33 0.00 0.00 3.57
3438 3878 4.702831 TGACCCGACAGTGTATATACGTA 58.297 43.478 8.33 0.00 0.00 3.57
3439 3879 5.122519 TGACCCGACAGTGTATATACGTAA 58.877 41.667 8.33 0.00 0.00 3.18
3440 3880 5.588246 TGACCCGACAGTGTATATACGTAAA 59.412 40.000 8.33 0.00 0.00 2.01
3441 3881 6.262944 TGACCCGACAGTGTATATACGTAAAT 59.737 38.462 8.33 0.00 0.00 1.40
3442 3882 7.443879 TGACCCGACAGTGTATATACGTAAATA 59.556 37.037 8.33 0.00 0.00 1.40
3443 3883 7.810658 ACCCGACAGTGTATATACGTAAATAG 58.189 38.462 8.33 0.00 0.00 1.73
3444 3884 7.445402 ACCCGACAGTGTATATACGTAAATAGT 59.555 37.037 8.33 0.58 0.00 2.12
3445 3885 7.959651 CCCGACAGTGTATATACGTAAATAGTC 59.040 40.741 8.33 7.91 0.00 2.59
3446 3886 7.685712 CCGACAGTGTATATACGTAAATAGTCG 59.314 40.741 20.92 20.92 41.32 4.18
3447 3887 8.217115 CGACAGTGTATATACGTAAATAGTCGT 58.783 37.037 20.27 0.00 42.82 4.34
3448 3888 9.522454 GACAGTGTATATACGTAAATAGTCGTC 57.478 37.037 8.33 0.00 40.70 4.20
3449 3889 8.499162 ACAGTGTATATACGTAAATAGTCGTCC 58.501 37.037 8.33 0.00 40.70 4.79
3450 3890 7.959651 CAGTGTATATACGTAAATAGTCGTCCC 59.040 40.741 8.33 0.00 40.70 4.46
3451 3891 7.880195 AGTGTATATACGTAAATAGTCGTCCCT 59.120 37.037 8.33 0.00 40.70 4.20
3452 3892 8.171840 GTGTATATACGTAAATAGTCGTCCCTC 58.828 40.741 8.33 0.00 40.70 4.30
3453 3893 8.097038 TGTATATACGTAAATAGTCGTCCCTCT 58.903 37.037 8.33 0.00 40.70 3.69
3454 3894 9.587772 GTATATACGTAAATAGTCGTCCCTCTA 57.412 37.037 0.00 0.00 40.70 2.43
3456 3896 7.992754 ATACGTAAATAGTCGTCCCTCTATT 57.007 36.000 0.00 0.00 40.70 1.73
3457 3897 6.311055 ACGTAAATAGTCGTCCCTCTATTC 57.689 41.667 0.00 0.00 36.31 1.75
3458 3898 5.240403 ACGTAAATAGTCGTCCCTCTATTCC 59.760 44.000 0.00 0.00 36.31 3.01
3459 3899 4.850347 AAATAGTCGTCCCTCTATTCCG 57.150 45.455 0.00 0.00 36.31 4.30
3460 3900 3.505480 ATAGTCGTCCCTCTATTCCGT 57.495 47.619 0.00 0.00 0.00 4.69
3461 3901 4.630644 ATAGTCGTCCCTCTATTCCGTA 57.369 45.455 0.00 0.00 0.00 4.02
3462 3902 2.848691 AGTCGTCCCTCTATTCCGTAG 58.151 52.381 0.00 0.00 0.00 3.51
3463 3903 2.172293 AGTCGTCCCTCTATTCCGTAGT 59.828 50.000 0.00 0.00 0.00 2.73
3464 3904 3.389329 AGTCGTCCCTCTATTCCGTAGTA 59.611 47.826 0.00 0.00 0.00 1.82
3465 3905 3.496507 GTCGTCCCTCTATTCCGTAGTAC 59.503 52.174 0.00 0.00 0.00 2.73
3466 3906 3.134623 TCGTCCCTCTATTCCGTAGTACA 59.865 47.826 0.38 0.00 0.00 2.90
