Multiple sequence alignment - TraesCS2D01G324800

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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 TraesCS2D01G324800 chr2D 100.000 4357 0 0 1 4357 417623972 417628328 0.000000e+00 8046.0
1 TraesCS2D01G324800 chr2D 79.433 282 38 15 2524 2804 627974657 627974919 9.630000e-42 182.0
2 TraesCS2D01G324800 chr2D 89.928 139 14 0 1397 1535 627974056 627974194 3.460000e-41 180.0
3 TraesCS2D01G324800 chr2D 87.234 141 16 2 1396 1535 482790036 482790175 4.510000e-35 159.0
4 TraesCS2D01G324800 chr2D 86.620 142 16 3 1396 1535 636638922 636639062 2.100000e-33 154.0
5 TraesCS2D01G324800 chr2D 76.923 195 23 7 1742 1926 607597613 607597431 1.670000e-14 91.6
6 TraesCS2D01G324800 chr2B 91.694 3299 101 64 438 3668 489848289 489851482 0.000000e+00 4414.0
7 TraesCS2D01G324800 chr2B 94.722 360 17 2 3682 4039 489851468 489851827 3.810000e-155 558.0
8 TraesCS2D01G324800 chr2B 85.644 404 15 21 1 369 489847411 489847806 6.840000e-103 385.0
9 TraesCS2D01G324800 chr2B 80.919 283 36 13 2524 2806 771043822 771044086 1.590000e-49 207.0
10 TraesCS2D01G324800 chr2B 89.209 139 15 0 1397 1535 771043271 771043409 1.610000e-39 174.0
11 TraesCS2D01G324800 chr2B 96.970 99 3 0 4174 4272 489851891 489851989 2.700000e-37 167.0
12 TraesCS2D01G324800 chr2B 86.525 141 17 2 1396 1535 567034932 567035071 2.100000e-33 154.0
13 TraesCS2D01G324800 chr2B 96.154 78 3 0 4085 4162 489851829 489851906 1.270000e-25 128.0
14 TraesCS2D01G324800 chr2B 96.923 65 2 0 4264 4328 489852145 489852209 4.610000e-20 110.0
15 TraesCS2D01G324800 chr2A 86.740 3816 191 126 1 3657 572488965 572485306 0.000000e+00 3952.0
16 TraesCS2D01G324800 chr2A 92.547 483 31 4 3684 4162 572485312 572484831 0.000000e+00 688.0
17 TraesCS2D01G324800 chr2A 91.878 197 14 2 4162 4357 572484859 572484664 1.540000e-69 274.0
18 TraesCS2D01G324800 chr2A 83.539 243 17 13 3684 3913 572485627 572485395 5.710000e-49 206.0
19 TraesCS2D01G324800 chr2A 92.000 125 10 0 2524 2648 758510296 758510420 4.480000e-40 176.0
20 TraesCS2D01G324800 chr2A 88.489 139 16 0 1397 1535 758509763 758509901 7.490000e-38 169.0
21 TraesCS2D01G324800 chr2A 86.620 142 16 3 1396 1535 625243572 625243712 2.100000e-33 154.0
22 TraesCS2D01G324800 chr7A 82.749 371 25 13 1873 2229 429697679 429697334 1.180000e-75 294.0
23 TraesCS2D01G324800 chr7A 81.989 372 26 14 1873 2229 323745049 323744704 1.190000e-70 278.0
24 TraesCS2D01G324800 chr3A 81.989 372 27 14 1873 2229 182320487 182320833 3.320000e-71 279.0
25 TraesCS2D01G324800 chr6D 83.607 122 17 3 2514 2633 309719533 309719653 1.280000e-20 111.0
26 TraesCS2D01G324800 chr6B 83.607 122 17 3 2514 2633 477691807 477691927 1.280000e-20 111.0
27 TraesCS2D01G324800 chr6A 83.607 122 17 3 2514 2633 446521678 446521798 1.280000e-20 111.0
28 TraesCS2D01G324800 chr6A 97.368 38 1 0 1157 1194 109114592 109114555 1.010000e-06 65.8
29 TraesCS2D01G324800 chr4A 80.272 147 21 5 2517 2660 724782961 724783102 2.140000e-18 104.0
30 TraesCS2D01G324800 chr4A 80.899 89 15 2 1160 1247 610263016 610262929 7.820000e-08 69.4
31 TraesCS2D01G324800 chr1B 89.535 86 4 2 1723 1803 599318009 599318094 2.140000e-18 104.0
32 TraesCS2D01G324800 chr5D 82.418 91 14 2 1160 1249 557777169 557777258 1.300000e-10 78.7


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 TraesCS2D01G324800 chr2D 417623972 417628328 4356 False 8046.000000 8046 100.0000 1 4357 1 chr2D.!!$F1 4356
1 TraesCS2D01G324800 chr2B 489847411 489852209 4798 False 960.333333 4414 93.6845 1 4328 6 chr2B.!!$F2 4327
2 TraesCS2D01G324800 chr2A 572484664 572488965 4301 True 1280.000000 3952 88.6760 1 4357 4 chr2A.!!$R1 4356

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
250 281 0.380733 AGATCTTGCGTGCATGCATG 59.619 50.0 32.76 31.73 45.78 4.06 F
1064 1546 0.624254 TGGGAGCGTTAGGAGAGAGA 59.376 55.0 0.00 0.00 0.00 3.10 F
2374 2943 0.032017 ACTCCCACGCTTCCTCCTAT 60.032 55.0 0.00 0.00 0.00 2.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1730 2254 0.319555 GTGAAGACTACGGTGCAGCA 60.320 55.0 17.33 0.0 0.0 4.41 R
