Multiple sequence alignment - TraesCS7B01G413600

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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 TraesCS7B01G413600 chr7B 100.000 2765 0 0 1 2765 681790966 681788202 0.000000e+00 5107.0
1 TraesCS7B01G413600 chr7B 98.990 594 4 2 2173 2765 681759390 681758798 0.000000e+00 1062.0
2 TraesCS7B01G413600 chr7B 83.944 1065 116 34 695 1735 682743388 682744421 0.000000e+00 968.0
3 TraesCS7B01G413600 chr7B 89.157 166 13 3 2218 2378 726813895 726813730 4.670000e-48 202.0
4 TraesCS7B01G413600 chr7B 94.595 37 2 0 2116 2152 584415958 584415922 1.070000e-04 58.4
5 TraesCS7B01G413600 chr7A 87.199 1703 143 28 1 1659 693842382 693840711 0.000000e+00 1868.0
6 TraesCS7B01G413600 chr7A 83.416 404 49 11 973 1375 694036484 694036870 2.620000e-95 359.0
7 TraesCS7B01G413600 chr7A 96.020 201 8 0 1735 1935 646680747 646680547 7.380000e-86 327.0
8 TraesCS7B01G413600 chr7A 94.030 201 12 0 1735 1935 646698678 646698478 3.460000e-79 305.0
9 TraesCS7B01G413600 chr7A 86.842 190 21 1 1947 2136 693840643 693840458 2.790000e-50 209.0
10 TraesCS7B01G413600 chr7A 88.800 125 8 4 2637 2760 693840058 693839939 6.170000e-32 148.0
11 TraesCS7B01G413600 chr7A 84.259 108 17 0 209 316 694031938 694032045 3.770000e-19 106.0
12 TraesCS7B01G413600 chr7A 96.429 56 2 0 2159 2214 495258218 495258273 2.930000e-15 93.5
13 TraesCS7B01G413600 chr7A 83.036 112 7 4 842 952 694035755 694035855 1.050000e-14 91.6
14 TraesCS7B01G413600 chrUn 86.160 1250 111 30 509 1733 87248996 87250208 0.000000e+00 1293.0
15 TraesCS7B01G413600 chrUn 86.160 1250 111 30 509 1733 235064855 235066067 0.000000e+00 1293.0
16 TraesCS7B01G413600 chrUn 84.178 986 109 20 770 1733 87255463 87256423 0.000000e+00 913.0
17 TraesCS7B01G413600 chrUn 84.178 986 109 20 770 1733 235071322 235072282 0.000000e+00 913.0
18 TraesCS7B01G413600 chrUn 92.157 510 29 3 1 499 87246171 87246680 0.000000e+00 710.0
19 TraesCS7B01G413600 chrUn 87.574 169 18 1 1947 2112 87250220 87250388 2.810000e-45 193.0
20 TraesCS7B01G413600 chrUn 87.574 169 18 1 1947 2112 235066079 235066247 2.810000e-45 193.0
21 TraesCS7B01G413600 chrUn 86.391 169 20 1 1947 2112 87256435 87256603 6.080000e-42 182.0
22 TraesCS7B01G413600 chrUn 86.391 169 20 1 1947 2112 235072294 235072462 6.080000e-42 182.0
23 TraesCS7B01G413600 chr7D 85.520 1174 111 24 584 1733 602076338 602075200 0.000000e+00 1171.0
