Multiple sequence alignment - TraesCS3A01G244100

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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 TraesCS3A01G244100 chr3A 100.000 6401 0 0 1 6401 457466620 457460220 0.000000e+00 11821.0
1 TraesCS3A01G244100 chr3A 96.552 58 1 1 1371 1427 465536525 465536582 1.900000e-15 95.3
2 TraesCS3A01G244100 chr3A 93.651 63 1 3 1371 1430 449129554 449129492 2.460000e-14 91.6
3 TraesCS3A01G244100 chr3D 95.953 2743 85 11 3676 6401 346358306 346361039 0.000000e+00 4427.0
4 TraesCS3A01G244100 chr3D 95.092 2282 71 16 1429 3682 346355999 346358267 0.000000e+00 3555.0
5 TraesCS3A01G244100 chr3D 87.618 1163 72 30 2 1144 346354444 346355554 0.000000e+00 1284.0
6 TraesCS3A01G244100 chr3D 93.939 198 11 1 1174 1371 346355817 346356013 1.350000e-76 298.0
7 TraesCS3A01G244100 chr3D 100.000 34 0 0 5440 5473 346359893 346359926 5.360000e-06 63.9
8 TraesCS3A01G244100 chr3B 95.234 2224 98 6 3682 5903 445605742 445607959 0.000000e+00 3513.0
9 TraesCS3A01G244100 chr3B 88.473 1709 83 38 1479 3133 445603578 445605226 0.000000e+00 1960.0
10 TraesCS3A01G244100 chr3B 84.457 1068 79 43 107 1144 445602330 445603340 0.000000e+00 972.0
11 TraesCS3A01G244100 chr3B 86.221 479 46 11 3210 3682 445605232 445605696 9.580000e-138 501.0
12 TraesCS3A01G244100 chr3B 92.202 218 15 2 5893 6109 445608413 445608629 2.240000e-79 307.0
13 TraesCS3A01G244100 chr3B 92.063 126 9 1 1245 1369 445603427 445603552 6.600000e-40 176.0
14 TraesCS3A01G244100 chr3B 95.161 62 1 2 1370 1430 439850009 439849949 5.280000e-16 97.1
15 TraesCS3A01G244100 chr3B 93.750 64 3 1 45 108 445602219 445602281 1.900000e-15 95.3
16 TraesCS3A01G244100 chr3B 100.000 34 0 0 5440 5473 445607323 445607356 5.360000e-06 63.9
17 TraesCS3A01G244100 chr7D 96.721 61 1 1 1371 1430 600705129 600705189 4.080000e-17 100.0
18 TraesCS3A01G244100 chr7D 95.161 62 1 2 1371 1430 193218976 193218915 5.280000e-16 97.1
19 TraesCS3A01G244100 chr4B 96.721 61 1 1 1371 1430 652818332 652818392 4.080000e-17 100.0
20 TraesCS3A01G244100 chr6B 95.082 61 1 2 1371 1430 677650598 677650539 1.900000e-15 95.3
21 TraesCS3A01G244100 chrUn 95.000 60 2 1 1372 1430 75263434 75263375 6.830000e-15 93.5
22 TraesCS3A01G244100 chr1A 95.000 60 1 2 1373 1430 559839295 559839354 6.830000e-15 93.5


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 TraesCS3A01G244100 chr3A 457460220 457466620 6400 True 11821.000 11821 100.0000 1 6401 1 chr3A.!!$R2 6400
1 TraesCS3A01G244100 chr3D 346354444 346361039 6595 False 1925.580 4427 94.5204 2 6401 5 chr3D.!!$F1 6399
2 TraesCS3A01G244100 chr3B 445602219 445608629 6410 False 948.525 3513 91.5500 45 6109 8 chr3B.!!$F1 6064

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
71 72 0.174389 CACTGACATCTCGTCCTGGG 59.826 60.000 0.00 0.0 44.71 4.45 F
972 1090 0.179936 CTGCAGGTCCAGAATCTCCC 59.820 60.000 5.57 0.0 34.77 4.30 F
2002 2373 0.251634 AAGTGCTGCTCCTAGCTTCC 59.748 55.000 0.00 0.0 42.97 3.46 F
2483 2872 0.320771 AGGCACTGATTCGTGGACAC 60.321 55.000 9.55 0.0 37.18 3.67 F
2741 3130 0.815213 TGTGAAGTCTGGCACACTGC 60.815 55.000 0.00 0.0 44.08 4.40 F
4026 4556 1.342496 CTGCCACTGTTGAGACTCAGA 59.658 52.381 5.10 0.0 35.84 3.27 F
4322 4852 2.072298 GACAGTGAATGCGAGAAAGCT 58.928 47.619 0.00 0.0 38.13 3.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1473 1843 0.036010 AATCCAGTCAAGGAGCCGTG 60.036 55.000 0.0 0.0 41.9 4.94 R
2270 2645 0.041535 ATGCCTTTCCAGATGCCCAA 59.958 50.000 0.0 0.0 0.0 4.12 R
3932 4462 0.038310 AACTGGCCCTCCTTACTTGC 59.962 55.000 0.0 0.0 0.0 4.01 R
4005 4535 0.250038 TGAGTCTCAACAGTGGCAGC 60.250 55.000 0.0 0.0 0.0 5.25 R
4335 4865 1.594310 GAGGAAACAGAGCCTCGCT 59.406 57.895 0.0 0.0 41.1 4.93 R
5377 5909 1.200020 CCGCCTCCATTCTGTTTTGAC 59.800 52.381 0.0 0.0 0.0 3.18 R
6280 7298 1.142748 CAAGCCCGCAACCAAACAA 59.857 52.632 0.0 0.0 0.0 2.83 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