2995 3594 0.607489 CCCAGTTCTGGTCCTTGCAG 60.607 60.0 16.33 0.0 0.0 4.41 R
3677 4297 0.465460 GCATTAGTCCCATCCCGCAA 60.465 55.0 0.00 0.0 0.0 4.85 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
157 188 2.762875 AGCGGTGTAGGTAGCCCC 60.763 66.667 0.00 0.00 0.00 5.80
223 254 3.414700 CGCAGCCAAGGTCGTGTC 61.415 66.667 0.00 0.00 0.00 3.67
250 281 0.380733 AGATCTTGCGTGCATGCATG 59.619 50.000 32.76 31.73 45.78 4.06
277 309 7.062956 CGTTTTTCTAGGGTAAAATTTGCATCC 59.937 37.037 0.00 0.00 0.00 3.51
304 341 2.789723 GAACCGCGCGTTCGTTTG 60.790 61.111 29.95 13.89 41.51 2.93
326 363 5.561679 TGATCGATGAGGTATGCTAGTAGT 58.438 41.667 0.54 0.00 0.00 2.73
338 375 5.584253 ATGCTAGTAGTCAGTTACTGGTG 57.416 43.478 12.79 0.00 39.39 4.17
350 394 4.408921 CAGTTACTGGTGGGAGATTGGATA 59.591 45.833 4.14 0.00 0.00 2.59
362 406 1.735571 GATTGGATACGGTTTGCGTGT 59.264 47.619 0.00 0.00 42.51 4.49
541 1007 1.736612 GCAAGCAAAGAGGAGAGGAG 58.263 55.000 0.00 0.00 0.00 3.69
542 1008 1.277557 GCAAGCAAAGAGGAGAGGAGA 59.722 52.381 0.00 0.00 0.00 3.71
543 1009 2.677613 GCAAGCAAAGAGGAGAGGAGAG 60.678 54.545 0.00 0.00 0.00 3.20
544 1010 1.864669 AGCAAAGAGGAGAGGAGAGG 58.135 55.000 0.00 0.00 0.00 3.69
545 1011 1.360852 AGCAAAGAGGAGAGGAGAGGA 59.639 52.381 0.00 0.00 0.00 3.71
636 1102 4.201679 CATGGCCATGGCTGTGCG 62.202 66.667 34.31 15.91 41.60 5.34
813 1279 1.803555 CTCACACACACACACACACAA 59.196 47.619 0.00 0.00 0.00 3.33
814 1280 2.222027 TCACACACACACACACACAAA 58.778 42.857 0.00 0.00 0.00 2.83
815 1281 2.225255 TCACACACACACACACACAAAG 59.775 45.455 0.00 0.00 0.00 2.77
817 1283 1.199789 CACACACACACACACAAAGCT 59.800 47.619 0.00 0.00 0.00 3.74
818 1284 2.418280 CACACACACACACACAAAGCTA 59.582 45.455 0.00 0.00 0.00 3.32
819 1285 2.677836 ACACACACACACACAAAGCTAG 59.322 45.455 0.00 0.00 0.00 3.42
820 1286 1.670811 ACACACACACACAAAGCTAGC 59.329 47.619 6.62 6.62 0.00 3.42
876 1351 0.913205 TCGGTGCCTCTCTCTCTACT 59.087 55.000 0.00 0.00 0.00 2.57
879 1354 2.158871 CGGTGCCTCTCTCTCTACTACT 60.159 54.545 0.00 0.00 0.00 2.57
882 1357 4.383173 GTGCCTCTCTCTCTACTACTACC 58.617 52.174 0.00 0.00 0.00 3.18
966 1448 1.683917 CCAGGAAGATCTCCCGTAGTG 59.316 57.143 0.00 0.00 46.81 2.74
1014 1496 2.095008 CAGCACTCACTTAAGCGAGAGA 60.095 50.000 23.89 5.07 33.33 3.10
1062 1544 1.030488 CGTGGGAGCGTTAGGAGAGA 61.030 60.000 0.00 0.00 0.00 3.10
1063 1545 0.741915 GTGGGAGCGTTAGGAGAGAG 59.258 60.000 0.00 0.00 0.00 3.20
1064 1546 0.624254 TGGGAGCGTTAGGAGAGAGA 59.376 55.000 0.00 0.00 0.00 3.10
1065 1547 1.314730 GGGAGCGTTAGGAGAGAGAG 58.685 60.000 0.00 0.00 0.00 3.20
1066 1548 1.134037 GGGAGCGTTAGGAGAGAGAGA 60.134 57.143 0.00 0.00 0.00 3.10
1078 1560 4.078922 AGGAGAGAGAGAGAGAGAGAGAGA 60.079 50.000 0.00 0.00 0.00 3.10
1301 1791 1.108727 TGCTCTTGCACCCCAACTTG 61.109 55.000 0.00 0.00 45.31 3.16
1338 1831 2.751259 CTCCTGCATTCTGCTTTGCTAA 59.249 45.455 0.34 0.00 45.31 3.09
1339 1832 3.359033 TCCTGCATTCTGCTTTGCTAAT 58.641 40.909 0.34 0.00 45.31 1.73
1340 1833 4.525996 TCCTGCATTCTGCTTTGCTAATA 58.474 39.130 0.34 0.00 45.31 0.98
1358 1851 6.072175 TGCTAATAAGTTGCTTCGGTCATTTT 60.072 34.615 0.00 0.00 0.00 1.82
1359 1852 6.469275 GCTAATAAGTTGCTTCGGTCATTTTC 59.531 38.462 0.00 0.00 0.00 2.29
1360 1853 6.575162 AATAAGTTGCTTCGGTCATTTTCT 57.425 33.333 0.00 0.00 0.00 2.52
1361 1854 3.904136 AGTTGCTTCGGTCATTTTCTG 57.096 42.857 0.00 0.00 0.00 3.02
1362 1855 3.476552 AGTTGCTTCGGTCATTTTCTGA 58.523 40.909 0.00 0.00 0.00 3.27
1548 2046 2.927056 GGTGATCACCCATCCCCC 59.073 66.667 31.37 6.29 45.68 5.40
1562 2065 2.510906 CCCCATCATGGACCGACC 59.489 66.667 4.75 0.00 40.96 4.79
1581 2084 2.079158 CCATCCTACATATGCCGCTTG 58.921 52.381 1.58 0.00 0.00 4.01
1591 2094 4.283403 GCCGCTTGCTTTGCACCA 62.283 61.111 0.00 0.00 38.71 4.17
1593 2096 1.227205 CCGCTTGCTTTGCACCAAA 60.227 52.632 0.00 0.00 38.71 3.28
1655 2170 6.206634 TGATCTCTTTAACAATTTTGACCGCT 59.793 34.615 0.00 0.00 0.00 5.52
1656 2171 5.757886 TCTCTTTAACAATTTTGACCGCTG 58.242 37.500 0.00 0.00 0.00 5.18