24 TraesCS7B01G413600 chr7D 83.120 782 96 20 973 1735 602262507 602263271 0.000000e+00 680.0
25 TraesCS7B01G413600 chr7D 95.028 362 18 0 1 362 602076796 602076435 1.110000e-158 569.0
26 TraesCS7B01G413600 chr7D 95.575 113 4 1 452 563 602076441 602076329 2.190000e-41 180.0
27 TraesCS7B01G413600 chr5A 96.635 208 6 1 1735 1941 47116034 47115827 7.330000e-91 344.0
28 TraesCS7B01G413600 chr5A 95.392 217 8 2 1735 1949 561099955 561099739 7.330000e-91 344.0
29 TraesCS7B01G413600 chr5A 96.020 201 8 0 1735 1935 561104703 561104503 7.380000e-86 327.0
30 TraesCS7B01G413600 chr5A 95.025 201 10 0 1735 1935 47120794 47120594 1.600000e-82 316.0
31 TraesCS7B01G413600 chr3D 94.527 201 11 0 1735 1935 330442547 330442347 7.440000e-81 311.0
32 TraesCS7B01G413600 chr3D 93.171 205 12 1 1735 1937 330295007 330294803 1.610000e-77 300.0
33 TraesCS7B01G413600 chr3D 94.737 57 3 0 2159 2215 579731317 579731261 3.790000e-14 89.8
34 TraesCS7B01G413600 chr2D 92.398 171 12 1 1765 1935 31737887 31737718 2.750000e-60 243.0
35 TraesCS7B01G413600 chr3B 95.946 148 5 1 2239 2386 778483095 778483241 3.560000e-59 239.0
36 TraesCS7B01G413600 chr3B 91.837 147 11 1 2239 2384 12626220 12626074 1.300000e-48 204.0
37 TraesCS7B01G413600 chr3B 90.476 147 13 1 2239 2384 776954954 776954808 2.810000e-45 193.0
38 TraesCS7B01G413600 chr5B 94.521 146 8 0 2239 2384 213632176 213632321 2.770000e-55 226.0
39 TraesCS7B01G413600 chr5B 95.082 61 2 1 2158 2218 409798551 409798610 8.150000e-16 95.3
40 TraesCS7B01G413600 chr6B 93.151 146 9 1 2239 2384 693798365 693798509 2.160000e-51 213.0
41 TraesCS7B01G413600 chr6B 97.297 37 0 1 2115 2151 138900508 138900473 8.270000e-06 62.1
42 TraesCS7B01G413600 chr2A 89.937 159 15 1 2218 2376 739869409 739869566 1.300000e-48 204.0
43 TraesCS7B01G413600 chr2A 89.116 147 14 2 2239 2384 751097471 751097616 6.080000e-42 182.0
44 TraesCS7B01G413600 chr2A 92.500 40 1 1 2116 2155 509548166 509548129 3.850000e-04 56.5
45 TraesCS7B01G413600 chr5D 96.491 57 2 0 2159 2215 426250470 426250526 8.150000e-16 95.3
46 TraesCS7B01G413600 chr5D 93.103 58 4 0 2158 2215 83875324 83875381 4.910000e-13 86.1
47 TraesCS7B01G413600 chr5D 91.111 45 1 2 2108 2151 445060391 445060433 1.070000e-04 58.4
48 TraesCS7B01G413600 chr1A 96.429 56 2 0 2159 2214 59930517 59930462 2.930000e-15 93.5
49 TraesCS7B01G413600 chr6D 94.737 57 3 0 2159 2215 168402397 168402453 3.790000e-14 89.8
