Multiple sequence alignment - TraesCS4A01G260300

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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 TraesCS4A01G260300 chr4A 100.000 3785 0 0 1 3785 572835118 572838902 0.000000e+00 6990.0
1 TraesCS4A01G260300 chr4A 89.011 91 10 0 719 809 674523392 674523482 3.090000e-21 113.0
2 TraesCS4A01G260300 chr4D 94.214 2679 137 10 876 3542 30215995 30213323 0.000000e+00 4072.0
3 TraesCS4A01G260300 chr4D 78.405 514 32 24 124 635 30216552 30216116 1.040000e-65 261.0
4 TraesCS4A01G260300 chr4D 92.442 172 10 3 3544 3713 30213289 30213119 3.780000e-60 243.0
5 TraesCS4A01G260300 chr4D 93.182 88 3 1 1 88 30216637 30216553 3.970000e-25 126.0
6 TraesCS4A01G260300 chr4D 93.750 64 2 1 3722 3785 30213131 30213070 1.120000e-15 95.3
7 TraesCS4A01G260300 chr4D 82.353 102 14 4 802 899 51076232 51076333 6.740000e-13 86.1
8 TraesCS4A01G260300 chr4D 82.979 94 15 1 807 899 500823358 500823265 2.420000e-12 84.2
9 TraesCS4A01G260300 chr4D 81.915 94 16 1 807 899 394301952 394301859 1.130000e-10 78.7
10 TraesCS4A01G260300 chr4B 93.058 2420 126 19 840 3250 43107248 43104862 0.000000e+00 3500.0
11 TraesCS4A01G260300 chr4B 85.811 444 38 15 363 792 43108188 43107756 7.460000e-122 448.0
12 TraesCS4A01G260300 chr4B 93.165 278 15 4 3296 3571 43104862 43104587 4.550000e-109 405.0
13 TraesCS4A01G260300 chr4B 88.293 205 10 6 124 328 43108393 43108203 2.270000e-57 233.0
14 TraesCS4A01G260300 chr4B 83.871 93 14 1 807 898 447455363 447455455 1.870000e-13 87.9
15 TraesCS4A01G260300 chr4B 97.436 39 1 0 3747 3785 43104573 43104535 2.440000e-07 67.6
16 TraesCS4A01G260300 chr7D 90.000 90 9 0 720 809 339118578 339118667 2.390000e-22 117.0
17 TraesCS4A01G260300 chr7B 90.000 90 9 0 720 809 284148985 284149074 2.390000e-22 117.0
18 TraesCS4A01G260300 chr3A 88.298 94 9 2 717 809 501225638 501225730 1.110000e-20 111.0
19 TraesCS4A01G260300 chr6D 89.655 87 7 2 724 809 65495809 65495724 4.000000e-20 110.0
20 TraesCS4A01G260300 chr3D 88.043 92 11 0 717 808 592762516 592762607 4.000000e-20 110.0
21 TraesCS4A01G260300 chr1D 87.097 93 12 0 717 809 320384660 320384568 5.170000e-19 106.0
22 TraesCS4A01G260300 chr5D 92.537 67 5 0 840 906 494083109 494083175 3.110000e-16 97.1
23 TraesCS4A01G260300 chr5D 81.915 94 16 1 807 899 408543785 408543878 1.130000e-10 78.7
24 TraesCS4A01G260300 chr5B 85.263 95 12 1 717 809 303582056 303582150 3.110000e-16 97.1
25 TraesCS4A01G260300 chr5A 93.750 64 2 2 847 909 663303958 663304020 1.120000e-15 95.3
26 TraesCS4A01G260300 chr2B 92.537 67 4 1 840 905 278907330 278907264 1.120000e-15 95.3
27 TraesCS4A01G260300 chr6B 76.623 154 32 4 67 218 567477689 567477840 8.710000e-12 82.4
28 TraesCS4A01G260300 chr7A 81.915 94 16 1 807 899 47048966 47049059 1.130000e-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 TraesCS4A01G260300 chr4A 572835118 572838902 3784 False 6990.00 6990 100.0000 1 3785 1 chr4A.!!$F1 3784
1 TraesCS4A01G260300 chr4D 30213070 30216637 3567 True 959.46 4072 90.3986 1 3785 5 chr4D.!!$R3 3784
2 TraesCS4A01G260300 chr4B 43104535 43108393 3858 True 930.72 3500 91.5526 124 3785 5 chr4B.!!$R1 3661

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
344 346 0.036164 ACCAGTGTGTGTGTGTGTGT 59.964 50.0 0.0 0.0 0.00 3.72 F
831 1314 0.096976 GTCATGTTTGTCATCCCGCG 59.903 55.0 0.0 0.0 34.09 6.46 F
2112 2606 0.254462 TTGATCTAATGGGCCGTGCA 59.746 50.0 0.0 0.0 0.00 4.57 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2004 2498 0.251165 AACCCTCATCAACCAACCCG 60.251 55.000 0.0 0.0 0.0 5.28 R
2637 3131 1.072331 ACACGGAGATTCTTTGCCAGT 59.928 47.619 0.0 0.0 0.0 4.00 R
3720 4257 0.035317 TCGCCACAGACAAGAATGCT 59.965 50.000 0.0 0.0 0.0 3.79 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
45 46 2.427095 GGCTCGATATTTGGCCACTTTT 59.573 45.455 3.88 0.00 43.59 2.27
46 47 3.630312 GGCTCGATATTTGGCCACTTTTA 59.370 43.478 3.88 0.00 43.59 1.52
47 48 4.261197 GGCTCGATATTTGGCCACTTTTAG 60.261 45.833 3.88 0.00 43.59 1.85
54 55 7.254795 CGATATTTGGCCACTTTTAGTAGAAGG 60.255 40.741 3.88 0.00 0.00 3.46
