Multiple sequence alignment - TraesCS1B01G161800

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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 TraesCS1B01G161800 chr1B 100.000 2945 0 0 1 2945 279194154 279191210 0.000000e+00 5439.0
1 TraesCS1B01G161800 chr1B 88.686 274 24 5 2408 2681 12095344 12095078 7.870000e-86 327.0
2 TraesCS1B01G161800 chr1B 88.843 242 20 5 2440 2681 12073440 12073206 1.030000e-74 291.0
3 TraesCS1B01G161800 chr1A 89.745 2467 155 44 1 2412 250203779 250201356 0.000000e+00 3064.0
4 TraesCS1B01G161800 chr1A 86.713 143 17 2 2703 2843 143811854 143811712 1.090000e-34 158.0
5 TraesCS1B01G161800 chr1D 91.458 1955 96 18 508 2412 199074318 199072385 0.000000e+00 2619.0
6 TraesCS1B01G161800 chr1D 86.486 370 29 3 1 358 199075301 199074941 1.280000e-103 387.0
7 TraesCS1B01G161800 chr1D 88.060 268 25 4 2679 2945 199072388 199072127 7.930000e-81 311.0
8 TraesCS1B01G161800 chr1D 89.773 176 9 6 342 513 199074895 199074725 1.780000e-52 217.0
9 TraesCS1B01G161800 chr1D 87.413 143 16 2 2703 2843 145935082 145934940 2.350000e-36 163.0
10 TraesCS1B01G161800 chrUn 88.848 269 22 3 2411 2672 362111380 362111647 1.020000e-84 324.0
11 TraesCS1B01G161800 chr6B 86.833 281 31 4 2407 2681 65273600 65273880 2.850000e-80 309.0
12 TraesCS1B01G161800 chr6B 88.652 141 14 2 2705 2843 239739703 239739563 1.400000e-38 171.0
13 TraesCS1B01G161800 chr6B 90.164 61 4 1 2232 2290 147684272 147684212 8.750000e-11 78.7
14 TraesCS1B01G161800 chr5A 87.170 265 26 4 2428 2684 120305423 120305687 7.980000e-76 294.0
15 TraesCS1B01G161800 chr7B 85.765 281 34 4 2407 2681 689648337 689648617 2.870000e-75 292.0
16 TraesCS1B01G161800 chr5B 85.765 281 34 4 2407 2681 447999114 447998834 2.870000e-75 292.0
17 TraesCS1B01G161800 chr5B 89.231 65 5 2 2222 2286 322277262 322277200 2.430000e-11 80.5
18 TraesCS1B01G161800 chr2B 85.765 281 34 4 2407 2681 72130645 72130365 2.870000e-75 292.0
19 TraesCS1B01G161800 chr2A 87.645 259 23 2 2428 2684 215117694 215117945 2.870000e-75 292.0
20 TraesCS1B01G161800 chr2A 91.525 59 4 1 2222 2280 446062763 446062706 2.430000e-11 80.5
21 TraesCS1B01G161800 chr3A 84.163 221 31 4 2703 2920 653328867 653329086 8.270000e-51 211.0
22 TraesCS1B01G161800 chr7A 87.662 154 13 6 2700 2848 287885261 287885413 1.080000e-39 174.0
23 TraesCS1B01G161800 chr4D 87.333 150 15 4 2704 2850 507787828 507787680 5.050000e-38 169.0
24 TraesCS1B01G161800 chr5D 87.413 143 16 2 2703 2843 527145810 527145668 2.350000e-36 163.0
25 TraesCS1B01G161800 chr6D 86.620 142 17 2 2704 2843 445004276 445004417 3.930000e-34 156.0
26 TraesCS1B01G161800 chr2D 85.526 76 8 3 2209 2284 465154264 465154336 3.150000e-10 76.8
27 TraesCS1B01G161800 chr2D 88.710 62 6 1 2232 2293 462859830 462859770 1.130000e-09 75.0
28 TraesCS1B01G161800 chr2D 85.507 69 8 2 2209 2277 420560714 420560780 1.460000e-08 71.3
29 TraesCS1B01G161800 chr7D 88.710 62 5 2 2222 2283 634872773 634872714 1.130000e-09 75.0
30 TraesCS1B01G161800 chr4B 93.617 47 3 0 2232 2278 471155251 471155297 1.460000e-08 71.3
31 TraesCS1B01G161800 chr3D 84.722 72 9 2 2222 2293 24062666 24062597 1.460000e-08 71.3


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 TraesCS1B01G161800 chr1B 279191210 279194154 2944 True 5439.0 5439 100.00000 1 2945 1 chr1B.!!$R3 2944
1 TraesCS1B01G161800 chr1A 250201356 250203779 2423 True 3064.0 3064 89.74500 1 2412 1 chr1A.!!$R2 2411
2 TraesCS1B01G161800 chr1D 199072127 199075301 3174 True 883.5 2619 88.94425 1 2945 4 chr1D.!!$R2 2944

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
785 1306 0.382515 CGGTCCTTGACGATCTCCTC 59.617 60.0 0.0 0.0 32.65 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1955 2507 1.028905 CTCCAAACGGCAGAAACCAA 58.971 50.0 0.0 0.0 0.0 3.67 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
95 96 0.727398 GTCTGGCTGTACGATTTGGC 59.273 55.000 0.00 0.00 0.00 4.52
132 145 4.996434 GCACCCGTGAGCACTGCT 62.996 66.667 2.22 2.22 43.88 4.24
147 160 1.079405 TGCTACCGTGCTACAAGCC 60.079 57.895 0.00 0.00 41.51 4.35
207 220 0.386858 TACGACAACTGCTGCGAGAC 60.387 55.000 0.00 0.00 0.00 3.36
208 221 2.710971 CGACAACTGCTGCGAGACG 61.711 63.158 6.18 0.00 0.00 4.18
256 269 1.257743 TGTCGGGAGAGGAAAGACAG 58.742 55.000 0.00 0.00 41.26 3.51