42 43 5.411669 CCGCTCTAAACTCCAAACACTAAAT 59.588 40.000 0.00 0.00 0.00 1.40
71 72 0.174389 CACTGACATCTCGTCCTGGG 59.826 60.000 0.00 0.00 44.71 4.45
119 170 4.681978 ACTGCGACGGGCTGGTTC 62.682 66.667 11.19 0.00 44.16 3.62
152 203 2.029288 ACACGTCAGCTTGCGGATG 61.029 57.895 12.12 12.12 0.00 3.51
153 204 3.121030 ACGTCAGCTTGCGGATGC 61.121 61.111 13.30 6.70 43.20 3.91
168 219 3.420214 ATGCGTACGTACCGGCAGG 62.420 63.158 25.35 11.61 45.13 4.85
242 294 0.593618 GTCTGTCTGTCAGTCGCTCA 59.406 55.000 0.00 0.00 43.97 4.26
276 350 1.725066 GGCTCCTTCGTCTCTCTCG 59.275 63.158 0.00 0.00 0.00 4.04
280 354 1.137825 CCTTCGTCTCTCTCGCCAC 59.862 63.158 0.00 0.00 0.00 5.01
308 382 2.036414 TCTCCTCTGCTCCACGCT 59.964 61.111 0.00 0.00 40.11 5.07
315 389 0.243907 TCTGCTCCACGCTACAGAAC 59.756 55.000 0.00 0.00 36.27 3.01
389 463 3.490890 GCAATGGAGGCGTGACTC 58.509 61.111 0.00 0.00 36.76 3.36
390 464 2.456119 GCAATGGAGGCGTGACTCG 61.456 63.158 0.00 0.00 38.39 4.18
421 495 2.599578 GCGCGGATAGAGGGGGTA 60.600 66.667 8.83 0.00 0.00 3.69
422 496 2.637383 GCGCGGATAGAGGGGGTAG 61.637 68.421 8.83 0.00 0.00 3.18
423 497 2.637383 CGCGGATAGAGGGGGTAGC 61.637 68.421 0.00 0.00 0.00 3.58
525 608 3.130633 GCCGCATTTTCCTTTTGTTTCT 58.869 40.909 0.00 0.00 0.00 2.52
526 609 3.184379 GCCGCATTTTCCTTTTGTTTCTC 59.816 43.478 0.00 0.00 0.00 2.87
527 610 4.620982 CCGCATTTTCCTTTTGTTTCTCT 58.379 39.130 0.00 0.00 0.00 3.10
528 611 5.768317 CCGCATTTTCCTTTTGTTTCTCTA 58.232 37.500 0.00 0.00 0.00 2.43
548 631 0.582005 GAATCCTCGTGCCGCATTAC 59.418 55.000 0.00 0.00 0.00 1.89
624 722 0.376852 CCTGTGTTGTGTTGGTCGTG 59.623 55.000 0.00 0.00 0.00 4.35
625 723 0.376852 CTGTGTTGTGTTGGTCGTGG 59.623 55.000 0.00 0.00 0.00 4.94
626 724 1.027255 TGTGTTGTGTTGGTCGTGGG 61.027 55.000 0.00 0.00 0.00 4.61
627 725 1.452289 TGTTGTGTTGGTCGTGGGG 60.452 57.895 0.00 0.00 0.00 4.96
628 726 1.452470 GTTGTGTTGGTCGTGGGGT 60.452 57.895 0.00 0.00 0.00 4.95
629 727 1.033202 GTTGTGTTGGTCGTGGGGTT 61.033 55.000 0.00 0.00 0.00 4.11
630 728 0.748729 TTGTGTTGGTCGTGGGGTTC 60.749 55.000 0.00 0.00 0.00 3.62
631 729 2.109387 TGTTGGTCGTGGGGTTCG 59.891 61.111 0.00 0.00 0.00 3.95
632 730 3.351416 GTTGGTCGTGGGGTTCGC 61.351 66.667 0.00 0.00 0.00 4.70
660 758 2.861006 GCCGCTTTTCGTGGAGTC 59.139 61.111 0.00 0.00 46.58 3.36
677 775 3.289834 CGCTGGGCTTGTGCTTGT 61.290 61.111 0.00 0.00 39.59 3.16
728 826 3.181455 GGATTGGCTTTTGGTGGTTTCTT 60.181 43.478 0.00 0.00 0.00 2.52
741 839 1.314730 GTTTCTTCTGCCGGTTTGGA 58.685 50.000 1.90 0.00 42.00 3.53
760 858 1.109323 ACCTTGCTTGCTCGCCTTTT 61.109 50.000 0.00 0.00 0.00 2.27
761 859 0.665369 CCTTGCTTGCTCGCCTTTTG 60.665 55.000 0.00 0.00 0.00 2.44
762 860 1.280206 CTTGCTTGCTCGCCTTTTGC 61.280 55.000 0.00 0.00 0.00 3.68
796 894 0.460109 TGGCATTCCAGTCATCGTCG 60.460 55.000 0.00 0.00 37.47 5.12
797 895 0.460284 GGCATTCCAGTCATCGTCGT 60.460 55.000 0.00 0.00 0.00 4.34
798 896 0.924090 GCATTCCAGTCATCGTCGTC 59.076 55.000 0.00 0.00 0.00 4.20
799 897 1.469940 GCATTCCAGTCATCGTCGTCT 60.470 52.381 0.00 0.00 0.00 4.18
848 949 4.589216 TTTTGACAAGATTTCCAGCCTG 57.411 40.909 0.00 0.00 0.00 4.85
875 977 1.520120 GGTTACGGCTACTTCGGCC 60.520 63.158 0.00 0.00 45.57 6.13
924 1034 0.532862 AAAGAGAGCCGTGTGGTGTG 60.533 55.000 0.00 0.00 37.67 3.82
936 1046 2.043227 TGTGGTGTGTGGATCTGTGTA 58.957 47.619 0.00 0.00 0.00 2.90
944 1062 2.488153 TGTGGATCTGTGTACTGACGAG 59.512 50.000 0.00 0.00 0.00 4.18
968 1086 2.482839 GCTCTACTGCAGGTCCAGAATC 60.483 54.545 19.93 6.01 36.67 2.52
972 1090 0.179936 CTGCAGGTCCAGAATCTCCC 59.820 60.000 5.57 0.00 34.77 4.30
989 1107 2.096248 TCCCGTGTTTGAGCAGTTTTT 58.904 42.857 0.00 0.00 0.00 1.94
997 1115 4.884744 TGTTTGAGCAGTTTTTGTAGGCTA 59.115 37.500 0.00 0.00 34.44 3.93
1064 1182 5.048083 TCGGGAAGAAATCAACAAAATCCAG 60.048 40.000 0.00 0.00 0.00 3.86
1104 1222 5.352846 GGATCTTCCAGCAGTAAGAACTTTC 59.647 44.000 0.00 0.00 36.28 2.62
1116 1234 7.430502 GCAGTAAGAACTTTCATAATGCACATC 59.569 37.037 17.15 0.00 45.79 3.06