50 TraesCS7B01G413600 chr6D 94.737 57 3 0 2159 2215 187277381 187277437 3.790000e-14 89.8
51 TraesCS7B01G413600 chr6D 92.982 57 4 0 2159 2215 56737312 56737368 1.760000e-12 84.2
52 TraesCS7B01G413600 chr6D 94.872 39 1 1 2113 2151 277379707 277379744 2.970000e-05 60.2
53 TraesCS7B01G413600 chr4B 97.222 36 0 1 2116 2151 353900618 353900652 2.970000e-05 60.2
54 TraesCS7B01G413600 chr2B 97.222 36 0 1 2115 2150 497590622 497590656 2.970000e-05 60.2
55 TraesCS7B01G413600 chr1B 90.909 44 2 2 2109 2151 550474764 550474806 1.070000e-04 58.4


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 TraesCS7B01G413600 chr7B 681788202 681790966 2764 True 5107.000000 5107 100.000000 1 2765 1 chr7B.!!$R3 2764
1 TraesCS7B01G413600 chr7B 681758798 681759390 592 True 1062.000000 1062 98.990000 2173 2765 1 chr7B.!!$R2 592
2 TraesCS7B01G413600 chr7B 682743388 682744421 1033 False 968.000000 968 83.944000 695 1735 1 chr7B.!!$F1 1040
3 TraesCS7B01G413600 chr7A 693839939 693842382 2443 True 741.666667 1868 87.613667 1 2760 3 chr7A.!!$R3 2759
4 TraesCS7B01G413600 chrUn 235064855 235066247 1392 False 743.000000 1293 86.867000 509 2112 2 chrUn.!!$F3 1603
5 TraesCS7B01G413600 chrUn 87246171 87250388 4217 False 732.000000 1293 88.630333 1 2112 3 chrUn.!!$F1 2111
6 TraesCS7B01G413600 chrUn 87255463 87256603 1140 False 547.500000 913 85.284500 770 2112 2 chrUn.!!$F2 1342
7 TraesCS7B01G413600 chrUn 235071322 235072462 1140 False 547.500000 913 85.284500 770 2112 2 chrUn.!!$F4 1342
8 TraesCS7B01G413600 chr7D 602262507 602263271 764 False 680.000000 680 83.120000 973 1735 1 chr7D.!!$F1 762
9 TraesCS7B01G413600 chr7D 602075200 602076796 1596 True 640.000000 1171 92.041000 1 1733 3 chr7D.!!$R1 1732

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
94 103 0.245813 GGTACAACGAGACTGGACCC 59.754 60.0 0.0 0.0 41.38 4.46 F
1107 3480 1.181786 CCTTCAGCCTCGACTTCTCT 58.818 55.0 0.0 0.0 0.00 3.10 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1143 3516 0.038251 GTGGACTGATGAGTGCGTCA 60.038 55.0 0.0 0.0 43.32 4.35 R
2615 5154 0.108138 ACCGTGCTTGTAGATGCTCC 60.108 55.0 0.0 0.0 0.00 4.70 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
65 74 2.354259 AGGTCGAGGTCAAGTACTACG 58.646 52.381 0.00 0.00 0.00 3.51
73 82 2.560105 GGTCAAGTACTACGTGGTTCCT 59.440 50.000 10.71 3.91 0.00 3.36
88 97 1.617357 GTTCCTGGGTACAACGAGACT 59.383 52.381 0.00 0.00 0.00 3.24
94 103 0.245813 GGTACAACGAGACTGGACCC 59.754 60.000 0.00 0.00 41.38 4.46