262 275 2.261729 GGAGAGGAAAGACAGAAGGGT 58.738 52.381 0.00 0.00 0.00 4.34
265 278 4.471747 GGAGAGGAAAGACAGAAGGGTATT 59.528 45.833 0.00 0.00 0.00 1.89
340 353 1.141019 GTGACGCCCTATCTTCGCA 59.859 57.895 0.00 0.00 0.00 5.10
361 436 2.790433 TCAAGCCATCACAGGTTAACC 58.210 47.619 17.41 17.41 0.00 2.85
415 490 3.376218 GCTCTAGGCTGGTGATGTG 57.624 57.895 3.98 0.00 38.06 3.21
416 491 0.539051 GCTCTAGGCTGGTGATGTGT 59.461 55.000 3.98 0.00 38.06 3.72
420 495 4.832248 CTCTAGGCTGGTGATGTGTTTTA 58.168 43.478 0.00 0.00 0.00 1.52
422 497 6.553953 TCTAGGCTGGTGATGTGTTTTATA 57.446 37.500 0.00 0.00 0.00 0.98
423 498 7.136822 TCTAGGCTGGTGATGTGTTTTATAT 57.863 36.000 0.00 0.00 0.00 0.86
424 499 8.257602 TCTAGGCTGGTGATGTGTTTTATATA 57.742 34.615 0.00 0.00 0.00 0.86
427 502 8.766994 AGGCTGGTGATGTGTTTTATATATTT 57.233 30.769 0.00 0.00 0.00 1.40
592 1084 7.865889 GTCCAACGAAAAGAAAAGGTAAATCAT 59.134 33.333 0.00 0.00 0.00 2.45
647 1168 2.527123 TTAGCCCACCCACCGACA 60.527 61.111 0.00 0.00 0.00 4.35
672 1193 1.276622 TCTCCTAGAAGCCCACCAAC 58.723 55.000 0.00 0.00 0.00 3.77
673 1194 1.203313 TCTCCTAGAAGCCCACCAACT 60.203 52.381 0.00 0.00 0.00 3.16
785 1306 0.382515 CGGTCCTTGACGATCTCCTC 59.617 60.000 0.00 0.00 32.65 3.71
848 1370 3.780804 TGATTTTCCTTTCGGTGAGGA 57.219 42.857 0.00 0.00 41.46 3.71
877 1399 2.168313 GGGGGTTTCTCGTACGGAATTA 59.832 50.000 16.52 1.54 0.00 1.40
917 1439 4.748144 GTTGCAGGGGCTGGAGGG 62.748 72.222 0.00 0.00 41.91 4.30
1098 1620 1.320344 CGACGGTGGAGGAGATGGAA 61.320 60.000 0.00 0.00 0.00 3.53
1283 1805 0.034337 GTGCGGTACAAGAGGGAACA 59.966 55.000 0.00 0.00 0.00 3.18
1294 1816 2.355115 GGGAACACCCGGAGCATT 59.645 61.111 0.73 0.00 33.88 3.56
1348 1870 1.214175 TGCTGTTCCTTTTGGTCAGGA 59.786 47.619 0.00 0.00 40.20 3.86
1523 2051 4.803426 GCCTCCGACAGCGACTGG 62.803 72.222 10.80 0.00 40.82 4.00
1627 2155 1.896660 TGGCTGCCGAACAAGAACC 60.897 57.895 14.98 0.00 0.00 3.62
1740 2292 2.425592 CACTGTGGGACGGCAGAA 59.574 61.111 0.00 0.00 37.39 3.02
1867 2419 2.284699 CCACCTTCTCCCCGGAGT 60.285 66.667 0.73 0.00 42.49 3.85
1873 2425 2.111999 CTTCTCCCCGGAGTTGCACA 62.112 60.000 0.73 0.00 42.49 4.57
1955 2507 2.872245 CGGACAAGTGAAGTGTTGACAT 59.128 45.455 0.00 0.00 0.00 3.06
1981 2533 5.355910 GGTTTCTGCCGTTTGGAGATTTATA 59.644 40.000 0.00 0.00 37.49 0.98
2011 2563 3.008704 TGGGTTTAAAGACCTACTGCTCC 59.991 47.826 9.56 0.00 39.71 4.70
2022 2574 3.449018 ACCTACTGCTCCATCTACACTTG 59.551 47.826 0.00 0.00 0.00 3.16
2238 2790 4.065088 TGTGCTTTAGACCTTTAGTGCTG 58.935 43.478 0.00 0.00 0.00 4.41
2239 2791 4.065789 GTGCTTTAGACCTTTAGTGCTGT 58.934 43.478 0.00 0.00 0.00 4.40
2240 2792 4.065088 TGCTTTAGACCTTTAGTGCTGTG 58.935 43.478 0.00 0.00 0.00 3.66
2242 2794 4.152580 GCTTTAGACCTTTAGTGCTGTGTC 59.847 45.833 0.00 0.00 0.00 3.67
2243 2795 4.948341 TTAGACCTTTAGTGCTGTGTCA 57.052 40.909 0.00 0.00 0.00 3.58
2244 2796 3.838244 AGACCTTTAGTGCTGTGTCAA 57.162 42.857 0.00 0.00 0.00 3.18
2246 2798 4.523083 AGACCTTTAGTGCTGTGTCAAAA 58.477 39.130 0.00 0.00 0.00 2.44
2272 2824 4.377897 GTCTTACATTATGGGACGAAGGG 58.622 47.826 0.00 0.00 0.00 3.95
2274 2826 4.344102 TCTTACATTATGGGACGAAGGGAG 59.656 45.833 0.00 0.00 0.00 4.30
2305 2867 1.001378 CCTTTGTGGCCTTTGAGTTCG 60.001 52.381 3.32 0.00 0.00 3.95
2347 2910 7.042456 CGATCGAGGAATTCAAGACATACATTT 60.042 37.037 10.26 0.00 0.00 2.32
2348 2911 7.921786 TCGAGGAATTCAAGACATACATTTT 57.078 32.000 7.93 0.00 0.00 1.82
2401 2967 3.802948 AGCATGTACTCCTTCCGTAAG 57.197 47.619 0.00 0.00 0.00 2.34
2412 2978 9.905171 GTACTCCTTCCGTAAGTAAATATAAGG 57.095 37.037 0.00 0.00 34.79 2.69
2413 2979 8.544687 ACTCCTTCCGTAAGTAAATATAAGGT 57.455 34.615 0.00 0.00 35.00 3.50
2414 2980 8.985922 ACTCCTTCCGTAAGTAAATATAAGGTT 58.014 33.333 0.00 0.00 35.00 3.50
2415 2981 9.257651 CTCCTTCCGTAAGTAAATATAAGGTTG 57.742 37.037 0.00 0.00 35.00 3.77
2416 2982 8.206189 TCCTTCCGTAAGTAAATATAAGGTTGG 58.794 37.037 0.00 0.00 35.00 3.77
2417 2983 7.989170 CCTTCCGTAAGTAAATATAAGGTTGGT 59.011 37.037 0.00 0.00 0.00 3.67
2418 2984 8.947055 TTCCGTAAGTAAATATAAGGTTGGTC 57.053 34.615 0.00 0.00 0.00 4.02
2419 2985 7.202526 TCCGTAAGTAAATATAAGGTTGGTCG 58.797 38.462 0.00 0.00 0.00 4.79
2420 2986 6.980397 CCGTAAGTAAATATAAGGTTGGTCGT 59.020 38.462 0.00 0.00 0.00 4.34