1146 1264 9.654663 TGTTAATTAAGAGCTAGTTTTCCTCTC 57.345 33.333 0.00 0.00 35.02 3.20
1147 1265 9.100554 GTTAATTAAGAGCTAGTTTTCCTCTCC 57.899 37.037 0.00 0.00 35.02 3.71
1148 1266 7.503492 AATTAAGAGCTAGTTTTCCTCTCCT 57.497 36.000 0.00 0.00 35.02 3.69
1150 1268 5.834281 AAGAGCTAGTTTTCCTCTCCTTT 57.166 39.130 0.00 0.00 35.02 3.11
1151 1269 5.834281 AGAGCTAGTTTTCCTCTCCTTTT 57.166 39.130 0.00 0.00 30.46 2.27
1152 1270 5.800296 AGAGCTAGTTTTCCTCTCCTTTTC 58.200 41.667 0.00 0.00 30.46 2.29
1155 1273 5.070685 GCTAGTTTTCCTCTCCTTTTCCAA 58.929 41.667 0.00 0.00 0.00 3.53
1157 1275 6.040504 GCTAGTTTTCCTCTCCTTTTCCAAAA 59.959 38.462 0.00 0.00 0.00 2.44
1158 1276 6.867519 AGTTTTCCTCTCCTTTTCCAAAAA 57.132 33.333 0.00 0.00 0.00 1.94
1213 1564 3.889196 TTTACGCAATTCGCAGAAACT 57.111 38.095 0.00 0.00 45.90 2.66
1258 1627 8.433421 TGGAGTTAGCTTTTACATATGTTAGC 57.567 34.615 14.77 18.66 0.00 3.09
1302 1672 5.463061 CCAATTTTGGGTTTATCGATGCATC 59.537 40.000 17.10 17.10 44.70 3.91
1334 1704 3.680490 AGCTTGAAAGAAAGTCCTAGCC 58.320 45.455 0.00 0.00 0.00 3.93
1350 1720 2.409948 AGCCAGCTCTTCCACAATAC 57.590 50.000 0.00 0.00 0.00 1.89
1359 1729 4.256920 CTCTTCCACAATACTGGTCTTGG 58.743 47.826 4.39 0.00 32.50 3.61
1371 1741 3.010584 ACTGGTCTTGGAGGCAATACATT 59.989 43.478 0.00 0.00 0.00 2.71
1372 1742 4.019174 CTGGTCTTGGAGGCAATACATTT 58.981 43.478 0.00 0.00 0.00 2.32
1373 1743 4.415596 TGGTCTTGGAGGCAATACATTTT 58.584 39.130 0.00 0.00 0.00 1.82
1374 1744 4.837860 TGGTCTTGGAGGCAATACATTTTT 59.162 37.500 0.00 0.00 0.00 1.94
1394 1764 4.659111 TTTTTCGAAAAGGGGAAAGACC 57.341 40.909 21.53 0.00 34.03 3.85
1403 1773 3.009714 GGAAAGACCCCGGCCTCT 61.010 66.667 0.00 0.00 0.00 3.69
1404 1774 2.269241 GAAAGACCCCGGCCTCTG 59.731 66.667 0.00 0.00 0.00 3.35
1405 1775 3.978571 GAAAGACCCCGGCCTCTGC 62.979 68.421 0.00 0.00 0.00 4.26
1408 1778 4.554036 GACCCCGGCCTCTGCATC 62.554 72.222 0.00 0.00 40.13 3.91
1410 1780 3.882326 CCCCGGCCTCTGCATCAT 61.882 66.667 0.00 0.00 40.13 2.45
1411 1781 2.519622 CCCCGGCCTCTGCATCATA 61.520 63.158 0.00 0.00 40.13 2.15
1412 1782 1.681666 CCCGGCCTCTGCATCATAT 59.318 57.895 0.00 0.00 40.13 1.78
1413 1783 0.675837 CCCGGCCTCTGCATCATATG 60.676 60.000 0.00 0.00 40.13 1.78
1414 1784 0.322648 CCGGCCTCTGCATCATATGA 59.677 55.000 8.10 8.10 40.13 2.15
1415 1785 1.065636 CCGGCCTCTGCATCATATGAT 60.066 52.381 12.62 12.62 40.13 2.45
1425 1795 3.554259 CATCATATGATGCACACAGCC 57.446 47.619 28.08 0.00 44.44 4.85
1426 1796 2.713863 TCATATGATGCACACAGCCA 57.286 45.000 0.00 0.00 44.83 4.75
1427 1797 3.217681 TCATATGATGCACACAGCCAT 57.782 42.857 0.00 0.00 44.83 4.40
1428 1798 3.558033 TCATATGATGCACACAGCCATT 58.442 40.909 0.00 0.00 44.83 3.16
1429 1799 3.955551 TCATATGATGCACACAGCCATTT 59.044 39.130 0.00 0.00 44.83 2.32
1430 1800 2.665649 ATGATGCACACAGCCATTTG 57.334 45.000 0.00 0.00 44.83 2.32
1431 1801 1.618487 TGATGCACACAGCCATTTGA 58.382 45.000 0.00 0.00 44.83 2.69
1432 1802 1.962100 TGATGCACACAGCCATTTGAA 59.038 42.857 0.00 0.00 44.83 2.69
1433 1803 2.029739 TGATGCACACAGCCATTTGAAG 60.030 45.455 0.00 0.00 44.83 3.02
1434 1804 0.675083 TGCACACAGCCATTTGAAGG 59.325 50.000 0.00 0.00 44.83 3.46
1449 1819 7.476667 CCATTTGAAGGCAATACACGTATTAA 58.523 34.615 2.22 0.00 34.27 1.40
1473 1843 7.081526 AGACATCAAATTGTCATTAGTCTGC 57.918 36.000 7.28 0.00 46.81 4.26
1499 1869 0.883833 CCTTGACTGGATTGCACACC 59.116 55.000 0.00 0.00 0.00 4.16
1500 1870 1.608055 CTTGACTGGATTGCACACCA 58.392 50.000 10.12 10.12 34.81 4.17
1504 1874 1.956477 GACTGGATTGCACACCAAAGT 59.044 47.619 11.42 7.48 36.92 2.66
1512 1882 5.861787 GGATTGCACACCAAAGTAACATTAC 59.138 40.000 3.77 0.00 36.92 1.89
1513 1883 4.475763 TGCACACCAAAGTAACATTACG 57.524 40.909 0.00 0.00 38.65 3.18
1544 1914 4.279169 CCTTTCATGTTCCTCTTGCTTTCA 59.721 41.667 0.00 0.00 0.00 2.69
1615 1985 9.600646 GTTTTTCTTCTACTTTTGATGACTAGC 57.399 33.333 0.00 0.00 0.00 3.42