3467 3907 3.249559 CGTCCCTCTATTCCGTAGTACAC 59.750 52.174 0.38 0.00 0.00 2.90
3468 3908 3.567585 GTCCCTCTATTCCGTAGTACACC 59.432 52.174 0.38 0.00 0.00 4.16
3469 3909 3.202818 TCCCTCTATTCCGTAGTACACCA 59.797 47.826 0.38 0.00 0.00 4.17
3470 3910 3.317430 CCCTCTATTCCGTAGTACACCAC 59.683 52.174 0.38 0.00 0.00 4.16
3471 3911 3.003068 CCTCTATTCCGTAGTACACCACG 59.997 52.174 0.38 1.56 37.89 4.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
705 709 0.948623 GGGTTGGCGCCAAAAATGAC 60.949 55.000 41.60 28.54 37.70 3.06
750 754 6.539649 TGTTACAGTTCTTGCTATGTGTTC 57.460 37.500 0.00 0.00 0.00 3.18
758 762 3.412386 GACCCATGTTACAGTTCTTGCT 58.588 45.455 0.00 0.00 0.00 3.91
840 844 2.282462 CAAAGAGGCCGGCCAACT 60.282 61.111 45.13 37.04 38.92 3.16
980 992 4.815846 TCATGCAGCAATCGATTAAAGCTA 59.184 37.500 17.96 7.32 33.59 3.32
1068 1080 0.242825 CAGTACTCGCCTTCGACCAA 59.757 55.000 0.00 0.00 40.21 3.67
1128 1140 0.540830 CCTCCCACTCTATCTCCCCG 60.541 65.000 0.00 0.00 0.00 5.73
1191 1203 1.689243 CCATGATCACCTCCTCCGCA 61.689 60.000 0.00 0.00 0.00 5.69
1336 1348 7.491696 ACTCGCATAACCTCTAAACTCAAATAC 59.508 37.037 0.00 0.00 0.00 1.89
1343 1357 6.405619 GGAACTACTCGCATAACCTCTAAACT 60.406 42.308 0.00 0.00 0.00 2.66
1348 1362 3.633418 AGGAACTACTCGCATAACCTCT 58.367 45.455 0.00 0.00 36.02 3.69
1435 1460 3.253188 CGGAGCAGGACAAAAATGAAAGA 59.747 43.478 0.00 0.00 0.00 2.52
1480 1505 7.148306 ACGTTGTTTGATTTGTTCTCTTACACT 60.148 33.333 0.00 0.00 0.00 3.55
1532 1557 4.233123 ACAACAACACTCATTGATGCAG 57.767 40.909 0.00 0.00 36.19 4.41
1540 1565 5.827797 ACATCTACCAAACAACAACACTCAT 59.172 36.000 0.00 0.00 0.00 2.90
1567 1592 2.158449 GGTTCTTCTCAACTGCATCGTG 59.842 50.000 0.00 0.00 0.00 4.35
1629 1655 2.501316 TGAGTGGTGCATGCTACTGTAT 59.499 45.455 20.33 0.00 0.00 2.29
1676 1702 3.865745 CGTCGATCTACAGAGGCATTTTT 59.134 43.478 0.00 0.00 0.00 1.94
1684 1710 5.326120 TCGAATTACGTCGATCTACAGAG 57.674 43.478 0.00 0.00 44.76 3.35
1718 1744 2.742053 CAACACATCTGGGAGTAAACGG 59.258 50.000 0.00 0.00 0.00 4.44
1915 2132 3.246112 ACTGGGCGGTGGCAAGTA 61.246 61.111 0.00 0.00 42.47 2.24
1985 2212 2.672874 TCTGCATCAACATTGCGTAGTC 59.327 45.455 0.00 0.00 43.10 2.59
2021 2248 0.511221 GCGTGTCAGTTGTATGCGTT 59.489 50.000 0.00 0.00 0.00 4.84
