Multiple sequence alignment - TraesCS6A01G045100

Loading Multiple Alignment...

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 TraesCS6A01G045100 chr6A 100.000 3808 0 0 1 3808 23408174 23411981 0.000000e+00 7033
1 TraesCS6A01G045100 chr6D 93.730 2201 91 18 1637 3808 24559077 24556895 0.000000e+00 3256
2 TraesCS6A01G045100 chr6D 87.817 1576 122 43 96 1640 24560642 24559106 0.000000e+00 1783
3 TraesCS6A01G045100 chr6B 84.952 1555 154 41 98 1594 40285402 40283870 0.000000e+00 1502
4 TraesCS6A01G045100 chr6B 92.896 915 49 6 2488 3397 40282881 40281978 0.000000e+00 1315
5 TraesCS6A01G045100 chr6B 92.780 831 41 8 1637 2450 40283711 40282883 0.000000e+00 1184
6 TraesCS6A01G045100 chr6B 93.593 359 17 1 3450 3808 40281470 40281118 7.240000e-147 531
7 TraesCS6A01G045100 chr6B 97.674 43 1 0 3408 3450 40281946 40281904 1.470000e-09 75


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 TraesCS6A01G045100 chr6A 23408174 23411981 3807 False 7033.0 7033 100.0000 1 3808 1 chr6A.!!$F1 3807
1 TraesCS6A01G045100 chr6D 24556895 24560642 3747 True 2519.5 3256 90.7735 96 3808 2 chr6D.!!$R1 3712
2 TraesCS6A01G045100 chr6B 40281118 40285402 4284 True 921.4 1502 92.3790 98 3808 5 chr6B.!!$R1 3710

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
256 260 0.178970 GCTACCCGGATAGGACCTCA 60.179 60.0 4.61 0.0 45.0 3.86 F
1372 1464 0.037232 AAGGTGCCAGTCTTACGCTC 60.037 55.0 0.00 0.0 0.0 5.03 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2022 2267 1.200020 CCGAACATTCTTCAAGGCCAC 59.80 52.381 5.01 0.0 0.0 5.01 R
2860 3121 0.249573 GGGACCTGACAAACGTTCGA 60.25 55.000 0.00 0.0 0.0 3.71 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
29 30 4.622701 GATTAGTTGAATCTGCCGCTTT 57.377 40.909 0.00 0.00 40.84 3.51
30 31 3.829886 TTAGTTGAATCTGCCGCTTTG 57.170 42.857 0.00 0.00 0.00 2.77
31 32 1.896220 AGTTGAATCTGCCGCTTTGA 58.104 45.000 0.00 0.00 0.00 2.69
32 33 2.229792 AGTTGAATCTGCCGCTTTGAA 58.770 42.857 0.00 0.00 0.00 2.69
33 34 2.821969 AGTTGAATCTGCCGCTTTGAAT 59.178 40.909 0.00 0.00 0.00 2.57
34 35 3.256631 AGTTGAATCTGCCGCTTTGAATT 59.743 39.130 0.00 0.00 0.00 2.17
35 36 3.492421 TGAATCTGCCGCTTTGAATTC 57.508 42.857 0.00 0.00 0.00 2.17
36 37 3.084039 TGAATCTGCCGCTTTGAATTCT 58.916 40.909 7.05 0.00 0.00 2.40
37 38 3.507233 TGAATCTGCCGCTTTGAATTCTT 59.493 39.130 7.05 0.00 0.00 2.52
38 39 3.772060 ATCTGCCGCTTTGAATTCTTC 57.228 42.857 7.05 0.00 0.00 2.87
39 40 2.783135 TCTGCCGCTTTGAATTCTTCT 58.217 42.857 7.05 0.00 0.00 2.85
40 41 3.149196 TCTGCCGCTTTGAATTCTTCTT 58.851 40.909 7.05 0.00 0.00 2.52
41 42 3.569701 TCTGCCGCTTTGAATTCTTCTTT 59.430 39.130 7.05 0.00 0.00 2.52
42 43 4.759693 TCTGCCGCTTTGAATTCTTCTTTA 59.240 37.500 7.05 0.00 0.00 1.85
43 44 5.415701 TCTGCCGCTTTGAATTCTTCTTTAT 59.584 36.000 7.05 0.00 0.00 1.40
44 45 6.597672 TCTGCCGCTTTGAATTCTTCTTTATA 59.402 34.615 7.05 0.00 0.00 0.98
45 46 7.283127 TCTGCCGCTTTGAATTCTTCTTTATAT 59.717 33.333 7.05 0.00 0.00 0.86
46 47 7.771183 TGCCGCTTTGAATTCTTCTTTATATT 58.229 30.769 7.05 0.00 0.00 1.28
47 48 7.701924 TGCCGCTTTGAATTCTTCTTTATATTG 59.298 33.333 7.05 0.00 0.00 1.90
48 49 7.168135 GCCGCTTTGAATTCTTCTTTATATTGG 59.832 37.037 7.05 0.00 0.00 3.16
49 50 7.168135 CCGCTTTGAATTCTTCTTTATATTGGC 59.832 37.037 7.05 0.00 0.00 4.52
50 51 7.701924 CGCTTTGAATTCTTCTTTATATTGGCA 59.298 33.333 7.05 0.00 0.00 4.92
51 52 9.538508 GCTTTGAATTCTTCTTTATATTGGCAT 57.461 29.630 7.05 0.00 0.00 4.40
72 73 9.355916 TGGCATATATAGAGGTATAGATGACAC 57.644 37.037 10.26 2.62 45.60 3.67
73 74 9.355916 GGCATATATAGAGGTATAGATGACACA 57.644 37.037 10.00 0.00 43.90 3.72
81 82 7.989826 AGAGGTATAGATGACACAAAAATTGC 58.010 34.615 0.00 0.00 0.00 3.56
82 83 7.067494 AGAGGTATAGATGACACAAAAATTGCC 59.933 37.037 0.00 0.00 0.00 4.52
83 84 6.891908 AGGTATAGATGACACAAAAATTGCCT 59.108 34.615 0.00 0.00 0.00 4.75