88 89 5.463286 GTTTTCACCGGGTTTTCGATATTT 58.537 37.500 6.32 0.00 0.00 1.40
89 90 4.950434 TTCACCGGGTTTTCGATATTTC 57.050 40.909 6.32 0.00 0.00 2.17
90 91 4.210724 TCACCGGGTTTTCGATATTTCT 57.789 40.909 6.32 0.00 0.00 2.52
91 92 4.186159 TCACCGGGTTTTCGATATTTCTC 58.814 43.478 6.32 0.00 0.00 2.87
92 93 3.000925 CACCGGGTTTTCGATATTTCTCG 59.999 47.826 6.32 0.00 39.99 4.04
93 94 3.192466 CCGGGTTTTCGATATTTCTCGT 58.808 45.455 0.00 0.00 39.62 4.18
94 95 3.000925 CCGGGTTTTCGATATTTCTCGTG 59.999 47.826 0.00 0.00 39.62 4.35
95 96 3.615496 CGGGTTTTCGATATTTCTCGTGT 59.385 43.478 0.00 0.00 39.62 4.49
96 97 4.259690 CGGGTTTTCGATATTTCTCGTGTC 60.260 45.833 0.00 0.00 39.62 3.67
97 98 4.868734 GGGTTTTCGATATTTCTCGTGTCT 59.131 41.667 0.00 0.00 39.62 3.41
98 99 5.350640 GGGTTTTCGATATTTCTCGTGTCTT 59.649 40.000 0.00 0.00 39.62 3.01
99 100 6.128363 GGGTTTTCGATATTTCTCGTGTCTTT 60.128 38.462 0.00 0.00 39.62 2.52
100 101 6.954297 GGTTTTCGATATTTCTCGTGTCTTTC 59.046 38.462 0.00 0.00 39.62 2.62
101 102 7.148623 GGTTTTCGATATTTCTCGTGTCTTTCT 60.149 37.037 0.00 0.00 39.62 2.52
102 103 8.857216 GTTTTCGATATTTCTCGTGTCTTTCTA 58.143 33.333 0.00 0.00 39.62 2.10
103 104 8.975410 TTTCGATATTTCTCGTGTCTTTCTAA 57.025 30.769 0.00 0.00 39.62 2.10
104 105 7.966157 TCGATATTTCTCGTGTCTTTCTAAC 57.034 36.000 0.00 0.00 39.62 2.34
105 106 6.685828 TCGATATTTCTCGTGTCTTTCTAACG 59.314 38.462 0.00 0.00 39.62 3.18
106 107 6.468319 CGATATTTCTCGTGTCTTTCTAACGT 59.532 38.462 0.00 0.00 38.43 3.99
107 108 7.008086 CGATATTTCTCGTGTCTTTCTAACGTT 59.992 37.037 5.88 5.88 38.43 3.99
108 109 9.282247 GATATTTCTCGTGTCTTTCTAACGTTA 57.718 33.333 7.94 7.94 38.43 3.18
109 110 7.935338 ATTTCTCGTGTCTTTCTAACGTTAA 57.065 32.000 9.68 0.00 38.43 2.01
110 111 6.738352 TTCTCGTGTCTTTCTAACGTTAAC 57.262 37.500 9.68 4.88 38.43 2.01
111 112 5.215160 TCTCGTGTCTTTCTAACGTTAACC 58.785 41.667 9.68 0.00 38.43 2.85
112 113 4.930963 TCGTGTCTTTCTAACGTTAACCA 58.069 39.130 9.68 0.00 38.43 3.67
113 114 5.531634 TCGTGTCTTTCTAACGTTAACCAT 58.468 37.500 9.68 0.00 38.43 3.55
114 115 5.630680 TCGTGTCTTTCTAACGTTAACCATC 59.369 40.000 9.68 0.20 38.43 3.51
115 116 5.164022 CGTGTCTTTCTAACGTTAACCATCC 60.164 44.000 9.68 0.00 32.79 3.51
116 117 4.925054 TGTCTTTCTAACGTTAACCATCCG 59.075 41.667 9.68 0.00 0.00 4.18
117 118 5.163513 GTCTTTCTAACGTTAACCATCCGA 58.836 41.667 9.68 0.00 0.00 4.55
118 119 5.287992 GTCTTTCTAACGTTAACCATCCGAG 59.712 44.000 9.68 0.00 0.00 4.63
119 120 5.183713 TCTTTCTAACGTTAACCATCCGAGA 59.816 40.000 9.68 0.00 0.00 4.04
120 121 5.389859 TTCTAACGTTAACCATCCGAGAA 57.610 39.130 9.68 4.97 0.00 2.87
121 122 5.389859 TCTAACGTTAACCATCCGAGAAA 57.610 39.130 9.68 0.00 0.00 2.52
122 123 5.404946 TCTAACGTTAACCATCCGAGAAAG 58.595 41.667 9.68 0.00 0.00 2.62
188 190 6.975196 TTTGAAAGGAACCAATCAAGATCA 57.025 33.333 0.00 0.00 33.71 2.92
189 191 5.964958 TGAAAGGAACCAATCAAGATCAC 57.035 39.130 0.00 0.00 0.00 3.06
236 238 6.083887 AACTTTTGTTGTGCATCAGTGCTTT 61.084 36.000 0.00 0.00 45.60 3.51
285 287 5.640218 AGCACAATTGAACAAAATCGTTG 57.360 34.783 13.59 0.00 0.00 4.10
307 309 8.261908 CGTTGAAATTCAAAAGAGTGCTAAAAG 58.738 33.333 10.27 0.00 38.22 2.27
328 330 7.716799 AAAGATACTTTTAATCCATGCACCA 57.283 32.000 0.00 0.00 0.00 4.17
333 335 4.022068 ACTTTTAATCCATGCACCAGTGTG 60.022 41.667 0.00 0.00 45.65 3.82
335 337 1.250328 AATCCATGCACCAGTGTGTG 58.750 50.000 0.00 7.22 44.65 3.82
336 338 0.111061 ATCCATGCACCAGTGTGTGT 59.889 50.000 11.74 0.00 44.65 3.72
337 339 0.818852 TCCATGCACCAGTGTGTGTG 60.819 55.000 11.74 4.15 44.65 3.82
341 343 1.304509 TGCACCAGTGTGTGTGTGTG 61.305 55.000 11.74 2.29 44.65 3.82
342 344 1.305219 GCACCAGTGTGTGTGTGTGT 61.305 55.000 11.74 0.00 44.65 3.72
343 345 0.447406 CACCAGTGTGTGTGTGTGTG 59.553 55.000 4.18 0.00 37.72 3.82
344 346 0.036164 ACCAGTGTGTGTGTGTGTGT 59.964 50.000 0.00 0.00 0.00 3.72
345 347 0.447406 CCAGTGTGTGTGTGTGTGTG 59.553 55.000 0.00 0.00 0.00 3.82
346 348 1.155889 CAGTGTGTGTGTGTGTGTGT 58.844 50.000 0.00 0.00 0.00 3.72
347 349 1.136000 CAGTGTGTGTGTGTGTGTGTG 60.136 52.381 0.00 0.00 0.00 3.82
348 350 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
349 351 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