2022 2249 0.598942 TGCGTGTCAGTTGTATGCGT 60.599 50.000 0.00 0.00 0.00 5.24
2023 2250 0.721154 ATGCGTGTCAGTTGTATGCG 59.279 50.000 0.00 0.00 0.00 4.73
2043 2270 5.468072 GCAGATGCATACTAGCTAAATGTGT 59.532 40.000 0.00 3.42 41.59 3.72
2053 2280 1.606480 CCACCGGCAGATGCATACTAG 60.606 57.143 0.00 0.00 44.36 2.57
2055 2282 1.146930 CCACCGGCAGATGCATACT 59.853 57.895 0.00 0.00 44.36 2.12
2096 2369 2.095110 CGACCATGTGTACGGTTCTGTA 60.095 50.000 0.00 0.00 34.99 2.74
2100 2373 1.723003 GTTCGACCATGTGTACGGTTC 59.277 52.381 0.00 0.00 34.99 3.62
2101 2374 1.606224 GGTTCGACCATGTGTACGGTT 60.606 52.381 0.00 0.00 38.42 4.44
2102 2375 0.037975 GGTTCGACCATGTGTACGGT 60.038 55.000 0.00 0.00 38.42 4.83
2103 2376 0.245539 AGGTTCGACCATGTGTACGG 59.754 55.000 6.78 0.00 41.95 4.02
2104 2377 1.990563 GAAGGTTCGACCATGTGTACG 59.009 52.381 6.78 0.00 41.95 3.67
2105 2378 2.028385 AGGAAGGTTCGACCATGTGTAC 60.028 50.000 6.78 0.00 41.95 2.90
2106 2379 2.253610 AGGAAGGTTCGACCATGTGTA 58.746 47.619 6.78 0.00 41.95 2.90
2107 2380 1.056660 AGGAAGGTTCGACCATGTGT 58.943 50.000 6.78 0.00 41.95 3.72
2108 2381 2.233922 AGTAGGAAGGTTCGACCATGTG 59.766 50.000 6.78 0.00 41.95 3.21
2109 2382 2.233922 CAGTAGGAAGGTTCGACCATGT 59.766 50.000 6.78 0.00 41.95 3.21
2110 2383 2.893637 CAGTAGGAAGGTTCGACCATG 58.106 52.381 6.78 0.00 41.95 3.66
2111 2384 1.207329 GCAGTAGGAAGGTTCGACCAT 59.793 52.381 6.78 0.00 41.95 3.55
2112 2385 0.606604 GCAGTAGGAAGGTTCGACCA 59.393 55.000 6.78 0.00 41.95 4.02
2113 2386 0.606604 TGCAGTAGGAAGGTTCGACC 59.393 55.000 0.00 0.00 38.99 4.79
2114 2387 2.674796 ATGCAGTAGGAAGGTTCGAC 57.325 50.000 0.00 0.00 0.00 4.20
2115 2388 3.695830 AAATGCAGTAGGAAGGTTCGA 57.304 42.857 0.00 0.00 0.00 3.71
2116 2389 4.023193 ACAAAAATGCAGTAGGAAGGTTCG 60.023 41.667 0.00 0.00 0.00 3.95
2144 2434 1.985684 GCATAAACCGTTTGCTTGCTC 59.014 47.619 6.77 0.00 33.61 4.26
2188 2617 2.670479 CTTTGCACACACACACACAAA 58.330 42.857 0.00 0.00 0.00 2.83
2189 2618 1.668337 GCTTTGCACACACACACACAA 60.668 47.619 0.00 0.00 0.00 3.33
2190 2619 0.109365 GCTTTGCACACACACACACA 60.109 50.000 0.00 0.00 0.00 3.72
2191 2620 0.801836 GGCTTTGCACACACACACAC 60.802 55.000 0.00 0.00 0.00 3.82
2192 2621 0.964860 AGGCTTTGCACACACACACA 60.965 50.000 0.00 0.00 0.00 3.72