1722 2092 2.478872 ATTCTCCCCTCATCTCGGAA 57.521 50.000 0.00 0.00 0.00 4.30
1761 2131 3.255642 CCCACAATGTGTCGGAAATTTCT 59.744 43.478 17.42 0.00 0.00 2.52
2002 2373 0.251634 AAGTGCTGCTCCTAGCTTCC 59.748 55.000 0.00 0.00 42.97 3.46
2038 2410 4.261801 AGTGCGTAGTGGCTCATAAAAAT 58.738 39.130 0.00 0.00 0.00 1.82
2039 2411 5.424757 AGTGCGTAGTGGCTCATAAAAATA 58.575 37.500 0.00 0.00 0.00 1.40
2040 2412 5.878116 AGTGCGTAGTGGCTCATAAAAATAA 59.122 36.000 0.00 0.00 0.00 1.40
2041 2413 6.373216 AGTGCGTAGTGGCTCATAAAAATAAA 59.627 34.615 0.00 0.00 0.00 1.40
2042 2414 7.024768 GTGCGTAGTGGCTCATAAAAATAAAA 58.975 34.615 0.00 0.00 0.00 1.52
2043 2415 7.539366 GTGCGTAGTGGCTCATAAAAATAAAAA 59.461 33.333 0.00 0.00 0.00 1.94
2044 2416 8.247562 TGCGTAGTGGCTCATAAAAATAAAAAT 58.752 29.630 0.00 0.00 0.00 1.82
2118 2490 5.124776 CGTGATAAAAAGGTTTGATGGGCTA 59.875 40.000 0.00 0.00 0.00 3.93
2246 2621 8.985805 CCGACTCCCTACATTAATTATTGTTAC 58.014 37.037 15.96 3.39 0.00 2.50
2308 2697 6.668645 AGGCATACATGGTTTGGTTTATCTA 58.331 36.000 0.00 0.00 0.00 1.98
2309 2698 7.297614 AGGCATACATGGTTTGGTTTATCTAT 58.702 34.615 0.00 0.00 0.00 1.98
2311 2700 8.421002 GGCATACATGGTTTGGTTTATCTATTT 58.579 33.333 0.00 0.00 0.00 1.40
2347 2736 2.793288 TCATCCATTCTCTGCTGCAA 57.207 45.000 3.02 0.00 0.00 4.08
2412 2801 3.607741 TGTTGGAACGGTTGTGAACTTA 58.392 40.909 0.00 0.00 0.00 2.24
2483 2872 0.320771 AGGCACTGATTCGTGGACAC 60.321 55.000 9.55 0.00 37.18 3.67
2571 2960 7.088905 TCTAGTTCGTGGAAGAAATGTTAGAC 58.911 38.462 0.00 0.00 30.68 2.59
2638 3027 2.188817 GTATGGGGTGAGACCTGTTCT 58.811 52.381 0.00 0.00 38.64 3.01
2740 3129 1.224075 CTGTGAAGTCTGGCACACTG 58.776 55.000 0.00 0.00 39.86 3.66
2741 3130 0.815213 TGTGAAGTCTGGCACACTGC 60.815 55.000 0.00 0.00 44.08 4.40
2930 3358 6.968131 TGTCATAGTTATGAGCAAGTTCAC 57.032 37.500 2.16 0.00 42.84 3.18
3045 3473 4.079253 GTTGTAGAATTTTCTCCCTGGCA 58.921 43.478 0.00 0.00 38.70 4.92
3339 3769 8.876790 GGTAATACACAGAAGTACCAACAATAC 58.123 37.037 0.00 0.00 35.34 1.89
3462 3893 5.796935 GCAGAACTACAGCACAAATTGTATG 59.203 40.000 0.00 3.69 0.00 2.39
3522 3955 3.935828 CTCTTTTCCTCGGAAGGTGATTC 59.064 47.826 0.00 0.00 43.82 2.52
3561 3994 4.724279 AAACTCTGTATTCCCCTTGTGT 57.276 40.909 0.00 0.00 0.00 3.72
3634 4072 4.525487 TGTTATTAGGGTGACAAGTCGTCT 59.475 41.667 0.00 0.00 45.60 4.18
3901 4431 1.891150 CTGCATCTGGAAGCCTGTTTT 59.109 47.619 0.00 0.00 0.00 2.43
3918 4448 7.065683 AGCCTGTTTTCAAACCAAAAATAGTTG 59.934 33.333 0.00 0.00 38.11 3.16
4005 4535 2.159787 CGCAATGTTCGGAAGTCTTCTG 60.160 50.000 14.40 14.40 37.39 3.02
4026 4556 1.342496 CTGCCACTGTTGAGACTCAGA 59.658 52.381 5.10 0.00 35.84 3.27
4062 4592 7.390027 TGAACCTGAAAAATGGAAAAGAAACA 58.610 30.769 0.00 0.00 0.00 2.83
4103 4633 3.110705 ACCTGCTGATTCAGTACCAGAT 58.889 45.455 14.90 0.00 33.43 2.90
4202 4732 2.256306 TCTACCAAGGCTGATGTGTCA 58.744 47.619 0.00 0.00 0.00 3.58
4307 4837 4.404073 GGTATCTCTGACCATCAAGACAGT 59.596 45.833 0.00 0.00 36.91 3.55
4322 4852 2.072298 GACAGTGAATGCGAGAAAGCT 58.928 47.619 0.00 0.00 38.13 3.74
4335 4865 4.095185 GCGAGAAAGCTCTAGAGAGTACAA 59.905 45.833 24.24 0.00 43.85 2.41
4337 4867 5.576447 AGAAAGCTCTAGAGAGTACAAGC 57.424 43.478 24.24 6.08 43.85 4.01
4454 4984 7.609097 TGATCTAGAAGCATCATTCTTAGGT 57.391 36.000 0.00 0.00 40.08 3.08
4957 5487 5.988287 TCTGCATCCTACAATTCACATACA 58.012 37.500 0.00 0.00 0.00 2.29
5012 5542 6.238456 CCATATGTGACAACAATAGCGACAAT 60.238 38.462 1.24 0.00 40.46 2.71
5124 5656 5.682862 CCAATGATGCGCTAAAAAGTGATAC 59.317 40.000 9.73 0.00 0.00 2.24
5125 5657 6.458751 CCAATGATGCGCTAAAAAGTGATACT 60.459 38.462 9.73 0.00 0.00 2.12
5126 5658 7.254761 CCAATGATGCGCTAAAAAGTGATACTA 60.255 37.037 9.73 0.00 0.00 1.82
5280 5812 9.883142 AACTACATGTTTGGAAGAAATTTCAAA 57.117 25.926 19.99 9.41 34.84 2.69
5322 5854 9.750125 ATTTCTGAAACCTAAACATTCTGTTTC 57.250 29.630 4.73 0.00 46.61 2.78
5326 5858 5.767816 AACCTAAACATTCTGTTTCGCTT 57.232 34.783 8.41 0.00 46.61 4.68