350 352 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
351 353 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
352 354 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
353 355 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
354 356 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
355 357 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
356 358 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
357 359 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
358 360 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
359 361 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
360 362 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
361 363 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
458 472 7.675062 TCAAAATGCAACAACCAGGTATTTAT 58.325 30.769 0.00 0.00 0.00 1.40
647 664 5.962433 TCATAAAACAAAAACAACCCGTCA 58.038 33.333 0.00 0.00 0.00 4.35
648 665 5.805994 TCATAAAACAAAAACAACCCGTCAC 59.194 36.000 0.00 0.00 0.00 3.67
661 678 0.036164 CCGTCACCATCCTCCAAACA 59.964 55.000 0.00 0.00 0.00 2.83
669 686 3.010584 ACCATCCTCCAAACAGCTAATGT 59.989 43.478 0.00 0.00 46.97 2.71
697 714 4.133820 ACTTTGTCGAAATCATGGTGTCA 58.866 39.130 0.00 0.00 0.00 3.58
698 715 4.578516 ACTTTGTCGAAATCATGGTGTCAA 59.421 37.500 0.00 0.00 0.00 3.18
722 739 9.666626 CAACATAAATAACCACAAACTTTACGA 57.333 29.630 0.00 0.00 0.00 3.43
763 780 4.201485 CGTTCGAATTTTAAGCATGGCAAC 60.201 41.667 0.00 0.00 0.00 4.17
765 782 3.509575 TCGAATTTTAAGCATGGCAACCT 59.490 39.130 0.00 0.00 0.00 3.50
766 783 3.613737 CGAATTTTAAGCATGGCAACCTG 59.386 43.478 0.00 0.00 35.00 4.00
767 784 4.617995 CGAATTTTAAGCATGGCAACCTGA 60.618 41.667 0.00 0.00 33.48 3.86
769 786 4.454728 TTTTAAGCATGGCAACCTGATC 57.545 40.909 0.00 0.00 33.48 2.92
795 1241 5.843673 TTTCATGGCAACTTTAGTTCACA 57.156 34.783 0.00 0.00 35.83 3.58
796 1242 4.829064 TCATGGCAACTTTAGTTCACAC 57.171 40.909 0.00 0.00 35.83 3.82
809 1255 1.133407 GTTCACACGAGGTTGGCAAAA 59.867 47.619 0.00 0.00 0.00 2.44
821 1304 4.575645 AGGTTGGCAAAATTGTCATGTTTG 59.424 37.500 0.00 0.00 43.10 2.93
822 1305 4.335037 GGTTGGCAAAATTGTCATGTTTGT 59.665 37.500 0.00 0.00 43.10 2.83
823 1306 5.500825 GTTGGCAAAATTGTCATGTTTGTC 58.499 37.500 0.00 3.98 43.10 3.18
824 1307 4.763073 TGGCAAAATTGTCATGTTTGTCA 58.237 34.783 8.47 8.47 42.75 3.58
825 1308 5.366460 TGGCAAAATTGTCATGTTTGTCAT 58.634 33.333 8.47 0.00 40.79 3.06
826 1309 5.466058 TGGCAAAATTGTCATGTTTGTCATC 59.534 36.000 8.47 0.00 40.79 2.92
828 1311 5.106987 GCAAAATTGTCATGTTTGTCATCCC 60.107 40.000 7.36 0.00 35.22 3.85
829 1312 4.439305 AATTGTCATGTTTGTCATCCCG 57.561 40.909 0.00 0.00 34.09 5.14
830 1313 1.164411 TGTCATGTTTGTCATCCCGC 58.836 50.000 0.00 0.00 34.09 6.13
831 1314 0.096976 GTCATGTTTGTCATCCCGCG 59.903 55.000 0.00 0.00 34.09 6.46
832 1315 0.321210 TCATGTTTGTCATCCCGCGT 60.321 50.000 4.92 0.00 34.09 6.01
833 1316 0.096976 CATGTTTGTCATCCCGCGTC 59.903 55.000 4.92 0.00 34.09 5.19
834 1317 1.358725 ATGTTTGTCATCCCGCGTCG 61.359 55.000 4.92 0.00 29.76 5.12
836 1319 3.229156 TTTGTCATCCCGCGTCGGT 62.229 57.895 15.38 0.00 46.80 4.69
837 1320 2.718747 TTTGTCATCCCGCGTCGGTT 62.719 55.000 15.38 0.00 46.80 4.44
838 1321 3.186047 GTCATCCCGCGTCGGTTG 61.186 66.667 15.38 5.73 46.80 3.77
844 1327 2.248835 CCCGCGTCGGTTGAAGTTT 61.249 57.895 15.38 0.00 46.80 2.66
845 1328 1.644913 CCGCGTCGGTTGAAGTTTT 59.355 52.632 4.92 0.00 42.73 2.43
861 1344 7.462109 TGAAGTTTTCATGAAAAATGTTCGG 57.538 32.000 30.07 0.00 41.37 4.30
916 1399 7.147794 GGATTTATCGGGGTCCAAACTTTAAAT 60.148 37.037 0.00 0.00 0.00 1.40
995 1486 4.767255 CCCTCTCGTGCCACTGCC 62.767 72.222 0.00 0.00 36.33 4.85
1378 1872 2.507944 CCTTCTCCCTGGCCATCG 59.492 66.667 5.51 0.00 0.00 3.84
1488 1982 0.527817 CCTCGTTGATGCGGTCCTAC 60.528 60.000 0.00 0.00 0.00 3.18
1497 1991 2.412112 CGGTCCTACGCTACCTGC 59.588 66.667 0.00 0.00 33.34 4.85
1544 2038 3.725740 GTGTTTGACGAAATGCTTGTCAG 59.274 43.478 0.00 0.00 42.93 3.51
1617 2111 0.596083 CGAAGGATACGCTGAGGCTG 60.596 60.000 0.00 0.00 46.39 4.85
1641 2135 3.382865 TCGATGAGATGAGGAAAGGTGAG 59.617 47.826 0.00 0.00 0.00 3.51