84 85 6.974622 GGTATAGATGACACAAAAATTGCCTG 59.025 38.462 0.00 0.00 0.00 4.85
85 86 6.839124 ATAGATGACACAAAAATTGCCTGA 57.161 33.333 0.00 0.00 0.00 3.86
86 87 5.534207 AGATGACACAAAAATTGCCTGAA 57.466 34.783 0.00 0.00 0.00 3.02
87 88 5.916318 AGATGACACAAAAATTGCCTGAAA 58.084 33.333 0.00 0.00 0.00 2.69
88 89 6.347696 AGATGACACAAAAATTGCCTGAAAA 58.652 32.000 0.00 0.00 0.00 2.29
89 90 6.822676 AGATGACACAAAAATTGCCTGAAAAA 59.177 30.769 0.00 0.00 0.00 1.94
90 91 6.175712 TGACACAAAAATTGCCTGAAAAAC 57.824 33.333 0.00 0.00 0.00 2.43
91 92 5.702670 TGACACAAAAATTGCCTGAAAAACA 59.297 32.000 0.00 0.00 0.00 2.83
92 93 6.205464 TGACACAAAAATTGCCTGAAAAACAA 59.795 30.769 0.00 0.00 0.00 2.83
93 94 6.610456 ACACAAAAATTGCCTGAAAAACAAG 58.390 32.000 0.00 0.00 0.00 3.16
94 95 6.206438 ACACAAAAATTGCCTGAAAAACAAGT 59.794 30.769 0.00 0.00 0.00 3.16
95 96 6.742264 CACAAAAATTGCCTGAAAAACAAGTC 59.258 34.615 0.00 0.00 0.00 3.01
96 97 6.429385 ACAAAAATTGCCTGAAAAACAAGTCA 59.571 30.769 0.00 0.00 0.00 3.41
97 98 7.040823 ACAAAAATTGCCTGAAAAACAAGTCAA 60.041 29.630 0.00 0.00 0.00 3.18
98 99 7.446001 AAAATTGCCTGAAAAACAAGTCAAA 57.554 28.000 0.00 0.00 0.00 2.69
99 100 7.446001 AAATTGCCTGAAAAACAAGTCAAAA 57.554 28.000 0.00 0.00 0.00 2.44
100 101 5.854431 TTGCCTGAAAAACAAGTCAAAAC 57.146 34.783 0.00 0.00 0.00 2.43
101 102 4.887748 TGCCTGAAAAACAAGTCAAAACA 58.112 34.783 0.00 0.00 0.00 2.83
102 103 5.486526 TGCCTGAAAAACAAGTCAAAACAT 58.513 33.333 0.00 0.00 0.00 2.71
103 104 5.936956 TGCCTGAAAAACAAGTCAAAACATT 59.063 32.000 0.00 0.00 0.00 2.71
104 105 6.128336 TGCCTGAAAAACAAGTCAAAACATTG 60.128 34.615 0.00 0.00 0.00 2.82
105 106 6.250089 CCTGAAAAACAAGTCAAAACATTGC 58.750 36.000 0.00 0.00 0.00 3.56
106 107 5.852005 TGAAAAACAAGTCAAAACATTGCG 58.148 33.333 0.00 0.00 0.00 4.85
107 108 5.406780 TGAAAAACAAGTCAAAACATTGCGT 59.593 32.000 0.00 0.00 0.00 5.24
108 109 4.838665 AAACAAGTCAAAACATTGCGTG 57.161 36.364 0.00 0.00 0.00 5.34
109 110 3.773860 ACAAGTCAAAACATTGCGTGA 57.226 38.095 0.00 0.00 0.00 4.35
118 121 5.404968 TCAAAACATTGCGTGAAAATCATCC 59.595 36.000 0.00 0.00 0.00 3.51
122 125 1.902938 TGCGTGAAAATCATCCACCA 58.097 45.000 0.00 0.00 0.00 4.17
124 127 2.824936 TGCGTGAAAATCATCCACCAAT 59.175 40.909 0.00 0.00 0.00 3.16
127 130 4.977963 GCGTGAAAATCATCCACCAATATG 59.022 41.667 0.00 0.00 0.00 1.78
149 153 1.900981 CACATGGGGCACGTGGAAA 60.901 57.895 18.88 0.00 40.51 3.13
150 154 1.901464 ACATGGGGCACGTGGAAAC 60.901 57.895 18.88 0.00 40.51 2.78
151 155 1.900981 CATGGGGCACGTGGAAACA 60.901 57.895 18.88 0.00 38.70 2.83
153 157 1.178534 ATGGGGCACGTGGAAACAAG 61.179 55.000 18.88 0.00 46.06 3.16
225 229 2.731691 ATCGCACGCCACCAGTTCTT 62.732 55.000 0.00 0.00 0.00 2.52
230 234 0.759346 ACGCCACCAGTTCTTCTTCT 59.241 50.000 0.00 0.00 0.00 2.85
231 235 1.270358 ACGCCACCAGTTCTTCTTCTC 60.270 52.381 0.00 0.00 0.00 2.87
256 260 0.178970 GCTACCCGGATAGGACCTCA 60.179 60.000 4.61 0.00 45.00 3.86
258 262 0.481567 TACCCGGATAGGACCTCAGG 59.518 60.000 0.73 0.00 45.00 3.86
259 263 1.294426 ACCCGGATAGGACCTCAGGA 61.294 60.000 0.73 0.00 45.00 3.86
264 268 3.901844 CCGGATAGGACCTCAGGAAAATA 59.098 47.826 0.00 0.00 45.00 1.40
272 276 5.015178 AGGACCTCAGGAAAATACCAAATCA 59.985 40.000 0.00 0.00 0.00 2.57
274 278 5.640147 ACCTCAGGAAAATACCAAATCACA 58.360 37.500 0.00 0.00 0.00 3.58
278 282 6.442952 TCAGGAAAATACCAAATCACAAACG 58.557 36.000 0.00 0.00 0.00 3.60
280 284 4.985409 GGAAAATACCAAATCACAAACGCA 59.015 37.500 0.00 0.00 0.00 5.24
604 639 1.329906 CTTCTTATTCTGCTGCCGCTG 59.670 52.381 0.70 0.54 36.97 5.18
605 640 1.091771 TCTTATTCTGCTGCCGCTGC 61.092 55.000 14.83 14.83 36.97 5.25
607 642 1.371337 TTATTCTGCTGCCGCTGCTG 61.371 55.000 21.13 20.02 38.71 4.41
644 697 0.804544 TCGCGCGGAGGATTTTGTAG 60.805 55.000 31.69 0.00 0.00 2.74
645 698 1.082117 CGCGCGGAGGATTTTGTAGT 61.082 55.000 24.84 0.00 0.00 2.73
