Multiple sequence alignment - TraesCS7D01G021900

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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 TraesCS7D01G021900 chr7D 100.000 3461 0 0 1 3461 10471588 10468128 0.000000e+00 6392.0
1 TraesCS7D01G021900 chr7D 84.599 2331 276 44 48 2353 10479741 10477469 0.000000e+00 2239.0
2 TraesCS7D01G021900 chr7D 98.182 55 1 0 2390 2444 10477459 10477405 2.840000e-16 97.1
3 TraesCS7D01G021900 chr4A 87.594 2128 224 23 449 2559 729685240 729687344 0.000000e+00 2431.0
4 TraesCS7D01G021900 chr4A 84.090 2533 307 55 50 2548 728430073 728427603 0.000000e+00 2357.0
5 TraesCS7D01G021900 chr4A 84.723 2435 279 45 363 2773 729530061 729527696 0.000000e+00 2350.0
6 TraesCS7D01G021900 chr4A 86.402 2140 253 22 431 2559 728831331 728833443 0.000000e+00 2305.0
7 TraesCS7D01G021900 chr4A 83.985 2479 300 54 50 2492 729861462 729863879 0.000000e+00 2289.0
8 TraesCS7D01G021900 chr4A 85.913 2158 238 34 427 2557 729080561 729078443 0.000000e+00 2241.0
9 TraesCS7D01G021900 chr4A 87.209 1978 221 20 420 2381 718927553 718925592 0.000000e+00 2222.0
10 TraesCS7D01G021900 chr4A 81.639 2282 347 49 90 2339 729745723 729747964 0.000000e+00 1827.0
11 TraesCS7D01G021900 chr4A 81.768 1980 316 35 398 2350 729706795 729708756 0.000000e+00 1615.0
12 TraesCS7D01G021900 chr4A 87.651 1077 108 16 933 2000 730067388 730066328 0.000000e+00 1229.0
13 TraesCS7D01G021900 chr4A 94.118 221 11 2 2571 2790 729078318 729078099 5.530000e-88 335.0
14 TraesCS7D01G021900 chr4A 85.846 325 28 9 2838 3153 729077865 729077550 2.580000e-86 329.0
15 TraesCS7D01G021900 chr4A 87.085 271 35 0 2083 2353 730066321 730066051 1.210000e-79 307.0
16 TraesCS7D01G021900 chr4A 86.036 222 18 8 2941 3153 730065385 730065168 3.480000e-55 226.0
17 TraesCS7D01G021900 chr4A 84.236 203 16 3 2902 3094 729526017 729525821 2.120000e-42 183.0
18 TraesCS7D01G021900 chr4A 92.793 111 7 1 3266 3376 730064983 730064874 3.580000e-35 159.0
19 TraesCS7D01G021900 chr4A 89.231 130 8 5 2914 3038 729688011 729688139 1.290000e-34 158.0
20 TraesCS7D01G021900 chr4A 82.514 183 14 8 2604 2780 729863904 729864074 1.000000e-30 145.0
21 TraesCS7D01G021900 chr4A 87.619 105 10 1 2927 3028 729816830 729816934 6.070000e-23 119.0
22 TraesCS7D01G021900 chr4A 96.154 52 2 0 3325 3376 729691740 729691791 6.150000e-13 86.1
23 TraesCS7D01G021900 chr4A 85.938 64 8 1 304 367 729706435 729706497 2.230000e-07 67.6
24 TraesCS7D01G021900 chr7A 86.644 1168 134 13 421 1584 9332793 9333942 0.000000e+00 1273.0
25 TraesCS7D01G021900 chr7A 86.256 975 124 5 1570 2544 9334611 9335575 0.000000e+00 1050.0
26 TraesCS7D01G021900 chr7A 91.457 199 13 2 2587 2785 9335569 9335763 1.580000e-68 270.0
27 TraesCS7D01G021900 chr1D 84.375 192 11 9 2594 2781 302076453 302076277 1.650000e-38 171.0


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 TraesCS7D01G021900 chr7D 10468128 10471588 3460 True 6392.000000 6392 100.000000 1 3461 1 chr7D.!!$R1 3460
1 TraesCS7D01G021900 chr7D 10477405 10479741 2336 True 1168.050000 2239 91.390500 48 2444 2 chr7D.!!$R2 2396
2 TraesCS7D01G021900 chr4A 728427603 728430073 2470 True 2357.000000 2357 84.090000 50 2548 1 chr4A.!!$R2 2498
3 TraesCS7D01G021900 chr4A 728831331 728833443 2112 False 2305.000000 2305 86.402000 431 2559 1 chr4A.!!$F1 2128
4 TraesCS7D01G021900 chr4A 718925592 718927553 1961 True 2222.000000 2222 87.209000 420 2381 1 chr4A.!!$R1 1961
5 TraesCS7D01G021900 chr4A 729745723 729747964 2241 False 1827.000000 1827 81.639000 90 2339 1 chr4A.!!$F2 2249
6 TraesCS7D01G021900 chr4A 729525821 729530061 4240 True 1266.500000 2350 84.479500 363 3094 2 chr4A.!!$R4 2731
7 TraesCS7D01G021900 chr4A 729861462 729864074 2612 False 1217.000000 2289 83.249500 50 2780 2 chr4A.!!$F6 2730
8 TraesCS7D01G021900 chr4A 729077550 729080561 3011 True 968.333333 2241 88.625667 427 3153 3 chr4A.!!$R3 2726
9 TraesCS7D01G021900 chr4A 729685240 729691791 6551 False 891.700000 2431 90.993000 449 3376 3 chr4A.!!$F4 2927
10 TraesCS7D01G021900 chr4A 729706435 729708756 2321 False 841.300000 1615 83.853000 304 2350 2 chr4A.!!$F5 2046
11 TraesCS7D01G021900 chr4A 730064874 730067388 2514 True 480.250000 1229 88.391250 933 3376 4 chr4A.!!$R5 2443
12 TraesCS7D01G021900 chr7A 9332793 9335763 2970 False 864.333333 1273 88.119000 421 2785 3 chr7A.!!$F1 2364

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
750 1040 0.185175 AGTTTTTGGGTCCGGAGCTT 59.815 50.0 31.09 7.5 0.0 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2530 3576 0.035458 AGAGCGCCTTAAGCAGTTGT 59.965 50.0 2.29 0.0 44.04 3.32 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