5348 5880 7.377662 CGCTTTTCGTTACTTAAATTCCACTTT 59.622 33.333 0.00 0.00 0.00 2.66
5423 5955 2.158696 GAGGCTATCAAGCTTCCACCAT 60.159 50.000 0.00 0.00 46.36 3.55
5508 6040 0.891373 TGCTGTCTACCTGTCTCTGC 59.109 55.000 0.00 0.00 0.00 4.26
5572 6104 3.186613 CCTTTTCGAACTAGCTTGTGGTC 59.813 47.826 0.36 0.00 0.00 4.02
5703 6235 7.703621 ACAACATAACTGATTGCATTATGAAGC 59.296 33.333 19.08 0.00 38.17 3.86
5794 6326 7.523293 TGCTAATCCTCAGTTTCATTTTTGA 57.477 32.000 0.00 0.00 0.00 2.69
5798 6330 5.726980 TCCTCAGTTTCATTTTTGATGGG 57.273 39.130 0.00 0.00 0.00 4.00
5806 6338 8.337532 CAGTTTCATTTTTGATGGGTTTTCTTC 58.662 33.333 0.00 0.00 0.00 2.87
5821 6353 1.909700 TCTTCGCTCAAATGGGCTTT 58.090 45.000 3.45 0.00 0.00 3.51
5929 6926 4.159506 TCCAGAAAAGTTTTGGTCCAACAG 59.840 41.667 5.36 0.00 33.65 3.16
5935 6932 1.264288 GTTTTGGTCCAACAGAGCTCG 59.736 52.381 8.37 6.04 43.71 5.03
5966 6963 7.856145 AAGAAAACCTGAGATTACTGCTATG 57.144 36.000 0.00 0.00 0.00 2.23
6113 7110 0.187117 TTGGGGTGCTTGGATCAACA 59.813 50.000 0.00 0.00 0.00 3.33
6150 7168 4.602340 TGAGTCTCTTAGGGTGTGTTTC 57.398 45.455 0.65 0.00 0.00 2.78
6158 7176 0.107410 AGGGTGTGTTTCGTTGCTCA 60.107 50.000 0.00 0.00 0.00 4.26
6162 7180 2.223479 GGTGTGTTTCGTTGCTCACATT 60.223 45.455 0.00 0.00 41.64 2.71
6246 7264 2.810439 TGTTTTGTTGCCTGCATACC 57.190 45.000 0.00 0.00 0.00 2.73
6268 7286 0.109272 CTAGCCTGAGTGCGACGAAA 60.109 55.000 0.00 0.00 36.02 3.46
6280 7298 1.134226 CGACGAAACGTAAGGCAAGT 58.866 50.000 0.00 0.00 41.37 3.16
6336 7354 6.500041 GCAAGTCAAGTTGTTTGGTTACATA 58.500 36.000 18.02 0.00 37.39 2.29
6348 7366 7.197017 TGTTTGGTTACATACAACACATGTTC 58.803 34.615 0.00 0.00 43.63 3.18
6391 7409 0.179092 GGCGAGGTTATTAGCACGGT 60.179 55.000 3.19 0.00 36.56 4.83
6395 7413 2.752121 GAGGTTATTAGCACGGTAGGC 58.248 52.381 0.00 0.00 0.00 3.93
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.616953 AGCGGTTGGTTGAATAAAAAGTG 58.383 39.130 0.00 0.00 0.00 3.16
42 43 0.109272 GATGTCAGTGAGGCGTCGAA 60.109 55.000 0.00 0.00 0.00 3.71
168 219 3.681835 ACCGTCGCCTCACCTCAC 61.682 66.667 0.00 0.00 0.00 3.51
242 294 1.760029 GAGCCGGAGAGAAGAGGAAAT 59.240 52.381 5.05 0.00 0.00 2.17
276 350 0.534873 GGAGAGAGAGAGGTTGTGGC 59.465 60.000 0.00 0.00 0.00 5.01
280 354 1.750778 GCAGAGGAGAGAGAGAGGTTG 59.249 57.143 0.00 0.00 0.00 3.77
308 382 6.462487 CCTCCTACTGTTTGTTCTGTTCTGTA 60.462 42.308 0.00 0.00 0.00 2.74
315 389 3.330267 GCTCCTCCTACTGTTTGTTCTG 58.670 50.000 0.00 0.00 0.00 3.02
396 470 4.910585 CTATCCGCGCCCACCACC 62.911 72.222 0.00 0.00 0.00 4.61
397 471 3.792053 CTCTATCCGCGCCCACCAC 62.792 68.421 0.00 0.00 0.00 4.16
419 493 1.432270 GCAGATTGCTCACCCGCTAC 61.432 60.000 0.00 0.00 40.96 3.58
420 494 1.153369 GCAGATTGCTCACCCGCTA 60.153 57.895 0.00 0.00 40.96 4.26
421 495 2.437359 GCAGATTGCTCACCCGCT 60.437 61.111 0.00 0.00 40.96 5.52
422 496 3.512516 GGCAGATTGCTCACCCGC 61.513 66.667 0.67 0.00 44.28 6.13
423 497 3.197790 CGGCAGATTGCTCACCCG 61.198 66.667 0.67 0.00 44.28 5.28
506 589 6.668323 TCTAGAGAAACAAAAGGAAAATGCG 58.332 36.000 0.00 0.00 0.00 4.73
642 740 3.011760 GACTCCACGAAAAGCGGCG 62.012 63.158 0.51 0.51 46.49 6.46
660 758 2.848858 AACAAGCACAAGCCCAGCG 61.849 57.895 0.00 0.00 43.56 5.18
677 775 1.442769 GCACGGATCTGAAGAAGCAA 58.557 50.000 9.00 0.00 0.00 3.91
708 806 3.711190 AGAAGAAACCACCAAAAGCCAAT 59.289 39.130 0.00 0.00 0.00 3.16
709 807 3.103742 AGAAGAAACCACCAAAAGCCAA 58.896 40.909 0.00 0.00 0.00 4.52
741 839 1.109323 AAAAGGCGAGCAAGCAAGGT 61.109 50.000 5.80 0.00 39.27 3.50
760 858 4.947147 ACGGCAGGGAAAAGCGCA 62.947 61.111 11.47 0.00 0.00 6.09
761 859 4.404654 CACGGCAGGGAAAAGCGC 62.405 66.667 0.00 0.00 0.00 5.92
762 860 3.737172 CCACGGCAGGGAAAAGCG 61.737 66.667 0.00 0.00 0.00 4.68
763 861 4.056125 GCCACGGCAGGGAAAAGC 62.056 66.667 2.36 0.00 41.49 3.51
788 886 1.822506 AGGAAGACAGACGACGATGA 58.177 50.000 0.00 0.00 0.00 2.92
796 894 3.126831 CACACAGTGAAGGAAGACAGAC 58.873 50.000 7.81 0.00 35.23 3.51