2193 2622 1.002468 CTAGGCTTTGCACACACACAC 60.002 52.381 0.00 0.00 0.00 3.82
2194 2623 1.308047 CTAGGCTTTGCACACACACA 58.692 50.000 0.00 0.00 0.00 3.72
2240 2669 6.158598 TGCAATTTGATAAACAAGCTTCCTC 58.841 36.000 0.00 0.00 39.77 3.71
2320 2749 4.080582 TCTCCTTCCTCTTGAACAACAACA 60.081 41.667 0.00 0.00 34.56 3.33
2322 2751 4.444876 CCTCTCCTTCCTCTTGAACAACAA 60.445 45.833 0.00 0.00 36.97 2.83
2334 2763 0.041982 GTGTCCTCCCTCTCCTTCCT 59.958 60.000 0.00 0.00 0.00 3.36
2469 2898 2.345991 AAGCTGACGCGGGCTTTA 59.654 55.556 23.30 0.00 45.03 1.85
2473 2902 0.248094 GATAAAAAGCTGACGCGGGC 60.248 55.000 12.47 12.10 42.32 6.13
2485 2914 4.563993 CCGTGTCCTACACCTGGATAAAAA 60.564 45.833 0.00 0.00 45.93 1.94
2505 2934 2.421739 GGCGATATGGCAGACCGT 59.578 61.111 12.05 0.00 44.08 4.83
2511 2940 2.512355 TTAGGGCGGCGATATGGCA 61.512 57.895 12.98 0.00 45.16 4.92
2562 2991 5.866335 ATTAGTGTTCCGCAACGAAAATA 57.134 34.783 0.00 0.00 34.95 1.40
2590 3019 5.953571 ACCATTCCAGAACTAAAACCTTCT 58.046 37.500 0.00 0.00 0.00 2.85
2601 3030 2.017049 CCATTCGGACCATTCCAGAAC 58.983 52.381 0.00 0.00 43.00 3.01
2602 3031 1.064758 CCCATTCGGACCATTCCAGAA 60.065 52.381 0.00 0.00 43.00 3.02
2695 3125 5.810074 GGAAAGCTTTCTCACTCTCATACTC 59.190 44.000 32.28 11.72 37.35 2.59
2711 3141 5.819901 GCTACTAACATGATCAGGAAAGCTT 59.180 40.000 15.42 0.00 0.00 3.74
2735 3165 0.892358 ACCATGGCTGACACTTGCAG 60.892 55.000 13.04 0.00 36.47 4.41
2739 3169 0.185901 AACCACCATGGCTGACACTT 59.814 50.000 13.04 0.00 42.67 3.16
2805 3235 7.110155 ACAAAATGGGATAAGATCACGTAACT 58.890 34.615 0.00 0.00 34.70 2.24
2832 3262 3.074390 CCACTCCCATCCATAAGCCATTA 59.926 47.826 0.00 0.00 0.00 1.90
2833 3263 2.158415 CCACTCCCATCCATAAGCCATT 60.158 50.000 0.00 0.00 0.00 3.16
2972 3402 8.345565 AGATGAACTGATGTTGTAGTGTTTTTC 58.654 33.333 0.00 0.00 36.39 2.29
2974 3404 7.807977 AGATGAACTGATGTTGTAGTGTTTT 57.192 32.000 0.00 0.00 36.39 2.43
2983 3413 9.591792 TCTGAGTTATAAGATGAACTGATGTTG 57.408 33.333 0.00 0.00 36.04 3.33
2988 3418 9.025041 TCTGTTCTGAGTTATAAGATGAACTGA 57.975 33.333 16.64 16.64 36.04 3.41
3004 3438 6.686630 ACACATTTACTCTCTCTGTTCTGAG 58.313 40.000 1.19 1.19 35.52 3.35
3008 3442 9.646427 AAAGATACACATTTACTCTCTCTGTTC 57.354 33.333 0.00 0.00 0.00 3.18