1646 2140 0.995024 ATGAGGAAAGGTGAGGGTGG 59.005 55.000 0.00 0.00 0.00 4.61
1761 2255 2.556559 GGTGGAACATGGTTATGGTGGT 60.557 50.000 0.00 0.00 44.52 4.16
1782 2276 2.856032 CTGAAGGTGCGCAACTCG 59.144 61.111 31.16 16.47 42.12 4.18
1884 2378 1.758862 ACATGGAGTGCGATGATCTCA 59.241 47.619 0.00 0.00 34.69 3.27
1890 2384 3.316283 GAGTGCGATGATCTCAGGATTC 58.684 50.000 0.00 0.00 31.46 2.52
1939 2433 2.368439 TCTCGGCATTTGAGGAAATGG 58.632 47.619 9.04 0.00 45.96 3.16
2004 2498 0.534427 TCTCTGCATGCAGCCATAGC 60.534 55.000 37.48 0.34 44.83 2.97
2085 2579 2.802774 GCCAAATGTTCGCCATTATGGG 60.803 50.000 13.67 3.50 43.04 4.00
2112 2606 0.254462 TTGATCTAATGGGCCGTGCA 59.746 50.000 0.00 0.00 0.00 4.57
2118 2612 1.563577 TAATGGGCCGTGCAGGGTTA 61.564 55.000 25.40 13.57 41.48 2.85
2136 2630 3.877508 GGTTACTTGATGAGGCATACCAC 59.122 47.826 0.00 0.00 39.06 4.16
2308 2802 5.864418 TCTCCTGTTAAATACCTATGCGT 57.136 39.130 0.00 0.00 0.00 5.24
2310 2804 5.361571 TCTCCTGTTAAATACCTATGCGTCA 59.638 40.000 0.00 0.00 0.00 4.35
2430 2924 5.066893 TGAGCTCCATGAATTTATTGCAGAC 59.933 40.000 12.15 0.00 0.00 3.51
2464 2958 7.388776 CACATCCAAGAAAGACTGAGATTTACA 59.611 37.037 0.00 0.00 0.00 2.41
2487 2981 6.111382 CAGGAAGCTTGATGAGATAAACAGA 58.889 40.000 2.10 0.00 0.00 3.41
2493 2987 9.453572 AAGCTTGATGAGATAAACAGACATTTA 57.546 29.630 0.00 0.00 0.00 1.40
2583 3077 1.137872 GCCCTGACCTATCACAGTGAG 59.862 57.143 9.64 0.00 32.93 3.51
2595 3089 4.277515 TCACAGTGAGAAGCTAGCAATT 57.722 40.909 18.83 2.68 0.00 2.32
2637 3131 1.424403 CACAACGCAGACCAATACGA 58.576 50.000 0.00 0.00 0.00 3.43
2754 3248 3.206150 CCGATTTCATCATTTCGAGGGT 58.794 45.455 0.00 0.00 33.59 4.34
2760 3254 0.331278 ATCATTTCGAGGGTGGCCAA 59.669 50.000 7.24 0.00 0.00 4.52
2792 3286 5.391310 GCAATGATTATTGGTAGAGCATCCG 60.391 44.000 11.75 0.00 43.12 4.18
2815 3309 5.437263 GTGCTTTTCTGTTGCATTCATTTG 58.563 37.500 0.00 0.00 39.00 2.32
2818 3312 5.234757 GCTTTTCTGTTGCATTCATTTGTGA 59.765 36.000 0.00 0.00 0.00 3.58
2825 3319 6.932947 TGTTGCATTCATTTGTGATGGATAA 58.067 32.000 0.00 0.00 0.00 1.75
2871 3365 2.859165 TTGGATGTCAGGACCTCAAC 57.141 50.000 0.00 0.00 0.00 3.18
2949 3444 7.712639 GTGATTTTGAGGCATTCTACTATCAGA 59.287 37.037 0.00 0.00 0.00 3.27
2960 3455 6.502136 TTCTACTATCAGAGCATATGGACG 57.498 41.667 4.56 0.00 0.00 4.79
2974 3469 1.234821 TGGACGCAATTCCACAAGAC 58.765 50.000 0.00 0.00 41.00 3.01
2975 3470 0.165944 GGACGCAATTCCACAAGACG 59.834 55.000 0.00 0.00 35.49 4.18
3014 3509 6.997476 TGCTTAATATGGAATGCAGTCACATA 59.003 34.615 16.99 18.92 0.00 2.29
3048 3543 3.769844 TCTTCCCTAGAACAGTGATGTCC 59.230 47.826 0.00 0.00 0.00 4.02
3063 3558 1.112916 TGTCCGAGACTTGGCAGTGA 61.113 55.000 3.51 0.00 31.22 3.41
3066 3561 1.347707 TCCGAGACTTGGCAGTGATTT 59.652 47.619 3.51 0.00 31.22 2.17
3121 3616 4.334759 AGCACTCTTGTAATAAGCATGCTG 59.665 41.667 23.48 5.97 37.05 4.41
3127 3622 5.704978 TCTTGTAATAAGCATGCTGTGTTGA 59.295 36.000 23.48 9.55 0.00 3.18
3140 3635 5.184711 TGCTGTGTTGACATGCAATATAGA 58.815 37.500 18.98 8.26 38.51 1.98
3142 3637 6.319405 TGCTGTGTTGACATGCAATATAGAAT 59.681 34.615 18.98 0.00 38.51 2.40
3162 3657 6.060788 AGAATATCCTTGGCTAAAAGCAGAG 58.939 40.000 0.78 0.00 44.75 3.35
3166 3661 1.471684 CTTGGCTAAAAGCAGAGCAGG 59.528 52.381 0.78 0.00 44.75 4.85
3168 3663 1.339438 TGGCTAAAAGCAGAGCAGGAG 60.339 52.381 0.78 0.00 44.75 3.69
3169 3664 0.731994 GCTAAAAGCAGAGCAGGAGC 59.268 55.000 0.00 0.00 41.89 4.70
3236 3732 1.070843 CGGTGACAAGCACTACAAACG 60.071 52.381 0.00 0.00 46.86 3.60
3328 3826 8.627403 AGCCAATATTTGTATGTCTGAGAAATG 58.373 33.333 0.00 0.00 0.00 2.32
3334 3832 7.425577 TTTGTATGTCTGAGAAATGTGACTG 57.574 36.000 0.00 0.00 0.00 3.51
3411 3913 4.210331 CCTCCATACCAGATTTTCAAGGG 58.790 47.826 0.00 0.00 0.00 3.95
3438 3940 7.391275 CCATTGGCATTATATGTATGACAGTGA 59.609 37.037 22.04 6.67 46.12 3.41
3517 4020 5.963253 ACATGGTTCATTGATTCCCCATAAA 59.037 36.000 0.00 0.00 31.68 1.40
3625 4161 2.677228 CCCAGGGCCTAACACCAG 59.323 66.667 5.28 0.00 0.00 4.00
3635 4172 2.446435 CCTAACACCAGGATGTTTGGG 58.554 52.381 18.87 14.19 45.89 4.12
3639 4176 3.825908 ACACCAGGATGTTTGGGTAAT 57.174 42.857 0.00 0.00 40.11 1.89