1661 2176 2.858745 ACAATTTTGACCGCTGGTAGT 58.141 42.857 0.09 0.00 35.25 2.73
1662 2177 4.010667 ACAATTTTGACCGCTGGTAGTA 57.989 40.909 0.09 0.00 35.25 1.82
1663 2178 3.749609 ACAATTTTGACCGCTGGTAGTAC 59.250 43.478 0.09 0.00 35.25 2.73
1664 2179 2.068837 TTTTGACCGCTGGTAGTACG 57.931 50.000 0.09 0.00 35.25 3.67
1665 2180 0.961019 TTTGACCGCTGGTAGTACGT 59.039 50.000 0.00 0.00 35.25 3.57
1667 2182 1.086696 TGACCGCTGGTAGTACGTAC 58.913 55.000 18.10 18.10 35.25 3.67
1684 2208 2.417933 CGTACTACTAGTTGCCGACTGT 59.582 50.000 0.00 0.00 39.48 3.55
1690 2214 2.209064 TAGTTGCCGACTGTCCGAGC 62.209 60.000 1.55 3.85 39.48 5.03
1717 2241 2.821991 AGTCAAGAACACGCTAGCTT 57.178 45.000 13.93 0.00 0.00 3.74
1718 2242 3.936372 AGTCAAGAACACGCTAGCTTA 57.064 42.857 13.93 0.00 0.00 3.09
1719 2243 3.839293 AGTCAAGAACACGCTAGCTTAG 58.161 45.455 13.93 4.78 0.00 2.18
1720 2244 3.506455 AGTCAAGAACACGCTAGCTTAGA 59.494 43.478 13.93 0.00 0.00 2.10
1721 2245 3.608939 GTCAAGAACACGCTAGCTTAGAC 59.391 47.826 13.93 6.23 0.00 2.59
1722 2246 3.254903 TCAAGAACACGCTAGCTTAGACA 59.745 43.478 13.93 0.00 0.00 3.41
1723 2247 3.495670 AGAACACGCTAGCTTAGACAG 57.504 47.619 13.93 0.00 0.00 3.51
1724 2248 2.820787 AGAACACGCTAGCTTAGACAGT 59.179 45.455 13.93 0.00 0.00 3.55
1725 2249 2.638556 ACACGCTAGCTTAGACAGTG 57.361 50.000 13.93 13.43 0.00 3.66
1726 2250 2.160205 ACACGCTAGCTTAGACAGTGA 58.840 47.619 19.30 0.00 33.00 3.41
1727 2251 2.755655 ACACGCTAGCTTAGACAGTGAT 59.244 45.455 19.30 5.29 33.00 3.06
1728 2252 3.181495 ACACGCTAGCTTAGACAGTGATC 60.181 47.826 19.30 0.00 33.00 2.92
1729 2253 3.017442 ACGCTAGCTTAGACAGTGATCA 58.983 45.455 13.93 0.00 0.00 2.92
1730 2254 3.634448 ACGCTAGCTTAGACAGTGATCAT 59.366 43.478 13.93 0.00 0.00 2.45
1731 2255 3.980134 CGCTAGCTTAGACAGTGATCATG 59.020 47.826 13.93 1.05 0.00 3.07
1732 2256 3.740321 GCTAGCTTAGACAGTGATCATGC 59.260 47.826 7.70 0.00 0.00 4.06
1733 2257 4.501229 GCTAGCTTAGACAGTGATCATGCT 60.501 45.833 7.70 3.65 0.00 3.79
1734 2258 3.794717 AGCTTAGACAGTGATCATGCTG 58.205 45.455 10.88 10.88 38.58 4.41
1818 2346 2.325761 ACGAGTAAAACGTAGCTGCTG 58.674 47.619 13.43 0.00 42.17 4.41
1819 2347 1.059264 CGAGTAAAACGTAGCTGCTGC 59.941 52.381 13.43 10.46 40.05 5.25
1820 2348 2.066262 GAGTAAAACGTAGCTGCTGCA 58.934 47.619 18.42 0.88 42.74 4.41
1821 2349 2.478894 GAGTAAAACGTAGCTGCTGCAA 59.521 45.455 18.42 0.00 42.74 4.08
1822 2350 2.480419 AGTAAAACGTAGCTGCTGCAAG 59.520 45.455 18.42 10.40 42.74 4.01
1837 2365 1.737838 GCAAGCTGCATGTACTGGTA 58.262 50.000 6.74 0.00 44.26 3.25
1843 2371 2.923121 CTGCATGTACTGGTATTGGCT 58.077 47.619 0.00 0.00 0.00 4.75
1918 2451 2.348666 ACATTGTAGCTCGAATTGCGAC 59.651 45.455 0.00 2.14 45.59 5.19
1936 2469 2.593257 GACCTCACTAGCACGTACAAC 58.407 52.381 0.00 0.00 0.00 3.32
1967 2500 6.072673 CCATCACCTCTGTTTTAACTGTTACC 60.073 42.308 0.00 0.00 0.00 2.85
1968 2501 5.051816 TCACCTCTGTTTTAACTGTTACCG 58.948 41.667 0.00 0.00 0.00 4.02
1969 2502 4.812626 CACCTCTGTTTTAACTGTTACCGT 59.187 41.667 0.00 0.00 0.00 4.83
1970 2503 5.984926 CACCTCTGTTTTAACTGTTACCGTA 59.015 40.000 0.00 0.00 0.00 4.02
1971 2504 6.647895 CACCTCTGTTTTAACTGTTACCGTAT 59.352 38.462 0.00 0.00 0.00 3.06
1972 2505 6.647895 ACCTCTGTTTTAACTGTTACCGTATG 59.352 38.462 0.00 0.00 0.00 2.39
1973 2506 6.647895 CCTCTGTTTTAACTGTTACCGTATGT 59.352 38.462 0.00 0.00 0.00 2.29
1974 2507 7.814107 CCTCTGTTTTAACTGTTACCGTATGTA 59.186 37.037 0.00 0.00 0.00 2.29
1980 2513 8.915871 TTTAACTGTTACCGTATGTATGTCTC 57.084 34.615 0.00 0.00 0.00 3.36
2006 2540 2.158971 TCTGTCTTGCTGTGCAGTACAA 60.159 45.455 0.00 0.00 40.61 2.41
2012 2546 4.272504 TCTTGCTGTGCAGTACAAAACTAC 59.727 41.667 0.00 0.00 40.61 2.73
2013 2547 3.804036 TGCTGTGCAGTACAAAACTACT 58.196 40.909 0.00 0.00 39.20 2.57
2014 2548 4.951254 TGCTGTGCAGTACAAAACTACTA 58.049 39.130 0.00 0.00 39.20 1.82
2043 2577 0.761187 AGTGCTGTTCTTCTGCCTCA 59.239 50.000 0.00 0.00 39.70 3.86
2076 2613 5.404466 AAAGAGAGAGAAGTGTCCATCAG 57.596 43.478 0.00 0.00 0.00 2.90
2077 2614 4.046286 AGAGAGAGAAGTGTCCATCAGT 57.954 45.455 0.00 0.00 0.00 3.41