797 895 2.766263 ACACACAGTGAAGGAAGACAGA 59.234 45.455 7.81 0.00 36.96 3.41
798 896 3.126831 GACACACAGTGAAGGAAGACAG 58.873 50.000 7.81 0.00 36.96 3.51
799 897 2.158957 GGACACACAGTGAAGGAAGACA 60.159 50.000 7.81 0.00 36.96 3.41
831 931 0.449388 CGCAGGCTGGAAATCTTGTC 59.551 55.000 17.64 0.00 0.00 3.18
845 946 1.073177 CCGTAACCAGTAAACGCAGG 58.927 55.000 0.00 0.00 35.36 4.85
846 947 0.441145 GCCGTAACCAGTAAACGCAG 59.559 55.000 0.00 0.00 35.36 5.18
848 949 1.655597 GTAGCCGTAACCAGTAAACGC 59.344 52.381 0.00 0.00 35.36 4.84
908 1018 1.956170 CACACACCACACGGCTCTC 60.956 63.158 0.00 0.00 34.57 3.20
914 1024 0.249868 ACAGATCCACACACCACACG 60.250 55.000 0.00 0.00 0.00 4.49
924 1034 2.488545 ACTCGTCAGTACACAGATCCAC 59.511 50.000 0.00 0.00 0.00 4.02
936 1046 1.068194 GCAGTAGAGCAACTCGTCAGT 60.068 52.381 0.00 0.00 35.36 3.41
944 1062 0.321671 TGGACCTGCAGTAGAGCAAC 59.678 55.000 13.81 0.00 45.13 4.17
968 1086 1.308998 AAACTGCTCAAACACGGGAG 58.691 50.000 0.00 0.00 0.00 4.30
972 1090 4.035017 CCTACAAAAACTGCTCAAACACG 58.965 43.478 0.00 0.00 0.00 4.49
989 1107 3.573695 GACTTCCCCATAGTAGCCTACA 58.426 50.000 4.41 0.00 0.00 2.74
1064 1182 3.956744 AGATCCTTTGCCTTGGTAGAAC 58.043 45.455 0.00 0.00 0.00 3.01
1157 1275 5.477291 GCCCTTAGGAAAACTAGCTCTTTTT 59.523 40.000 0.00 5.16 33.47 1.94
1158 1276 5.010933 GCCCTTAGGAAAACTAGCTCTTTT 58.989 41.667 0.00 0.00 33.47 2.27
1159 1277 4.289934 AGCCCTTAGGAAAACTAGCTCTTT 59.710 41.667 0.00 0.00 27.83 2.52
1160 1278 3.847184 AGCCCTTAGGAAAACTAGCTCTT 59.153 43.478 0.00 0.00 27.83 2.85
1161 1279 3.455849 AGCCCTTAGGAAAACTAGCTCT 58.544 45.455 0.00 0.00 27.83 4.09
1165 1283 4.906618 TGTCAAGCCCTTAGGAAAACTAG 58.093 43.478 0.00 0.00 33.47 2.57
1166 1284 4.349930 ACTGTCAAGCCCTTAGGAAAACTA 59.650 41.667 0.00 0.00 33.47 2.24
1168 1286 3.487372 ACTGTCAAGCCCTTAGGAAAAC 58.513 45.455 0.00 0.00 33.47 2.43
1235 1604 9.099454 ACTGCTAACATATGTAAAAGCTAACTC 57.901 33.333 25.75 8.18 32.79 3.01
1302 1672 9.833182 GACTTTCTTTCAAGCTAAAATAGAAGG 57.167 33.333 0.00 0.00 0.00 3.46
1326 1696 0.176910 GTGGAAGAGCTGGCTAGGAC 59.823 60.000 0.00 0.00 0.00 3.85
1334 1704 3.055530 AGACCAGTATTGTGGAAGAGCTG 60.056 47.826 0.00 0.00 40.44 4.24
1350 1720 2.787473 TGTATTGCCTCCAAGACCAG 57.213 50.000 0.00 0.00 41.31 4.00
1373 1743 4.659111 GGTCTTTCCCCTTTTCGAAAAA 57.341 40.909 22.67 6.71 0.00 1.94
1386 1756 3.009714 AGAGGCCGGGGTCTTTCC 61.010 66.667 2.18 0.00 0.00 3.13
1387 1757 2.269241 CAGAGGCCGGGGTCTTTC 59.731 66.667 2.18 0.00 0.00 2.62
1388 1758 4.035102 GCAGAGGCCGGGGTCTTT 62.035 66.667 2.18 0.00 0.00 2.52
1391 1761 4.554036 GATGCAGAGGCCGGGGTC 62.554 72.222 2.18 0.00 40.13 4.46
1393 1763 1.845627 ATATGATGCAGAGGCCGGGG 61.846 60.000 2.18 0.00 40.13 5.73
1394 1764 0.675837 CATATGATGCAGAGGCCGGG 60.676 60.000 2.18 0.00 40.13 5.73
1395 1765 0.322648 TCATATGATGCAGAGGCCGG 59.677 55.000 0.00 0.00 40.13 6.13
1396 1766 2.007608 CATCATATGATGCAGAGGCCG 58.992 52.381 28.08 6.19 44.44 6.13
1406 1776 3.217681 TGGCTGTGTGCATCATATGAT 57.782 42.857 12.62 12.62 45.15 2.45
1407 1777 2.713863 TGGCTGTGTGCATCATATGA 57.286 45.000 8.10 8.10 45.15 2.15
1408 1778 4.048504 CAAATGGCTGTGTGCATCATATG 58.951 43.478 0.00 0.00 45.15 1.78
1409 1779 3.955551 TCAAATGGCTGTGTGCATCATAT 59.044 39.130 0.00 0.00 45.15 1.78
1410 1780 3.354467 TCAAATGGCTGTGTGCATCATA 58.646 40.909 0.00 0.00 45.15 2.15
1411 1781 2.172679 TCAAATGGCTGTGTGCATCAT 58.827 42.857 0.00 0.00 45.15 2.45
1412 1782 1.618487 TCAAATGGCTGTGTGCATCA 58.382 45.000 0.00 0.00 45.15 3.07
1413 1783 2.602878 CTTCAAATGGCTGTGTGCATC 58.397 47.619 0.00 0.00 45.15 3.91
1414 1784 1.274167 CCTTCAAATGGCTGTGTGCAT 59.726 47.619 0.00 0.00 45.15 3.96
1415 1785 0.675083 CCTTCAAATGGCTGTGTGCA 59.325 50.000 0.00 0.00 45.15 4.57
1416 1786 0.668401 GCCTTCAAATGGCTGTGTGC 60.668 55.000 0.00 0.00 46.38 4.57
1417 1787 3.502237 GCCTTCAAATGGCTGTGTG 57.498 52.632 0.00 0.00 46.38 3.82