2421 2987 8.134895 CCGTAAGTAAATATAAGGTTGGTCGTA 58.865 37.037 0.00 0.00 0.00 3.43
2422 2988 9.515020 CGTAAGTAAATATAAGGTTGGTCGTAA 57.485 33.333 0.00 0.00 0.00 3.18
2429 2995 9.457436 AAATATAAGGTTGGTCGTAATGAAAGT 57.543 29.630 0.00 0.00 0.00 2.66
2432 2998 6.980051 AAGGTTGGTCGTAATGAAAGTATC 57.020 37.500 0.00 0.00 0.00 2.24
2433 2999 5.107133 AGGTTGGTCGTAATGAAAGTATCG 58.893 41.667 0.00 0.00 0.00 2.92
2434 3000 4.866486 GGTTGGTCGTAATGAAAGTATCGT 59.134 41.667 0.00 0.00 0.00 3.73
2435 3001 6.035843 GGTTGGTCGTAATGAAAGTATCGTA 58.964 40.000 0.00 0.00 0.00 3.43
2436 3002 6.197842 GGTTGGTCGTAATGAAAGTATCGTAG 59.802 42.308 0.00 0.00 0.00 3.51
2437 3003 5.824429 TGGTCGTAATGAAAGTATCGTAGG 58.176 41.667 0.00 0.00 0.00 3.18
2438 3004 5.357878 TGGTCGTAATGAAAGTATCGTAGGT 59.642 40.000 0.00 0.00 0.00 3.08
2439 3005 6.542005 TGGTCGTAATGAAAGTATCGTAGGTA 59.458 38.462 0.00 0.00 0.00 3.08
2440 3006 7.074502 GGTCGTAATGAAAGTATCGTAGGTAG 58.925 42.308 0.00 0.00 0.00 3.18
2441 3007 7.254932 GGTCGTAATGAAAGTATCGTAGGTAGT 60.255 40.741 0.00 0.00 0.00 2.73
2442 3008 8.765219 GTCGTAATGAAAGTATCGTAGGTAGTA 58.235 37.037 0.00 0.00 0.00 1.82
2443 3009 9.494271 TCGTAATGAAAGTATCGTAGGTAGTAT 57.506 33.333 0.00 0.00 0.00 2.12
2444 3010 9.752274 CGTAATGAAAGTATCGTAGGTAGTATC 57.248 37.037 0.00 0.00 0.00 2.24
2448 3014 7.591165 TGAAAGTATCGTAGGTAGTATCATGC 58.409 38.462 0.00 0.00 0.00 4.06
2449 3015 7.229907 TGAAAGTATCGTAGGTAGTATCATGCA 59.770 37.037 0.00 0.00 0.00 3.96
2450 3016 7.704578 AAGTATCGTAGGTAGTATCATGCAT 57.295 36.000 0.00 0.00 0.00 3.96
2451 3017 7.089770 AGTATCGTAGGTAGTATCATGCATG 57.910 40.000 21.07 21.07 0.00 4.06
2452 3018 4.174411 TCGTAGGTAGTATCATGCATGC 57.826 45.455 22.25 11.82 0.00 4.06
2453 3019 3.826729 TCGTAGGTAGTATCATGCATGCT 59.173 43.478 22.25 15.24 0.00 3.79
2454 3020 5.007682 TCGTAGGTAGTATCATGCATGCTA 58.992 41.667 22.25 14.10 0.00 3.49
2455 3021 5.475564 TCGTAGGTAGTATCATGCATGCTAA 59.524 40.000 22.25 5.34 32.02 3.09
2456 3022 5.573282 CGTAGGTAGTATCATGCATGCTAAC 59.427 44.000 22.25 18.56 37.60 2.34
2457 3023 5.815233 AGGTAGTATCATGCATGCTAACT 57.185 39.130 22.25 20.35 41.58 2.24
2458 3024 6.918067 AGGTAGTATCATGCATGCTAACTA 57.082 37.500 21.80 21.72 43.82 2.24
2459 3025 6.929625 AGGTAGTATCATGCATGCTAACTAG 58.070 40.000 21.80 2.45 43.82 2.57
2460 3026 6.071108 AGGTAGTATCATGCATGCTAACTAGG 60.071 42.308 21.80 0.00 43.82 3.02
2461 3027 4.573900 AGTATCATGCATGCTAACTAGGC 58.426 43.478 22.25 3.87 0.00 3.93
2462 3028 3.497103 ATCATGCATGCTAACTAGGCA 57.503 42.857 22.25 0.53 44.05 4.75
2463 3029 3.280197 TCATGCATGCTAACTAGGCAA 57.720 42.857 22.25 0.00 43.14 4.52
2464 3030 3.619419 TCATGCATGCTAACTAGGCAAA 58.381 40.909 22.25 0.00 43.14 3.68
2465 3031 4.209538 TCATGCATGCTAACTAGGCAAAT 58.790 39.130 22.25 0.00 43.14 2.32
2466 3032 4.646040 TCATGCATGCTAACTAGGCAAATT 59.354 37.500 22.25 0.00 43.14 1.82
2467 3033 5.127519 TCATGCATGCTAACTAGGCAAATTT 59.872 36.000 22.25 0.00 43.14 1.82
2468 3034 4.746729 TGCATGCTAACTAGGCAAATTTG 58.253 39.130 20.33 14.03 43.14 2.32
2469 3035 4.462132 TGCATGCTAACTAGGCAAATTTGA 59.538 37.500 22.31 0.00 43.14 2.69
2470 3036 5.127519 TGCATGCTAACTAGGCAAATTTGAT 59.872 36.000 22.31 11.45 43.14 2.57
2471 3037 5.461078 GCATGCTAACTAGGCAAATTTGATG 59.539 40.000 22.31 12.39 43.14 3.07
2472 3038 6.681120 GCATGCTAACTAGGCAAATTTGATGA 60.681 38.462 22.31 4.45 43.14 2.92
2473 3039 6.441093 TGCTAACTAGGCAAATTTGATGAG 57.559 37.500 22.31 15.31 36.71 2.90
2474 3040 6.179756 TGCTAACTAGGCAAATTTGATGAGA 58.820 36.000 22.31 0.99 36.71 3.27
2475 3041 6.830324 TGCTAACTAGGCAAATTTGATGAGAT 59.170 34.615 22.31 10.96 36.71 2.75
2476 3042 7.137426 GCTAACTAGGCAAATTTGATGAGATG 58.863 38.462 22.31 6.83 0.00 2.90
2477 3043 7.012704 GCTAACTAGGCAAATTTGATGAGATGA 59.987 37.037 22.31 0.00 0.00 2.92
2478 3044 6.690194 ACTAGGCAAATTTGATGAGATGAC 57.310 37.500 22.31 0.44 0.00 3.06
2479 3045 6.182627 ACTAGGCAAATTTGATGAGATGACA 58.817 36.000 22.31 0.00 0.00 3.58
2480 3046 6.832384 ACTAGGCAAATTTGATGAGATGACAT 59.168 34.615 22.31 1.06 0.00 3.06
2481 3047 7.994911 ACTAGGCAAATTTGATGAGATGACATA 59.005 33.333 22.31 2.18 0.00 2.29
2482 3048 7.273320 AGGCAAATTTGATGAGATGACATAG 57.727 36.000 22.31 0.00 0.00 2.23
2483 3049 7.058525 AGGCAAATTTGATGAGATGACATAGA 58.941 34.615 22.31 0.00 0.00 1.98