3649 4186 2.158385 TGTTTGGGTAATTCAGCTGGGT 60.158 45.455 15.13 0.00 0.00 4.51
3653 4190 1.743394 GGGTAATTCAGCTGGGTTTCG 59.257 52.381 15.13 0.00 0.00 3.46
3668 4205 3.060602 GGTTTCGAAGTCTCACTCCTTG 58.939 50.000 0.00 0.00 0.00 3.61
3685 4222 1.906574 CTTGCCTAGTCACCCAGGTAA 59.093 52.381 0.00 0.00 35.55 2.85
3695 4232 5.010282 AGTCACCCAGGTAATGTGAATTTC 58.990 41.667 0.00 0.00 40.41 2.17
3699 4236 3.016736 CCAGGTAATGTGAATTTCGCCT 58.983 45.455 7.46 0.00 0.00 5.52
3713 4250 1.136147 CGCCTGCATTCTTGTCTGC 59.864 57.895 0.00 0.00 38.87 4.26
3714 4251 1.579964 CGCCTGCATTCTTGTCTGCA 61.580 55.000 0.00 0.00 45.60 4.41
3717 4254 2.260247 TGCATTCTTGTCTGCAGGC 58.740 52.632 12.53 12.53 43.11 4.85
3718 4255 0.537828 TGCATTCTTGTCTGCAGGCA 60.538 50.000 19.08 19.08 43.11 4.75
3719 4256 0.815734 GCATTCTTGTCTGCAGGCAT 59.184 50.000 23.89 3.61 38.28 4.40
3720 4257 2.019249 GCATTCTTGTCTGCAGGCATA 58.981 47.619 23.89 10.99 38.28 3.14
3721 4258 2.033049 GCATTCTTGTCTGCAGGCATAG 59.967 50.000 23.89 20.59 38.28 2.23
3722 4259 1.742761 TTCTTGTCTGCAGGCATAGC 58.257 50.000 23.89 2.33 0.00 2.97
3723 4260 0.614812 TCTTGTCTGCAGGCATAGCA 59.385 50.000 23.89 5.98 40.19 3.49
3724 4261 1.211212 TCTTGTCTGCAGGCATAGCAT 59.789 47.619 23.89 0.00 41.82 3.79
3725 4262 2.022195 CTTGTCTGCAGGCATAGCATT 58.978 47.619 23.89 0.00 41.82 3.56
3726 4263 1.671979 TGTCTGCAGGCATAGCATTC 58.328 50.000 19.08 0.00 41.82 2.67
3727 4264 1.211212 TGTCTGCAGGCATAGCATTCT 59.789 47.619 19.08 0.00 41.82 2.40
3728 4265 2.295885 GTCTGCAGGCATAGCATTCTT 58.704 47.619 14.88 0.00 41.82 2.52
3729 4266 2.033049 GTCTGCAGGCATAGCATTCTTG 59.967 50.000 14.88 0.00 41.82 3.02
3730 4267 2.022195 CTGCAGGCATAGCATTCTTGT 58.978 47.619 5.57 0.00 41.82 3.16
3731 4268 2.019249 TGCAGGCATAGCATTCTTGTC 58.981 47.619 0.00 0.00 37.02 3.18
3732 4269 2.295885 GCAGGCATAGCATTCTTGTCT 58.704 47.619 0.00 0.00 0.00 3.41
3733 4270 2.033049 GCAGGCATAGCATTCTTGTCTG 59.967 50.000 0.00 0.00 44.05 3.51
3734 4271 3.276857 CAGGCATAGCATTCTTGTCTGT 58.723 45.455 0.00 0.00 38.09 3.41
3735 4272 3.064958 CAGGCATAGCATTCTTGTCTGTG 59.935 47.826 0.00 0.00 38.09 3.66
3780 4317 3.554934 TGACCAATTCTGTTTCAGCAGT 58.445 40.909 0.00 0.00 37.70 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
45 46 7.776030 TGAAAACCATGTCAAAACCTTCTACTA 59.224 33.333 0.00 0.00 0.00 1.82
46 47 6.605594 TGAAAACCATGTCAAAACCTTCTACT 59.394 34.615 0.00 0.00 0.00 2.57
47 48 6.695713 GTGAAAACCATGTCAAAACCTTCTAC 59.304 38.462 0.00 0.00 0.00 2.59
54 55 3.120041 CCGGTGAAAACCATGTCAAAAC 58.880 45.455 0.00 0.00 0.00 2.43
74 75 4.868734 AGACACGAGAAATATCGAAAACCC 59.131 41.667 4.27 0.00 45.56 4.11
76 77 7.730778 AGAAAGACACGAGAAATATCGAAAAC 58.269 34.615 4.27 0.00 45.56 2.43
88 89 5.215160 GGTTAACGTTAGAAAGACACGAGA 58.785 41.667 8.23 0.00 37.37 4.04
89 90 4.977963 TGGTTAACGTTAGAAAGACACGAG 59.022 41.667 8.23 0.00 37.37 4.18
90 91 4.930963 TGGTTAACGTTAGAAAGACACGA 58.069 39.130 8.23 0.00 37.37 4.35
91 92 5.164022 GGATGGTTAACGTTAGAAAGACACG 60.164 44.000 8.23 0.00 39.86 4.49
92 93 5.164022 CGGATGGTTAACGTTAGAAAGACAC 60.164 44.000 8.23 1.98 0.00 3.67
93 94 4.925054 CGGATGGTTAACGTTAGAAAGACA 59.075 41.667 8.23 3.63 0.00 3.41
94 95 5.163513 TCGGATGGTTAACGTTAGAAAGAC 58.836 41.667 8.23 3.43 0.00 3.01
95 96 5.183713 TCTCGGATGGTTAACGTTAGAAAGA 59.816 40.000 8.23 3.13 0.00 2.52
96 97 5.404946 TCTCGGATGGTTAACGTTAGAAAG 58.595 41.667 8.23 0.37 0.00 2.62
97 98 5.389859 TCTCGGATGGTTAACGTTAGAAA 57.610 39.130 8.23 0.00 0.00 2.52
98 99 5.389859 TTCTCGGATGGTTAACGTTAGAA 57.610 39.130 8.23 4.33 0.00 2.10
99 100 5.183713 TCTTTCTCGGATGGTTAACGTTAGA 59.816 40.000 8.23 0.00 0.00 2.10
100 101 5.404946 TCTTTCTCGGATGGTTAACGTTAG 58.595 41.667 8.23 0.00 0.00 2.34
101 102 5.389859 TCTTTCTCGGATGGTTAACGTTA 57.610 39.130 3.29 3.29 0.00 3.18
102 103 4.261578 TCTTTCTCGGATGGTTAACGTT 57.738 40.909 5.88 5.88 0.00 3.99
103 104 3.947910 TCTTTCTCGGATGGTTAACGT 57.052 42.857 0.00 0.00 0.00 3.99
104 105 4.491676 TCTTCTTTCTCGGATGGTTAACG 58.508 43.478 0.00 0.00 0.00 3.18
105 106 6.796705 TTTCTTCTTTCTCGGATGGTTAAC 57.203 37.500 0.00 0.00 0.00 2.01