2078 2615 4.016444 AGAGAGAGAAGTGTCCATCAGTC 58.984 47.826 0.00 0.00 0.00 3.51
2079 2616 3.096092 AGAGAGAAGTGTCCATCAGTCC 58.904 50.000 0.00 0.00 0.00 3.85
2080 2617 2.828520 GAGAGAAGTGTCCATCAGTCCA 59.171 50.000 0.00 0.00 0.00 4.02
2081 2618 3.448934 AGAGAAGTGTCCATCAGTCCAT 58.551 45.455 0.00 0.00 0.00 3.41
2082 2619 3.450457 AGAGAAGTGTCCATCAGTCCATC 59.550 47.826 0.00 0.00 0.00 3.51
2083 2620 3.176411 AGAAGTGTCCATCAGTCCATCA 58.824 45.455 0.00 0.00 0.00 3.07
2097 2634 2.037772 GTCCATCATTCAGCCCGTAGAT 59.962 50.000 0.00 0.00 0.00 1.98
2204 2767 4.400529 TGGGAAAAAGGAGTGAAAAAGC 57.599 40.909 0.00 0.00 0.00 3.51
2290 2853 2.371841 TGTCATTTATGGATCGGGGAGG 59.628 50.000 0.00 0.00 0.00 4.30
2372 2941 1.985116 GACTCCCACGCTTCCTCCT 60.985 63.158 0.00 0.00 0.00 3.69
2373 2942 0.683504 GACTCCCACGCTTCCTCCTA 60.684 60.000 0.00 0.00 0.00 2.94
2374 2943 0.032017 ACTCCCACGCTTCCTCCTAT 60.032 55.000 0.00 0.00 0.00 2.57
2375 2944 0.676736 CTCCCACGCTTCCTCCTATC 59.323 60.000 0.00 0.00 0.00 2.08
2376 2945 0.032515 TCCCACGCTTCCTCCTATCA 60.033 55.000 0.00 0.00 0.00 2.15
2441 3031 4.689345 CGGTTACTTTTCGAGATGGTCTTT 59.311 41.667 0.00 0.00 0.00 2.52
2470 3060 1.180456 TGATGCAGTGCAGGTTTGGG 61.180 55.000 24.20 0.00 43.65 4.12
2474 3064 0.177836 GCAGTGCAGGTTTGGGTTTT 59.822 50.000 11.09 0.00 0.00 2.43
2475 3065 1.806247 GCAGTGCAGGTTTGGGTTTTC 60.806 52.381 11.09 0.00 0.00 2.29
2476 3066 1.119684 AGTGCAGGTTTGGGTTTTCC 58.880 50.000 0.00 0.00 39.75 3.13
2480 3070 1.001974 GCAGGTTTGGGTTTTCCATCC 59.998 52.381 0.00 0.00 46.52 3.51
2499 3089 5.698545 CCATCCGAGTCCTGAGATTATTTTC 59.301 44.000 0.00 0.00 0.00 2.29
2502 3094 5.053145 CCGAGTCCTGAGATTATTTTCCTG 58.947 45.833 0.00 0.00 0.00 3.86
3248 3859 2.386660 GCGCCAGAGTTCTGAGTGC 61.387 63.158 10.64 13.49 46.59 4.40
3405 4019 5.648092 GGGTTTATTATCTGACACAGTGCTT 59.352 40.000 0.00 0.00 32.61 3.91
3425 4039 2.073117 TGATTAGACGTGCGAGCAAA 57.927 45.000 0.00 0.00 0.00 3.68
3600 4220 7.807977 ATCCACTTTCATCAACCATATACAC 57.192 36.000 0.00 0.00 0.00 2.90
3601 4221 6.716284 TCCACTTTCATCAACCATATACACA 58.284 36.000 0.00 0.00 0.00 3.72
3602 4222 6.823182 TCCACTTTCATCAACCATATACACAG 59.177 38.462 0.00 0.00 0.00 3.66
3603 4223 6.599244 CCACTTTCATCAACCATATACACAGT 59.401 38.462 0.00 0.00 0.00 3.55
3604 4224 7.201644 CCACTTTCATCAACCATATACACAGTC 60.202 40.741 0.00 0.00 0.00 3.51
3653 4273 4.673441 ACCGTCGACTTCTGAATAAGATG 58.327 43.478 14.70 0.00 33.93 2.90
3654 4274 4.045104 CCGTCGACTTCTGAATAAGATGG 58.955 47.826 14.70 10.72 34.97 3.51
3655 4275 4.045104 CGTCGACTTCTGAATAAGATGGG 58.955 47.826 14.70 0.00 34.97 4.00
3656 4276 4.202020 CGTCGACTTCTGAATAAGATGGGA 60.202 45.833 14.70 0.00 34.97 4.37
3657 4277 5.508153 CGTCGACTTCTGAATAAGATGGGAT 60.508 44.000 14.70 0.00 34.97 3.85
3658 4278 5.694006 GTCGACTTCTGAATAAGATGGGATG 59.306 44.000 8.70 0.00 34.97 3.51
3659 4279 4.993584 CGACTTCTGAATAAGATGGGATGG 59.006 45.833 0.00 0.00 34.97 3.51
3660 4280 5.312079 GACTTCTGAATAAGATGGGATGGG 58.688 45.833 0.00 0.00 34.97 4.00
3661 4281 4.977739 ACTTCTGAATAAGATGGGATGGGA 59.022 41.667 0.00 0.00 34.97 4.37
3662 4282 4.982241 TCTGAATAAGATGGGATGGGAC 57.018 45.455 0.00 0.00 0.00 4.46
3663 4283 4.570926 TCTGAATAAGATGGGATGGGACT 58.429 43.478 0.00 0.00 0.00 3.85
3664 4284 5.726560 TCTGAATAAGATGGGATGGGACTA 58.273 41.667 0.00 0.00 0.00 2.59
3665 4285 6.150332 TCTGAATAAGATGGGATGGGACTAA 58.850 40.000 0.00 0.00 0.00 2.24
3666 4286 6.794493 TCTGAATAAGATGGGATGGGACTAAT 59.206 38.462 0.00 0.00 0.00 1.73
3667 4287 6.782986 TGAATAAGATGGGATGGGACTAATG 58.217 40.000 0.00 0.00 0.00 1.90
3668 4288 6.332635 TGAATAAGATGGGATGGGACTAATGT 59.667 38.462 0.00 0.00 0.00 2.71
3669 4289 6.786843 ATAAGATGGGATGGGACTAATGTT 57.213 37.500 0.00 0.00 0.00 2.71
3670 4290 5.472301 AAGATGGGATGGGACTAATGTTT 57.528 39.130 0.00 0.00 0.00 2.83
3671 4291 5.472301 AGATGGGATGGGACTAATGTTTT 57.528 39.130 0.00 0.00 0.00 2.43
3672 4292 5.842339 AGATGGGATGGGACTAATGTTTTT 58.158 37.500 0.00 0.00 0.00 1.94
3711 4333 7.287466 TGGGACTAATGCTAGTAACGGTTAATA 59.713 37.037 1.47 5.05 38.55 0.98