101 110 4.640690 AGACTGGACCCGCCCTGT 62.641 66.667 0.00 0.00 40.45 4.00
106 115 3.319198 GGACCCGCCCTGTCTCAA 61.319 66.667 0.00 0.00 33.22 3.02
451 462 4.481463 CGATGATTTAACCAAAAAGGCGT 58.519 39.130 0.00 0.00 43.14 5.68
453 464 4.920640 TGATTTAACCAAAAAGGCGTCA 57.079 36.364 0.00 0.00 43.14 4.35
466 479 3.537793 AGGCGTCATTCGTTTTCTTTC 57.462 42.857 0.00 0.00 42.13 2.62
662 3003 4.508124 GCTTGTGTCCTCTTATATTCGGTG 59.492 45.833 0.00 0.00 0.00 4.94
749 3101 2.600731 CAACCGCTTTGTTGAACAACA 58.399 42.857 10.72 15.04 46.77 3.33
806 3161 6.980978 CGACTTGATCCTGTGTAATCTAATGT 59.019 38.462 0.00 0.00 0.00 2.71
836 3191 6.189567 ACTAGAAAATTTCAACGACAACACG 58.810 36.000 8.55 0.00 39.31 4.49
848 3203 4.245660 ACGACAACACGATCAATCAATCT 58.754 39.130 0.00 0.00 37.03 2.40
853 3208 2.679837 ACACGATCAATCAATCTGTGGC 59.320 45.455 0.00 0.00 35.95 5.01
920 3277 7.173218 TGCTCTAAATTTGACCTTGACAACTAG 59.827 37.037 0.00 0.00 0.00 2.57
1000 3364 3.910490 GCACCACGGCCAAGCAAA 61.910 61.111 2.24 0.00 0.00 3.68
1048 3418 1.371183 CAAGTCCTGGCGTCCTTGA 59.629 57.895 0.00 0.00 37.14 3.02
1064 3434 2.365617 CCTTGATATGCCTCTACCACGT 59.634 50.000 0.00 0.00 0.00 4.49
1070 3443 4.063967 CCTCTACCACGTGCCGCA 62.064 66.667 10.91 0.00 0.00 5.69
1072 3445 3.567478 CTCTACCACGTGCCGCACA 62.567 63.158 22.89 2.36 33.40 4.57
1107 3480 1.181786 CCTTCAGCCTCGACTTCTCT 58.818 55.000 0.00 0.00 0.00 3.10
1110 3483 2.136298 TCAGCCTCGACTTCTCTGAT 57.864 50.000 0.00 0.00 0.00 2.90
1119 3492 1.220206 CTTCTCTGATGCCGGTGCT 59.780 57.895 1.90 0.00 38.71 4.40
1143 3516 1.518572 GTCGATCATTGTCGCCGGT 60.519 57.895 1.90 0.00 41.22 5.28
1272 3645 1.374947 CACCGCCTTCTCCTTCCAA 59.625 57.895 0.00 0.00 0.00 3.53
1352 3734 4.918201 CGGCCATCTCCCTTCGGC 62.918 72.222 2.24 0.00 44.10 5.54
1395 3783 3.050275 GCTGACGGGACAGGCAAC 61.050 66.667 0.00 0.00 38.22 4.17
1397 3785 1.961277 CTGACGGGACAGGCAACAC 60.961 63.158 0.00 0.00 41.41 3.32
1426 3814 2.504244 CGGTGGAGTTCGACGCTC 60.504 66.667 7.46 7.46 0.00 5.03
1489 3889 4.015406 ACACGAAGGCGGCATGGA 62.015 61.111 13.08 0.00 43.17 3.41
1500 3900 1.976474 GGCATGGACGGGCAAGAAA 60.976 57.895 0.00 0.00 0.00 2.52
1534 3934 3.716195 TCATGGAGGCCACCGTGG 61.716 66.667 33.17 19.03 44.40 4.94
1540 3940 1.600107 GAGGCCACCGTGGAATACA 59.400 57.895 22.37 0.00 40.96 2.29
1587 3987 2.278206 CTCCTCATCGACGGTGCG 60.278 66.667 2.39 0.00 0.00 5.34
1588 3988 3.052620 CTCCTCATCGACGGTGCGT 62.053 63.158 2.39 0.00 45.10 5.24