38 39 9.823647 ACATACTTCTGATAGTTACTTGGATTG 57.176 33.333 0.00 0.00 0.00 2.67
39 40 9.265901 CATACTTCTGATAGTTACTTGGATTGG 57.734 37.037 0.00 0.00 0.00 3.16
40 41 6.116126 ACTTCTGATAGTTACTTGGATTGGC 58.884 40.000 0.00 0.00 0.00 4.52
41 42 5.692115 TCTGATAGTTACTTGGATTGGCA 57.308 39.130 0.00 0.00 0.00 4.92
42 43 6.061022 TCTGATAGTTACTTGGATTGGCAA 57.939 37.500 0.68 0.68 0.00 4.52
43 44 5.880332 TCTGATAGTTACTTGGATTGGCAAC 59.120 40.000 0.00 0.00 0.00 4.17
44 45 5.815581 TGATAGTTACTTGGATTGGCAACT 58.184 37.500 0.00 0.00 37.61 3.16
45 46 5.647658 TGATAGTTACTTGGATTGGCAACTG 59.352 40.000 0.00 0.00 37.61 3.16
46 47 4.098914 AGTTACTTGGATTGGCAACTGA 57.901 40.909 0.00 0.00 37.61 3.41
55 56 3.445096 GGATTGGCAACTGAAGCAAGTAT 59.555 43.478 0.00 0.00 37.61 2.12
56 57 4.640201 GGATTGGCAACTGAAGCAAGTATA 59.360 41.667 0.00 0.00 37.61 1.47
66 67 5.757320 ACTGAAGCAAGTATATGATCAGTGC 59.243 40.000 0.09 4.10 42.42 4.40
70 71 7.601508 TGAAGCAAGTATATGATCAGTGCATAG 59.398 37.037 0.09 0.00 32.28 2.23
74 75 6.201226 AGTATATGATCAGTGCATAGTCCG 57.799 41.667 0.09 0.00 32.28 4.79
76 77 1.485124 TGATCAGTGCATAGTCCGGT 58.515 50.000 0.00 0.00 0.00 5.28
84 85 4.816385 CAGTGCATAGTCCGGTTATGATTT 59.184 41.667 23.71 10.78 31.59 2.17
87 88 5.971202 GTGCATAGTCCGGTTATGATTTTTG 59.029 40.000 23.71 6.11 31.59 2.44
103 105 5.657745 TGATTTTTGTCCATGCATGTAGGAT 59.342 36.000 24.58 9.35 33.33 3.24
110 112 3.947196 TCCATGCATGTAGGATGTTTGAC 59.053 43.478 24.58 0.00 43.84 3.18
116 118 5.156355 GCATGTAGGATGTTTGACTGTTTG 58.844 41.667 0.00 0.00 0.00 2.93
132 135 4.869861 ACTGTTTGCTTGTTTGTTCATTCC 59.130 37.500 0.00 0.00 0.00 3.01
149 152 9.170734 TGTTCATTCCTGATAGAGATTCAAAAG 57.829 33.333 0.00 0.00 0.00 2.27
187 190 8.579863 ACATTAGAGAAGAAACAAATCTTTGGG 58.420 33.333 7.51 0.00 42.34 4.12
208 213 8.885494 TTGGGAAATTGATTGAAGTTTTGTAG 57.115 30.769 0.00 0.00 0.00 2.74
212 217 8.978539 GGAAATTGATTGAAGTTTTGTAGGTTC 58.021 33.333 0.00 0.00 0.00 3.62
229 234 8.149973 TGTAGGTTCTTTCATTCACTGTAAAC 57.850 34.615 0.00 0.00 0.00 2.01
240 245 8.389779 TCATTCACTGTAAACAATTGCTAAGA 57.610 30.769 5.05 0.00 0.00 2.10
245 250 8.289618 TCACTGTAAACAATTGCTAAGATGTTC 58.710 33.333 5.05 0.00 35.09 3.18
253 258 7.318141 ACAATTGCTAAGATGTTCATTGGAAG 58.682 34.615 5.05 0.00 32.62 3.46
259 264 7.093333 TGCTAAGATGTTCATTGGAAGAGACTA 60.093 37.037 0.00 0.00 32.62 2.59
281 288 2.359967 GGGGGAGAGACAAGACCGG 61.360 68.421 0.00 0.00 0.00 5.28
282 289 1.305046 GGGGAGAGACAAGACCGGA 60.305 63.158 9.46 0.00 0.00 5.14
283 290 0.688087 GGGGAGAGACAAGACCGGAT 60.688 60.000 9.46 0.00 0.00 4.18
284 291 1.411216 GGGGAGAGACAAGACCGGATA 60.411 57.143 9.46 0.00 0.00 2.59
285 292 1.682323 GGGAGAGACAAGACCGGATAC 59.318 57.143 9.46 0.00 0.00 2.24
286 293 2.376109 GGAGAGACAAGACCGGATACA 58.624 52.381 9.46 0.00 0.00 2.29
287 294 2.758979 GGAGAGACAAGACCGGATACAA 59.241 50.000 9.46 0.00 0.00 2.41
288 295 3.429135 GGAGAGACAAGACCGGATACAAC 60.429 52.174 9.46 0.00 0.00 3.32
294 301 4.755411 ACAAGACCGGATACAACATACAG 58.245 43.478 9.46 0.00 0.00 2.74
342 350 6.162777 GTGGCTAAAAATCACAGGCATAAAA 58.837 36.000 0.26 0.00 45.22 1.52
380 401 8.248904 TGGTTAGGCATTATTATTCATGCTTT 57.751 30.769 4.26 0.00 44.50 3.51
449 737 6.096423 ACAGATTTGCCTACATCTAGTTCGTA 59.904 38.462 0.00 0.00 0.00 3.43
456 744 9.472361 TTGCCTACATCTAGTTCGTATTAATTC 57.528 33.333 0.00 0.00 0.00 2.17
545 835 8.090788 ACAGGTACCTTATTGTAGTTGATGAT 57.909 34.615 13.15 0.00 0.00 2.45
667 957 2.481795 GCATGGCATGTAACAATGACCC 60.482 50.000 26.94 3.65 34.38 4.46
696 986 2.107950 TTACACAATGAAGCCCCTCG 57.892 50.000 0.00 0.00 0.00 4.63
702 992 2.092212 ACAATGAAGCCCCTCGATGAAT 60.092 45.455 0.00 0.00 0.00 2.57
712 1002 5.249393 AGCCCCTCGATGAATATAACTCAAT 59.751 40.000 0.00 0.00 0.00 2.57
713 1003 5.352569 GCCCCTCGATGAATATAACTCAATG 59.647 44.000 0.00 0.00 0.00 2.82
734 1024 7.884877 TCAATGATGTTGTTCTCCAATAGAGTT 59.115 33.333 0.00 0.00 43.71 3.01
745 1035 2.752903 CCAATAGAGTTTTTGGGTCCGG 59.247 50.000 0.00 0.00 38.98 5.14
750 1040 0.185175 AGTTTTTGGGTCCGGAGCTT 59.815 50.000 31.09 7.50 0.00 3.74
785 1075 1.728971 CTTAAAGACACTGCGGCTGAG 59.271 52.381 14.07 8.28 0.00 3.35
791 1081 1.135139 GACACTGCGGCTGAGATTCTA 59.865 52.381 14.07 0.00 0.00 2.10
815 1105 2.672651 TGTGGTGGATTGCCGCTG 60.673 61.111 0.00 0.00 44.31 5.18
862 1152 3.538634 AGCTACTCAACGGGGATTAAC 57.461 47.619 0.00 0.00 0.00 2.01
895 1185 7.237982 TGGGAGAACATAAGGAATTCTTTGAA 58.762 34.615 12.73 0.00 36.93 2.69
931 1221 6.385033 CCACAAATCCTTCATTGAAAGAGAC 58.615 40.000 4.19 0.00 0.00 3.36
1070 1362 3.073798 TGGATAGGTGAAGGCTTTGTCAA 59.926 43.478 0.00 0.00 0.00 3.18
1071 1363 4.263905 TGGATAGGTGAAGGCTTTGTCAAT 60.264 41.667 0.00 0.00 0.00 2.57
1093 1385 1.275856 GTTTGCATGGGCCAGATTTGA 59.724 47.619 13.78 0.00 40.13 2.69