3777 4399 2.814336 AGCAAGAAGGTTTTGTCGATCC 59.186 45.455 0.00 0.00 0.00 3.36
3909 4532 7.907214 ATGCCGATAATTTATCTACTTGACC 57.093 36.000 13.19 0.00 33.01 4.02
3912 4535 7.936847 TGCCGATAATTTATCTACTTGACCATT 59.063 33.333 13.19 0.00 33.01 3.16
3951 4575 5.408204 TCTGCAATGTAATGAAGCATACG 57.592 39.130 0.00 0.00 34.35 3.06
3981 4605 6.439636 TTCCATCCTTCAGGTTATATGAGG 57.560 41.667 0.00 0.00 36.34 3.86
4066 4690 4.379302 AAGGAAGATAATCCATGGCCTC 57.621 45.455 6.96 0.66 42.27 4.70
4083 4707 4.081087 TGGCCTCTACATCCAAAGACTTAC 60.081 45.833 3.32 0.00 0.00 2.34
4156 4780 6.994868 TTTTGTATCATGTAAACCGCAAAC 57.005 33.333 0.00 0.00 0.00 2.93
4157 4781 4.688511 TGTATCATGTAAACCGCAAACC 57.311 40.909 0.00 0.00 0.00 3.27
4158 4782 4.072839 TGTATCATGTAAACCGCAAACCA 58.927 39.130 0.00 0.00 0.00 3.67
4159 4783 4.519350 TGTATCATGTAAACCGCAAACCAA 59.481 37.500 0.00 0.00 0.00 3.67
4160 4784 3.357166 TCATGTAAACCGCAAACCAAC 57.643 42.857 0.00 0.00 0.00 3.77
4161 4785 2.952978 TCATGTAAACCGCAAACCAACT 59.047 40.909 0.00 0.00 0.00 3.16
4162 4786 3.381908 TCATGTAAACCGCAAACCAACTT 59.618 39.130 0.00 0.00 0.00 2.66
4163 4787 3.870633 TGTAAACCGCAAACCAACTTT 57.129 38.095 0.00 0.00 0.00 2.66
4164 4788 4.189639 TGTAAACCGCAAACCAACTTTT 57.810 36.364 0.00 0.00 0.00 2.27
4165 4789 4.566987 TGTAAACCGCAAACCAACTTTTT 58.433 34.783 0.00 0.00 0.00 1.94
4166 4790 5.717119 TGTAAACCGCAAACCAACTTTTTA 58.283 33.333 0.00 0.00 0.00 1.52
4167 4791 6.338937 TGTAAACCGCAAACCAACTTTTTAT 58.661 32.000 0.00 0.00 0.00 1.40
4168 4792 5.977171 AAACCGCAAACCAACTTTTTATC 57.023 34.783 0.00 0.00 0.00 1.75
4169 4793 4.929819 ACCGCAAACCAACTTTTTATCT 57.070 36.364 0.00 0.00 0.00 1.98
4170 4794 6.394025 AACCGCAAACCAACTTTTTATCTA 57.606 33.333 0.00 0.00 0.00 1.98
4171 4795 6.394025 ACCGCAAACCAACTTTTTATCTAA 57.606 33.333 0.00 0.00 0.00 2.10
4172 4796 6.807789 ACCGCAAACCAACTTTTTATCTAAA 58.192 32.000 0.00 0.00 0.00 1.85
4173 4797 7.266400 ACCGCAAACCAACTTTTTATCTAAAA 58.734 30.769 0.00 0.00 34.64 1.52
4174 4798 7.764901 ACCGCAAACCAACTTTTTATCTAAAAA 59.235 29.630 7.44 7.44 41.36 1.94
4344 5132 0.597072 GGATCGGACGGTCTGGATAC 59.403 60.000 16.54 11.97 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
216 247 3.851976 AGATCTAACTGGTGACACGAC 57.148 47.619 0.00 0.00 35.60 4.34
217 248 3.614150 GCAAGATCTAACTGGTGACACGA 60.614 47.826 0.00 0.00 35.60 4.35
220 251 2.299013 ACGCAAGATCTAACTGGTGACA 59.701 45.455 0.00 0.00 43.62 3.58
221 252 2.668457 CACGCAAGATCTAACTGGTGAC 59.332 50.000 0.00 0.00 43.62 3.67
222 253 2.930887 GCACGCAAGATCTAACTGGTGA 60.931 50.000 13.96 0.00 43.62 4.02
223 254 1.394917 GCACGCAAGATCTAACTGGTG 59.605 52.381 0.00 3.31 43.62 4.17
250 281 5.692654 TGCAAATTTTACCCTAGAAAAACGC 59.307 36.000 0.00 1.28 30.03 4.84
288 320 2.488852 GATCAAACGAACGCGCGGTT 62.489 55.000 35.22 24.59 42.78 4.44
290 322 2.275812 GATCAAACGAACGCGCGG 60.276 61.111 35.22 19.11 42.48 6.46
292 324 0.914996 CATCGATCAAACGAACGCGC 60.915 55.000 5.73 0.00 45.16 6.86
293 325 0.638242 TCATCGATCAAACGAACGCG 59.362 50.000 3.53 3.53 45.16 6.01
304 341 5.644206 TGACTACTAGCATACCTCATCGATC 59.356 44.000 0.00 0.00 0.00 3.69
326 363 2.571653 CCAATCTCCCACCAGTAACTGA 59.428 50.000 0.00 0.00 32.44 3.41
338 375 1.947456 GCAAACCGTATCCAATCTCCC 59.053 52.381 0.00 0.00 0.00 4.30
381 425 2.351726 GCCGCGAGACACTATTTTCATT 59.648 45.455 8.23 0.00 0.00 2.57
559 1025 3.131396 GTGCATTTAATCGGATCGGAGT 58.869 45.455 9.03 8.68 0.00 3.85
636 1102 4.313675 GGATTTCGCGGCGATGGC 62.314 66.667 26.95 16.76 35.23 4.40
637 1103 3.649986 GGGATTTCGCGGCGATGG 61.650 66.667 26.95 0.00 35.23 3.51
638 1104 3.649986 GGGGATTTCGCGGCGATG 61.650 66.667 26.95 1.10 35.23 3.84
813 1279 1.449246 CTGGCTCGCTTGCTAGCTT 60.449 57.895 17.23 0.00 45.51 3.74
814 1280 2.186384 CTGGCTCGCTTGCTAGCT 59.814 61.111 17.23 0.00 45.51 3.32
817 1283 3.705289 TGGCTGGCTCGCTTGCTA 61.705 61.111 2.00 0.00 0.00 3.49
820 1286 3.730761 GTGTGGCTGGCTCGCTTG 61.731 66.667 9.23 0.00 0.00 4.01
825 1291 3.360340 GTGCAGTGTGGCTGGCTC 61.360 66.667 2.00 0.00 45.14 4.70