646 699 0.373716 GCGCGGAGGATTTTGTAGTG 59.626 55.000 8.83 0.00 0.00 2.74
686 739 1.203758 CGTGGGTTTCTTTATTGGCCC 59.796 52.381 0.00 0.00 36.73 5.80
717 770 2.570135 GGTTCTTGCCTCATCTCATCC 58.430 52.381 0.00 0.00 0.00 3.51
774 832 0.743688 CGCTCATGCTGGTAGTCTCT 59.256 55.000 0.00 0.00 36.97 3.10
782 840 1.407258 GCTGGTAGTCTCTGCGATCTT 59.593 52.381 0.00 0.00 0.00 2.40
783 841 2.542824 GCTGGTAGTCTCTGCGATCTTC 60.543 54.545 0.00 0.00 0.00 2.87
796 854 3.181496 TGCGATCTTCTATATAGCCTGCG 60.181 47.826 4.75 6.26 0.00 5.18
805 863 1.257743 TATAGCCTGCGACCCTGATC 58.742 55.000 0.00 0.00 0.00 2.92
812 870 2.355126 CGACCCTGATCGATGCGG 60.355 66.667 0.54 2.22 45.13 5.69
839 898 1.287730 GGCACTCGCTGTTCTCTGTG 61.288 60.000 0.00 0.00 38.60 3.66
844 903 2.266554 CTCGCTGTTCTCTGTGATTCC 58.733 52.381 0.00 0.00 33.09 3.01
849 908 1.699083 TGTTCTCTGTGATTCCCTGCA 59.301 47.619 0.00 0.00 0.00 4.41
856 915 2.083774 TGTGATTCCCTGCACGAAATC 58.916 47.619 0.00 0.00 37.83 2.17
882 941 1.072965 CTCCAAGGCCTTGAGAACTGT 59.927 52.381 41.10 4.23 42.93 3.55
883 942 1.202806 TCCAAGGCCTTGAGAACTGTG 60.203 52.381 41.10 23.87 42.93 3.66
912 974 4.206477 TCTGGTCATAGGTGATGTTGTG 57.794 45.455 0.00 0.00 36.60 3.33
913 975 3.837731 TCTGGTCATAGGTGATGTTGTGA 59.162 43.478 0.00 0.00 36.60 3.58
914 976 3.935203 CTGGTCATAGGTGATGTTGTGAC 59.065 47.826 0.00 0.00 36.60 3.67
921 983 6.701400 TCATAGGTGATGTTGTGACGATAATG 59.299 38.462 0.00 0.00 36.84 1.90
924 986 3.373748 GTGATGTTGTGACGATAATGCCA 59.626 43.478 0.00 0.00 0.00 4.92
944 1006 1.703513 AGTGAGGAACTGGTTAACCCC 59.296 52.381 21.97 15.03 41.55 4.95
1010 1076 4.604976 GCTTAGCGATTGATGATTTTGCT 58.395 39.130 0.00 0.00 35.12 3.91
1038 1104 5.335976 CCCTTCTTCTTTTAGCAATGGACAC 60.336 44.000 0.00 0.00 0.00 3.67
1039 1105 5.241506 CCTTCTTCTTTTAGCAATGGACACA 59.758 40.000 0.00 0.00 0.00 3.72
1040 1106 6.239008 CCTTCTTCTTTTAGCAATGGACACAA 60.239 38.462 0.00 0.00 0.00 3.33
1041 1107 6.899393 TCTTCTTTTAGCAATGGACACAAT 57.101 33.333 0.00 0.00 0.00 2.71
1065 1131 1.952296 GTTCTGGGAATGCTATGCAGG 59.048 52.381 0.00 0.00 43.65 4.85
1067 1133 1.152694 TGGGAATGCTATGCAGGGC 60.153 57.895 6.72 6.72 43.65 5.19
1159 1229 5.105063 CAGTATATATGGGAGTGATGTGCG 58.895 45.833 0.00 0.00 0.00 5.34
1160 1230 5.016831 AGTATATATGGGAGTGATGTGCGA 58.983 41.667 0.00 0.00 0.00 5.10
1164 1234 0.107643 TGGGAGTGATGTGCGAACAA 59.892 50.000 0.00 0.00 0.00 2.83
1232 1323 4.973168 AGTCTTTTGGTGCATACTTGAGA 58.027 39.130 0.00 0.00 0.00 3.27
1233 1324 5.376625 AGTCTTTTGGTGCATACTTGAGAA 58.623 37.500 0.00 0.00 0.00 2.87
1238 1329 6.985188 TTTGGTGCATACTTGAGAAGATAC 57.015 37.500 0.00 0.00 0.00 2.24
1243 1334 6.102663 GTGCATACTTGAGAAGATACACTGT 58.897 40.000 0.00 0.00 0.00 3.55
1249 1341 4.808414 TGAGAAGATACACTGTCCTTGG 57.192 45.455 2.49 0.00 0.00 3.61
1250 1342 4.160329 TGAGAAGATACACTGTCCTTGGT 58.840 43.478 2.49 0.00 0.00 3.67
1252 1344 4.899502 AGAAGATACACTGTCCTTGGTTG 58.100 43.478 2.49 0.00 0.00 3.77
1253 1345 3.059352 AGATACACTGTCCTTGGTTGC 57.941 47.619 0.00 0.00 0.00 4.17
1270 1362 6.403866 TGGTTGCTTTTCTGATTGTACATT 57.596 33.333 0.00 0.00 0.00 2.71
1278 1370 5.801350 TTCTGATTGTACATTACTGCTGC 57.199 39.130 0.00 0.00 0.00 5.25
1284 1376 8.956533 TGATTGTACATTACTGCTGCTTATTA 57.043 30.769 0.00 0.00 0.00 0.98
1285 1377 9.559732 TGATTGTACATTACTGCTGCTTATTAT 57.440 29.630 0.00 0.00 0.00 1.28
1369 1461 1.804748 GGAAAAGGTGCCAGTCTTACG 59.195 52.381 0.00 0.00 0.00 3.18
1372 1464 0.037232 AAGGTGCCAGTCTTACGCTC 60.037 55.000 0.00 0.00 0.00 5.03
1373 1465 0.900647 AGGTGCCAGTCTTACGCTCT 60.901 55.000 0.00 0.00 0.00 4.09
1452 1544 5.770162 CCTCTGAATTTGGTTTCTTGGTAGT 59.230 40.000 0.00 0.00 0.00 2.73
1453 1545 6.940298 CCTCTGAATTTGGTTTCTTGGTAGTA 59.060 38.462 0.00 0.00 0.00 1.82
1454 1546 7.094762 CCTCTGAATTTGGTTTCTTGGTAGTAC 60.095 40.741 0.00 0.00 0.00 2.73