1094 1386 1.868713 TTGCATGGGCCAGATTTGAT 58.131 45.000 13.78 0.00 40.13 2.57
1143 1435 4.305769 AGCTCGTCAATAGAAGCATGATC 58.694 43.478 0.00 0.00 0.00 2.92
1282 1583 2.497675 GAGGACATGGCAAGACTACTGA 59.502 50.000 0.00 0.00 0.00 3.41
1400 1707 7.604164 ACAAGTTCGATCATTACTGTTCAAGAT 59.396 33.333 0.00 0.00 0.00 2.40
1404 1711 5.128663 TCGATCATTACTGTTCAAGATGGGA 59.871 40.000 0.00 0.00 0.00 4.37
1412 1719 5.118990 ACTGTTCAAGATGGGATGTAATCG 58.881 41.667 0.00 0.00 46.86 3.34
1420 1733 7.670140 TCAAGATGGGATGTAATCGTATACTCT 59.330 37.037 0.56 0.00 46.86 3.24
1427 1740 8.024285 GGGATGTAATCGTATACTCTCTCTTTG 58.976 40.741 0.56 0.00 46.86 2.77
1465 1787 4.641541 TCAGGGTTCTAATCATTGTGCATG 59.358 41.667 0.00 0.00 0.00 4.06
1473 1807 2.283101 ATTGTGCATGGTGGGCGT 60.283 55.556 0.00 0.00 0.00 5.68
1478 1812 2.821366 GCATGGTGGGCGTGAGAG 60.821 66.667 0.00 0.00 0.00 3.20
1480 1814 1.448540 CATGGTGGGCGTGAGAGAC 60.449 63.158 0.00 0.00 0.00 3.36
1488 1822 0.389166 GGCGTGAGAGACTTGACCTG 60.389 60.000 0.00 0.00 0.00 4.00
1492 1826 3.075148 CGTGAGAGACTTGACCTGACTA 58.925 50.000 0.00 0.00 0.00 2.59
1493 1827 3.502595 CGTGAGAGACTTGACCTGACTAA 59.497 47.826 0.00 0.00 0.00 2.24
1544 1884 0.179029 ACGGTAAGTGCTTTGGTGCT 60.179 50.000 0.00 0.00 0.00 4.40
1605 2628 4.894784 TGGAGACACTGGACATAGAAAAC 58.105 43.478 0.00 0.00 33.40 2.43
1610 2633 4.655963 ACACTGGACATAGAAAACTGCAT 58.344 39.130 0.00 0.00 0.00 3.96
1620 2643 2.895404 AGAAAACTGCATGCTGGTGAAT 59.105 40.909 25.87 11.69 0.00 2.57
1667 2690 2.434843 CCCGCCTGTCCTATCTGCA 61.435 63.158 0.00 0.00 0.00 4.41
1701 2724 3.307762 GGACAGAGTTGCCTGAAGGTATT 60.308 47.826 0.00 0.00 37.59 1.89
1713 2736 6.994496 TGCCTGAAGGTATTGAGAATATGAAG 59.006 38.462 0.00 0.00 37.57 3.02
1723 2746 4.176271 TGAGAATATGAAGTCACTGCACG 58.824 43.478 0.00 0.00 0.00 5.34
1814 2837 2.338577 AGGGAACTGCATATGTCAGC 57.661 50.000 20.28 9.94 41.13 4.26
1944 2982 3.197614 CAGCAGCTGGGCTCATTG 58.802 61.111 17.12 0.00 43.68 2.82
1947 2985 1.676635 GCAGCTGGGCTCATTGTCA 60.677 57.895 17.12 0.00 36.40 3.58
1985 3023 3.206034 TGAGCGTCTTGAATTGCATTG 57.794 42.857 0.00 0.00 0.00 2.82
1995 3033 0.035176 AATTGCATTGCTGGCGGTTT 59.965 45.000 10.49 0.00 0.00 3.27
2051 3089 2.743928 GCGCTTCCTCACCCTGTG 60.744 66.667 0.00 0.00 34.45 3.66
2056 3094 1.071699 GCTTCCTCACCCTGTGTGTTA 59.928 52.381 0.00 0.00 45.61 2.41
2076 3114 6.146347 GTGTTAAAGAGACATCAACTCAGGAC 59.854 42.308 0.00 0.00 36.91 3.85
2080 3118 3.322254 AGAGACATCAACTCAGGACGTTT 59.678 43.478 0.00 0.00 36.91 3.60
2228 3266 2.648059 AGACATTACGCCGTACCTAGT 58.352 47.619 0.00 0.00 0.00 2.57
2267 3305 2.158871 TGCCCAGTTTACGAACACTCTT 60.159 45.455 0.00 0.00 38.26 2.85
2364 3402 4.482030 TGCATGGGGTCTGCATTAATAAT 58.518 39.130 0.00 0.00 44.30 1.28
2378 3416 7.394016 TGCATTAATAATGATACCGAGGACAT 58.606 34.615 16.45 0.00 41.46 3.06
2452 3490 0.105964 CCCTTCCGTCACAGTTCACA 59.894 55.000 0.00 0.00 0.00 3.58
2460 3499 7.094975 CCTTCCGTCACAGTTCACAATTTATAA 60.095 37.037 0.00 0.00 0.00 0.98
2504 3550 5.325494 CATCGTACTATGTCTATCTTCCGC 58.675 45.833 0.00 0.00 0.00 5.54
2530 3576 1.691976 TGCTCGAGAAGTGAAAAGGGA 59.308 47.619 18.75 0.00 0.00 4.20
2533 3579 3.728845 CTCGAGAAGTGAAAAGGGACAA 58.271 45.455 6.58 0.00 0.00 3.18
2537 3583 2.952310 AGAAGTGAAAAGGGACAACTGC 59.048 45.455 0.00 0.00 0.00 4.40
2559 3605 4.332819 GCTTAAGGCGCTCTTGATCTTTAA 59.667 41.667 17.89 5.04 36.93 1.52
2560 3606 5.008118 GCTTAAGGCGCTCTTGATCTTTAAT 59.992 40.000 17.89 0.00 36.93 1.40
2567 3613 6.203723 GGCGCTCTTGATCTTTAATTATGTCT 59.796 38.462 7.64 0.00 0.00 3.41
2568 3614 7.385205 GGCGCTCTTGATCTTTAATTATGTCTA 59.615 37.037 7.64 0.00 0.00 2.59
2569 3615 8.930760 GCGCTCTTGATCTTTAATTATGTCTAT 58.069 33.333 0.00 0.00 0.00 1.98
2662 3824 1.968017 CTGCCAATGTGTCCGCTGT 60.968 57.895 0.00 0.00 0.00 4.40
2705 3867 6.849588 AATTAACGGTGGATACGGATTAAC 57.150 37.500 0.00 0.00 42.51 2.01
2735 3904 6.765915 ATTTTTCTTGTAATCTGCCTCTCC 57.234 37.500 0.00 0.00 0.00 3.71
2807 4380 6.796426 TCGTGTCATGTTTTGGTTATTTTGA 58.204 32.000 0.00 0.00 0.00 2.69
2824 4412 1.195115 TGAGACCGGAATGCTAGCTT 58.805 50.000 17.23 6.81 0.00 3.74
2825 4413 1.134699 TGAGACCGGAATGCTAGCTTG 60.135 52.381 17.23 0.16 0.00 4.01
2826 4414 0.179000 AGACCGGAATGCTAGCTTGG 59.821 55.000 17.23 12.24 0.00 3.61
2827 4415 0.178068 GACCGGAATGCTAGCTTGGA 59.822 55.000 17.23 0.00 0.00 3.53
2835 5629 6.166279 CGGAATGCTAGCTTGGATTCTAATA 58.834 40.000 30.22 0.00 42.10 0.98
2836 5630 6.312426 CGGAATGCTAGCTTGGATTCTAATAG 59.688 42.308 30.22 18.01 42.10 1.73
2864 5658 9.748100 GAAAGTGAATCTTTATTCTCTCGTTTC 57.252 33.333 3.87 2.19 45.15 2.78
2881 5678 8.433421 TCTCGTTTCTTCAAACTTTTAGACAT 57.567 30.769 0.00 0.00 39.97 3.06