876 1351 3.348119 CAGTGAGCAGAGAGTGGTAGTA 58.652 50.000 0.00 0.00 36.87 1.82
879 1354 1.550327 CCAGTGAGCAGAGAGTGGTA 58.450 55.000 0.00 0.00 36.87 3.25
882 1357 1.670015 TGCCAGTGAGCAGAGAGTG 59.330 57.895 2.57 0.00 38.00 3.51
966 1448 1.332997 CTGGCCTGATCAAGCGAATTC 59.667 52.381 10.13 0.00 0.00 2.17
1014 1496 1.996291 CCTCCCCCTTTTCTTCCTCTT 59.004 52.381 0.00 0.00 0.00 2.85
1062 1544 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1063 1545 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1064 1546 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1065 1547 5.136828 TCTCTCTCTCTCTCTCTCTCTCTC 58.863 50.000 0.00 0.00 0.00 3.20
1066 1548 5.103728 TCTCTCTCTCTCTCTCTCTCTCTCT 60.104 48.000 0.00 0.00 0.00 3.10
1078 1560 2.094675 GCACAAGCTCTCTCTCTCTCT 58.905 52.381 0.00 0.00 37.91 3.10
1265 1750 2.827921 GAGCAAATTGATGAGGTTGGGT 59.172 45.455 0.00 0.00 0.00 4.51
1338 1831 5.705441 TCAGAAAATGACCGAAGCAACTTAT 59.295 36.000 0.00 0.00 31.12 1.73
1339 1832 5.060506 TCAGAAAATGACCGAAGCAACTTA 58.939 37.500 0.00 0.00 31.12 2.24
1340 1833 3.882888 TCAGAAAATGACCGAAGCAACTT 59.117 39.130 0.00 0.00 31.12 2.66
1358 1851 4.395854 CCCGTTTTCATCATTCATGTCAGA 59.604 41.667 0.00 0.00 33.66 3.27
1359 1852 4.439153 CCCCGTTTTCATCATTCATGTCAG 60.439 45.833 0.00 0.00 33.66 3.51
1360 1853 3.443329 CCCCGTTTTCATCATTCATGTCA 59.557 43.478 0.00 0.00 33.66 3.58
1361 1854 3.734902 GCCCCGTTTTCATCATTCATGTC 60.735 47.826 0.00 0.00 33.66 3.06
1362 1855 2.166254 GCCCCGTTTTCATCATTCATGT 59.834 45.455 0.00 0.00 33.66 3.21
1363 1856 2.795681 CGCCCCGTTTTCATCATTCATG 60.796 50.000 0.00 0.00 0.00 3.07
1364 1857 1.405105 CGCCCCGTTTTCATCATTCAT 59.595 47.619 0.00 0.00 0.00 2.57
1365 1858 0.808125 CGCCCCGTTTTCATCATTCA 59.192 50.000 0.00 0.00 0.00 2.57
1366 1859 0.808755 ACGCCCCGTTTTCATCATTC 59.191 50.000 0.00 0.00 36.35 2.67
1367 1860 0.525761 CACGCCCCGTTTTCATCATT 59.474 50.000 0.00 0.00 38.32 2.57
1562 2065 1.466167 GCAAGCGGCATATGTAGGATG 59.534 52.381 1.45 0.62 43.97 3.51
1563 2066 1.813513 GCAAGCGGCATATGTAGGAT 58.186 50.000 1.45 0.00 43.97 3.24
1581 2084 2.892374 AGTGAACTTTTGGTGCAAAGC 58.108 42.857 0.00 0.00 34.83 3.51
1591 2094 6.715347 AGGCAGTGAATTAAGTGAACTTTT 57.285 33.333 1.36 0.00 37.40 2.27
1593 2096 8.409358 AATTAGGCAGTGAATTAAGTGAACTT 57.591 30.769 1.36 0.71 39.85 2.66
1639 2142 4.391155 ACTACCAGCGGTCAAAATTGTTA 58.609 39.130 3.45 0.00 37.09 2.41
1661 2176 3.618594 CAGTCGGCAACTAGTAGTACGTA 59.381 47.826 16.54 0.00 36.07 3.57
1662 2177 2.417933 CAGTCGGCAACTAGTAGTACGT 59.582 50.000 16.54 0.00 36.07 3.57
1663 2178 2.417933 ACAGTCGGCAACTAGTAGTACG 59.582 50.000 2.50 9.13 36.07 3.67
1664 2179 3.181502 GGACAGTCGGCAACTAGTAGTAC 60.182 52.174 2.50 0.00 36.07 2.73
1665 2180 3.012518 GGACAGTCGGCAACTAGTAGTA 58.987 50.000 2.50 0.00 36.07 1.82
1667 2182 1.202154 CGGACAGTCGGCAACTAGTAG 60.202 57.143 0.00 0.00 36.07 2.57
1671 2186 1.880894 CTCGGACAGTCGGCAACTA 59.119 57.895 3.19 0.00 36.07 2.24
1672 2187 2.651361 CTCGGACAGTCGGCAACT 59.349 61.111 3.19 0.00 39.44 3.16
1674 2189 4.373116 GGCTCGGACAGTCGGCAA 62.373 66.667 3.19 0.00 0.00 4.52
1690 2214 0.605589 GTGTTCTTGACTTCCCCGGG 60.606 60.000 15.80 15.80 0.00 5.73
1717 2241 2.419159 GGTGCAGCATGATCACTGTCTA 60.419 50.000 11.86 0.93 39.69 2.59
1718 2242 1.678123 GGTGCAGCATGATCACTGTCT 60.678 52.381 11.86 6.00 39.69 3.41
1719 2243 0.731417 GGTGCAGCATGATCACTGTC 59.269 55.000 11.86 7.60 39.69 3.51
1720 2244 1.022982 CGGTGCAGCATGATCACTGT 61.023 55.000 17.33 0.00 39.69 3.55
1721 2245 1.022982 ACGGTGCAGCATGATCACTG 61.023 55.000 17.33 16.01 40.09 3.66
1722 2246 0.536724 TACGGTGCAGCATGATCACT 59.463 50.000 17.33 0.00 39.69 3.41
1723 2247 0.933097 CTACGGTGCAGCATGATCAC 59.067 55.000 17.33 0.66 39.69 3.06
1724 2248 0.536724 ACTACGGTGCAGCATGATCA 59.463 50.000 17.33 0.00 39.69 2.92
1725 2249 1.202463 AGACTACGGTGCAGCATGATC 60.202 52.381 17.33 7.82 39.69 2.92
1726 2250 0.826715 AGACTACGGTGCAGCATGAT 59.173 50.000 17.33 0.00 39.69 2.45
1727 2251 0.608130 AAGACTACGGTGCAGCATGA 59.392 50.000 17.33 0.00 39.69 3.07