1493 1585 6.127563 TGCTGTTTATTCAGTACCGATAGACA 60.128 38.462 0.00 0.00 37.70 3.41
1518 1610 3.817647 AGTGCTTTCCATGTTCAGTCTTC 59.182 43.478 0.00 0.00 0.00 2.87
1522 1614 3.855255 TTCCATGTTCAGTCTTCACCA 57.145 42.857 0.00 0.00 0.00 4.17
1609 1787 6.115448 AGTAGTACCTGATTGCATAATCCC 57.885 41.667 0.00 0.00 41.62 3.85
1610 1788 5.846714 AGTAGTACCTGATTGCATAATCCCT 59.153 40.000 0.00 0.00 41.62 4.20
1661 1904 3.620488 CCACTGGTGCCATTAACACTAT 58.380 45.455 0.00 0.00 38.14 2.12
1711 1954 8.173130 GCATTTTCTTTGCTGATTTATTTCCTG 58.827 33.333 0.00 0.00 37.14 3.86
1715 1958 7.383102 TCTTTGCTGATTTATTTCCTGAGTC 57.617 36.000 0.00 0.00 0.00 3.36
1771 2015 2.368655 AATTTGATTTCGTGCAGGGC 57.631 45.000 6.56 0.00 0.00 5.19
1899 2143 1.207791 AGCACCTCTTCCATGTAGGG 58.792 55.000 0.00 0.00 38.24 3.53
1973 2218 9.916397 GTCTGTATAAACTGTGATTTTTATCCG 57.084 33.333 0.00 0.00 31.73 4.18
1999 2244 6.024552 TGCAGGTTTCTTGAATTATGTTCC 57.975 37.500 0.00 0.00 0.00 3.62
2022 2267 4.418392 GTTATGAATTCTGGCAAGCACAG 58.582 43.478 7.05 0.00 37.30 3.66
2026 2271 1.530013 ATTCTGGCAAGCACAGTGGC 61.530 55.000 1.84 0.00 41.71 5.01
2101 2346 2.196749 AGTATCTTGAGCGATGCAACG 58.803 47.619 12.54 12.54 0.00 4.10
2125 2370 1.123077 TGTTGACACAGCTCAGAGGT 58.877 50.000 0.00 0.00 0.00 3.85
2153 2398 5.011023 ACCGAAAAGCTGAAGGAATCAAATT 59.989 36.000 5.00 0.00 37.67 1.82
2154 2399 5.574443 CCGAAAAGCTGAAGGAATCAAATTC 59.426 40.000 0.00 0.00 37.67 2.17
2200 2445 4.376225 CCTTAAGGTACCTTTGTTCCCA 57.624 45.455 31.47 9.72 37.47 4.37
2229 2474 6.925165 CACTTTGCATCTTATTGTTGGACTTT 59.075 34.615 0.00 0.00 0.00 2.66
2315 2576 2.379972 CCTCAGTTCTCAGTACCGGAT 58.620 52.381 9.46 0.00 0.00 4.18
2317 2578 3.952323 CCTCAGTTCTCAGTACCGGATTA 59.048 47.826 9.46 0.00 0.00 1.75
2318 2579 4.401519 CCTCAGTTCTCAGTACCGGATTAA 59.598 45.833 9.46 0.00 0.00 1.40
2366 2627 3.659092 CGCTGCGCCCAGTTTGAA 61.659 61.111 9.88 0.00 41.26 2.69
2486 2747 7.886338 AGATCAGATAAACTTTGTGGGTTTTC 58.114 34.615 0.00 0.00 37.88 2.29
2500 2761 4.027437 TGGGTTTTCTTTACAAGTGGCTT 58.973 39.130 0.00 0.00 0.00 4.35
2618 2879 1.673168 CTGCTCCTACAGGATTTGCC 58.327 55.000 0.00 0.00 44.46 4.52
2642 2903 2.372837 TCATATGCCTTATCCAGCTGCA 59.627 45.455 8.66 0.79 36.23 4.41
2659 2920 1.904771 CATTCCACCCCGCTGTCTA 59.095 57.895 0.00 0.00 0.00 2.59
2702 2963 0.555769 AAGTCCCAGCCAACAAAGGA 59.444 50.000 0.00 0.00 0.00 3.36
2711 2972 0.323629 CCAACAAAGGAGCTCCGGTA 59.676 55.000 26.95 0.00 42.08 4.02
2845 3106 1.647545 GCTGACTTGCGCTGCCATTA 61.648 55.000 9.73 0.00 0.00 1.90
3086 3348 8.474710 TTCTTGAGTTTCTACCTACAAGTACT 57.525 34.615 0.00 0.00 34.77 2.73
3103 3365 2.443887 ACTTGTGTGATGCATTTGGC 57.556 45.000 0.00 0.00 45.13 4.52
3118 3380 4.298332 CATTTGGCAGTACCTGTTTTGTC 58.702 43.478 0.00 0.00 40.22 3.18
3148 3410 1.677942 TGAACATGTGAGCACTTGCA 58.322 45.000 14.20 5.07 45.16 4.08
3149 3411 2.232399 TGAACATGTGAGCACTTGCAT 58.768 42.857 14.20 5.96 45.16 3.96
3164 3426 5.570344 CACTTGCATAGCTGATCTTTGAAG 58.430 41.667 0.00 0.00 0.00 3.02
3169 3431 7.400599 TGCATAGCTGATCTTTGAAGAAAAT 57.599 32.000 0.00 0.00 38.77 1.82
3286 3548 9.668497 GATATAGTAAGTGGAAAAGGTTCACTT 57.332 33.333 11.75 11.75 42.52 3.16
3301 3563 7.481695 AAGGTTCACTTATAATGCCCAAGCAA 61.482 38.462 0.00 0.00 45.45 3.91
3316 3578 5.295950 CCCAAGCAATACAACAATGACAAA 58.704 37.500 0.00 0.00 0.00 2.83
3352 3618 7.948278 TTAACTCAAAACTCTACAGCTCTTC 57.052 36.000 0.00 0.00 0.00 2.87
3406 3694 2.825532 AGCACACTTCCAAGTTTGTTGT 59.174 40.909 7.30 0.00 38.60 3.32
3442 3730 6.079424 TGGTAAGAACTTAACCAAATGTGC 57.921 37.500 7.09 0.00 31.94 4.57
3478 4200 5.837438 GGTACCCTGACTATGTAAGTACCAT 59.163 44.000 0.00 0.00 44.88 3.55
3517 4239 2.532843 ACAGCAAATTGGATCAGCCTT 58.467 42.857 0.00 0.00 37.63 4.35
3535 4257 4.941325 CCTTAATGGCTGATCATGATCG 57.059 45.455 26.52 21.69 40.63 3.69