1608 4008 2.884639 GTTGTACCAGGTCAATGCAACT 59.115 45.455 0.00 0.00 33.96 3.16
1612 4012 3.222173 ACCAGGTCAATGCAACTGTTA 57.778 42.857 0.00 0.00 0.00 2.41
1735 4135 3.883744 CTGCCGGAGTCAAAGCGGT 62.884 63.158 5.05 0.00 0.00 5.68
1736 4136 3.423154 GCCGGAGTCAAAGCGGTG 61.423 66.667 5.05 0.00 0.00 4.94
1737 4137 2.030562 CCGGAGTCAAAGCGGTGT 59.969 61.111 0.00 0.00 0.00 4.16
1738 4138 2.027625 CCGGAGTCAAAGCGGTGTC 61.028 63.158 0.00 0.00 0.00 3.67
1739 4139 1.300620 CGGAGTCAAAGCGGTGTCA 60.301 57.895 0.00 0.00 0.00 3.58
1740 4140 0.878523 CGGAGTCAAAGCGGTGTCAA 60.879 55.000 0.00 0.00 0.00 3.18
1741 4141 1.305201 GGAGTCAAAGCGGTGTCAAA 58.695 50.000 0.00 0.00 0.00 2.69
1742 4142 1.002792 GGAGTCAAAGCGGTGTCAAAC 60.003 52.381 0.00 0.00 0.00 2.93
1743 4143 0.655733 AGTCAAAGCGGTGTCAAACG 59.344 50.000 0.00 0.00 0.00 3.60
1744 4144 0.375803 GTCAAAGCGGTGTCAAACGT 59.624 50.000 0.00 0.00 0.00 3.99
1745 4145 1.088306 TCAAAGCGGTGTCAAACGTT 58.912 45.000 0.00 0.00 0.00 3.99
1746 4146 2.030701 GTCAAAGCGGTGTCAAACGTTA 59.969 45.455 0.00 0.00 0.00 3.18
1747 4147 2.030701 TCAAAGCGGTGTCAAACGTTAC 59.969 45.455 0.00 0.00 0.00 2.50
1748 4148 0.578211 AAGCGGTGTCAAACGTTACG 59.422 50.000 0.00 2.19 0.00 3.18
1749 4149 0.248990 AGCGGTGTCAAACGTTACGA 60.249 50.000 13.03 0.00 0.00 3.43
1750 4150 0.111574 GCGGTGTCAAACGTTACGAC 60.112 55.000 13.03 18.95 0.00 4.34
1751 4151 1.480205 CGGTGTCAAACGTTACGACT 58.520 50.000 23.51 0.00 0.00 4.18
1752 4152 1.854126 CGGTGTCAAACGTTACGACTT 59.146 47.619 23.51 1.09 0.00 3.01
1753 4153 3.042189 CGGTGTCAAACGTTACGACTTA 58.958 45.455 23.51 8.71 0.00 2.24
1754 4154 3.118482 CGGTGTCAAACGTTACGACTTAG 59.882 47.826 23.51 14.32 0.00 2.18
1755 4155 4.044426 GGTGTCAAACGTTACGACTTAGT 58.956 43.478 23.51 0.00 0.00 2.24
1756 4156 4.085415 GGTGTCAAACGTTACGACTTAGTG 60.085 45.833 23.51 8.05 0.00 2.74
1757 4157 3.486841 TGTCAAACGTTACGACTTAGTGC 59.513 43.478 23.51 5.70 0.00 4.40
1758 4158 3.732721 GTCAAACGTTACGACTTAGTGCT 59.267 43.478 13.03 0.00 0.00 4.40
1759 4159 3.732219 TCAAACGTTACGACTTAGTGCTG 59.268 43.478 13.03 0.00 0.00 4.41
1760 4160 3.360249 AACGTTACGACTTAGTGCTGT 57.640 42.857 13.03 0.00 0.00 4.40
1761 4161 2.926165 ACGTTACGACTTAGTGCTGTC 58.074 47.619 13.03 0.00 0.00 3.51
1762 4162 2.551459 ACGTTACGACTTAGTGCTGTCT 59.449 45.455 13.03 0.00 0.00 3.41
1763 4163 3.748048 ACGTTACGACTTAGTGCTGTCTA 59.252 43.478 13.03 0.00 0.00 2.59
1764 4164 4.142945 ACGTTACGACTTAGTGCTGTCTAG 60.143 45.833 13.03 0.00 0.00 2.43