2484 3050 7.558807 AGGCAAATTTGATGAGATGACATAGAA 59.441 33.333 22.31 0.00 0.00 2.10
2485 3051 8.358148 GGCAAATTTGATGAGATGACATAGAAT 58.642 33.333 22.31 0.00 0.00 2.40
2486 3052 9.745880 GCAAATTTGATGAGATGACATAGAATT 57.254 29.630 22.31 0.00 32.01 2.17
2507 3073 8.971073 AGAATTAAATGAAGAAATAGTGGGGTG 58.029 33.333 0.00 0.00 0.00 4.61
2508 3074 8.893563 AATTAAATGAAGAAATAGTGGGGTGA 57.106 30.769 0.00 0.00 0.00 4.02
2509 3075 7.938140 TTAAATGAAGAAATAGTGGGGTGAG 57.062 36.000 0.00 0.00 0.00 3.51
2510 3076 5.520748 AATGAAGAAATAGTGGGGTGAGT 57.479 39.130 0.00 0.00 0.00 3.41
2511 3077 6.636454 AATGAAGAAATAGTGGGGTGAGTA 57.364 37.500 0.00 0.00 0.00 2.59
2512 3078 6.831664 ATGAAGAAATAGTGGGGTGAGTAT 57.168 37.500 0.00 0.00 0.00 2.12
2513 3079 6.235231 TGAAGAAATAGTGGGGTGAGTATC 57.765 41.667 0.00 0.00 0.00 2.24
2546 3112 9.382275 TGATACCGGATCATATTAAATGATGTG 57.618 33.333 9.46 8.52 39.78 3.21
2547 3113 6.500684 ACCGGATCATATTAAATGATGTGC 57.499 37.500 9.46 4.66 38.73 4.57
2548 3114 6.240894 ACCGGATCATATTAAATGATGTGCT 58.759 36.000 9.46 0.00 38.73 4.40
2549 3115 7.394016 ACCGGATCATATTAAATGATGTGCTA 58.606 34.615 9.46 0.00 38.73 3.49
2550 3116 7.882791 ACCGGATCATATTAAATGATGTGCTAA 59.117 33.333 9.46 0.00 38.73 3.09
2551 3117 8.896744 CCGGATCATATTAAATGATGTGCTAAT 58.103 33.333 14.10 0.00 38.73 1.73
2562 3128 5.678132 TGATGTGCTAATATGTGTCATGC 57.322 39.130 0.00 0.00 0.00 4.06
2563 3129 5.124645 TGATGTGCTAATATGTGTCATGCA 58.875 37.500 0.00 0.00 0.00 3.96
2564 3130 5.766174 TGATGTGCTAATATGTGTCATGCAT 59.234 36.000 0.00 0.00 0.00 3.96
2565 3131 6.935771 TGATGTGCTAATATGTGTCATGCATA 59.064 34.615 0.00 0.00 33.91 3.14
2566 3132 6.790285 TGTGCTAATATGTGTCATGCATAG 57.210 37.500 0.00 0.00 33.05 2.23
2567 3133 5.179929 TGTGCTAATATGTGTCATGCATAGC 59.820 40.000 0.00 0.86 33.55 2.97
2568 3134 5.179929 GTGCTAATATGTGTCATGCATAGCA 59.820 40.000 8.90 8.90 44.86 3.49
2569 3135 5.764192 TGCTAATATGTGTCATGCATAGCAA 59.236 36.000 10.23 0.91 43.62 3.91
2570 3136 6.431852 TGCTAATATGTGTCATGCATAGCAAT 59.568 34.615 10.23 6.73 43.62 3.56
2571 3137 6.745907 GCTAATATGTGTCATGCATAGCAATG 59.254 38.462 0.00 0.00 43.62 2.82
2572 3138 6.887626 AATATGTGTCATGCATAGCAATGA 57.112 33.333 0.00 0.00 43.62 2.57
2573 3139 6.887626 ATATGTGTCATGCATAGCAATGAA 57.112 33.333 0.00 0.00 43.62 2.57
2574 3140 5.784578 ATGTGTCATGCATAGCAATGAAT 57.215 34.783 0.00 0.00 43.62 2.57
2575 3141 4.927422 TGTGTCATGCATAGCAATGAATG 58.073 39.130 0.00 0.57 46.84 2.67
2584 3150 7.812690 TGCATAGCAATGAATGAAGTTATCT 57.187 32.000 0.99 0.00 34.76 1.98
2585 3151 8.907222 TGCATAGCAATGAATGAAGTTATCTA 57.093 30.769 0.99 0.00 34.76 1.98
2586 3152 9.511272 TGCATAGCAATGAATGAAGTTATCTAT 57.489 29.630 0.99 0.00 34.76 1.98
2615 3181 8.007405 ACTAACACATGATACTATGCACTACA 57.993 34.615 0.00 0.00 0.00 2.74
2616 3182 8.138074 ACTAACACATGATACTATGCACTACAG 58.862 37.037 0.00 0.00 0.00 2.74
2617 3183 5.847304 ACACATGATACTATGCACTACAGG 58.153 41.667 0.00 0.00 0.00 4.00
2618 3184 5.363868 ACACATGATACTATGCACTACAGGT 59.636 40.000 0.00 0.00 0.00 4.00
2620 3186 5.363868 ACATGATACTATGCACTACAGGTGT 59.636 40.000 0.00 0.00 46.86 4.16
2621 3187 6.549736 ACATGATACTATGCACTACAGGTGTA 59.450 38.462 0.00 0.00 46.86 2.90
2671 3237 9.955102 ACTAGTATATGATACTCACCATTACGA 57.045 33.333 0.00 0.00 0.00 3.43
2674 3240 9.462606 AGTATATGATACTCACCATTACGATCA 57.537 33.333 0.00 0.00 0.00 2.92
2675 3241 9.723447 GTATATGATACTCACCATTACGATCAG 57.277 37.037 0.00 0.00 0.00 2.90
2676 3242 4.871513 TGATACTCACCATTACGATCAGC 58.128 43.478 0.00 0.00 0.00 4.26
2677 3243 2.604046 ACTCACCATTACGATCAGCC 57.396 50.000 0.00 0.00 0.00 4.85
2684 3250 3.961408 ACCATTACGATCAGCCTAAGAGT 59.039 43.478 0.00 0.00 0.00 3.24
2719 3285 5.301298 ACCGTGGAATCCTCTATAACACTAC 59.699 44.000 0.00 0.00 0.00 2.73
2741 3307 4.192317 CGCTCCTTAGTTTAAAGAGCCAT 58.808 43.478 16.41 0.00 31.53 4.40
2758 3324 8.926092 AAGAGCCATATTTAATTAAGGTCTCC 57.074 34.615 13.36 0.00 0.00 3.71
2786 3352 1.091537 TTGGATCGCCCGATTTTGAC 58.908 50.000 4.53 0.00 37.93 3.18
2897 3464 3.085952 TCCCACATTCAATTGAGGTCC 57.914 47.619 8.41 0.00 0.00 4.46
2898 3465 2.649312 TCCCACATTCAATTGAGGTCCT 59.351 45.455 8.41 0.00 0.00 3.85
2899 3466 3.019564 CCCACATTCAATTGAGGTCCTC 58.980 50.000 12.40 12.40 0.00 3.71