3033 3467 6.467677 CAAAGAGGACAGATACTTCTTGGAA 58.532 40.000 0.00 0.00 34.74 3.53
3035 3469 4.633565 GCAAAGAGGACAGATACTTCTTGG 59.366 45.833 0.00 0.00 34.74 3.61
3036 3470 5.350914 CAGCAAAGAGGACAGATACTTCTTG 59.649 44.000 0.00 0.00 34.74 3.02
3066 3505 5.934781 ACATGTCTGAAGAGAGGTTTTTCT 58.065 37.500 0.00 0.00 27.55 2.52
3078 3517 6.294473 AGATGCCCTTAATACATGTCTGAAG 58.706 40.000 0.00 0.85 0.00 3.02
3107 3546 6.152492 TGTGGAAGCAAATTTACATATCAGCA 59.848 34.615 0.00 0.00 0.00 4.41
3108 3547 6.563422 TGTGGAAGCAAATTTACATATCAGC 58.437 36.000 0.00 0.00 0.00 4.26
3114 3553 6.024552 ACGAATGTGGAAGCAAATTTACAT 57.975 33.333 0.00 0.00 33.16 2.29
3117 3556 4.520874 TGGACGAATGTGGAAGCAAATTTA 59.479 37.500 0.00 0.00 0.00 1.40
3127 3566 1.290955 GTCCGTGGACGAATGTGGA 59.709 57.895 2.78 0.00 43.02 4.02
3140 3579 3.374402 CTGGTCTCCGCTGTCCGT 61.374 66.667 0.00 0.00 34.38 4.69
3148 3587 1.179174 TGTCTGTGGACTGGTCTCCG 61.179 60.000 0.67 0.00 42.54 4.63
3150 3589 0.039074 CGTGTCTGTGGACTGGTCTC 60.039 60.000 0.67 0.00 42.54 3.36
3151 3590 1.464376 CCGTGTCTGTGGACTGGTCT 61.464 60.000 0.67 0.00 42.54 3.85
3155 3594 0.946221 GCTTCCGTGTCTGTGGACTG 60.946 60.000 0.00 0.00 42.54 3.51
3163 3602 1.867919 CGACTCCTGCTTCCGTGTCT 61.868 60.000 0.00 0.00 0.00 3.41
3169 3608 0.179097 GATGGTCGACTCCTGCTTCC 60.179 60.000 16.46 0.00 0.00 3.46
3172 3611 0.904865 TTGGATGGTCGACTCCTGCT 60.905 55.000 20.81 0.00 32.47 4.24
3174 3613 0.458543 CGTTGGATGGTCGACTCCTG 60.459 60.000 20.81 9.93 32.47 3.86
3175 3614 0.898789 ACGTTGGATGGTCGACTCCT 60.899 55.000 20.81 5.28 32.47 3.69
3180 3619 0.247185 GGGTAACGTTGGATGGTCGA 59.753 55.000 11.99 0.00 37.60 4.20
3183 3622 1.376295 GCGGGTAACGTTGGATGGT 60.376 57.895 11.99 0.00 46.52 3.55
3210 3649 9.531942 TTCGTCTATCTATTAAAATGCGGTTTA 57.468 29.630 0.00 0.00 0.00 2.01
3211 3650 8.428186 TTCGTCTATCTATTAAAATGCGGTTT 57.572 30.769 0.00 0.00 0.00 3.27
3225 3664 6.260050 GGGTTTGCATGAATTTCGTCTATCTA 59.740 38.462 0.00 0.00 0.00 1.98
3229 3668 3.126171 CGGGTTTGCATGAATTTCGTCTA 59.874 43.478 0.00 0.00 0.00 2.59
3230 3669 2.095263 CGGGTTTGCATGAATTTCGTCT 60.095 45.455 0.00 0.00 0.00 4.18
3248 3688 1.137086 ACTCTGATGAATTCCGTCGGG 59.863 52.381 12.29 8.96 37.68 5.14
3254 3694 8.511604 TTTCTATCCAAACTCTGATGAATTCC 57.488 34.615 2.27 0.00 0.00 3.01