3604 4326 1.079405 ACCATACCGGCACTGAACG 60.079 57.895 0.00 0.00 39.03 3.95
3709 4431 1.337817 CGAGGTCGTGTGCTTCTTCG 61.338 60.000 0.00 0.00 34.11 3.79
3721 4443 2.019984 GCTTCTTCGGAGGCATTCATT 58.980 47.619 0.00 0.00 44.93 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 4.009675 TCAAAGCGGCAGATTCAACTAAT 58.990 39.130 1.45 0.00 0.00 1.73
10 11 3.407698 TCAAAGCGGCAGATTCAACTAA 58.592 40.909 1.45 0.00 0.00 2.24
12 13 1.896220 TCAAAGCGGCAGATTCAACT 58.104 45.000 1.45 0.00 0.00 3.16
13 14 2.704725 TTCAAAGCGGCAGATTCAAC 57.295 45.000 1.45 0.00 0.00 3.18
14 15 3.507233 AGAATTCAAAGCGGCAGATTCAA 59.493 39.130 8.44 0.00 0.00 2.69
15 16 3.084039 AGAATTCAAAGCGGCAGATTCA 58.916 40.909 8.44 0.00 0.00 2.57
16 17 3.772060 AGAATTCAAAGCGGCAGATTC 57.228 42.857 8.44 4.49 0.00 2.52
17 18 4.102035 GAAGAATTCAAAGCGGCAGATT 57.898 40.909 8.44 0.00 46.62 2.40
18 19 3.772060 GAAGAATTCAAAGCGGCAGAT 57.228 42.857 8.44 0.00 46.62 2.90
45 46 9.936329 TGTCATCTATACCTCTATATATGCCAA 57.064 33.333 0.00 0.00 0.00 4.52
46 47 9.355916 GTGTCATCTATACCTCTATATATGCCA 57.644 37.037 0.00 0.00 0.00 4.92
47 48 9.355916 TGTGTCATCTATACCTCTATATATGCC 57.644 37.037 0.00 0.00 0.00 4.40
55 56 9.109393 GCAATTTTTGTGTCATCTATACCTCTA 57.891 33.333 0.00 0.00 0.00 2.43
56 57 7.067494 GGCAATTTTTGTGTCATCTATACCTCT 59.933 37.037 0.00 0.00 0.00 3.69
57 58 7.067494 AGGCAATTTTTGTGTCATCTATACCTC 59.933 37.037 0.00 0.00 0.00 3.85
58 59 6.891908 AGGCAATTTTTGTGTCATCTATACCT 59.108 34.615 0.00 0.00 0.00 3.08
59 60 6.974622 CAGGCAATTTTTGTGTCATCTATACC 59.025 38.462 0.00 0.00 0.00 2.73
60 61 7.761409 TCAGGCAATTTTTGTGTCATCTATAC 58.239 34.615 0.00 0.00 0.00 1.47
61 62 7.936496 TCAGGCAATTTTTGTGTCATCTATA 57.064 32.000 0.00 0.00 0.00 1.31
62 63 6.839124 TCAGGCAATTTTTGTGTCATCTAT 57.161 33.333 0.00 0.00 0.00 1.98
63 64 6.647334 TTCAGGCAATTTTTGTGTCATCTA 57.353 33.333 0.00 0.00 0.00 1.98
64 65 5.534207 TTCAGGCAATTTTTGTGTCATCT 57.466 34.783 0.00 0.00 0.00 2.90
65 66 6.601741 TTTTCAGGCAATTTTTGTGTCATC 57.398 33.333 0.00 0.00 0.00 2.92
66 67 6.373774 TGTTTTTCAGGCAATTTTTGTGTCAT 59.626 30.769 0.00 0.00 0.00 3.06
67 68 5.702670 TGTTTTTCAGGCAATTTTTGTGTCA 59.297 32.000 0.00 0.00 0.00 3.58
68 69 6.175712 TGTTTTTCAGGCAATTTTTGTGTC 57.824 33.333 0.00 0.00 0.00 3.67
69 70 6.206438 ACTTGTTTTTCAGGCAATTTTTGTGT 59.794 30.769 0.00 0.00 0.00 3.72
70 71 6.610456 ACTTGTTTTTCAGGCAATTTTTGTG 58.390 32.000 0.00 0.00 0.00 3.33
71 72 6.429385 TGACTTGTTTTTCAGGCAATTTTTGT 59.571 30.769 0.00 0.00 0.00 2.83
72 73 6.840075 TGACTTGTTTTTCAGGCAATTTTTG 58.160 32.000 0.00 0.00 0.00 2.44
73 74 7.446001 TTGACTTGTTTTTCAGGCAATTTTT 57.554 28.000 0.00 0.00 0.00 1.94
74 75 7.446001 TTTGACTTGTTTTTCAGGCAATTTT 57.554 28.000 0.00 0.00 0.00 1.82
75 76 7.040823 TGTTTTGACTTGTTTTTCAGGCAATTT 60.041 29.630 0.00 0.00 0.00 1.82
76 77 6.429385 TGTTTTGACTTGTTTTTCAGGCAATT 59.571 30.769 0.00 0.00 0.00 2.32
77 78 5.936956 TGTTTTGACTTGTTTTTCAGGCAAT 59.063 32.000 0.00 0.00 0.00 3.56
78 79 5.300752 TGTTTTGACTTGTTTTTCAGGCAA 58.699 33.333 0.00 0.00 0.00 4.52
79 80 4.887748 TGTTTTGACTTGTTTTTCAGGCA 58.112 34.783 0.00 0.00 0.00 4.75
80 81 6.250089 CAATGTTTTGACTTGTTTTTCAGGC 58.750 36.000 0.00 0.00 34.60 4.85
81 82 6.250089 GCAATGTTTTGACTTGTTTTTCAGG 58.750 36.000 0.00 0.00 34.60 3.86
82 83 5.953205 CGCAATGTTTTGACTTGTTTTTCAG 59.047 36.000 0.00 0.00 34.60 3.02
83 84 5.406780 ACGCAATGTTTTGACTTGTTTTTCA 59.593 32.000 0.00 0.00 34.60 2.69
84 85 5.727592 CACGCAATGTTTTGACTTGTTTTTC 59.272 36.000 0.00 0.00 34.60 2.29
85 86 5.406780 TCACGCAATGTTTTGACTTGTTTTT 59.593 32.000 0.00 0.00 34.60 1.94
86 87 4.926238 TCACGCAATGTTTTGACTTGTTTT 59.074 33.333 0.00 0.00 34.60 2.43
87 88 4.489810 TCACGCAATGTTTTGACTTGTTT 58.510 34.783 0.00 0.00 34.60 2.83
88 89 4.103365 TCACGCAATGTTTTGACTTGTT 57.897 36.364 0.00 0.00 34.60 2.83