106 107 6.996282 AGTTTTCTTCTTTCTCGGATGGTTAA 59.004 34.615 0.00 0.00 0.00 2.01
107 108 6.531021 AGTTTTCTTCTTTCTCGGATGGTTA 58.469 36.000 0.00 0.00 0.00 2.85
108 109 5.377478 AGTTTTCTTCTTTCTCGGATGGTT 58.623 37.500 0.00 0.00 0.00 3.67
109 110 4.974399 AGTTTTCTTCTTTCTCGGATGGT 58.026 39.130 0.00 0.00 0.00 3.55
110 111 5.239525 ACAAGTTTTCTTCTTTCTCGGATGG 59.760 40.000 0.00 0.00 38.17 3.51
111 112 6.305693 ACAAGTTTTCTTCTTTCTCGGATG 57.694 37.500 0.00 0.00 38.17 3.51
112 113 6.944234 AACAAGTTTTCTTCTTTCTCGGAT 57.056 33.333 0.00 0.00 38.17 4.18
113 114 6.753107 AAACAAGTTTTCTTCTTTCTCGGA 57.247 33.333 0.00 0.00 38.17 4.55
114 115 7.812309 AAAAACAAGTTTTCTTCTTTCTCGG 57.188 32.000 10.96 0.00 41.45 4.63
169 170 5.124457 CGATGTGATCTTGATTGGTTCCTTT 59.876 40.000 0.00 0.00 0.00 3.11
181 183 3.624410 TGGCTTCAATCGATGTGATCTTG 59.376 43.478 0.00 0.00 35.84 3.02
188 190 3.355378 TCCATTTGGCTTCAATCGATGT 58.645 40.909 0.00 0.00 34.44 3.06
189 191 3.794475 GCTCCATTTGGCTTCAATCGATG 60.794 47.826 0.00 0.00 34.44 3.84
236 238 0.664224 TACGTCGTCTTGCACTGTGA 59.336 50.000 12.86 0.00 0.00 3.58
239 241 0.992072 CCATACGTCGTCTTGCACTG 59.008 55.000 0.00 0.00 0.00 3.66
307 309 6.095440 ACACTGGTGCATGGATTAAAAGTATC 59.905 38.462 0.00 0.00 0.00 2.24
328 330 1.155889 CACACACACACACACACACT 58.844 50.000 0.00 0.00 0.00 3.55
333 335 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
335 337 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
336 338 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
337 339 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
341 343 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
342 344 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
343 345 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
344 346 2.457366 TACACACACACACACACACA 57.543 45.000 0.00 0.00 0.00 3.72
345 347 3.433957 TCTTTACACACACACACACACAC 59.566 43.478 0.00 0.00 0.00 3.82
346 348 3.665190 TCTTTACACACACACACACACA 58.335 40.909 0.00 0.00 0.00 3.72
347 349 4.875544 ATCTTTACACACACACACACAC 57.124 40.909 0.00 0.00 0.00 3.82
348 350 7.561021 AAATATCTTTACACACACACACACA 57.439 32.000 0.00 0.00 0.00 3.72
349 351 7.589954 GGAAAATATCTTTACACACACACACAC 59.410 37.037 0.00 0.00 0.00 3.82
350 352 7.255312 GGGAAAATATCTTTACACACACACACA 60.255 37.037 0.00 0.00 0.00 3.72
351 353 7.040686 AGGGAAAATATCTTTACACACACACAC 60.041 37.037 0.00 0.00 0.00 3.82
352 354 7.001674 AGGGAAAATATCTTTACACACACACA 58.998 34.615 0.00 0.00 0.00 3.72
353 355 7.390718 AGAGGGAAAATATCTTTACACACACAC 59.609 37.037 0.00 0.00 0.00 3.82
354 356 7.458397 AGAGGGAAAATATCTTTACACACACA 58.542 34.615 0.00 0.00 0.00 3.72
355 357 7.923414 AGAGGGAAAATATCTTTACACACAC 57.077 36.000 0.00 0.00 0.00 3.82
356 358 8.934023 AAAGAGGGAAAATATCTTTACACACA 57.066 30.769 0.00 0.00 40.54 3.72
357 359 8.175716 CGAAAGAGGGAAAATATCTTTACACAC 58.824 37.037 0.00 0.00 41.95 3.82
358 360 7.881232 ACGAAAGAGGGAAAATATCTTTACACA 59.119 33.333 0.00 0.00 41.95 3.72
359 361 8.265165 ACGAAAGAGGGAAAATATCTTTACAC 57.735 34.615 0.00 0.00 41.95 2.90
360 362 8.857694 AACGAAAGAGGGAAAATATCTTTACA 57.142 30.769 0.00 0.00 41.95 2.41
409 412 3.443329 GTGTGATTGTATGGATGCAACCA 59.557 43.478 18.98 18.98 44.41 3.67
410 413 3.443329 TGTGTGATTGTATGGATGCAACC 59.557 43.478 5.96 5.96 35.28 3.77
419 422 7.116519 TGTTGCATTTTGATGTGTGATTGTATG 59.883 33.333 0.00 0.00 0.00 2.39
458 472 0.037139 GGCTGAACATGCATGGCAAA 60.037 50.000 29.41 11.79 43.62 3.68
641 658 0.676782 GTTTGGAGGATGGTGACGGG 60.677 60.000 0.00 0.00 0.00 5.28
647 664 3.010584 ACATTAGCTGTTTGGAGGATGGT 59.989 43.478 0.00 0.00 32.90 3.55
648 665 3.624777 ACATTAGCTGTTTGGAGGATGG 58.375 45.455 0.00 0.00 32.90 3.51
680 697 4.685169 ATGTTGACACCATGATTTCGAC 57.315 40.909 0.00 0.00 0.00 4.20
740 757 3.497118 TGCCATGCTTAAAATTCGAACG 58.503 40.909 0.00 0.00 0.00 3.95
745 762 4.819769 TCAGGTTGCCATGCTTAAAATTC 58.180 39.130 0.00 0.00 0.00 2.17
746 763 4.888326 TCAGGTTGCCATGCTTAAAATT 57.112 36.364 0.00 0.00 0.00 1.82
776 793 3.249799 TCGTGTGAACTAAAGTTGCCATG 59.750 43.478 0.00 2.83 38.56 3.66
795 1241 2.028130 TGACAATTTTGCCAACCTCGT 58.972 42.857 0.00 0.00 0.00 4.18