2889 5686 9.923143 TCTTCAAACTTTTAGACATAATCTCGA 57.077 29.630 0.00 0.00 39.04 4.04
2893 5690 9.530129 CAAACTTTTAGACATAATCTCGACAAC 57.470 33.333 0.00 0.00 39.04 3.32
2951 5890 9.337396 TGTGAATAATATATCTTTTGGAAGCGT 57.663 29.630 0.00 0.00 32.75 5.07
3047 5986 1.608590 GTGCAAACTGTACATGTGCCT 59.391 47.619 9.11 0.00 33.03 4.75
3052 5995 3.988976 AACTGTACATGTGCCTCATCT 57.011 42.857 9.11 0.00 34.09 2.90
3053 5996 3.988976 ACTGTACATGTGCCTCATCTT 57.011 42.857 9.11 0.00 34.09 2.40
3054 5997 3.603532 ACTGTACATGTGCCTCATCTTG 58.396 45.455 9.11 0.00 34.09 3.02
3055 5998 2.941064 CTGTACATGTGCCTCATCTTGG 59.059 50.000 9.11 0.00 34.09 3.61
3056 5999 2.571202 TGTACATGTGCCTCATCTTGGA 59.429 45.455 9.11 0.00 34.09 3.53
3057 6000 2.885135 ACATGTGCCTCATCTTGGAA 57.115 45.000 0.00 0.00 34.09 3.53
3130 6079 1.274167 CAATGCAGTCCATGGCAAAGT 59.726 47.619 6.96 0.00 44.20 2.66
3156 6128 2.283604 TACGCAGGAGCAGGTGGA 60.284 61.111 0.00 0.00 42.27 4.02
3157 6129 2.290122 CTACGCAGGAGCAGGTGGAG 62.290 65.000 0.00 0.00 42.27 3.86
3185 6157 3.854669 CCCCTCCCGCTGTAGCAG 61.855 72.222 4.59 0.00 42.21 4.24
3214 6191 4.034285 TCCTTTGGGAGAAGAATTGACC 57.966 45.455 0.00 0.00 36.57 4.02
3219 6223 1.213182 GGGAGAAGAATTGACCCCTCC 59.787 57.143 0.00 0.00 39.44 4.30
3220 6224 1.213182 GGAGAAGAATTGACCCCTCCC 59.787 57.143 0.00 0.00 35.39 4.30
3231 6235 2.707257 TGACCCCTCCCGTTAATTATCC 59.293 50.000 0.00 0.00 0.00 2.59
3241 6245 4.390909 CCCGTTAATTATCCGTAATCCAGC 59.609 45.833 4.87 0.00 30.28 4.85
3251 6255 2.505866 CGTAATCCAGCGCAAAAGAAC 58.494 47.619 11.47 0.00 0.00 3.01
3252 6256 2.095969 CGTAATCCAGCGCAAAAGAACA 60.096 45.455 11.47 0.00 0.00 3.18
3253 6257 2.422276 AATCCAGCGCAAAAGAACAC 57.578 45.000 11.47 0.00 0.00 3.32
3254 6258 1.317613 ATCCAGCGCAAAAGAACACA 58.682 45.000 11.47 0.00 0.00 3.72
3255 6259 1.098869 TCCAGCGCAAAAGAACACAA 58.901 45.000 11.47 0.00 0.00 3.33
3260 6288 3.725740 CAGCGCAAAAGAACACAAAGTAG 59.274 43.478 11.47 0.00 0.00 2.57
3262 6290 3.482110 GCGCAAAAGAACACAAAGTAGTG 59.518 43.478 0.30 0.00 44.93 2.74
3280 6308 4.773323 AGTGCCTTCAGAATTACAAAGC 57.227 40.909 0.00 0.00 0.00 3.51
3285 6313 3.181506 CCTTCAGAATTACAAAGCGAGGC 60.182 47.826 0.00 0.00 0.00 4.70
3287 6315 1.062587 CAGAATTACAAAGCGAGGCGG 59.937 52.381 0.00 0.00 0.00 6.13
3288 6316 1.066430 AGAATTACAAAGCGAGGCGGA 60.066 47.619 0.00 0.00 0.00 5.54
3289 6317 1.062148 GAATTACAAAGCGAGGCGGAC 59.938 52.381 0.00 0.00 0.00 4.79
3290 6318 0.036765 ATTACAAAGCGAGGCGGACA 60.037 50.000 0.00 0.00 0.00 4.02
3339 9653 5.008613 TCGATTTGCCCTGCATATTTAAGTC 59.991 40.000 0.00 0.00 38.76 3.01
3376 9690 1.884579 CTTTGCTGCCATCTCACAACT 59.115 47.619 0.00 0.00 0.00 3.16
3377 9691 1.985473 TTGCTGCCATCTCACAACTT 58.015 45.000 0.00 0.00 0.00 2.66
3378 9692 1.241165 TGCTGCCATCTCACAACTTG 58.759 50.000 0.00 0.00 0.00 3.16
3379 9693 0.524862 GCTGCCATCTCACAACTTGG 59.475 55.000 0.00 0.00 0.00 3.61
3380 9694 1.171308 CTGCCATCTCACAACTTGGG 58.829 55.000 0.00 0.00 0.00 4.12
3381 9695 0.895100 TGCCATCTCACAACTTGGGC 60.895 55.000 0.00 0.00 40.29 5.36
3382 9696 1.926511 GCCATCTCACAACTTGGGCG 61.927 60.000 0.00 0.00 0.00 6.13
3383 9697 0.321564 CCATCTCACAACTTGGGCGA 60.322 55.000 0.00 0.00 0.00 5.54
3384 9698 1.522668 CATCTCACAACTTGGGCGAA 58.477 50.000 0.00 0.00 0.00 4.70
3385 9699 1.879380 CATCTCACAACTTGGGCGAAA 59.121 47.619 0.00 0.00 0.00 3.46
3386 9700 1.305201 TCTCACAACTTGGGCGAAAC 58.695 50.000 0.00 0.00 0.00 2.78
3387 9701 1.021202 CTCACAACTTGGGCGAAACA 58.979 50.000 0.00 0.00 0.00 2.83
3388 9702 1.403679 CTCACAACTTGGGCGAAACAA 59.596 47.619 0.00 0.00 0.00 2.83
3389 9703 2.028130 TCACAACTTGGGCGAAACAAT 58.972 42.857 0.00 0.00 0.00 2.71
3390 9704 3.215151 TCACAACTTGGGCGAAACAATA 58.785 40.909 0.00 0.00 0.00 1.90
3391 9705 3.632604 TCACAACTTGGGCGAAACAATAA 59.367 39.130 0.00 0.00 0.00 1.40
3392 9706 4.098044 TCACAACTTGGGCGAAACAATAAA 59.902 37.500 0.00 0.00 0.00 1.40
3393 9707 4.806247 CACAACTTGGGCGAAACAATAAAA 59.194 37.500 0.00 0.00 0.00 1.52
3394 9708 5.047188 ACAACTTGGGCGAAACAATAAAAG 58.953 37.500 0.00 0.00 0.00 2.27
3395 9709 3.649073 ACTTGGGCGAAACAATAAAAGC 58.351 40.909 0.00 0.00 0.00 3.51
3396 9710 2.734276 TGGGCGAAACAATAAAAGCC 57.266 45.000 0.00 0.00 43.47 4.35
3397 9711 1.068194 TGGGCGAAACAATAAAAGCCG 60.068 47.619 0.00 0.00 45.00 5.52
3398 9712 0.989164 GGCGAAACAATAAAAGCCGC 59.011 50.000 0.00 0.00 40.33 6.53
3399 9713 0.633235 GCGAAACAATAAAAGCCGCG 59.367 50.000 0.00 0.00 0.00 6.46
3400 9714 1.726571 GCGAAACAATAAAAGCCGCGA 60.727 47.619 8.23 0.00 0.00 5.87
3401 9715 2.576406 CGAAACAATAAAAGCCGCGAA 58.424 42.857 8.23 0.00 0.00 4.70
3402 9716 2.337352 CGAAACAATAAAAGCCGCGAAC 59.663 45.455 8.23 0.00 0.00 3.95