89 90 3.773860 TCACGCAATGTTTTGACTTGT 57.226 38.095 0.00 0.00 34.60 3.16
90 91 5.447478 TTTTCACGCAATGTTTTGACTTG 57.553 34.783 0.00 0.00 34.60 3.16
91 92 5.809562 TGATTTTCACGCAATGTTTTGACTT 59.190 32.000 0.00 0.00 34.60 3.01
92 93 5.347342 TGATTTTCACGCAATGTTTTGACT 58.653 33.333 0.00 0.00 34.60 3.41
93 94 5.633996 TGATTTTCACGCAATGTTTTGAC 57.366 34.783 0.00 0.00 34.60 3.18
94 95 5.404968 GGATGATTTTCACGCAATGTTTTGA 59.595 36.000 0.00 0.00 34.60 2.69
95 96 5.177142 TGGATGATTTTCACGCAATGTTTTG 59.823 36.000 0.00 0.00 35.85 2.44
96 97 5.177327 GTGGATGATTTTCACGCAATGTTTT 59.823 36.000 0.00 0.00 0.00 2.43
97 98 4.685628 GTGGATGATTTTCACGCAATGTTT 59.314 37.500 0.00 0.00 0.00 2.83
98 99 4.236935 GTGGATGATTTTCACGCAATGTT 58.763 39.130 0.00 0.00 0.00 2.71
99 100 3.367292 GGTGGATGATTTTCACGCAATGT 60.367 43.478 0.00 0.00 32.65 2.71
100 101 3.181397 GGTGGATGATTTTCACGCAATG 58.819 45.455 0.00 0.00 32.65 2.82
101 102 2.824936 TGGTGGATGATTTTCACGCAAT 59.175 40.909 0.00 0.00 32.65 3.56
102 103 2.234143 TGGTGGATGATTTTCACGCAA 58.766 42.857 0.00 0.00 32.65 4.85
103 104 1.902938 TGGTGGATGATTTTCACGCA 58.097 45.000 0.00 0.00 32.65 5.24
104 105 3.508744 ATTGGTGGATGATTTTCACGC 57.491 42.857 0.00 0.00 32.65 5.34
105 106 5.299028 TCCATATTGGTGGATGATTTTCACG 59.701 40.000 0.00 0.00 43.20 4.35
106 107 6.713762 TCCATATTGGTGGATGATTTTCAC 57.286 37.500 0.00 0.00 43.20 3.18
118 121 2.309613 CCCATGTGGTCCATATTGGTG 58.690 52.381 9.86 0.00 39.03 4.17
122 125 0.932955 TGCCCCATGTGGTCCATATT 59.067 50.000 0.00 0.00 30.71 1.28
124 127 1.612513 GTGCCCCATGTGGTCCATA 59.387 57.895 0.00 0.00 30.71 2.74
127 130 4.344865 ACGTGCCCCATGTGGTCC 62.345 66.667 0.00 0.00 31.87 4.46
149 153 1.933853 GATCGTTATCGCCTTGCTTGT 59.066 47.619 0.00 0.00 36.96 3.16
150 154 2.652662 GATCGTTATCGCCTTGCTTG 57.347 50.000 0.00 0.00 36.96 4.01
225 229 1.030488 CGGGTAGCGAGTGGAGAAGA 61.030 60.000 0.00 0.00 0.00 2.87
230 234 0.536687 CTATCCGGGTAGCGAGTGGA 60.537 60.000 9.27 0.00 0.00 4.02
231 235 1.524863 CCTATCCGGGTAGCGAGTGG 61.525 65.000 16.90 0.00 0.00 4.00
256 260 5.221342 TGCGTTTGTGATTTGGTATTTTCCT 60.221 36.000 0.00 0.00 0.00 3.36
258 262 5.107645 GGTGCGTTTGTGATTTGGTATTTTC 60.108 40.000 0.00 0.00 0.00 2.29
259 263 4.747605 GGTGCGTTTGTGATTTGGTATTTT 59.252 37.500 0.00 0.00 0.00 1.82
264 268 0.387565 GGGTGCGTTTGTGATTTGGT 59.612 50.000 0.00 0.00 0.00 3.67
272 276 1.071471 CAGAGAGGGGTGCGTTTGT 59.929 57.895 0.00 0.00 0.00 2.83
274 278 2.032681 GCAGAGAGGGGTGCGTTT 59.967 61.111 0.00 0.00 0.00 3.60
294 298 2.383527 CCTGGACGCGCTCTTGTTC 61.384 63.158 5.73 0.00 0.00 3.18
487 509 4.483243 GCGCCCCCGATGAGGAAA 62.483 66.667 0.00 0.00 45.00 3.13
566 601 3.984090 AGAAGAAGAAAAGGGGGTCTCTT 59.016 43.478 0.00 0.00 0.00 2.85
570 605 6.375736 CAGAATAAGAAGAAGAAAAGGGGGTC 59.624 42.308 0.00 0.00 0.00 4.46
571 606 6.249192 CAGAATAAGAAGAAGAAAAGGGGGT 58.751 40.000 0.00 0.00 0.00 4.95
576 611 6.320944 GGCAGCAGAATAAGAAGAAGAAAAG 58.679 40.000 0.00 0.00 0.00 2.27
604 639 3.103911 CGCAAAAGCAGCAGCAGC 61.104 61.111 3.17 0.46 45.49 5.25
605 640 2.430244 CCGCAAAAGCAGCAGCAG 60.430 61.111 3.17 0.00 45.49 4.24
607 642 2.429739 GACCGCAAAAGCAGCAGC 60.430 61.111 0.00 0.00 42.56 5.25
608 643 1.208614 GAGACCGCAAAAGCAGCAG 59.791 57.895 0.00 0.00 0.00 4.24
609 644 2.606961 CGAGACCGCAAAAGCAGCA 61.607 57.895 0.00 0.00 0.00 4.41
610 645 2.174349 CGAGACCGCAAAAGCAGC 59.826 61.111 0.00 0.00 0.00 5.25
622 672 1.810030 AAAATCCTCCGCGCGAGAC 60.810 57.895 34.63 0.00 41.63 3.36
624 674 0.804544 TACAAAATCCTCCGCGCGAG 60.805 55.000 34.63 24.81 38.46 5.03
625 675 0.804544 CTACAAAATCCTCCGCGCGA 60.805 55.000 34.63 16.66 0.00 5.87
632 682 2.093658 TCGAGGGCACTACAAAATCCTC 60.094 50.000 0.00 0.00 37.88 3.71
633 683 1.906574 TCGAGGGCACTACAAAATCCT 59.093 47.619 0.00 0.00 0.00 3.24
644 697 4.803426 CAGCGACCTCGAGGGCAC 62.803 72.222 35.93 27.67 46.09 5.01