796 1242 2.791383 TGACAATTTTGCCAACCTCG 57.209 45.000 0.00 0.00 0.00 4.63
809 1255 2.164219 GCGGGATGACAAACATGACAAT 59.836 45.455 0.00 0.00 39.56 2.71
828 1311 0.302288 TGAAAACTTCAACCGACGCG 59.698 50.000 3.53 3.53 36.59 6.01
829 1312 2.032377 TCATGAAAACTTCAACCGACGC 60.032 45.455 0.00 0.00 43.95 5.19
830 1313 3.870723 TCATGAAAACTTCAACCGACG 57.129 42.857 0.00 0.00 43.95 5.12
831 1314 6.879188 TTTTTCATGAAAACTTCAACCGAC 57.121 33.333 28.78 0.00 43.95 4.79
832 1315 7.038659 ACATTTTTCATGAAAACTTCAACCGA 58.961 30.769 28.78 14.19 43.95 4.69
833 1316 7.232945 ACATTTTTCATGAAAACTTCAACCG 57.767 32.000 28.78 14.96 43.95 4.44
834 1317 7.845622 CGAACATTTTTCATGAAAACTTCAACC 59.154 33.333 28.78 15.35 43.95 3.77
835 1318 7.845622 CCGAACATTTTTCATGAAAACTTCAAC 59.154 33.333 28.78 18.02 43.95 3.18
836 1319 7.761704 TCCGAACATTTTTCATGAAAACTTCAA 59.238 29.630 28.78 16.78 43.95 2.69
837 1320 7.261325 TCCGAACATTTTTCATGAAAACTTCA 58.739 30.769 28.78 17.11 45.01 3.02
838 1321 7.692908 TCCGAACATTTTTCATGAAAACTTC 57.307 32.000 28.78 24.57 39.87 3.01
844 1327 6.743110 TGTCATTCCGAACATTTTTCATGAA 58.257 32.000 3.38 3.38 0.00 2.57
845 1328 6.324561 TGTCATTCCGAACATTTTTCATGA 57.675 33.333 0.00 0.00 0.00 3.07
861 1344 5.452302 CGTTCGGATTTTAAGCATGTCATTC 59.548 40.000 0.00 0.00 0.00 2.67
916 1399 9.219603 GGATAAATGAGAAATCATGGATTCGTA 57.780 33.333 0.00 0.00 30.29 3.43
933 1416 2.388310 TTGCGTCCACGGATAAATGA 57.612 45.000 0.55 0.00 39.94 2.57
941 1424 1.784283 GTTCAATTTTTGCGTCCACGG 59.216 47.619 0.55 0.00 40.23 4.94
1111 1605 4.504916 CGCGTGGAGCTGGAGGAG 62.505 72.222 0.00 0.00 45.59 3.69
1515 2009 3.303526 GCATTTCGTCAAACACCTTACGT 60.304 43.478 0.00 0.00 36.73 3.57
1617 2111 3.868077 CACCTTTCCTCATCTCATCGAAC 59.132 47.826 0.00 0.00 0.00 3.95
1656 2150 2.194859 AGAATGCAGGTCACCTCATCT 58.805 47.619 0.00 0.00 0.00 2.90
1761 2255 2.110835 TTGCGCACCTTCAGCTCA 59.889 55.556 11.12 0.00 0.00 4.26
1782 2276 2.852413 CCTCGTGTACATCGTGATCAAC 59.148 50.000 16.17 0.00 0.00 3.18
1884 2378 1.811860 GCCATTTGCTGCGAATCCT 59.188 52.632 12.14 0.00 36.87 3.24
1939 2433 1.834263 AGGAGCAACACCTGATCTACC 59.166 52.381 0.00 0.00 40.48 3.18
2004 2498 0.251165 AACCCTCATCAACCAACCCG 60.251 55.000 0.00 0.00 0.00 5.28
2085 2579 3.491447 GGCCCATTAGATCAACAATGCAC 60.491 47.826 0.00 0.00 32.00 4.57
2112 2606 3.136626 GGTATGCCTCATCAAGTAACCCT 59.863 47.826 0.00 0.00 0.00 4.34
2118 2612 2.200081 AGGTGGTATGCCTCATCAAGT 58.800 47.619 0.16 0.00 35.27 3.16
2136 2630 3.755378 CCTTCATCTCTTCAACCACAAGG 59.245 47.826 0.00 0.00 42.21 3.61
2308 2802 3.596046 ACCTTTATCCAATCCCCAACTGA 59.404 43.478 0.00 0.00 0.00 3.41
2310 2804 4.386424 GCTACCTTTATCCAATCCCCAACT 60.386 45.833 0.00 0.00 0.00 3.16
2452 2946 5.489792 TCAAGCTTCCTGTAAATCTCAGT 57.510 39.130 0.00 0.00 0.00 3.41
2464 2958 6.112058 GTCTGTTTATCTCATCAAGCTTCCT 58.888 40.000 0.00 0.00 0.00 3.36
2487 2981 8.034804 GGAACATAACCAGCAATTCTTAAATGT 58.965 33.333 0.00 0.00 0.00 2.71
2493 2987 6.418057 TTTGGAACATAACCAGCAATTCTT 57.582 33.333 0.00 0.00 39.30 2.52
2625 3119 2.093306 TTGCCAGTCGTATTGGTCTG 57.907 50.000 4.93 0.00 38.02 3.51
2637 3131 1.072331 ACACGGAGATTCTTTGCCAGT 59.928 47.619 0.00 0.00 0.00 4.00
2754 3248 1.900486 TCATTGCATGAACATTGGCCA 59.100 42.857 0.00 0.00 36.11 5.36
2760 3254 8.467963 TCTACCAATAATCATTGCATGAACAT 57.532 30.769 0.00 0.00 43.50 2.71
2792 3286 5.006941 ACAAATGAATGCAACAGAAAAGCAC 59.993 36.000 0.00 0.00 41.60 4.40
2798 3292 5.010820 TCCATCACAAATGAATGCAACAGAA 59.989 36.000 0.00 0.00 38.69 3.02
2803 3297 6.932947 TGTTATCCATCACAAATGAATGCAA 58.067 32.000 0.00 0.00 38.69 4.08
2815 3309 8.299570 ACACTTCAAATCTTTGTTATCCATCAC 58.700 33.333 2.82 0.00 39.18 3.06
2818 3312 7.451255 TGGACACTTCAAATCTTTGTTATCCAT 59.549 33.333 2.82 0.00 39.18 3.41
2825 3319 4.341806 TGCATGGACACTTCAAATCTTTGT 59.658 37.500 0.00 0.00 39.18 2.83
2871 3365 4.389687 GCATTTGGTATCAAGGTTGCAAAG 59.610 41.667 0.00 0.00 36.25 2.77
2949 3444 2.346766 TGGAATTGCGTCCATATGCT 57.653 45.000 0.00 0.00 42.97 3.79
3002 3497 4.070009 CCTGCATACATATGTGACTGCAT 58.930 43.478 27.93 10.58 41.61 3.96
3034 3529 2.520069 AGTCTCGGACATCACTGTTCT 58.480 47.619 6.78 0.00 35.14 3.01