1424 1794 3.848272 ACGTGTATTGCCTTCAAATGG 57.152 42.857 0.00 0.00 35.56 3.16
1425 1795 8.394877 TCTTAATACGTGTATTGCCTTCAAATG 58.605 33.333 14.02 0.00 36.52 2.32
1426 1796 8.395633 GTCTTAATACGTGTATTGCCTTCAAAT 58.604 33.333 14.02 0.00 36.52 2.32
1427 1797 7.388224 TGTCTTAATACGTGTATTGCCTTCAAA 59.612 33.333 14.02 0.19 36.52 2.69
1428 1798 6.874664 TGTCTTAATACGTGTATTGCCTTCAA 59.125 34.615 14.02 0.79 36.52 2.69
1429 1799 6.399743 TGTCTTAATACGTGTATTGCCTTCA 58.600 36.000 14.02 5.78 36.52 3.02
1430 1800 6.897259 TGTCTTAATACGTGTATTGCCTTC 57.103 37.500 14.02 3.79 36.52 3.46
1431 1801 7.045416 TGATGTCTTAATACGTGTATTGCCTT 58.955 34.615 14.02 0.00 36.52 4.35
1432 1802 6.578944 TGATGTCTTAATACGTGTATTGCCT 58.421 36.000 14.02 0.00 36.52 4.75
1433 1803 6.838198 TGATGTCTTAATACGTGTATTGCC 57.162 37.500 14.02 2.17 36.52 4.52
1434 1804 9.716507 AATTTGATGTCTTAATACGTGTATTGC 57.283 29.630 14.02 4.34 36.52 3.56
1461 1831 1.281899 GAGCCGTGCAGACTAATGAC 58.718 55.000 0.00 0.00 0.00 3.06
1463 1833 0.176680 AGGAGCCGTGCAGACTAATG 59.823 55.000 0.00 0.00 0.00 1.90
1473 1843 0.036010 AATCCAGTCAAGGAGCCGTG 60.036 55.000 0.00 0.00 41.90 4.94
1499 1869 4.323336 GGCAATGCACGTAATGTTACTTTG 59.677 41.667 7.79 0.00 0.00 2.77
1500 1870 4.217550 AGGCAATGCACGTAATGTTACTTT 59.782 37.500 7.79 0.00 0.00 2.66
1504 1874 4.216472 TGAAAGGCAATGCACGTAATGTTA 59.784 37.500 7.79 0.00 0.00 2.41
1512 1882 1.987770 GAACATGAAAGGCAATGCACG 59.012 47.619 7.79 0.00 0.00 5.34
1513 1883 2.028748 AGGAACATGAAAGGCAATGCAC 60.029 45.455 7.79 0.00 0.00 4.57
1544 1914 4.818546 CCCGAGAACATGAATAAAGCAGAT 59.181 41.667 0.00 0.00 0.00 2.90
1615 1985 8.187913 TCAGGGAAGAGATATGATTAACTCAG 57.812 38.462 0.00 0.00 37.28 3.35
1722 2092 0.900421 GGGAGCTAACAAGTACCGGT 59.100 55.000 13.98 13.98 0.00 5.28
1761 2131 1.377229 CCTCCCGTTGGGCAAGTTA 59.623 57.895 0.00 0.00 43.94 2.24
1869 2239 1.418637 ACCAGGTAACCTCGAAAAGCA 59.581 47.619 0.00 0.00 37.17 3.91
1988 2359 1.280421 AGGTTTGGAAGCTAGGAGCAG 59.720 52.381 0.64 0.00 45.56 4.24
2002 2373 6.304126 CACTACGCACTACATAAAAGGTTTG 58.696 40.000 0.00 0.00 0.00 2.93
2106 2478 2.760092 TCAGCCAATTAGCCCATCAAAC 59.240 45.455 0.00 0.00 0.00 2.93
2118 2490 7.893124 ATTGTTTGATAGAGATCAGCCAATT 57.107 32.000 0.00 0.00 43.03 2.32
2213 2586 0.896940 TGTAGGGAGTCGGGACACAC 60.897 60.000 1.17 0.00 0.00 3.82
2253 2628 5.071370 TGCCCAAGATTCAAAATGCATTTT 58.929 33.333 27.73 27.73 40.37 1.82
2254 2629 4.653868 TGCCCAAGATTCAAAATGCATTT 58.346 34.783 18.99 18.99 0.00 2.32
2255 2630 4.289238 TGCCCAAGATTCAAAATGCATT 57.711 36.364 5.99 5.99 0.00 3.56
2256 2631 3.985019 TGCCCAAGATTCAAAATGCAT 57.015 38.095 0.00 0.00 0.00 3.96
2270 2645 0.041535 ATGCCTTTCCAGATGCCCAA 59.958 50.000 0.00 0.00 0.00 4.12
2308 2697 4.577096 TGATCCCCAGTACCCAGATAAAT 58.423 43.478 0.00 0.00 0.00 1.40
2309 2698 4.015617 TGATCCCCAGTACCCAGATAAA 57.984 45.455 0.00 0.00 0.00 1.40
2311 2700 3.504156 GGATGATCCCCAGTACCCAGATA 60.504 52.174 0.00 0.00 0.00 1.98
2312 2701 2.625639 GATGATCCCCAGTACCCAGAT 58.374 52.381 0.00 0.00 0.00 2.90
2313 2702 1.414538 GGATGATCCCCAGTACCCAGA 60.415 57.143 0.00 0.00 0.00 3.86
2314 2703 1.059913 GGATGATCCCCAGTACCCAG 58.940 60.000 0.00 0.00 0.00 4.45
2315 2704 0.345146 TGGATGATCCCCAGTACCCA 59.655 55.000 9.36 0.00 35.03 4.51
2316 2705 1.747444 ATGGATGATCCCCAGTACCC 58.253 55.000 9.36 0.00 37.08 3.69
2317 2706 2.982488 AGAATGGATGATCCCCAGTACC 59.018 50.000 9.36 0.00 37.08 3.34
2377 2766 4.212425 CGTTCCAACATTAACACTGTGCTA 59.788 41.667 7.90 0.00 0.00 3.49
2387 2776 4.641094 AGTTCACAACCGTTCCAACATTAA 59.359 37.500 0.00 0.00 0.00 1.40
2477 2866 0.690762 GCCTCCTTACAAGGTGTCCA 59.309 55.000 7.86 0.00 46.54 4.02
2480 2869 0.693049 CCTGCCTCCTTACAAGGTGT 59.307 55.000 7.86 0.00 46.54 4.16
2571 2960 1.456296 TGCATGGCAGCACTAGAAAG 58.544 50.000 7.40 0.00 40.11 2.62
2638 3027 7.654022 ATTGAACAGAAACTGGGTAAAAAGA 57.346 32.000 0.00 0.00 35.51 2.52
2907 3335 6.591448 CAGTGAACTTGCTCATAACTATGACA 59.409 38.462 0.00 0.00 37.76 3.58