3403 9717 3.301706 GAAACAATAAAAGCCGCGAACA 58.698 40.909 8.23 0.00 0.00 3.18
3404 9718 3.569250 AACAATAAAAGCCGCGAACAT 57.431 38.095 8.23 0.00 0.00 2.71
3405 9719 2.862512 ACAATAAAAGCCGCGAACATG 58.137 42.857 8.23 0.00 0.00 3.21
3406 9720 2.486203 ACAATAAAAGCCGCGAACATGA 59.514 40.909 8.23 0.00 0.00 3.07
3407 9721 3.057876 ACAATAAAAGCCGCGAACATGAA 60.058 39.130 8.23 0.00 0.00 2.57
3408 9722 2.604969 TAAAAGCCGCGAACATGAAC 57.395 45.000 8.23 0.00 0.00 3.18
3409 9723 0.665835 AAAAGCCGCGAACATGAACA 59.334 45.000 8.23 0.00 0.00 3.18
3410 9724 0.881118 AAAGCCGCGAACATGAACAT 59.119 45.000 8.23 0.00 0.00 2.71
3411 9725 0.447801 AAGCCGCGAACATGAACATC 59.552 50.000 8.23 0.00 0.00 3.06
3412 9726 0.673333 AGCCGCGAACATGAACATCA 60.673 50.000 8.23 0.00 0.00 3.07
3413 9727 0.521242 GCCGCGAACATGAACATCAC 60.521 55.000 8.23 0.00 0.00 3.06
3414 9728 0.795698 CCGCGAACATGAACATCACA 59.204 50.000 8.23 0.00 0.00 3.58
3415 9729 1.398041 CCGCGAACATGAACATCACAT 59.602 47.619 8.23 0.00 0.00 3.21
3416 9730 2.159531 CCGCGAACATGAACATCACATT 60.160 45.455 8.23 0.00 0.00 2.71
3417 9731 3.491356 CGCGAACATGAACATCACATTT 58.509 40.909 0.00 0.00 0.00 2.32
3418 9732 3.913763 CGCGAACATGAACATCACATTTT 59.086 39.130 0.00 0.00 0.00 1.82
3419 9733 4.382457 CGCGAACATGAACATCACATTTTT 59.618 37.500 0.00 0.00 0.00 1.94
3437 9751 2.008242 TTTCCATTCAACTGTGGGGG 57.992 50.000 0.00 0.00 36.15 5.40
3438 9752 1.153539 TTCCATTCAACTGTGGGGGA 58.846 50.000 0.00 0.00 36.15 4.81
3439 9753 1.153539 TCCATTCAACTGTGGGGGAA 58.846 50.000 0.00 0.00 36.15 3.97
3440 9754 1.501170 TCCATTCAACTGTGGGGGAAA 59.499 47.619 0.00 0.00 36.15 3.13
3441 9755 1.618343 CCATTCAACTGTGGGGGAAAC 59.382 52.381 0.00 0.00 0.00 2.78
3442 9756 2.315176 CATTCAACTGTGGGGGAAACA 58.685 47.619 0.00 0.00 0.00 2.83
3447 9761 3.819245 CTGTGGGGGAAACAGTTGA 57.181 52.632 0.00 0.00 40.17 3.18
3448 9762 2.065899 CTGTGGGGGAAACAGTTGAA 57.934 50.000 0.00 0.00 40.17 2.69
3449 9763 1.956477 CTGTGGGGGAAACAGTTGAAG 59.044 52.381 0.00 0.00 40.17 3.02
3450 9764 0.673985 GTGGGGGAAACAGTTGAAGC 59.326 55.000 0.00 0.00 0.00 3.86
3451 9765 0.260230 TGGGGGAAACAGTTGAAGCA 59.740 50.000 0.00 0.00 0.00 3.91
3452 9766 0.961753 GGGGGAAACAGTTGAAGCAG 59.038 55.000 0.00 0.00 0.00 4.24
3453 9767 1.478654 GGGGGAAACAGTTGAAGCAGA 60.479 52.381 0.00 0.00 0.00 4.26
3454 9768 1.609072 GGGGAAACAGTTGAAGCAGAC 59.391 52.381 0.00 0.00 0.00 3.51
3455 9769 2.297701 GGGAAACAGTTGAAGCAGACA 58.702 47.619 0.00 0.00 0.00 3.41
3456 9770 2.291741 GGGAAACAGTTGAAGCAGACAG 59.708 50.000 0.00 0.00 0.00 3.51
3457 9771 3.206150 GGAAACAGTTGAAGCAGACAGA 58.794 45.455 0.00 0.00 0.00 3.41
3458 9772 3.249559 GGAAACAGTTGAAGCAGACAGAG 59.750 47.826 0.00 0.00 0.00 3.35
3459 9773 3.827008 AACAGTTGAAGCAGACAGAGA 57.173 42.857 0.00 0.00 0.00 3.10
3460 9774 4.348863 AACAGTTGAAGCAGACAGAGAT 57.651 40.909 0.00 0.00 0.00 2.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 9.823647 CAATCCAAGTAACTATCAGAAGTATGT 57.176 33.333 0.00 0.00 0.00 2.29
13 14 9.265901 CCAATCCAAGTAACTATCAGAAGTATG 57.734 37.037 0.00 0.00 0.00 2.39
14 15 7.934120 GCCAATCCAAGTAACTATCAGAAGTAT 59.066 37.037 0.00 0.00 0.00 2.12
15 16 7.093068 TGCCAATCCAAGTAACTATCAGAAGTA 60.093 37.037 0.00 0.00 0.00 2.24
16 17 6.116126 GCCAATCCAAGTAACTATCAGAAGT 58.884 40.000 0.00 0.00 0.00 3.01
17 18 6.115446 TGCCAATCCAAGTAACTATCAGAAG 58.885 40.000 0.00 0.00 0.00 2.85
18 19 6.061022 TGCCAATCCAAGTAACTATCAGAA 57.939 37.500 0.00 0.00 0.00 3.02
19 20 5.692115 TGCCAATCCAAGTAACTATCAGA 57.308 39.130 0.00 0.00 0.00 3.27
20 21 5.882557 AGTTGCCAATCCAAGTAACTATCAG 59.117 40.000 0.00 0.00 37.19 2.90
21 22 5.647658 CAGTTGCCAATCCAAGTAACTATCA 59.352 40.000 0.00 0.00 36.89 2.15
22 23 5.880332 TCAGTTGCCAATCCAAGTAACTATC 59.120 40.000 0.00 0.00 36.89 2.08
23 24 5.815581 TCAGTTGCCAATCCAAGTAACTAT 58.184 37.500 0.00 0.00 36.89 2.12
24 25 5.235850 TCAGTTGCCAATCCAAGTAACTA 57.764 39.130 0.00 0.00 36.89 2.24
25 26 4.098914 TCAGTTGCCAATCCAAGTAACT 57.901 40.909 0.00 0.00 39.15 2.24
26 27 4.798574 CTTCAGTTGCCAATCCAAGTAAC 58.201 43.478 0.00 0.00 0.00 2.50
27 28 3.255642 GCTTCAGTTGCCAATCCAAGTAA 59.744 43.478 0.00 0.00 0.00 2.24
28 29 2.819608 GCTTCAGTTGCCAATCCAAGTA 59.180 45.455 0.00 0.00 0.00 2.24
29 30 1.615392 GCTTCAGTTGCCAATCCAAGT 59.385 47.619 0.00 0.00 0.00 3.16
30 31 1.614903 TGCTTCAGTTGCCAATCCAAG 59.385 47.619 0.00 0.00 0.00 3.61
31 32 1.702182 TGCTTCAGTTGCCAATCCAA 58.298 45.000 0.00 0.00 0.00 3.53
32 33 1.614903 CTTGCTTCAGTTGCCAATCCA 59.385 47.619 0.00 0.00 0.00 3.41
33 34 1.615392 ACTTGCTTCAGTTGCCAATCC 59.385 47.619 0.00 0.00 0.00 3.01
34 35 4.708726 ATACTTGCTTCAGTTGCCAATC 57.291 40.909 0.00 0.00 0.00 2.67
35 36 5.887598 TCATATACTTGCTTCAGTTGCCAAT 59.112 36.000 0.00 0.00 0.00 3.16