2900 3467 3.561960 CCCACATTCAATTGAGGTCCTCA 60.562 47.826 18.15 18.15 38.87 3.86
2919 3486 5.057149 CCTCAATTAGAATTAGGTCACCCG 58.943 45.833 0.00 0.00 35.12 5.28
2920 3487 5.396436 CCTCAATTAGAATTAGGTCACCCGT 60.396 44.000 0.00 0.00 35.12 5.28
2928 3495 3.564053 TTAGGTCACCCGTTTTTGACT 57.436 42.857 0.00 0.00 41.65 3.41
2929 3496 1.675552 AGGTCACCCGTTTTTGACTG 58.324 50.000 0.00 0.00 41.65 3.51
2931 3498 0.666374 GTCACCCGTTTTTGACTGGG 59.334 55.000 0.00 0.00 43.43 4.45
2933 3500 0.666374 CACCCGTTTTTGACTGGGTC 59.334 55.000 0.00 0.00 46.54 4.46
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 0.031721 CCCTACCATAAGTCGTCGCC 59.968 60.000 0.00 0.00 0.00 5.54
120 121 2.088763 CACGGTAGCAGTGCTCACG 61.089 63.158 28.91 28.91 40.44 4.35
128 141 1.084370 GGCTTGTAGCACGGTAGCAG 61.084 60.000 0.67 0.00 44.75 4.24
132 145 0.530744 CTCTGGCTTGTAGCACGGTA 59.469 55.000 0.67 0.00 44.75 4.02
147 160 2.598045 CGACATTCCATCGCCTCTG 58.402 57.895 0.00 0.00 31.96 3.35
186 199 1.678269 CTCGCAGCAGTTGTCGTAGC 61.678 60.000 0.00 0.00 0.00 3.58
207 220 0.241213 TTTGTCTCTCGTCTGAGGCG 59.759 55.000 0.00 0.00 41.22 5.52
208 221 1.704070 GTTTGTCTCTCGTCTGAGGC 58.296 55.000 0.00 0.00 42.79 4.70
209 222 1.535896 TCGTTTGTCTCTCGTCTGAGG 59.464 52.381 0.00 0.00 42.79 3.86
210 223 2.224549 ACTCGTTTGTCTCTCGTCTGAG 59.775 50.000 0.00 0.00 43.99 3.35
211 224 2.219458 ACTCGTTTGTCTCTCGTCTGA 58.781 47.619 0.00 0.00 0.00 3.27
212 225 2.690173 ACTCGTTTGTCTCTCGTCTG 57.310 50.000 0.00 0.00 0.00 3.51
213 226 3.372954 CAAACTCGTTTGTCTCTCGTCT 58.627 45.455 13.01 0.00 43.52 4.18
214 227 3.755041 CAAACTCGTTTGTCTCTCGTC 57.245 47.619 13.01 0.00 43.52 4.20
239 252 2.171840 CTTCTGTCTTTCCTCTCCCGA 58.828 52.381 0.00 0.00 0.00 5.14
256 269 6.263392 GGCTCTTTGAGGATAAAATACCCTTC 59.737 42.308 0.00 0.00 0.00 3.46
262 275 5.741011 ACGTGGCTCTTTGAGGATAAAATA 58.259 37.500 0.00 0.00 0.00 1.40
265 278 3.596214 GACGTGGCTCTTTGAGGATAAA 58.404 45.455 0.00 0.00 0.00 1.40
340 353 3.245229 TGGTTAACCTGTGATGGCTTGAT 60.245 43.478 24.78 0.00 36.82 2.57
361 436 9.512435 TTGTTTTCCATTTGTATTTTGCATTTG 57.488 25.926 0.00 0.00 0.00 2.32
450 525 9.104965 GGAAAAACCTACTGCAAAGTTTTAAAT 57.895 29.630 13.10 2.69 40.52 1.40
592 1084 2.052690 GCTGGCGGGAGTGAGTCTA 61.053 63.158 0.00 0.00 0.00 2.59
672 1193 3.154710 GGGTTTGGGGAAACTTCTGTAG 58.845 50.000 0.00 0.00 33.37 2.74
673 1194 2.787035 AGGGTTTGGGGAAACTTCTGTA 59.213 45.455 0.00 0.00 33.37 2.74
771 1292 2.223144 CGCTAGAGAGGAGATCGTCAAG 59.777 54.545 0.00 1.64 33.52 3.02
860 1382 3.429085 TCGCTAATTCCGTACGAGAAAC 58.571 45.455 18.76 8.83 0.00 2.78
861 1383 3.763097 TCGCTAATTCCGTACGAGAAA 57.237 42.857 18.76 8.46 0.00 2.52
863 1385 2.874086 TCATCGCTAATTCCGTACGAGA 59.126 45.455 18.76 9.65 36.05 4.04
864 1386 3.263602 TCATCGCTAATTCCGTACGAG 57.736 47.619 18.76 6.70 36.05 4.18
877 1399 0.250901 AAGCACCAACCTTCATCGCT 60.251 50.000 0.00 0.00 0.00 4.93
956 1478 0.532862 CTTGTTGGACAGCCACTCGT 60.533 55.000 0.00 0.00 45.94 4.18
990 1512 1.680522 CCAGGTCCATCTCCTCCACG 61.681 65.000 0.00 0.00 32.37 4.94
1098 1620 1.003355 CATCACCGCTGGTTCCTGT 60.003 57.895 0.00 0.00 31.02 4.00
1283 1805 2.610859 AGGGTGAATGCTCCGGGT 60.611 61.111 0.00 0.00 0.00 5.28
1294 1816 2.060383 CCGCCTGATCAGAGGGTGA 61.060 63.158 24.62 0.00 40.38 4.02
1319 1841 3.375782 AAAGGAACAGCATGCTGAAAC 57.624 42.857 45.50 32.98 46.30 2.78
1324 1846 1.615392 GACCAAAAGGAACAGCATGCT 59.385 47.619 16.30 16.30 42.53 3.79
1348 1870 2.637382 CCCTACCAAGCAACCCAAATTT 59.363 45.455 0.00 0.00 0.00 1.82
1767 2319 2.813179 GCACAGCATCTTACGGCCG 61.813 63.158 26.86 26.86 0.00 6.13
1773 2325 1.130938 CACGCATTGCACAGCATCTTA 59.869 47.619 9.69 0.00 38.76 2.10
1867 2419 1.665264 CTGTGCCTGTTGGTGTGCAA 61.665 55.000 0.00 0.00 35.16 4.08
1906 2458 2.041762 ATGAGGAGCCCTGGCAGA 59.958 61.111 17.94 0.00 44.88 4.26
1912 2464 2.373707 GCAGTGGATGAGGAGCCCT 61.374 63.158 0.00 0.00 36.03 5.19
1955 2507 1.028905 CTCCAAACGGCAGAAACCAA 58.971 50.000 0.00 0.00 0.00 3.67
1981 2533 9.020731 CAGTAGGTCTTTAAACCCAAAACATAT 57.979 33.333 2.80 0.00 40.42 1.78
2011 2563 8.453320 TCATTTTGTGCTAATCAAGTGTAGATG 58.547 33.333 0.00 0.00 0.00 2.90
2094 2646 2.896685 CCATAAAAGCCAAGAACCACCA 59.103 45.455 0.00 0.00 0.00 4.17