1780 4180 5.801350 TGTCTAGCATAATGAGTTGCAAC 57.199 39.130 22.17 22.17 41.35 4.17
1781 4181 4.329801 TGTCTAGCATAATGAGTTGCAACG 59.670 41.667 23.21 8.82 41.35 4.10
1782 4182 2.549633 AGCATAATGAGTTGCAACGC 57.450 45.000 24.35 24.35 41.35 4.84
1783 4183 1.133025 AGCATAATGAGTTGCAACGCC 59.867 47.619 27.22 20.82 41.35 5.68
1784 4184 1.133025 GCATAATGAGTTGCAACGCCT 59.867 47.619 27.22 16.98 38.72 5.52
1785 4185 2.354510 GCATAATGAGTTGCAACGCCTA 59.645 45.455 27.22 19.20 38.72 3.93
1786 4186 3.546815 GCATAATGAGTTGCAACGCCTAG 60.547 47.826 27.22 14.91 38.72 3.02
1787 4187 0.804989 AATGAGTTGCAACGCCTAGC 59.195 50.000 27.22 12.97 0.00 3.42
1788 4188 0.321564 ATGAGTTGCAACGCCTAGCA 60.322 50.000 27.22 17.33 39.32 3.49
1793 4193 2.911819 TTGCAACGCCTAGCAATTAC 57.088 45.000 0.00 0.00 44.98 1.89
1794 4194 1.814793 TGCAACGCCTAGCAATTACA 58.185 45.000 0.00 0.00 37.90 2.41
1795 4195 1.737236 TGCAACGCCTAGCAATTACAG 59.263 47.619 0.00 0.00 37.90 2.74
1796 4196 1.531883 GCAACGCCTAGCAATTACAGC 60.532 52.381 0.00 0.00 0.00 4.40
1797 4197 2.009774 CAACGCCTAGCAATTACAGCT 58.990 47.619 0.00 0.00 45.77 4.24
1798 4198 2.403252 ACGCCTAGCAATTACAGCTT 57.597 45.000 0.00 0.00 43.25 3.74
1799 4199 3.536956 ACGCCTAGCAATTACAGCTTA 57.463 42.857 0.00 0.00 43.25 3.09
1800 4200 3.458189 ACGCCTAGCAATTACAGCTTAG 58.542 45.455 0.00 0.00 43.25 2.18
1801 4201 3.118738 ACGCCTAGCAATTACAGCTTAGT 60.119 43.478 0.00 0.00 43.25 2.24
1802 4202 3.246226 CGCCTAGCAATTACAGCTTAGTG 59.754 47.826 0.00 0.00 43.25 2.74
1803 4203 3.002759 GCCTAGCAATTACAGCTTAGTGC 59.997 47.826 4.93 4.93 43.25 4.40
1818 4218 5.908341 GCTTAGTGCTAGAATGTAGAAGGT 58.092 41.667 0.00 0.00 38.95 3.50
1819 4219 5.980715 GCTTAGTGCTAGAATGTAGAAGGTC 59.019 44.000 0.00 0.00 38.95 3.85
1820 4220 6.183360 GCTTAGTGCTAGAATGTAGAAGGTCT 60.183 42.308 0.00 0.00 38.95 3.85
1821 4221 7.013464 GCTTAGTGCTAGAATGTAGAAGGTCTA 59.987 40.741 0.00 0.00 38.95 2.59
1822 4222 6.952773 AGTGCTAGAATGTAGAAGGTCTAG 57.047 41.667 0.00 0.00 41.61 2.43
1823 4223 6.664714 AGTGCTAGAATGTAGAAGGTCTAGA 58.335 40.000 10.06 0.00 41.34 2.43
1824 4224 6.770785 AGTGCTAGAATGTAGAAGGTCTAGAG 59.229 42.308 10.06 0.00 41.34 2.43
1825 4225 6.768861 GTGCTAGAATGTAGAAGGTCTAGAGA 59.231 42.308 10.06 0.00 41.34 3.10
1826 4226 6.768861 TGCTAGAATGTAGAAGGTCTAGAGAC 59.231 42.308 10.06 0.75 41.34 3.36
1845 4245 6.084326 GAGACCTCTCTCTTGATATTCCAC 57.916 45.833 0.00 0.00 40.09 4.02