36 37 5.252547 TCATATACTTGCTTCAGTTGCCAA 58.747 37.500 0.00 0.00 0.00 4.52
37 38 4.842574 TCATATACTTGCTTCAGTTGCCA 58.157 39.130 0.00 0.00 0.00 4.92
38 39 5.528690 TGATCATATACTTGCTTCAGTTGCC 59.471 40.000 0.00 0.00 0.00 4.52
39 40 6.259608 ACTGATCATATACTTGCTTCAGTTGC 59.740 38.462 0.00 0.00 36.90 4.17
40 41 7.628235 CACTGATCATATACTTGCTTCAGTTG 58.372 38.462 0.00 0.00 37.54 3.16
41 42 6.259608 GCACTGATCATATACTTGCTTCAGTT 59.740 38.462 0.00 0.00 37.54 3.16
42 43 5.757320 GCACTGATCATATACTTGCTTCAGT 59.243 40.000 0.00 0.00 38.87 3.41
43 44 5.756833 TGCACTGATCATATACTTGCTTCAG 59.243 40.000 0.00 0.00 34.97 3.02
44 45 5.673514 TGCACTGATCATATACTTGCTTCA 58.326 37.500 0.00 0.00 0.00 3.02
45 46 6.798315 ATGCACTGATCATATACTTGCTTC 57.202 37.500 0.00 0.00 0.00 3.86
46 47 7.448420 ACTATGCACTGATCATATACTTGCTT 58.552 34.615 0.00 0.46 0.00 3.91
55 56 3.230976 ACCGGACTATGCACTGATCATA 58.769 45.455 9.46 0.00 0.00 2.15
56 57 2.042464 ACCGGACTATGCACTGATCAT 58.958 47.619 9.46 0.00 0.00 2.45
66 67 6.317642 TGGACAAAAATCATAACCGGACTATG 59.682 38.462 9.46 14.82 0.00 2.23
70 71 5.339990 CATGGACAAAAATCATAACCGGAC 58.660 41.667 9.46 0.00 0.00 4.79
74 75 6.108015 ACATGCATGGACAAAAATCATAACC 58.892 36.000 29.41 0.00 0.00 2.85
76 77 7.341512 TCCTACATGCATGGACAAAAATCATAA 59.658 33.333 29.41 0.00 0.00 1.90
84 85 3.966979 ACATCCTACATGCATGGACAAA 58.033 40.909 29.41 11.88 32.16 2.83
87 88 3.947196 TCAAACATCCTACATGCATGGAC 59.053 43.478 29.41 0.00 32.16 4.02
103 105 4.626042 ACAAACAAGCAAACAGTCAAACA 58.374 34.783 0.00 0.00 0.00 2.83
110 112 5.005971 CAGGAATGAACAAACAAGCAAACAG 59.994 40.000 0.00 0.00 0.00 3.16
116 118 6.372659 TCTCTATCAGGAATGAACAAACAAGC 59.627 38.462 0.00 0.00 0.00 4.01
170 173 9.631257 AATCAATTTCCCAAAGATTTGTTTCTT 57.369 25.926 4.71 0.00 37.56 2.52
178 181 9.631257 AAAACTTCAATCAATTTCCCAAAGATT 57.369 25.926 0.00 0.00 0.00 2.40
187 190 9.750125 AGAACCTACAAAACTTCAATCAATTTC 57.250 29.630 0.00 0.00 0.00 2.17
208 213 8.755018 CAATTGTTTACAGTGAATGAAAGAACC 58.245 33.333 0.00 0.00 0.00 3.62
212 217 7.935338 AGCAATTGTTTACAGTGAATGAAAG 57.065 32.000 7.40 0.00 0.00 2.62
229 234 7.541162 TCTTCCAATGAACATCTTAGCAATTG 58.459 34.615 0.00 0.00 0.00 2.32
240 245 6.098982 CCCTACTAGTCTCTTCCAATGAACAT 59.901 42.308 0.00 0.00 0.00 2.71
245 250 3.643792 CCCCCTACTAGTCTCTTCCAATG 59.356 52.174 0.00 0.00 0.00 2.82
253 258 2.778850 TGTCTCTCCCCCTACTAGTCTC 59.221 54.545 0.00 0.00 0.00 3.36
259 264 1.007359 GGTCTTGTCTCTCCCCCTACT 59.993 57.143 0.00 0.00 0.00 2.57
281 288 7.448777 TCTCCTATGAGACCTGTATGTTGTATC 59.551 40.741 0.00 0.00 42.73 2.24
282 289 7.298374 TCTCCTATGAGACCTGTATGTTGTAT 58.702 38.462 0.00 0.00 42.73 2.29
283 290 6.669631 TCTCCTATGAGACCTGTATGTTGTA 58.330 40.000 0.00 0.00 42.73 2.41
284 291 5.519808 TCTCCTATGAGACCTGTATGTTGT 58.480 41.667 0.00 0.00 42.73 3.32
414 702 9.277783 GATGTAGGCAAATCTGTTACTGATATT 57.722 33.333 5.21 0.93 0.00 1.28
422 710 6.978659 CGAACTAGATGTAGGCAAATCTGTTA 59.021 38.462 0.00 0.00 34.91 2.41
489 778 6.262049 TGTTTGCACGGATTATATTGTAGCAT 59.738 34.615 0.00 0.00 0.00 3.79
503 793 2.223688 CCTGTTGAAATGTTTGCACGGA 60.224 45.455 0.00 0.00 0.00 4.69
545 835 2.761767 CCATGCTGATTGATCCCACAAA 59.238 45.455 0.00 0.00 33.44 2.83
667 957 4.855388 GCTTCATTGTGTAAATGCACTCAG 59.145 41.667 0.00 0.00 39.89 3.35
702 992 9.685276 ATTGGAGAACAACATCATTGAGTTATA 57.315 29.630 0.00 0.00 42.94 0.98
712 1002 8.352201 CAAAAACTCTATTGGAGAACAACATCA 58.648 33.333 3.80 0.00 44.45 3.07
713 1003 8.733857 CAAAAACTCTATTGGAGAACAACATC 57.266 34.615 3.80 0.00 44.45 3.06
734 1024 1.783071 AAAAAGCTCCGGACCCAAAA 58.217 45.000 0.00 0.00 0.00 2.44
754 1044 6.398918 GCAGTGTCTTTAAGATAGTCTGGAA 58.601 40.000 0.00 0.00 0.00 3.53
759 1049 3.552294 GCCGCAGTGTCTTTAAGATAGTC 59.448 47.826 0.00 0.00 0.00 2.59
760 1050 3.195825 AGCCGCAGTGTCTTTAAGATAGT 59.804 43.478 0.00 0.00 0.00 2.12
774 1064 2.497675 TCTTTAGAATCTCAGCCGCAGT 59.502 45.455 0.00 0.00 0.00 4.40
775 1065 3.170791 TCTTTAGAATCTCAGCCGCAG 57.829 47.619 0.00 0.00 0.00 5.18
785 1075 6.623767 GCAATCCACCACACTTCTTTAGAATC 60.624 42.308 0.00 0.00 33.01 2.52
791 1081 1.963515 GGCAATCCACCACACTTCTTT 59.036 47.619 0.00 0.00 0.00 2.52
815 1105 5.983540 AGGCTAGCTATAGTGATAATTGCC 58.016 41.667 15.72 0.00 31.17 4.52
862 1152 3.684788 CCTTATGTTCTCCCAGTGTTTCG 59.315 47.826 0.00 0.00 0.00 3.46
895 1185 1.483415 GATTTGTGGCAGAATGGGCAT 59.517 47.619 0.00 0.00 45.62 4.40
1070 1362 2.761786 ATCTGGCCCATGCAAACTAT 57.238 45.000 0.00 0.00 40.13 2.12
1071 1363 2.496871 CAAATCTGGCCCATGCAAACTA 59.503 45.455 0.00 0.00 40.13 2.24
1093 1385 3.959495 ATAACTCCTGCCAACATCCAT 57.041 42.857 0.00 0.00 0.00 3.41
1094 1386 3.737559 AATAACTCCTGCCAACATCCA 57.262 42.857 0.00 0.00 0.00 3.41