2215 2767 4.065789 AGCACTAAAGGTCTAAAGCACAC 58.934 43.478 0.00 0.00 0.00 3.82
2244 2796 6.173191 CGTCCCATAATGTAAGACGTTTTT 57.827 37.500 0.00 0.00 43.89 1.94
2251 2803 4.291792 TCCCTTCGTCCCATAATGTAAGA 58.708 43.478 0.00 0.00 0.00 2.10
2252 2804 4.101119 ACTCCCTTCGTCCCATAATGTAAG 59.899 45.833 0.00 0.00 0.00 2.34
2253 2805 4.035112 ACTCCCTTCGTCCCATAATGTAA 58.965 43.478 0.00 0.00 0.00 2.41
2254 2806 3.649843 ACTCCCTTCGTCCCATAATGTA 58.350 45.455 0.00 0.00 0.00 2.29
2255 2807 2.478292 ACTCCCTTCGTCCCATAATGT 58.522 47.619 0.00 0.00 0.00 2.71
2256 2808 3.895656 TCTACTCCCTTCGTCCCATAATG 59.104 47.826 0.00 0.00 0.00 1.90
2257 2809 4.194678 TCTACTCCCTTCGTCCCATAAT 57.805 45.455 0.00 0.00 0.00 1.28
2260 2812 2.777459 ATCTACTCCCTTCGTCCCAT 57.223 50.000 0.00 0.00 0.00 4.00
2261 2813 3.675348 TTATCTACTCCCTTCGTCCCA 57.325 47.619 0.00 0.00 0.00 4.37
2262 2814 5.047448 GGTATTTATCTACTCCCTTCGTCCC 60.047 48.000 0.00 0.00 0.00 4.46
2264 2816 6.897706 AGGTATTTATCTACTCCCTTCGTC 57.102 41.667 0.00 0.00 0.00 4.20
2265 2817 7.125356 ACAAAGGTATTTATCTACTCCCTTCGT 59.875 37.037 0.00 0.00 30.77 3.85
2267 2819 7.715686 CCACAAAGGTATTTATCTACTCCCTTC 59.284 40.741 0.00 0.00 30.77 3.46
2269 2821 6.409349 GCCACAAAGGTATTTATCTACTCCCT 60.409 42.308 0.00 0.00 40.61 4.20
2270 2822 5.763698 GCCACAAAGGTATTTATCTACTCCC 59.236 44.000 0.00 0.00 40.61 4.30
2271 2823 5.763698 GGCCACAAAGGTATTTATCTACTCC 59.236 44.000 0.00 0.00 40.61 3.85
2272 2824 6.592870 AGGCCACAAAGGTATTTATCTACTC 58.407 40.000 5.01 0.00 40.61 2.59
2274 2826 7.338449 TCAAAGGCCACAAAGGTATTTATCTAC 59.662 37.037 5.01 0.00 40.61 2.59
2305 2867 3.067742 TCGATCGGAACTGTTTATCCCTC 59.932 47.826 16.41 0.00 31.73 4.30
2412 2978 6.197842 CCTACGATACTTTCATTACGACCAAC 59.802 42.308 0.00 0.00 0.00 3.77
2413 2979 6.127647 ACCTACGATACTTTCATTACGACCAA 60.128 38.462 0.00 0.00 0.00 3.67
2414 2980 5.357878 ACCTACGATACTTTCATTACGACCA 59.642 40.000 0.00 0.00 0.00 4.02
2415 2981 5.825507 ACCTACGATACTTTCATTACGACC 58.174 41.667 0.00 0.00 0.00 4.79
2416 2982 7.634522 ACTACCTACGATACTTTCATTACGAC 58.365 38.462 0.00 0.00 0.00 4.34
2417 2983 7.792374 ACTACCTACGATACTTTCATTACGA 57.208 36.000 0.00 0.00 0.00 3.43
2418 2984 9.752274 GATACTACCTACGATACTTTCATTACG 57.248 37.037 0.00 0.00 0.00 3.18
2422 2988 8.244802 GCATGATACTACCTACGATACTTTCAT 58.755 37.037 0.00 0.00 0.00 2.57
2423 2989 7.229907 TGCATGATACTACCTACGATACTTTCA 59.770 37.037 0.00 0.00 0.00 2.69
2424 2990 7.591165 TGCATGATACTACCTACGATACTTTC 58.409 38.462 0.00 0.00 0.00 2.62
2425 2991 7.520451 TGCATGATACTACCTACGATACTTT 57.480 36.000 0.00 0.00 0.00 2.66
2426 2992 7.539436 CATGCATGATACTACCTACGATACTT 58.461 38.462 22.59 0.00 0.00 2.24
2427 2993 6.404844 GCATGCATGATACTACCTACGATACT 60.405 42.308 30.64 0.00 0.00 2.12
2428 2994 5.744345 GCATGCATGATACTACCTACGATAC 59.256 44.000 30.64 2.07 0.00 2.24
2429 2995 5.652452 AGCATGCATGATACTACCTACGATA 59.348 40.000 30.64 0.00 0.00 2.92
2430 2996 4.464244 AGCATGCATGATACTACCTACGAT 59.536 41.667 30.64 0.00 0.00 3.73
2431 2997 3.826729 AGCATGCATGATACTACCTACGA 59.173 43.478 30.64 0.00 0.00 3.43
2432 2998 4.179926 AGCATGCATGATACTACCTACG 57.820 45.455 30.64 0.00 0.00 3.51
2433 2999 6.692486 AGTTAGCATGCATGATACTACCTAC 58.308 40.000 30.64 20.12 0.00 3.18
2434 3000 6.918067 AGTTAGCATGCATGATACTACCTA 57.082 37.500 30.64 16.02 0.00 3.08
2435 3001 5.815233 AGTTAGCATGCATGATACTACCT 57.185 39.130 30.64 15.88 0.00 3.08
2436 3002 6.102663 CCTAGTTAGCATGCATGATACTACC 58.897 44.000 30.64 13.96 0.00 3.18
2437 3003 5.578727 GCCTAGTTAGCATGCATGATACTAC 59.421 44.000 30.64 22.17 0.00 2.73
2438 3004 5.245977 TGCCTAGTTAGCATGCATGATACTA 59.754 40.000 30.64 25.87 34.69 1.82
2439 3005 4.040829 TGCCTAGTTAGCATGCATGATACT 59.959 41.667 30.64 26.11 34.69 2.12
2440 3006 4.318332 TGCCTAGTTAGCATGCATGATAC 58.682 43.478 30.64 21.28 34.69 2.24
2441 3007 4.622260 TGCCTAGTTAGCATGCATGATA 57.378 40.909 30.64 25.45 34.69 2.15
2442 3008 3.497103 TGCCTAGTTAGCATGCATGAT 57.503 42.857 30.64 26.66 34.69 2.45
2443 3009 3.280197 TTGCCTAGTTAGCATGCATGA 57.720 42.857 30.64 7.50 40.59 3.07
2444 3010 4.579454 ATTTGCCTAGTTAGCATGCATG 57.421 40.909 22.70 22.70 40.59 4.06
2445 3011 5.127519 TCAAATTTGCCTAGTTAGCATGCAT 59.872 36.000 21.98 7.68 40.59 3.96
2446 3012 4.462132 TCAAATTTGCCTAGTTAGCATGCA 59.538 37.500 21.98 2.77 40.59 3.96