3048 3543 3.589988 ACTAAATCACTGCCAAGTCTCG 58.410 45.455 0.00 0.00 32.98 4.04
3063 3558 9.155975 CAGCATGTACAGTCTTTCTAACTAAAT 57.844 33.333 0.33 0.00 0.00 1.40
3066 3561 6.071334 AGCAGCATGTACAGTCTTTCTAACTA 60.071 38.462 0.33 0.00 39.31 2.24
3103 3598 5.704978 TCAACACAGCATGCTTATTACAAGA 59.295 36.000 19.98 6.11 42.53 3.02
3121 3616 9.224267 AGGATATTCTATATTGCATGTCAACAC 57.776 33.333 4.96 0.00 37.53 3.32
3127 3622 7.408543 AGCCAAGGATATTCTATATTGCATGT 58.591 34.615 0.00 0.00 0.00 3.21
3140 3635 4.582240 GCTCTGCTTTTAGCCAAGGATATT 59.418 41.667 0.00 0.00 41.51 1.28
3142 3637 3.054434 TGCTCTGCTTTTAGCCAAGGATA 60.054 43.478 0.00 0.00 41.51 2.59
3159 3654 0.758310 TCCATCATCGCTCCTGCTCT 60.758 55.000 0.00 0.00 36.97 4.09
3162 3657 2.838286 GATCCATCATCGCTCCTGC 58.162 57.895 0.00 0.00 0.00 4.85
3218 3714 1.329292 TGCGTTTGTAGTGCTTGTCAC 59.671 47.619 0.00 0.00 45.98 3.67
3219 3715 1.657822 TGCGTTTGTAGTGCTTGTCA 58.342 45.000 0.00 0.00 0.00 3.58
3236 3732 8.742554 ATTAGTGTAAATTGCTTACTGTTTGC 57.257 30.769 0.00 0.00 40.62 3.68
3270 3766 1.609208 AAGAGGTCCACACATGCAAC 58.391 50.000 0.00 0.00 0.00 4.17
3277 3773 4.737855 TTATCTGCTAAGAGGTCCACAC 57.262 45.455 0.00 0.00 35.37 3.82
3328 3826 3.273434 TGAAATAGCCATGCTCAGTCAC 58.727 45.455 0.00 0.00 40.44 3.67
3334 3832 3.736126 GCCAAACTGAAATAGCCATGCTC 60.736 47.826 0.00 0.00 40.44 4.26
3428 3930 6.934048 TTTCAACATTGTGTCACTGTCATA 57.066 33.333 4.27 0.00 0.00 2.15
3435 3937 4.209703 CCTTGCATTTCAACATTGTGTCAC 59.790 41.667 0.00 0.00 0.00 3.67
3438 3940 3.132925 GCCTTGCATTTCAACATTGTGT 58.867 40.909 0.00 0.00 0.00 3.72
3517 4020 5.825679 TGGTGTTGCTGTTCAAAGTATTACT 59.174 36.000 0.00 0.00 36.26 2.24
3625 4161 3.131046 CCAGCTGAATTACCCAAACATCC 59.869 47.826 17.39 0.00 0.00 3.51
3635 4172 3.751698 ACTTCGAAACCCAGCTGAATTAC 59.248 43.478 17.39 2.73 0.00 1.89
3639 4176 1.416401 AGACTTCGAAACCCAGCTGAA 59.584 47.619 17.39 0.00 0.00 3.02
3649 4186 2.548067 GGCAAGGAGTGAGACTTCGAAA 60.548 50.000 0.00 0.00 0.00 3.46
3653 4190 2.829120 ACTAGGCAAGGAGTGAGACTTC 59.171 50.000 0.00 0.00 0.00 3.01
3685 4222 2.756760 AGAATGCAGGCGAAATTCACAT 59.243 40.909 0.00 0.00 33.61 3.21
3695 4232 1.136147 GCAGACAAGAATGCAGGCG 59.864 57.895 0.00 0.00 42.11 5.52
3713 4250 3.064958 CACAGACAAGAATGCTATGCCTG 59.935 47.826 0.00 0.00 0.00 4.85
3714 4251 3.276857 CACAGACAAGAATGCTATGCCT 58.723 45.455 0.00 0.00 0.00 4.75
3715 4252 2.357009 CCACAGACAAGAATGCTATGCC 59.643 50.000 0.00 0.00 0.00 4.40
3716 4253 2.223433 GCCACAGACAAGAATGCTATGC 60.223 50.000 0.00 0.00 0.00 3.14
3717 4254 2.031314 CGCCACAGACAAGAATGCTATG 59.969 50.000 0.00 0.00 0.00 2.23
3718 4255 2.093500 TCGCCACAGACAAGAATGCTAT 60.093 45.455 0.00 0.00 0.00 2.97
3719 4256 1.275010 TCGCCACAGACAAGAATGCTA 59.725 47.619 0.00 0.00 0.00 3.49
3720 4257 0.035317 TCGCCACAGACAAGAATGCT 59.965 50.000 0.00 0.00 0.00 3.79
3721 4258 0.874390 TTCGCCACAGACAAGAATGC 59.126 50.000 0.00 0.00 0.00 3.56
3722 4259 3.300009 GTTTTCGCCACAGACAAGAATG 58.700 45.455 0.00 0.00 0.00 2.67
3723 4260 2.293399 GGTTTTCGCCACAGACAAGAAT 59.707 45.455 0.00 0.00 0.00 2.40
3724 4261 1.673920 GGTTTTCGCCACAGACAAGAA 59.326 47.619 0.00 0.00 0.00 2.52
3725 4262 1.305201 GGTTTTCGCCACAGACAAGA 58.695 50.000 0.00 0.00 0.00 3.02
3726 4263 0.310854 GGGTTTTCGCCACAGACAAG 59.689 55.000 0.00 0.00 0.00 3.16
3727 4264 1.440938 CGGGTTTTCGCCACAGACAA 61.441 55.000 0.00 0.00 0.00 3.18
3728 4265 1.890041 CGGGTTTTCGCCACAGACA 60.890 57.895 0.00 0.00 0.00 3.41
3729 4266 1.566018 CTCGGGTTTTCGCCACAGAC 61.566 60.000 0.00 0.00 0.00 3.51
3730 4267 1.301401 CTCGGGTTTTCGCCACAGA 60.301 57.895 0.00 0.00 0.00 3.41
3731 4268 2.966309 GCTCGGGTTTTCGCCACAG 61.966 63.158 0.00 0.00 0.00 3.66
3732 4269 2.951475 AAGCTCGGGTTTTCGCCACA 62.951 55.000 0.00 0.00 0.00 4.17
3733 4270 2.258726 AAGCTCGGGTTTTCGCCAC 61.259 57.895 0.00 0.00 0.00 5.01
3734 4271 2.112297 AAGCTCGGGTTTTCGCCA 59.888 55.556 0.00 0.00 0.00 5.69
3735 4272 2.561373 CAAGCTCGGGTTTTCGCC 59.439 61.111 0.00 0.00 0.00 5.54


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

AutoCloner maintained by Alex Coulton.