1728 2252 1.002366 GAAGACTACGGTGCAGCATG 58.998 55.000 17.33 7.43 40.87 4.06
1729 2253 0.608130 TGAAGACTACGGTGCAGCAT 59.392 50.000 17.33 2.38 0.00 3.79
1730 2254 0.319555 GTGAAGACTACGGTGCAGCA 60.320 55.000 17.33 0.00 0.00 4.41
1731 2255 0.319555 TGTGAAGACTACGGTGCAGC 60.320 55.000 5.64 5.64 0.00 5.25
1732 2256 1.269569 TGTGTGAAGACTACGGTGCAG 60.270 52.381 0.00 0.00 0.00 4.41
1733 2257 0.747852 TGTGTGAAGACTACGGTGCA 59.252 50.000 0.00 0.00 0.00 4.57
1734 2258 2.080286 ATGTGTGAAGACTACGGTGC 57.920 50.000 0.00 0.00 0.00 5.01
1775 2303 0.324368 TCACGGCTCTCCCAGTGTAT 60.324 55.000 0.00 0.00 38.45 2.29
1818 2346 1.737838 TACCAGTACATGCAGCTTGC 58.262 50.000 8.19 1.70 45.29 4.01
1819 2347 3.065786 CCAATACCAGTACATGCAGCTTG 59.934 47.826 6.74 6.74 0.00 4.01
1820 2348 3.282021 CCAATACCAGTACATGCAGCTT 58.718 45.455 0.00 0.00 0.00 3.74
1821 2349 2.923121 CCAATACCAGTACATGCAGCT 58.077 47.619 0.00 0.00 0.00 4.24
1822 2350 1.334869 GCCAATACCAGTACATGCAGC 59.665 52.381 0.00 0.00 0.00 5.25
1823 2351 2.615447 CAGCCAATACCAGTACATGCAG 59.385 50.000 0.00 0.00 0.00 4.41
1824 2352 2.238395 TCAGCCAATACCAGTACATGCA 59.762 45.455 0.00 0.00 0.00 3.96
1837 2365 2.189833 TCGCTACGACTCAGCCAAT 58.810 52.632 0.00 0.00 35.53 3.16
1918 2451 2.325761 GTGTTGTACGTGCTAGTGAGG 58.674 52.381 4.97 0.00 0.00 3.86
1936 2469 2.276732 AACAGAGGTGATGGTTGGTG 57.723 50.000 0.00 0.00 0.00 4.17
1967 2500 5.525745 AGACAGACAGAGAGACATACATACG 59.474 44.000 0.00 0.00 0.00 3.06
1968 2501 6.935741 AGACAGACAGAGAGACATACATAC 57.064 41.667 0.00 0.00 0.00 2.39
1969 2502 6.183360 GCAAGACAGACAGAGAGACATACATA 60.183 42.308 0.00 0.00 0.00 2.29
1970 2503 5.394005 GCAAGACAGACAGAGAGACATACAT 60.394 44.000 0.00 0.00 0.00 2.29
1971 2504 4.082517 GCAAGACAGACAGAGAGACATACA 60.083 45.833 0.00 0.00 0.00 2.29
1972 2505 4.157656 AGCAAGACAGACAGAGAGACATAC 59.842 45.833 0.00 0.00 0.00 2.39
1973 2506 4.157472 CAGCAAGACAGACAGAGAGACATA 59.843 45.833 0.00 0.00 0.00 2.29
1974 2507 3.056678 CAGCAAGACAGACAGAGAGACAT 60.057 47.826 0.00 0.00 0.00 3.06
1980 2513 1.146637 GCACAGCAAGACAGACAGAG 58.853 55.000 0.00 0.00 0.00 3.35
2012 2546 6.540914 AGAAGAACAGCACTACTACTAGCTAG 59.459 42.308 19.44 19.44 35.19 3.42
2013 2547 6.316640 CAGAAGAACAGCACTACTACTAGCTA 59.683 42.308 0.00 0.00 35.19 3.32
2014 2548 5.124776 CAGAAGAACAGCACTACTACTAGCT 59.875 44.000 0.00 0.00 37.95 3.32
2043 2577 9.084533 ACACTTCTCTCTCTTTTTCTACAGTAT 57.915 33.333 0.00 0.00 0.00 2.12
2076 2613 1.412710 TCTACGGGCTGAATGATGGAC 59.587 52.381 0.00 0.00 0.00 4.02
2077 2614 1.788229 TCTACGGGCTGAATGATGGA 58.212 50.000 0.00 0.00 0.00 3.41
2078 2615 2.037641 TGATCTACGGGCTGAATGATGG 59.962 50.000 0.00 0.00 0.00 3.51
2079 2616 3.391506 TGATCTACGGGCTGAATGATG 57.608 47.619 0.00 0.00 0.00 3.07
2080 2617 3.389329 AGTTGATCTACGGGCTGAATGAT 59.611 43.478 0.00 0.04 0.00 2.45
2081 2618 2.766263 AGTTGATCTACGGGCTGAATGA 59.234 45.455 0.00 0.00 0.00 2.57
2082 2619 3.185246 AGTTGATCTACGGGCTGAATG 57.815 47.619 0.00 0.00 0.00 2.67
2083 2620 4.800914 GCATAGTTGATCTACGGGCTGAAT 60.801 45.833 0.00 0.00 0.00 2.57
2097 2634 5.151297 TCTCACTGTTCATGCATAGTTGA 57.849 39.130 0.00 0.00 0.00 3.18
2146 2685 8.190122 TGCATTGATTGATTGATTAACCAGTAC 58.810 33.333 0.00 0.00 0.00 2.73
2147 2686 8.190122 GTGCATTGATTGATTGATTAACCAGTA 58.810 33.333 0.00 0.00 0.00 2.74
2148 2687 7.037438 GTGCATTGATTGATTGATTAACCAGT 58.963 34.615 0.00 0.00 0.00 4.00
2149 2688 6.197655 CGTGCATTGATTGATTGATTAACCAG 59.802 38.462 0.00 0.00 0.00 4.00
2150 2689 6.035217 CGTGCATTGATTGATTGATTAACCA 58.965 36.000 0.00 0.00 0.00 3.67
2290 2853 4.832608 GTCCACGACGATGGGGGC 62.833 72.222 0.00 0.00 40.49 5.80
2372 2941 4.161001 ACGGCAGAGATGCATGATATGATA 59.839 41.667 2.46 0.00 36.33 2.15
2373 2942 3.055312 ACGGCAGAGATGCATGATATGAT 60.055 43.478 2.46 0.00 36.33 2.45
2374 2943 2.301009 ACGGCAGAGATGCATGATATGA 59.699 45.455 2.46 0.00 36.33 2.15
2375 2944 2.671888 GACGGCAGAGATGCATGATATG 59.328 50.000 2.46 0.81 36.33 1.78
2376 2945 2.354503 GGACGGCAGAGATGCATGATAT 60.355 50.000 2.46 0.00 36.33 1.63
2397 2966 2.184830 CGAGTGGGCATGGCATCAG 61.185 63.158 22.06 4.18 0.00 2.90