2447 3013 4.997565 TCAAATTTGCCTAGTTAGCATGC 58.002 39.130 10.51 10.51 40.59 4.06
2448 3014 6.798482 TCATCAAATTTGCCTAGTTAGCATG 58.202 36.000 13.54 7.85 40.59 4.06
2449 3015 6.830324 TCTCATCAAATTTGCCTAGTTAGCAT 59.170 34.615 13.54 0.00 40.59 3.79
2450 3016 6.179756 TCTCATCAAATTTGCCTAGTTAGCA 58.820 36.000 13.54 0.00 38.81 3.49
2451 3017 6.683974 TCTCATCAAATTTGCCTAGTTAGC 57.316 37.500 13.54 0.00 0.00 3.09
2452 3018 8.341173 GTCATCTCATCAAATTTGCCTAGTTAG 58.659 37.037 13.54 4.25 0.00 2.34
2453 3019 7.828717 TGTCATCTCATCAAATTTGCCTAGTTA 59.171 33.333 13.54 0.00 0.00 2.24
2454 3020 6.660521 TGTCATCTCATCAAATTTGCCTAGTT 59.339 34.615 13.54 3.00 0.00 2.24
2455 3021 6.182627 TGTCATCTCATCAAATTTGCCTAGT 58.817 36.000 13.54 0.00 0.00 2.57
2456 3022 6.688637 TGTCATCTCATCAAATTTGCCTAG 57.311 37.500 13.54 9.64 0.00 3.02
2457 3023 8.212995 TCTATGTCATCTCATCAAATTTGCCTA 58.787 33.333 13.54 0.00 0.00 3.93
2458 3024 7.058525 TCTATGTCATCTCATCAAATTTGCCT 58.941 34.615 13.54 0.38 0.00 4.75
2459 3025 7.268199 TCTATGTCATCTCATCAAATTTGCC 57.732 36.000 13.54 0.00 0.00 4.52
2460 3026 9.745880 AATTCTATGTCATCTCATCAAATTTGC 57.254 29.630 13.54 0.00 0.00 3.68
2481 3047 8.971073 CACCCCACTATTTCTTCATTTAATTCT 58.029 33.333 0.00 0.00 0.00 2.40
2482 3048 8.966868 TCACCCCACTATTTCTTCATTTAATTC 58.033 33.333 0.00 0.00 0.00 2.17
2483 3049 8.893563 TCACCCCACTATTTCTTCATTTAATT 57.106 30.769 0.00 0.00 0.00 1.40
2484 3050 8.116026 ACTCACCCCACTATTTCTTCATTTAAT 58.884 33.333 0.00 0.00 0.00 1.40
2485 3051 7.466804 ACTCACCCCACTATTTCTTCATTTAA 58.533 34.615 0.00 0.00 0.00 1.52
2486 3052 7.027874 ACTCACCCCACTATTTCTTCATTTA 57.972 36.000 0.00 0.00 0.00 1.40
2487 3053 5.892348 ACTCACCCCACTATTTCTTCATTT 58.108 37.500 0.00 0.00 0.00 2.32
2488 3054 5.520748 ACTCACCCCACTATTTCTTCATT 57.479 39.130 0.00 0.00 0.00 2.57
2489 3055 6.386927 TGATACTCACCCCACTATTTCTTCAT 59.613 38.462 0.00 0.00 0.00 2.57
2490 3056 5.724370 TGATACTCACCCCACTATTTCTTCA 59.276 40.000 0.00 0.00 0.00 3.02
2491 3057 6.235231 TGATACTCACCCCACTATTTCTTC 57.765 41.667 0.00 0.00 0.00 2.87
2492 3058 6.831664 ATGATACTCACCCCACTATTTCTT 57.168 37.500 0.00 0.00 0.00 2.52
2493 3059 7.734865 TGATATGATACTCACCCCACTATTTCT 59.265 37.037 0.00 0.00 0.00 2.52
2494 3060 7.907389 TGATATGATACTCACCCCACTATTTC 58.093 38.462 0.00 0.00 0.00 2.17
2495 3061 7.872061 TGATATGATACTCACCCCACTATTT 57.128 36.000 0.00 0.00 0.00 1.40
2496 3062 7.679881 TCATGATATGATACTCACCCCACTATT 59.320 37.037 0.00 0.00 33.59 1.73
2497 3063 7.191918 TCATGATATGATACTCACCCCACTAT 58.808 38.462 0.00 0.00 33.59 2.12
2498 3064 6.561294 TCATGATATGATACTCACCCCACTA 58.439 40.000 0.00 0.00 33.59 2.74
2499 3065 5.406163 TCATGATATGATACTCACCCCACT 58.594 41.667 0.00 0.00 33.59 4.00
2500 3066 5.745312 TCATGATATGATACTCACCCCAC 57.255 43.478 0.00 0.00 33.59 4.61
2521 3087 8.338259 GCACATCATTTAATATGATCCGGTATC 58.662 37.037 0.00 4.06 36.69 2.24
2522 3088 8.049117 AGCACATCATTTAATATGATCCGGTAT 58.951 33.333 0.00 0.00 36.69 2.73
2523 3089 7.394016 AGCACATCATTTAATATGATCCGGTA 58.606 34.615 0.00 0.00 36.69 4.02
2524 3090 6.240894 AGCACATCATTTAATATGATCCGGT 58.759 36.000 0.00 0.00 36.69 5.28
2525 3091 6.748333 AGCACATCATTTAATATGATCCGG 57.252 37.500 0.00 0.00 36.69 5.14
2536 3102 8.291740 GCATGACACATATTAGCACATCATTTA 58.708 33.333 0.00 0.00 0.00 1.40
2537 3103 7.143340 GCATGACACATATTAGCACATCATTT 58.857 34.615 0.00 0.00 0.00 2.32
2538 3104 6.263617 TGCATGACACATATTAGCACATCATT 59.736 34.615 0.00 0.00 0.00 2.57
2539 3105 5.766174 TGCATGACACATATTAGCACATCAT 59.234 36.000 0.00 0.00 0.00 2.45
2540 3106 5.124645 TGCATGACACATATTAGCACATCA 58.875 37.500 0.00 0.00 0.00 3.07
2541 3107 5.678132 TGCATGACACATATTAGCACATC 57.322 39.130 0.00 0.00 0.00 3.06
2542 3108 6.128090 GCTATGCATGACACATATTAGCACAT 60.128 38.462 10.16 0.00 33.78 3.21
2543 3109 5.179929 GCTATGCATGACACATATTAGCACA 59.820 40.000 10.16 0.00 33.78 4.57
2544 3110 5.179929 TGCTATGCATGACACATATTAGCAC 59.820 40.000 10.16 0.00 37.09 4.40
2545 3111 5.307204 TGCTATGCATGACACATATTAGCA 58.693 37.500 10.16 9.41 38.77 3.49
2546 3112 5.868043 TGCTATGCATGACACATATTAGC 57.132 39.130 10.16 6.64 34.05 3.09
2547 3113 8.036273 TCATTGCTATGCATGACACATATTAG 57.964 34.615 10.16 0.00 38.76 1.73