3338 3778 7.252965 TGAACAACATGTTAATCTCGTTGAA 57.747 32.000 11.53 0.00 41.28 2.69
3355 3795 6.947680 CGTTCATGAAAAACTTGTTGAACAAC 59.052 34.615 10.35 10.28 41.73 3.32
3356 3796 6.090088 CCGTTCATGAAAAACTTGTTGAACAA 59.910 34.615 10.35 10.65 41.73 2.83
3357 3797 5.574830 CCGTTCATGAAAAACTTGTTGAACA 59.425 36.000 10.35 0.00 41.73 3.18
3358 3798 5.005299 CCCGTTCATGAAAAACTTGTTGAAC 59.995 40.000 10.35 0.00 39.51 3.18
3359 3799 5.105752 CCCGTTCATGAAAAACTTGTTGAA 58.894 37.500 10.35 0.00 0.00 2.69
3360 3800 4.158764 ACCCGTTCATGAAAAACTTGTTGA 59.841 37.500 10.35 0.00 0.00 3.18
3361 3801 4.429108 ACCCGTTCATGAAAAACTTGTTG 58.571 39.130 10.35 0.00 0.00 3.33
3362 3802 4.158764 TGACCCGTTCATGAAAAACTTGTT 59.841 37.500 10.35 0.00 0.00 2.83
3363 3803 3.697045 TGACCCGTTCATGAAAAACTTGT 59.303 39.130 10.35 2.09 0.00 3.16
3364 3804 4.300189 TGACCCGTTCATGAAAAACTTG 57.700 40.909 10.35 0.00 0.00 3.16
3374 3814 0.108329 GGACGACATGACCCGTTCAT 60.108 55.000 0.00 0.00 46.75 2.57
3375 3815 1.290955 GGACGACATGACCCGTTCA 59.709 57.895 0.00 0.00 39.30 3.18
3376 3816 1.447314 GGGACGACATGACCCGTTC 60.447 63.158 0.00 4.77 42.76 3.95
3377 3817 2.660802 GGGACGACATGACCCGTT 59.339 61.111 0.00 0.00 42.76 4.44
3381 3821 0.036388 ATGTGTGGGACGACATGACC 60.036 55.000 0.00 0.00 31.47 4.02
3382 3822 2.094182 AGTATGTGTGGGACGACATGAC 60.094 50.000 0.00 0.00 34.60 3.06
3383 3823 2.094234 CAGTATGTGTGGGACGACATGA 60.094 50.000 0.00 0.00 34.60 3.07
3384 3824 2.270923 CAGTATGTGTGGGACGACATG 58.729 52.381 0.00 0.00 34.60 3.21
3385 3825 1.405526 GCAGTATGTGTGGGACGACAT 60.406 52.381 0.00 0.00 39.31 3.06
3386 3826 0.037697 GCAGTATGTGTGGGACGACA 60.038 55.000 0.00 0.00 39.31 4.35
3387 3827 0.739813 GGCAGTATGTGTGGGACGAC 60.740 60.000 0.00 0.00 39.31 4.34
3388 3828 1.594833 GGCAGTATGTGTGGGACGA 59.405 57.895 0.00 0.00 39.31 4.20
3389 3829 1.449601 GGGCAGTATGTGTGGGACG 60.450 63.158 0.00 0.00 39.31 4.79
3390 3830 1.077716 GGGGCAGTATGTGTGGGAC 60.078 63.158 0.00 0.00 39.31 4.46
3391 3831 0.844661 AAGGGGCAGTATGTGTGGGA 60.845 55.000 0.00 0.00 39.31 4.37
3392 3832 0.394352 GAAGGGGCAGTATGTGTGGG 60.394 60.000 0.00 0.00 39.31 4.61
3393 3833 0.327924 TGAAGGGGCAGTATGTGTGG 59.672 55.000 0.00 0.00 39.31 4.17
3394 3834 1.812571 GTTGAAGGGGCAGTATGTGTG 59.187 52.381 0.00 0.00 39.31 3.82