646 699 4.500116 GACAGCGACCTCGAGGGC 62.500 72.222 34.04 31.56 43.02 5.19
774 832 3.181496 CGCAGGCTATATAGAAGATCGCA 60.181 47.826 14.16 0.00 0.00 5.10
782 840 2.041216 TCAGGGTCGCAGGCTATATAGA 59.959 50.000 14.16 0.00 0.00 1.98
783 841 2.447443 TCAGGGTCGCAGGCTATATAG 58.553 52.381 5.30 5.30 0.00 1.31
796 854 2.029666 CCCGCATCGATCAGGGTC 59.970 66.667 21.13 0.00 39.05 4.46
812 870 4.400961 AGCGAGTGCCTCCAAGCC 62.401 66.667 0.00 0.00 44.31 4.35
822 881 2.360553 ATCACAGAGAACAGCGAGTG 57.639 50.000 0.00 0.00 0.00 3.51
824 883 2.266554 GGAATCACAGAGAACAGCGAG 58.733 52.381 0.00 0.00 0.00 5.03
826 885 1.066573 AGGGAATCACAGAGAACAGCG 60.067 52.381 0.00 0.00 0.00 5.18
830 889 2.079925 GTGCAGGGAATCACAGAGAAC 58.920 52.381 0.00 0.00 33.63 3.01
839 898 2.096496 CACAGATTTCGTGCAGGGAATC 59.904 50.000 26.22 26.22 0.00 2.52
844 903 0.957395 AGCCACAGATTTCGTGCAGG 60.957 55.000 0.00 0.00 32.85 4.85
849 908 1.611673 CCTTGGAGCCACAGATTTCGT 60.612 52.381 0.00 0.00 0.00 3.85
882 941 4.080413 TCACCTATGACCAGAATTGCATCA 60.080 41.667 0.00 0.00 0.00 3.07
883 942 4.454678 TCACCTATGACCAGAATTGCATC 58.545 43.478 0.00 0.00 0.00 3.91
912 974 2.866762 GTTCCTCACTGGCATTATCGTC 59.133 50.000 0.00 0.00 35.26 4.20
913 975 2.501723 AGTTCCTCACTGGCATTATCGT 59.498 45.455 0.00 0.00 32.83 3.73
914 976 3.185246 AGTTCCTCACTGGCATTATCG 57.815 47.619 0.00 0.00 32.83 2.92
924 986 1.703513 GGGGTTAACCAGTTCCTCACT 59.296 52.381 25.71 0.00 42.91 3.41
944 1006 2.355132 GAGATCTGCAGATTTGTGCCAG 59.645 50.000 29.26 0.00 43.28 4.85
1000 1066 2.532843 AGAAGGGCACAGCAAAATCAT 58.467 42.857 0.00 0.00 0.00 2.45
1010 1076 3.222173 TGCTAAAAGAAGAAGGGCACA 57.778 42.857 0.00 0.00 0.00 4.57
1038 1104 3.947910 AGCATTCCCAGAACACAATTG 57.052 42.857 3.24 3.24 0.00 2.32
1039 1105 4.142093 GCATAGCATTCCCAGAACACAATT 60.142 41.667 0.00 0.00 0.00 2.32
1040 1106 3.382546 GCATAGCATTCCCAGAACACAAT 59.617 43.478 0.00 0.00 0.00 2.71
1041 1107 2.754552 GCATAGCATTCCCAGAACACAA 59.245 45.455 0.00 0.00 0.00 3.33
1046 1112 1.133699 CCCTGCATAGCATTCCCAGAA 60.134 52.381 0.00 0.00 38.13 3.02
1048 1114 1.177256 GCCCTGCATAGCATTCCCAG 61.177 60.000 3.36 0.00 38.13 4.45
1049 1115 1.152694 GCCCTGCATAGCATTCCCA 60.153 57.895 3.36 0.00 38.13 4.37
1050 1116 0.892814 GAGCCCTGCATAGCATTCCC 60.893 60.000 10.39 0.00 38.13 3.97
1051 1117 0.892814 GGAGCCCTGCATAGCATTCC 60.893 60.000 10.39 5.90 38.13 3.01
1065 1131 2.753446 GCAAGAAGCCCTGGAGCC 60.753 66.667 0.00 0.00 37.23 4.70
1143 1213 1.552792 TGTTCGCACATCACTCCCATA 59.447 47.619 0.00 0.00 0.00 2.74
1159 1229 6.143919 GTCCTTCAAAACGGAATCATTTGTTC 59.856 38.462 0.00 0.00 35.92 3.18
1160 1230 5.983118 GTCCTTCAAAACGGAATCATTTGTT 59.017 36.000 0.00 0.00 35.92 2.83
1164 1234 4.582656 TGTGTCCTTCAAAACGGAATCATT 59.417 37.500 0.00 0.00 0.00 2.57
1204 1295 5.186198 AGTATGCACCAAAAGACTATGTCC 58.814 41.667 0.00 0.00 32.18 4.02
1232 1323 3.073062 AGCAACCAAGGACAGTGTATCTT 59.927 43.478 0.00 0.27 0.00 2.40
1233 1324 2.639839 AGCAACCAAGGACAGTGTATCT 59.360 45.455 0.00 0.00 0.00 1.98
1238 1329 2.689983 AGAAAAGCAACCAAGGACAGTG 59.310 45.455 0.00 0.00 0.00 3.66
1243 1334 3.960102 ACAATCAGAAAAGCAACCAAGGA 59.040 39.130 0.00 0.00 0.00 3.36
1249 1341 7.061094 GCAGTAATGTACAATCAGAAAAGCAAC 59.939 37.037 0.00 0.00 0.00 4.17
1250 1342 7.040478 AGCAGTAATGTACAATCAGAAAAGCAA 60.040 33.333 0.00 0.00 0.00 3.91
1252 1344 6.744537 CAGCAGTAATGTACAATCAGAAAAGC 59.255 38.462 0.00 0.00 0.00 3.51
1253 1345 6.744537 GCAGCAGTAATGTACAATCAGAAAAG 59.255 38.462 0.00 0.00 0.00 2.27
1270 1362 7.331026 AGTCTGTCAAATAATAAGCAGCAGTA 58.669 34.615 0.00 0.00 0.00 2.74
1278 1370 9.177608 TCAATCCCAAGTCTGTCAAATAATAAG 57.822 33.333 0.00 0.00 0.00 1.73
1284 1376 4.043310 TCCTCAATCCCAAGTCTGTCAAAT 59.957 41.667 0.00 0.00 0.00 2.32
1285 1377 3.394274 TCCTCAATCCCAAGTCTGTCAAA 59.606 43.478 0.00 0.00 0.00 2.69