2930 3358 9.817809 ACTATCCACGCCAATATAATAATACAG 57.182 33.333 0.00 0.00 0.00 2.74
3045 3473 1.531602 GCCTGTTGGGTCCAAAGCT 60.532 57.895 3.74 0.00 37.70 3.74
3339 3769 8.506437 TGTCTAGTGAGCAATTTCTATGTTTTG 58.494 33.333 0.00 0.00 0.00 2.44
3522 3955 7.224167 ACAGAGTTTACGTTTTAGACTTTGAGG 59.776 37.037 0.00 0.00 0.00 3.86
3584 4017 8.680903 ACAAATGTTTAGATTCTTCTGCCATAG 58.319 33.333 0.00 0.00 33.17 2.23
3634 4072 1.562942 AGCTTCTCCTTCCATGCATCA 59.437 47.619 0.00 0.00 0.00 3.07
3751 4281 8.986477 ATATGCAAAAATGAGTTAGAACAACC 57.014 30.769 0.00 0.00 0.00 3.77
3834 4364 2.710902 GGGCTGAATTGGGGTTCGC 61.711 63.158 0.00 0.00 0.00 4.70
3901 4431 5.277825 CGTCAGCAACTATTTTTGGTTTGA 58.722 37.500 0.00 0.00 35.00 2.69
3932 4462 0.038310 AACTGGCCCTCCTTACTTGC 59.962 55.000 0.00 0.00 0.00 4.01
4005 4535 0.250038 TGAGTCTCAACAGTGGCAGC 60.250 55.000 0.00 0.00 0.00 5.25
4026 4556 5.838531 TTTTCAGGTTCAACGGTATTTGT 57.161 34.783 0.00 0.00 0.00 2.83
4062 4592 2.228822 GTGAGCCATTGAATTTCCGTGT 59.771 45.455 0.00 0.00 0.00 4.49
4103 4633 6.351371 CCTTCTCAAGTTCAGATAACTGGCTA 60.351 42.308 0.00 0.00 43.60 3.93
4202 4732 6.824958 TCAGCTATGGAATTAGGTACCTTT 57.175 37.500 22.11 9.44 0.00 3.11
4238 4768 1.909700 GTTCAGCCATGGAACCAAGA 58.090 50.000 18.40 0.00 38.92 3.02
4307 4837 3.696548 TCTCTAGAGCTTTCTCGCATTCA 59.303 43.478 15.35 0.00 44.02 2.57
4322 4852 2.092861 AGCCTCGCTTGTACTCTCTAGA 60.093 50.000 0.00 0.00 33.89 2.43
4335 4865 1.594310 GAGGAAACAGAGCCTCGCT 59.406 57.895 0.00 0.00 41.10 4.93
4369 4899 2.622942 TCCAAAAGATTGCCACTGTGAC 59.377 45.455 9.86 0.00 35.10 3.67
4454 4984 6.485313 CAGTAGTGGGTTCATTAACTTTGTCA 59.515 38.462 0.00 0.00 35.81 3.58
4544 5074 5.155905 TCCTTGGACCTAGTCTCTTCTTTT 58.844 41.667 2.16 0.00 32.47 2.27
4575 5105 4.221924 GGTTTTAAGGCTTCCATTAGGCAA 59.778 41.667 1.30 0.00 42.74 4.52
5124 5656 5.882557 GCCACCCCTTTATGATGACATATAG 59.117 44.000 0.00 0.00 38.55 1.31
5125 5657 5.311913 TGCCACCCCTTTATGATGACATATA 59.688 40.000 0.00 0.00 38.55 0.86
5126 5658 4.106179 TGCCACCCCTTTATGATGACATAT 59.894 41.667 0.00 0.00 38.55 1.78
5247 5779 6.833041 TCTTCCAAACATGTAGTTCCAACTA 58.167 36.000 0.00 0.00 40.26 2.24
5348 5880 5.854010 ATCTGCAGATAGTAGGACGAAAA 57.146 39.130 27.73 0.00 32.01 2.29
5377 5909 1.200020 CCGCCTCCATTCTGTTTTGAC 59.800 52.381 0.00 0.00 0.00 3.18
5420 5952 4.214310 TCCACAATAATGCACCCTTATGG 58.786 43.478 0.00 0.00 41.37 2.74
5423 5955 5.186256 TCTTCCACAATAATGCACCCTTA 57.814 39.130 0.00 0.00 0.00 2.69
5508 6040 3.107642 ACGTAGACAGAACAACAAGGG 57.892 47.619 0.00 0.00 0.00 3.95
5604 6136 3.700038 ACACAGACCGAGGAACTATAAGG 59.300 47.826 0.00 0.00 41.55 2.69
5794 6326 3.056607 CCATTTGAGCGAAGAAAACCCAT 60.057 43.478 0.00 0.00 0.00 4.00
5798 6330 2.029918 AGCCCATTTGAGCGAAGAAAAC 60.030 45.455 0.00 0.00 0.00 2.43
5806 6338 1.843992 GCATAAAGCCCATTTGAGCG 58.156 50.000 0.00 0.00 37.23 5.03
5929 6926 5.869888 TCAGGTTTTCTTTAATCTCGAGCTC 59.130 40.000 7.81 2.73 0.00 4.09
5966 6963 8.504005 GTCTAGTTACTATTCTCTGCATCTCTC 58.496 40.741 0.00 0.00 0.00 3.20
6054 7051 2.770048 ATGCGGAGGAGAAGGGGG 60.770 66.667 0.00 0.00 0.00 5.40
6100 7097 3.346315 CACCATAGTGTTGATCCAAGCA 58.654 45.455 0.00 0.00 39.30 3.91
6113 7110 4.090090 AGACTCAACTACAGCACCATAGT 58.910 43.478 0.00 0.00 32.93 2.12
6215 7233 5.068987 AGGCAACAAAACAATGTGTAGATGT 59.931 36.000 0.00 0.00 41.41 3.06
6232 7250 1.486310 CTAGAGGGTATGCAGGCAACA 59.514 52.381 0.00 0.00 41.41 3.33
6246 7264 1.435515 GTCGCACTCAGGCTAGAGG 59.564 63.158 15.26 7.86 39.97 3.69
6268 7286 2.371306 ACCAAACAACTTGCCTTACGT 58.629 42.857 0.00 0.00 33.27 3.57
6280 7298 1.142748 CAAGCCCGCAACCAAACAA 59.857 52.632 0.00 0.00 0.00 2.83
6336 7354 7.179338 AGGAGATTACTAGAGAACATGTGTTGT 59.821 37.037 0.00 0.00 41.53 3.32
6345 7363 5.124645 TCCACGAGGAGATTACTAGAGAAC 58.875 45.833 0.00 0.00 39.61 3.01


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

AutoCloner maintained by Alex Coulton.