2398 2967 2.124612 CGAGTGGGCATGGCATCA 60.125 61.111 22.06 7.90 0.00 3.07
2441 3031 4.558178 CTGCACTGCATCATGGTTAAAAA 58.442 39.130 3.64 0.00 38.13 1.94
2458 3048 0.827368 TGGAAAACCCAAACCTGCAC 59.173 50.000 0.00 0.00 43.29 4.57
2470 3060 2.233922 TCTCAGGACTCGGATGGAAAAC 59.766 50.000 0.00 0.00 0.00 2.43
2474 3064 2.461300 AATCTCAGGACTCGGATGGA 57.539 50.000 0.00 0.00 0.00 3.41
2475 3065 4.881019 AATAATCTCAGGACTCGGATGG 57.119 45.455 0.00 0.00 0.00 3.51
2476 3066 5.698545 GGAAAATAATCTCAGGACTCGGATG 59.301 44.000 0.00 0.00 0.00 3.51
2480 3070 5.053145 CCAGGAAAATAATCTCAGGACTCG 58.947 45.833 0.00 0.00 0.00 4.18
2502 3094 4.796231 ACACAGACGCCGATCGCC 62.796 66.667 10.32 0.00 43.23 5.54
2995 3594 0.607489 CCCAGTTCTGGTCCTTGCAG 60.607 60.000 16.33 0.00 0.00 4.41
3248 3859 2.104859 CATGTGCAGAGGTCGCCAG 61.105 63.158 0.00 0.00 0.00 4.85
3288 3899 3.660571 TCATGTGCCTGGTGGGGG 61.661 66.667 0.00 0.00 35.12 5.40
3405 4019 2.073117 TTGCTCGCACGTCTAATCAA 57.927 45.000 0.00 0.00 0.00 2.57
3425 4039 5.501156 AGCTCCAAGATCGATAAAACCTTT 58.499 37.500 0.00 0.00 0.00 3.11
3510 4124 5.967088 TCGAAGAAGAAGAAGAAATCCGAT 58.033 37.500 0.00 0.00 0.00 4.18
3600 4220 1.069906 GCAAGTTGGTTAGCGTGACTG 60.070 52.381 4.75 0.00 0.00 3.51
3601 4221 1.202651 AGCAAGTTGGTTAGCGTGACT 60.203 47.619 0.63 0.00 0.00 3.41
3602 4222 1.226746 AGCAAGTTGGTTAGCGTGAC 58.773 50.000 0.63 0.00 0.00 3.67
3603 4223 2.823924 TAGCAAGTTGGTTAGCGTGA 57.176 45.000 13.62 0.00 0.00 4.35
3604 4224 2.095853 CCATAGCAAGTTGGTTAGCGTG 59.904 50.000 13.62 5.26 0.00 5.34
3674 4294 2.588464 TTAGTCCCATCCCGCAAAAA 57.412 45.000 0.00 0.00 0.00 1.94
3675 4295 2.374184 CATTAGTCCCATCCCGCAAAA 58.626 47.619 0.00 0.00 0.00 2.44
3676 4296 2.021723 GCATTAGTCCCATCCCGCAAA 61.022 52.381 0.00 0.00 0.00 3.68
3677 4297 0.465460 GCATTAGTCCCATCCCGCAA 60.465 55.000 0.00 0.00 0.00 4.85
3678 4298 1.148273 GCATTAGTCCCATCCCGCA 59.852 57.895 0.00 0.00 0.00 5.69
3679 4299 0.685097 TAGCATTAGTCCCATCCCGC 59.315 55.000 0.00 0.00 0.00 6.13
3680 4300 1.971357 ACTAGCATTAGTCCCATCCCG 59.029 52.381 0.00 0.00 35.13 5.14
3711 4333 3.244422 TGTCAGATAAACCCAAGAACGCT 60.244 43.478 0.00 0.00 0.00 5.07
3777 4399 1.602888 AGCAGGCAACAAGCTCCAG 60.603 57.895 0.00 0.00 45.55 3.86
3909 4532 9.720667 TTGCAGAACAAGATAATTTATCGAATG 57.279 29.630 10.08 12.13 40.12 2.67
3912 4535 8.892723 ACATTGCAGAACAAGATAATTTATCGA 58.107 29.630 10.08 0.00 42.87 3.59
3927 4550 5.678483 CGTATGCTTCATTACATTGCAGAAC 59.322 40.000 0.00 0.00 37.07 3.01
3951 4575 1.821136 CCTGAAGGATGGAAAACTGCC 59.179 52.381 0.00 0.00 37.39 4.85
3981 4605 1.059913 CTATCACCATCCCCACCTCC 58.940 60.000 0.00 0.00 0.00 4.30
4056 4680 1.891933 TTGGATGTAGAGGCCATGGA 58.108 50.000 18.40 0.00 0.00 3.41
4060 4684 2.551270 AGTCTTTGGATGTAGAGGCCA 58.449 47.619 5.01 0.00 0.00 5.36
4083 4707 8.246871 TGAACACAAGTCTAGTGATATCTCAAG 58.753 37.037 3.98 0.00 40.16 3.02
4100 4724 7.316544 ACAACTAAGTACCTTTGAACACAAG 57.683 36.000 0.00 0.00 0.00 3.16
4171 4795 4.045783 CGATTAGTTGGTTTGCGGTTTTT 58.954 39.130 0.00 0.00 0.00 1.94
4172 4796 3.315749 TCGATTAGTTGGTTTGCGGTTTT 59.684 39.130 0.00 0.00 0.00 2.43
4173 4797 2.879646 TCGATTAGTTGGTTTGCGGTTT 59.120 40.909 0.00 0.00 0.00 3.27
4174 4798 2.496111 TCGATTAGTTGGTTTGCGGTT 58.504 42.857 0.00 0.00 0.00 4.44
4175 4799 2.172851 TCGATTAGTTGGTTTGCGGT 57.827 45.000 0.00 0.00 0.00 5.68
4176 4800 2.482721 ACTTCGATTAGTTGGTTTGCGG 59.517 45.455 0.00 0.00 0.00 5.69
4177 4801 3.806316 ACTTCGATTAGTTGGTTTGCG 57.194 42.857 0.00 0.00 0.00 4.85
4178 4802 5.511729 GCATTACTTCGATTAGTTGGTTTGC 59.488 40.000 0.00 0.00 0.00 3.68
4179 4803 6.842163 AGCATTACTTCGATTAGTTGGTTTG 58.158 36.000 0.00 0.00 0.00 2.93
4180 4804 7.305474 CAAGCATTACTTCGATTAGTTGGTTT 58.695 34.615 4.44 0.00 36.04 3.27
4181 4805 6.128007 CCAAGCATTACTTCGATTAGTTGGTT 60.128 38.462 0.00 0.00 36.04 3.67
4182 4806 5.354234 CCAAGCATTACTTCGATTAGTTGGT 59.646 40.000 0.00 0.00 36.04 3.67


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

AutoCloner maintained by Alex Coulton.