3395 3835 1.705186 AGTTGAAGGGGCAGTATGTGT 59.295 47.619 0.00 0.00 39.31 3.72
3396 3836 2.489329 CAAGTTGAAGGGGCAGTATGTG 59.511 50.000 0.00 0.00 39.31 3.21
3397 3837 2.375174 TCAAGTTGAAGGGGCAGTATGT 59.625 45.455 2.20 0.00 39.31 2.29
3398 3838 2.749621 GTCAAGTTGAAGGGGCAGTATG 59.250 50.000 7.25 0.00 40.87 2.39
3399 3839 2.290960 GGTCAAGTTGAAGGGGCAGTAT 60.291 50.000 7.25 0.00 0.00 2.12
3400 3840 1.073284 GGTCAAGTTGAAGGGGCAGTA 59.927 52.381 7.25 0.00 0.00 2.74
3401 3841 0.178990 GGTCAAGTTGAAGGGGCAGT 60.179 55.000 7.25 0.00 0.00 4.40
3402 3842 0.895559 GGGTCAAGTTGAAGGGGCAG 60.896 60.000 7.25 0.00 0.00 4.85
3403 3843 1.152830 GGGTCAAGTTGAAGGGGCA 59.847 57.895 7.25 0.00 0.00 5.36
3404 3844 1.971695 CGGGTCAAGTTGAAGGGGC 60.972 63.158 7.25 0.00 0.00 5.80
3405 3845 0.605589 GTCGGGTCAAGTTGAAGGGG 60.606 60.000 7.25 0.00 0.00 4.79
3406 3846 0.107831 TGTCGGGTCAAGTTGAAGGG 59.892 55.000 7.25 0.00 0.00 3.95
3407 3847 1.202651 ACTGTCGGGTCAAGTTGAAGG 60.203 52.381 7.25 0.00 0.00 3.46
3408 3848 1.867233 CACTGTCGGGTCAAGTTGAAG 59.133 52.381 7.25 2.76 0.00 3.02
3409 3849 1.208535 ACACTGTCGGGTCAAGTTGAA 59.791 47.619 7.25 0.00 0.00 2.69
3410 3850 0.828022 ACACTGTCGGGTCAAGTTGA 59.172 50.000 0.08 0.08 0.00 3.18
3411 3851 2.519377 TACACTGTCGGGTCAAGTTG 57.481 50.000 0.00 0.00 0.00 3.16
3412 3852 5.449588 CGTATATACACTGTCGGGTCAAGTT 60.450 44.000 13.22 0.00 0.00 2.66
3413 3853 4.036027 CGTATATACACTGTCGGGTCAAGT 59.964 45.833 13.22 0.00 0.00 3.16
3414 3854 4.036027 ACGTATATACACTGTCGGGTCAAG 59.964 45.833 13.22 0.00 0.00 3.02
3415 3855 3.947196 ACGTATATACACTGTCGGGTCAA 59.053 43.478 13.22 0.00 0.00 3.18
3416 3856 3.544684 ACGTATATACACTGTCGGGTCA 58.455 45.455 13.22 0.00 0.00 4.02
3417 3857 5.673337 TTACGTATATACACTGTCGGGTC 57.327 43.478 13.22 0.00 0.00 4.46
3418 3858 6.639632 ATTTACGTATATACACTGTCGGGT 57.360 37.500 13.22 2.94 0.00 5.28
3419 3859 7.810658 ACTATTTACGTATATACACTGTCGGG 58.189 38.462 13.22 0.00 0.00 5.14
3420 3860 7.685712 CGACTATTTACGTATATACACTGTCGG 59.314 40.741 22.90 13.15 37.82 4.79
3421 3861 8.217115 ACGACTATTTACGTATATACACTGTCG 58.783 37.037 25.73 25.73 44.00 4.35
3422 3862 9.522454 GACGACTATTTACGTATATACACTGTC 57.478 37.037 13.22 4.89 42.74 3.51