1286 1378 2.978978 TCCTCAATCCCAAGTCTGTCAA 59.021 45.455 0.00 0.00 0.00 3.18
1452 1544 9.474313 AATAAACAGCAAGGAAATGGAATAGTA 57.526 29.630 0.00 0.00 0.00 1.82
1453 1545 7.961326 ATAAACAGCAAGGAAATGGAATAGT 57.039 32.000 0.00 0.00 0.00 2.12
1454 1546 8.469200 TGAATAAACAGCAAGGAAATGGAATAG 58.531 33.333 0.00 0.00 0.00 1.73
1493 1585 5.564550 AGACTGAACATGGAAAGCACTATT 58.435 37.500 0.00 0.00 0.00 1.73
1518 1610 6.162079 CACTATATCCTCTGTTATGCTGGTG 58.838 44.000 0.00 0.00 0.00 4.17
1522 1614 6.318913 AGTCCACTATATCCTCTGTTATGCT 58.681 40.000 0.00 0.00 0.00 3.79
1580 1672 5.738619 TGCAATCAGGTACTACTCAGAAA 57.261 39.130 0.00 0.00 36.02 2.52
1711 1954 4.274459 GCAGATCCAATATGGTGTTGACTC 59.726 45.833 0.00 0.00 39.03 3.36
1715 1958 4.987408 TTGCAGATCCAATATGGTGTTG 57.013 40.909 0.00 0.00 39.03 3.33
1870 2114 4.362677 TGGAAGAGGTGCTTTAGGAGTAT 58.637 43.478 0.00 0.00 36.83 2.12
1899 2143 5.909610 GCACGTATATGCATCTTTTCCTTTC 59.090 40.000 0.19 0.00 45.39 2.62
1973 2218 7.276438 GGAACATAATTCAAGAAACCTGCAATC 59.724 37.037 0.00 0.00 0.00 2.67
1999 2244 3.119884 TGTGCTTGCCAGAATTCATAACG 60.120 43.478 8.44 0.00 0.00 3.18
2022 2267 1.200020 CCGAACATTCTTCAAGGCCAC 59.800 52.381 5.01 0.00 0.00 5.01
2026 2271 2.352960 GCTAGCCGAACATTCTTCAAGG 59.647 50.000 2.29 0.00 0.00 3.61
2101 2346 1.391485 CTGAGCTGTGTCAACATACGC 59.609 52.381 0.00 0.00 35.22 4.42
2125 2370 1.691976 TCCTTCAGCTTTTCGGTCTCA 59.308 47.619 0.00 0.00 0.00 3.27
2200 2445 6.209192 TCCAACAATAAGATGCAAAGTGATGT 59.791 34.615 0.00 0.00 0.00 3.06
2285 2546 2.639839 TGAGAACTGAGGGGAGAAAAGG 59.360 50.000 0.00 0.00 0.00 3.11
2318 2579 5.007921 GCATGAGAACAAGTTTGCCATTTTT 59.992 36.000 0.00 0.00 0.00 1.94
2366 2627 3.057315 GTCAGCCAACTGTTGCACATAAT 60.057 43.478 14.94 0.00 44.77 1.28
2500 2761 9.189156 CATTCTTCTCCACCTGGAAAATAATAA 57.811 33.333 0.00 0.00 44.91 1.40
2618 2879 2.575279 AGCTGGATAAGGCATATGAGGG 59.425 50.000 6.97 0.00 0.00 4.30
2642 2903 1.623542 GGTAGACAGCGGGGTGGAAT 61.624 60.000 2.69 0.00 0.00 3.01
2654 2915 1.004277 GGTGCAAATGGAGGGTAGACA 59.996 52.381 0.00 0.00 0.00 3.41
2659 2920 1.228862 GGTGGTGCAAATGGAGGGT 60.229 57.895 0.00 0.00 0.00 4.34
2711 2972 4.431131 CCAGGGAATGCAGCGGGT 62.431 66.667 0.00 0.00 0.00 5.28
2858 3119 1.935199 GGACCTGACAAACGTTCGAAA 59.065 47.619 0.00 0.00 0.00 3.46
2860 3121 0.249573 GGGACCTGACAAACGTTCGA 60.250 55.000 0.00 0.00 0.00 3.71
2861 3122 0.249741 AGGGACCTGACAAACGTTCG 60.250 55.000 0.00 0.00 0.00 3.95
3118 3380 9.102757 AGTGCTCACATGTTCAACTTTATATAG 57.897 33.333 0.00 0.00 0.00 1.31
3347 3613 6.410540 AGAAGTACCTTTTATGGCAGAAGAG 58.589 40.000 5.49 5.49 0.00 2.85
3352 3618 9.262358 GAGTAATAGAAGTACCTTTTATGGCAG 57.738 37.037 0.00 0.00 0.00 4.85
3378 3645 2.684881 ACTTGGAAGTGTGCTTGTTCAG 59.315 45.455 0.00 0.00 37.98 3.02
3379 3646 2.722094 ACTTGGAAGTGTGCTTGTTCA 58.278 42.857 0.00 0.00 37.98 3.18
3478 4200 5.767665 TGCTGTTAATTTGCTAGTTTGGAGA 59.232 36.000 0.00 0.00 0.00 3.71
3517 4239 4.060205 CACACGATCATGATCAGCCATTA 58.940 43.478 30.13 0.00 37.69 1.90
3530 4252 3.932710 GGCTATCTCAAAACACACGATCA 59.067 43.478 0.00 0.00 0.00 2.92
3531 4253 4.033358 CAGGCTATCTCAAAACACACGATC 59.967 45.833 0.00 0.00 0.00 3.69
3532 4254 3.935203 CAGGCTATCTCAAAACACACGAT 59.065 43.478 0.00 0.00 0.00 3.73
3533 4255 3.325870 CAGGCTATCTCAAAACACACGA 58.674 45.455 0.00 0.00 0.00 4.35
3534 4256 2.159653 GCAGGCTATCTCAAAACACACG 60.160 50.000 0.00 0.00 0.00 4.49
3535 4257 2.162408 GGCAGGCTATCTCAAAACACAC 59.838 50.000 0.00 0.00 0.00 3.82
3696 4418 2.383527 GCCTCCGAAGAAGCACACG 61.384 63.158 0.00 0.00 29.23 4.49
3709 4431 4.210331 ACTGTAATCCAATGAATGCCTCC 58.790 43.478 0.00 0.00 0.00 4.30
3721 4443 4.081917 TGCATCAACTACGACTGTAATCCA 60.082 41.667 0.00 0.00 0.00 3.41


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

AutoCloner maintained by Alex Coulton.