2548 3114 7.982761 TCATTGCTATGCATGACACATATTA 57.017 32.000 10.16 0.00 38.76 0.98
2549 3115 6.887626 TCATTGCTATGCATGACACATATT 57.112 33.333 10.16 0.00 38.76 1.28
2550 3116 6.887626 TTCATTGCTATGCATGACACATAT 57.112 33.333 10.16 0.00 38.76 1.78
2551 3117 6.487331 TCATTCATTGCTATGCATGACACATA 59.513 34.615 16.59 0.00 38.79 2.29
2552 3118 5.300792 TCATTCATTGCTATGCATGACACAT 59.699 36.000 16.59 1.84 38.79 3.21
2553 3119 4.641094 TCATTCATTGCTATGCATGACACA 59.359 37.500 16.59 0.00 38.79 3.72
2554 3120 5.177725 TCATTCATTGCTATGCATGACAC 57.822 39.130 16.59 0.00 38.79 3.67
2555 3121 5.358725 ACTTCATTCATTGCTATGCATGACA 59.641 36.000 19.26 11.71 41.84 3.58
2556 3122 5.828747 ACTTCATTCATTGCTATGCATGAC 58.171 37.500 19.26 1.19 41.84 3.06
2557 3123 6.459670 AACTTCATTCATTGCTATGCATGA 57.540 33.333 16.59 16.59 40.90 3.07
2558 3124 8.297426 AGATAACTTCATTCATTGCTATGCATG 58.703 33.333 10.16 12.94 38.76 4.06
2559 3125 8.405418 AGATAACTTCATTCATTGCTATGCAT 57.595 30.769 3.79 3.79 38.76 3.96
2560 3126 7.812690 AGATAACTTCATTCATTGCTATGCA 57.187 32.000 3.00 0.00 36.47 3.96
2589 3155 9.127277 TGTAGTGCATAGTATCATGTGTTAGTA 57.873 33.333 0.00 0.00 0.00 1.82
2590 3156 8.007405 TGTAGTGCATAGTATCATGTGTTAGT 57.993 34.615 0.00 0.00 0.00 2.24
2591 3157 7.596621 CCTGTAGTGCATAGTATCATGTGTTAG 59.403 40.741 0.00 0.00 0.00 2.34
2592 3158 7.069455 ACCTGTAGTGCATAGTATCATGTGTTA 59.931 37.037 0.00 0.00 0.00 2.41
2593 3159 6.127054 ACCTGTAGTGCATAGTATCATGTGTT 60.127 38.462 0.00 0.00 0.00 3.32
2594 3160 5.363868 ACCTGTAGTGCATAGTATCATGTGT 59.636 40.000 0.00 0.00 0.00 3.72
2595 3161 5.693555 CACCTGTAGTGCATAGTATCATGTG 59.306 44.000 0.00 0.00 40.28 3.21
2596 3162 5.847304 CACCTGTAGTGCATAGTATCATGT 58.153 41.667 0.00 0.00 40.28 3.21
2655 3221 4.021894 AGGCTGATCGTAATGGTGAGTATC 60.022 45.833 0.00 0.00 0.00 2.24
2656 3222 3.898123 AGGCTGATCGTAATGGTGAGTAT 59.102 43.478 0.00 0.00 0.00 2.12
2657 3223 3.296854 AGGCTGATCGTAATGGTGAGTA 58.703 45.455 0.00 0.00 0.00 2.59
2658 3224 2.111384 AGGCTGATCGTAATGGTGAGT 58.889 47.619 0.00 0.00 0.00 3.41
2659 3225 2.898729 AGGCTGATCGTAATGGTGAG 57.101 50.000 0.00 0.00 0.00 3.51
2660 3226 3.958147 TCTTAGGCTGATCGTAATGGTGA 59.042 43.478 0.00 0.00 0.00 4.02
2661 3227 4.202161 ACTCTTAGGCTGATCGTAATGGTG 60.202 45.833 0.00 0.00 0.00 4.17
2662 3228 3.961408 ACTCTTAGGCTGATCGTAATGGT 59.039 43.478 0.00 0.00 0.00 3.55
2663 3229 4.302455 CACTCTTAGGCTGATCGTAATGG 58.698 47.826 0.00 0.00 0.00 3.16
2664 3230 3.738282 GCACTCTTAGGCTGATCGTAATG 59.262 47.826 0.00 0.00 0.00 1.90
2665 3231 3.639094 AGCACTCTTAGGCTGATCGTAAT 59.361 43.478 0.00 0.00 39.30 1.89
2666 3232 3.024547 AGCACTCTTAGGCTGATCGTAA 58.975 45.455 0.00 0.00 39.30 3.18
2667 3233 2.656002 AGCACTCTTAGGCTGATCGTA 58.344 47.619 0.00 0.00 39.30 3.43
2668 3234 1.479709 AGCACTCTTAGGCTGATCGT 58.520 50.000 0.00 0.00 39.30 3.73
2669 3235 2.593346 AAGCACTCTTAGGCTGATCG 57.407 50.000 0.00 0.00 40.93 3.69
2670 3236 4.759782 TGTAAAGCACTCTTAGGCTGATC 58.240 43.478 0.00 0.00 40.93 2.92
2671 3237 4.223923 ACTGTAAAGCACTCTTAGGCTGAT 59.776 41.667 0.00 0.00 40.93 2.90
2672 3238 3.578716 ACTGTAAAGCACTCTTAGGCTGA 59.421 43.478 0.00 0.00 40.93 4.26
2673 3239 3.931578 ACTGTAAAGCACTCTTAGGCTG 58.068 45.455 0.00 0.00 40.93 4.85
2674 3240 4.081586 GGTACTGTAAAGCACTCTTAGGCT 60.082 45.833 0.00 0.00 43.46 4.58
2675 3241 4.182339 GGTACTGTAAAGCACTCTTAGGC 58.818 47.826 0.00 0.00 31.02 3.93
2676 3242 4.082354 ACGGTACTGTAAAGCACTCTTAGG 60.082 45.833 5.26 0.00 31.02 2.69
2677 3243 4.857588 CACGGTACTGTAAAGCACTCTTAG 59.142 45.833 7.11 0.00 31.02 2.18
2684 3250 3.592059 GATTCCACGGTACTGTAAAGCA 58.408 45.455 7.11 0.00 0.00 3.91
2758 3324 3.138304 TCGGGCGATCCAATTCTAATTG 58.862 45.455 8.21 8.21 44.12 2.32
2776 3342 4.705746 TGACCCGGTCAAAATCGG 57.294 55.556 18.34 0.00 39.78 4.18
2786 3352 4.314740 TTTTGAGAAATTGTTGACCCGG 57.685 40.909 0.00 0.00 0.00 5.73
2844 3410 8.401490 ACCTACGGAGTATAGTGTTATAAAGG 57.599 38.462 0.00 0.00 44.56 3.11
2868 3434 9.533253 CCTCAATTGAATGTGGGATATTTAAAC 57.467 33.333 9.88 0.00 31.76 2.01
2875 3441 4.478317 AGGACCTCAATTGAATGTGGGATA 59.522 41.667 15.52 0.00 38.09 2.59
2877 3443 2.649312 AGGACCTCAATTGAATGTGGGA 59.351 45.455 15.52 0.00 38.09 4.37


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

AutoCloner maintained by Alex Coulton.