3423 3863 8.499162 GGACGACTATTTACGTATATACACTGT 58.501 37.037 13.22 5.57 42.74 3.55
3424 3864 7.959651 GGGACGACTATTTACGTATATACACTG 59.040 40.741 13.22 0.00 42.74 3.66
3425 3865 7.880195 AGGGACGACTATTTACGTATATACACT 59.120 37.037 13.22 0.04 42.74 3.55
3426 3866 8.034058 AGGGACGACTATTTACGTATATACAC 57.966 38.462 13.22 0.00 42.74 2.90
3427 3867 8.097038 AGAGGGACGACTATTTACGTATATACA 58.903 37.037 13.22 0.00 42.74 2.29
3428 3868 8.485976 AGAGGGACGACTATTTACGTATATAC 57.514 38.462 2.53 2.53 42.74 1.47
3430 3870 9.678260 AATAGAGGGACGACTATTTACGTATAT 57.322 33.333 0.00 0.00 42.74 0.86
3431 3871 9.155975 GAATAGAGGGACGACTATTTACGTATA 57.844 37.037 0.00 0.00 42.74 1.47
3432 3872 7.120432 GGAATAGAGGGACGACTATTTACGTAT 59.880 40.741 0.00 0.00 42.74 3.06
3433 3873 6.428159 GGAATAGAGGGACGACTATTTACGTA 59.572 42.308 0.00 0.00 42.74 3.57
3434 3874 5.240403 GGAATAGAGGGACGACTATTTACGT 59.760 44.000 0.00 0.00 45.32 3.57
3435 3875 5.616424 CGGAATAGAGGGACGACTATTTACG 60.616 48.000 0.00 0.00 40.47 3.18
3436 3876 5.240403 ACGGAATAGAGGGACGACTATTTAC 59.760 44.000 0.00 0.00 40.47 2.01
3437 3877 5.380043 ACGGAATAGAGGGACGACTATTTA 58.620 41.667 0.00 0.00 40.47 1.40
3438 3878 4.213513 ACGGAATAGAGGGACGACTATTT 58.786 43.478 0.00 0.00 40.47 1.40
3439 3879 3.830121 ACGGAATAGAGGGACGACTATT 58.170 45.455 0.00 0.00 41.93 1.73
3440 3880 3.505480 ACGGAATAGAGGGACGACTAT 57.495 47.619 0.00 0.00 35.33 2.12
3441 3881 3.389329 ACTACGGAATAGAGGGACGACTA 59.611 47.826 0.00 0.00 34.65 2.59
3442 3882 2.172293 ACTACGGAATAGAGGGACGACT 59.828 50.000 0.00 0.00 34.65 4.18
3443 3883 2.570135 ACTACGGAATAGAGGGACGAC 58.430 52.381 0.00 0.00 34.65 4.34
3444 3884 3.134623 TGTACTACGGAATAGAGGGACGA 59.865 47.826 0.00 0.00 34.65 4.20
3445 3885 3.249559 GTGTACTACGGAATAGAGGGACG 59.750 52.174 0.00 0.00 34.65 4.79
3446 3886 3.567585 GGTGTACTACGGAATAGAGGGAC 59.432 52.174 0.00 0.00 34.65 4.46
3447 3887 3.202818 TGGTGTACTACGGAATAGAGGGA 59.797 47.826 0.00 0.00 34.65 4.20
3448 3888 3.317430 GTGGTGTACTACGGAATAGAGGG 59.683 52.174 0.00 0.00 34.65 4.30
3449 3889 3.003068 CGTGGTGTACTACGGAATAGAGG 59.997 52.174 12.29 0.00 45.24 3.69
3450 3890 4.206698 CGTGGTGTACTACGGAATAGAG 57.793 50.000 12.29 0.00 45.24 2.43


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

AutoCloner maintained by Alex Coulton.