1143 1435 2.973694 AGCTAATTTTGCATGGCTGG 57.026 45.000 5.65 0.00 0.00 4.85
1249 1550 3.997021 GCCATGTCCTCGGAATTGTATAG 59.003 47.826 0.00 0.00 0.00 1.31
1250 1551 3.389656 TGCCATGTCCTCGGAATTGTATA 59.610 43.478 0.00 0.00 0.00 1.47
1282 1583 2.888834 ACCTTGTTTTTGCAGCGATT 57.111 40.000 0.00 0.00 0.00 3.34
1400 1707 6.780901 AGAGAGAGTATACGATTACATCCCA 58.219 40.000 0.00 0.00 0.00 4.37
1404 1711 8.353684 CACCAAAGAGAGAGTATACGATTACAT 58.646 37.037 0.00 0.00 0.00 2.29
1412 1719 6.282199 TGAACCACCAAAGAGAGAGTATAC 57.718 41.667 0.00 0.00 0.00 1.47
1420 1733 3.714798 AGGTACTTGAACCACCAAAGAGA 59.285 43.478 0.00 0.00 42.40 3.10
1427 1740 1.003233 CCCTGAGGTACTTGAACCACC 59.997 57.143 0.00 0.00 41.55 4.61
1465 1787 1.374758 CAAGTCTCTCACGCCCACC 60.375 63.158 0.00 0.00 0.00 4.61
1473 1807 5.080337 ACATTAGTCAGGTCAAGTCTCTCA 58.920 41.667 0.00 0.00 0.00 3.27
1478 1812 4.870991 GGCTAACATTAGTCAGGTCAAGTC 59.129 45.833 0.00 0.00 35.50 3.01
1480 1814 4.832248 TGGCTAACATTAGTCAGGTCAAG 58.168 43.478 1.78 0.00 40.20 3.02
1488 1822 6.528072 GCTGAAACAATTGGCTAACATTAGTC 59.472 38.462 10.83 0.00 35.96 2.59
1492 1826 5.010922 TCAGCTGAAACAATTGGCTAACATT 59.989 36.000 15.67 0.00 0.00 2.71
1493 1827 4.523943 TCAGCTGAAACAATTGGCTAACAT 59.476 37.500 15.67 0.00 0.00 2.71
1544 1884 5.338381 CCAAGTTTAGTAGGGAGCTTCATCA 60.338 44.000 0.00 0.00 0.00 3.07
1605 2628 1.385528 TGCTATTCACCAGCATGCAG 58.614 50.000 21.98 12.49 43.90 4.41
1701 2724 4.176271 CGTGCAGTGACTTCATATTCTCA 58.824 43.478 0.00 0.00 0.00 3.27
1738 2761 1.068748 CAGCGAGCTCTTTTGCATGTT 60.069 47.619 12.85 0.00 34.99 2.71
1814 2837 1.818674 GCAACCCCAAACTATGACCTG 59.181 52.381 0.00 0.00 0.00 4.00
1903 2938 2.014335 TCCTCACGCTCAACATGATG 57.986 50.000 0.00 0.00 0.00 3.07
1944 2982 7.008628 CGCTCAATATGTTGAAAAGGATTTGAC 59.991 37.037 6.35 0.00 43.39 3.18
1947 2985 6.924111 ACGCTCAATATGTTGAAAAGGATTT 58.076 32.000 6.35 0.00 43.39 2.17
1985 3023 1.172812 AACTCTCCAAAACCGCCAGC 61.173 55.000 0.00 0.00 0.00 4.85
2051 3089 6.146347 GTCCTGAGTTGATGTCTCTTTAACAC 59.854 42.308 0.00 0.00 33.59 3.32
2056 3094 3.322254 ACGTCCTGAGTTGATGTCTCTTT 59.678 43.478 0.00 0.00 33.59 2.52
2100 3138 1.975407 TTCGAGGTGGACGAGGGAC 60.975 63.158 0.00 0.00 40.72 4.46
2228 3266 0.461548 CATAGCACCTGCCTCGAAGA 59.538 55.000 0.00 0.00 43.38 2.87
2267 3305 1.408127 CCCAGTCCAACACAGTGAACA 60.408 52.381 7.81 0.00 0.00 3.18
2364 3402 6.288941 TCTTTTAACATGTCCTCGGTATCA 57.711 37.500 0.00 0.00 0.00 2.15
2378 3416 2.500229 CGTCCTTGGCCTCTTTTAACA 58.500 47.619 3.32 0.00 0.00 2.41
2382 3420 1.966451 CGCGTCCTTGGCCTCTTTT 60.966 57.895 3.32 0.00 0.00 2.27
2460 3499 5.372343 TGCATGTGGGAATTATACTCTGT 57.628 39.130 0.00 0.00 0.00 3.41
2504 3550 0.884514 TCACTTCTCGAGCAGGTCTG 59.115 55.000 16.54 5.99 0.00 3.51
2530 3576 0.035458 AGAGCGCCTTAAGCAGTTGT 59.965 50.000 2.29 0.00 44.04 3.32
2533 3579 0.321671 TCAAGAGCGCCTTAAGCAGT 59.678 50.000 2.29 0.00 44.04 4.40
2537 3583 6.610741 ATTAAAGATCAAGAGCGCCTTAAG 57.389 37.500 2.29 0.00 32.86 1.85
2687 3849 3.640029 AGATGTTAATCCGTATCCACCGT 59.360 43.478 0.00 0.00 32.77 4.83
2705 3867 8.680903 AGGCAGATTACAAGAAAAATACAGATG 58.319 33.333 0.00 0.00 0.00 2.90
2735 3904 5.056480 TCATCAGGATTACAAGCCATTACG 58.944 41.667 0.00 0.00 36.79 3.18
2807 4380 0.179000 CCAAGCTAGCATTCCGGTCT 59.821 55.000 18.83 0.00 0.00 3.85
2835 5629 8.091449 ACGAGAGAATAAAGATTCACTTTCACT 58.909 33.333 0.00 0.00 44.36 3.41
2836 5630 8.245701 ACGAGAGAATAAAGATTCACTTTCAC 57.754 34.615 0.00 0.00 44.36 3.18
2864 5658 9.959775 GTCGAGATTATGTCTAAAAGTTTGAAG 57.040 33.333 0.00 0.00 37.29 3.02
2933 5763 3.746492 GCCGACGCTTCCAAAAGATATAT 59.254 43.478 0.00 0.00 34.14 0.86
2944 5883 2.126850 GCTTTTGCCGACGCTTCC 60.127 61.111 0.00 0.00 40.15 3.46
3047 5986 6.012113 AGTGTTTCATCCAATTCCAAGATGA 58.988 36.000 0.00 0.00 43.46 2.92
3052 5995 6.648192 ACAAAAGTGTTTCATCCAATTCCAA 58.352 32.000 0.00 0.00 32.58 3.53
3053 5996 6.232581 ACAAAAGTGTTTCATCCAATTCCA 57.767 33.333 0.00 0.00 32.58 3.53
3054 5997 8.831715 AATACAAAAGTGTTTCATCCAATTCC 57.168 30.769 0.00 0.00 39.30 3.01
3057 6000 9.912634 CAGTAATACAAAAGTGTTTCATCCAAT 57.087 29.630 0.00 0.00 39.30 3.16
3113 6062 0.111061 AGACTTTGCCATGGACTGCA 59.889 50.000 18.40 2.48 35.27 4.41
3168 6140 3.854669 CTGCTACAGCGGGAGGGG 61.855 72.222 0.00 0.00 45.83 4.79
3200 6177 1.213182 GGGAGGGGTCAATTCTTCTCC 59.787 57.143 0.00 0.00 39.84 3.71
3214 6191 4.605640 TTACGGATAATTAACGGGAGGG 57.394 45.455 14.74 0.00 0.00 4.30
3219 6223 4.090930 CGCTGGATTACGGATAATTAACGG 59.909 45.833 14.74 7.97 30.77 4.44
3220 6224 4.433805 GCGCTGGATTACGGATAATTAACG 60.434 45.833 0.00 10.31 30.77 3.18
3231 6235 2.095969 TGTTCTTTTGCGCTGGATTACG 60.096 45.455 9.73 0.00 0.00 3.18
3241 6245 3.482110 GCACTACTTTGTGTTCTTTTGCG 59.518 43.478 0.00 0.00 39.89 4.85
3251 6255 5.695851 AATTCTGAAGGCACTACTTTGTG 57.304 39.130 0.00 0.00 38.49 3.33
3252 6256 6.296026 TGTAATTCTGAAGGCACTACTTTGT 58.704 36.000 0.00 0.00 38.49 2.83
3253 6257 6.801539 TGTAATTCTGAAGGCACTACTTTG 57.198 37.500 0.00 0.00 38.49 2.77
3254 6258 7.522236 GCTTTGTAATTCTGAAGGCACTACTTT 60.522 37.037 0.00 0.00 38.49 2.66
3255 6259 6.072452 GCTTTGTAATTCTGAAGGCACTACTT 60.072 38.462 0.00 0.00 38.49 2.24
3260 6288 3.188460 TCGCTTTGTAATTCTGAAGGCAC 59.812 43.478 0.00 0.00 0.00 5.01
3262 6290 3.181506 CCTCGCTTTGTAATTCTGAAGGC 60.182 47.826 0.00 0.00 0.00 4.35
3280 6308 1.874019 CTCATCGTTGTCCGCCTCG 60.874 63.158 0.00 0.00 36.19 4.63
3285 6313 0.171231 TCTGCTCTCATCGTTGTCCG 59.829 55.000 0.00 0.00 38.13 4.79
3287 6315 3.321497 AGTTTCTGCTCTCATCGTTGTC 58.679 45.455 0.00 0.00 0.00 3.18
3288 6316 3.393089 AGTTTCTGCTCTCATCGTTGT 57.607 42.857 0.00 0.00 0.00 3.32
3289 6317 6.414408 AAATAGTTTCTGCTCTCATCGTTG 57.586 37.500 0.00 0.00 0.00 4.10
3290 6318 7.066374 GAAAATAGTTTCTGCTCTCATCGTT 57.934 36.000 8.36 0.00 40.11 3.85
3317 7525 5.068987 TGGACTTAAATATGCAGGGCAAATC 59.931 40.000 0.00 0.00 43.62 2.17
3339 9653 4.524328 AGCAAAGTACAAAGAAAGGGATGG 59.476 41.667 0.00 0.00 0.00 3.51
3376 9690 2.608261 CGGCTTTTATTGTTTCGCCCAA 60.608 45.455 0.00 0.00 34.14 4.12
3377 9691 1.068194 CGGCTTTTATTGTTTCGCCCA 60.068 47.619 0.00 0.00 34.14 5.36
3378 9692 1.624487 CGGCTTTTATTGTTTCGCCC 58.376 50.000 0.00 0.00 34.14 6.13
3379 9693 0.989164 GCGGCTTTTATTGTTTCGCC 59.011 50.000 0.00 0.00 36.35 5.54
3380 9694 0.633235 CGCGGCTTTTATTGTTTCGC 59.367 50.000 0.00 0.00 38.56 4.70
3381 9695 2.235238 TCGCGGCTTTTATTGTTTCG 57.765 45.000 6.13 0.00 0.00 3.46
3382 9696 3.301706 TGTTCGCGGCTTTTATTGTTTC 58.698 40.909 6.13 0.00 0.00 2.78
3383 9697 3.357166 TGTTCGCGGCTTTTATTGTTT 57.643 38.095 6.13 0.00 0.00 2.83
3384 9698 3.057876 TCATGTTCGCGGCTTTTATTGTT 60.058 39.130 6.13 0.00 0.00 2.83
3385 9699 2.486203 TCATGTTCGCGGCTTTTATTGT 59.514 40.909 6.13 0.00 0.00 2.71
3386 9700 3.129852 TCATGTTCGCGGCTTTTATTG 57.870 42.857 6.13 0.00 0.00 1.90
3387 9701 3.057876 TGTTCATGTTCGCGGCTTTTATT 60.058 39.130 6.13 0.00 0.00 1.40
3388 9702 2.486203 TGTTCATGTTCGCGGCTTTTAT 59.514 40.909 6.13 0.00 0.00 1.40
3389 9703 1.874231 TGTTCATGTTCGCGGCTTTTA 59.126 42.857 6.13 0.00 0.00 1.52
3390 9704 0.665835 TGTTCATGTTCGCGGCTTTT 59.334 45.000 6.13 0.00 0.00 2.27
3391 9705 0.881118 ATGTTCATGTTCGCGGCTTT 59.119 45.000 6.13 0.00 0.00 3.51
3392 9706 0.447801 GATGTTCATGTTCGCGGCTT 59.552 50.000 6.13 0.00 0.00 4.35
3393 9707 0.673333 TGATGTTCATGTTCGCGGCT 60.673 50.000 6.13 0.00 0.00 5.52
3394 9708 0.521242 GTGATGTTCATGTTCGCGGC 60.521 55.000 6.13 0.00 0.00 6.53
3395 9709 0.795698 TGTGATGTTCATGTTCGCGG 59.204 50.000 6.13 0.00 0.00 6.46
3396 9710 2.811902 ATGTGATGTTCATGTTCGCG 57.188 45.000 0.00 0.00 0.00 5.87
3397 9711 5.827568 AAAAATGTGATGTTCATGTTCGC 57.172 34.783 0.00 0.00 0.00 4.70
3416 9730 2.703007 CCCCCACAGTTGAATGGAAAAA 59.297 45.455 0.00 0.00 38.34 1.94
3417 9731 2.091055 TCCCCCACAGTTGAATGGAAAA 60.091 45.455 0.00 0.00 38.34 2.29
3418 9732 1.501170 TCCCCCACAGTTGAATGGAAA 59.499 47.619 0.00 0.00 38.34 3.13
3419 9733 1.153539 TCCCCCACAGTTGAATGGAA 58.846 50.000 0.00 0.00 38.34 3.53
3420 9734 1.153539 TTCCCCCACAGTTGAATGGA 58.846 50.000 0.00 0.00 38.34 3.41
3421 9735 1.618343 GTTTCCCCCACAGTTGAATGG 59.382 52.381 0.00 0.00 35.59 3.16
3422 9736 2.297033 CTGTTTCCCCCACAGTTGAATG 59.703 50.000 0.00 0.00 37.47 2.67
3423 9737 2.597455 CTGTTTCCCCCACAGTTGAAT 58.403 47.619 0.00 0.00 37.47 2.57
3424 9738 2.065899 CTGTTTCCCCCACAGTTGAA 57.934 50.000 0.00 0.00 37.47 2.69
3425 9739 3.819245 CTGTTTCCCCCACAGTTGA 57.181 52.632 0.00 0.00 37.47 3.18
3429 9743 1.956477 CTTCAACTGTTTCCCCCACAG 59.044 52.381 0.00 0.00 46.18 3.66
3430 9744 2.026905 GCTTCAACTGTTTCCCCCACA 61.027 52.381 0.00 0.00 0.00 4.17
3431 9745 0.673985 GCTTCAACTGTTTCCCCCAC 59.326 55.000 0.00 0.00 0.00 4.61
3432 9746 0.260230 TGCTTCAACTGTTTCCCCCA 59.740 50.000 0.00 0.00 0.00 4.96
3433 9747 0.961753 CTGCTTCAACTGTTTCCCCC 59.038 55.000 0.00 0.00 0.00 5.40
3434 9748 1.609072 GTCTGCTTCAACTGTTTCCCC 59.391 52.381 0.00 0.00 0.00 4.81
3435 9749 2.291741 CTGTCTGCTTCAACTGTTTCCC 59.708 50.000 0.00 0.00 0.00 3.97
3436 9750 3.206150 TCTGTCTGCTTCAACTGTTTCC 58.794 45.455 0.00 0.00 0.00 3.13
3437 9751 4.122776 TCTCTGTCTGCTTCAACTGTTTC 58.877 43.478 0.00 0.00 0.00 2.78
3438 9752 4.142609 TCTCTGTCTGCTTCAACTGTTT 57.857 40.909 0.00 0.00 0.00 2.83
3439 9753 3.827008 TCTCTGTCTGCTTCAACTGTT 57.173 42.857 0.00 0.00 0.00 3.16


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

AutoCloner maintained by Alex Coulton.