1846 4246 4.582656 AGACCTCTCTCTTGATATTCCACG 59.417 45.833 0.00 0.00 0.00 4.94
1847 4247 4.282496 ACCTCTCTCTTGATATTCCACGT 58.718 43.478 0.00 0.00 0.00 4.49
1848 4248 4.339814 ACCTCTCTCTTGATATTCCACGTC 59.660 45.833 0.00 0.00 0.00 4.34
1849 4249 4.261825 CCTCTCTCTTGATATTCCACGTCC 60.262 50.000 0.00 0.00 0.00 4.79
1850 4250 4.537751 TCTCTCTTGATATTCCACGTCCT 58.462 43.478 0.00 0.00 0.00 3.85
1851 4251 5.691896 TCTCTCTTGATATTCCACGTCCTA 58.308 41.667 0.00 0.00 0.00 2.94
1852 4252 6.127101 TCTCTCTTGATATTCCACGTCCTAA 58.873 40.000 0.00 0.00 0.00 2.69
1853 4253 6.778069 TCTCTCTTGATATTCCACGTCCTAAT 59.222 38.462 0.00 0.00 0.00 1.73
1854 4254 6.749139 TCTCTTGATATTCCACGTCCTAATG 58.251 40.000 0.00 0.00 0.00 1.90
1855 4255 6.549736 TCTCTTGATATTCCACGTCCTAATGA 59.450 38.462 0.00 0.00 0.00 2.57
1856 4256 6.513180 TCTTGATATTCCACGTCCTAATGAC 58.487 40.000 0.00 0.00 40.81 3.06
1857 4257 6.323996 TCTTGATATTCCACGTCCTAATGACT 59.676 38.462 0.00 0.00 42.13 3.41
1858 4258 6.479972 TGATATTCCACGTCCTAATGACTT 57.520 37.500 0.00 0.00 42.13 3.01
1859 4259 6.280643 TGATATTCCACGTCCTAATGACTTG 58.719 40.000 0.00 0.00 42.13 3.16
1860 4260 4.553330 ATTCCACGTCCTAATGACTTGT 57.447 40.909 0.00 0.00 40.62 3.16
1861 4261 5.670792 ATTCCACGTCCTAATGACTTGTA 57.329 39.130 0.00 0.00 40.62 2.41
1862 4262 5.471556 TTCCACGTCCTAATGACTTGTAA 57.528 39.130 0.00 0.00 40.62 2.41
1863 4263 4.813027 TCCACGTCCTAATGACTTGTAAC 58.187 43.478 0.00 0.00 40.62 2.50
1864 4264 4.525487 TCCACGTCCTAATGACTTGTAACT 59.475 41.667 0.00 0.00 40.62 2.24
1865 4265 4.625742 CCACGTCCTAATGACTTGTAACTG 59.374 45.833 0.00 0.00 40.62 3.16
1866 4266 5.466819 CACGTCCTAATGACTTGTAACTGA 58.533 41.667 0.00 0.00 42.13 3.41
1867 4267 5.924254 CACGTCCTAATGACTTGTAACTGAA 59.076 40.000 0.00 0.00 42.13 3.02
1868 4268 5.924825 ACGTCCTAATGACTTGTAACTGAAC 59.075 40.000 0.00 0.00 42.13 3.18
1869 4269 5.924254 CGTCCTAATGACTTGTAACTGAACA 59.076 40.000 0.00 0.00 42.13 3.18
1870 4270 6.590292 CGTCCTAATGACTTGTAACTGAACAT 59.410 38.462 0.00 0.00 42.13 2.71
1871 4271 7.758076 CGTCCTAATGACTTGTAACTGAACATA 59.242 37.037 0.00 0.00 42.13 2.29
1872 4272 9.601217 GTCCTAATGACTTGTAACTGAACATAT 57.399 33.333 0.00 0.00 41.03 1.78
1901 4301 9.944376 ATGTACTATATAAACAGCCCAATACAG 57.056 33.333 0.00 0.00 0.00 2.74
1902 4302 8.930527 TGTACTATATAAACAGCCCAATACAGT 58.069 33.333 0.00 0.00 0.00 3.55
1903 4303 9.204570 GTACTATATAAACAGCCCAATACAGTG 57.795 37.037 0.00 0.00 0.00 3.66
1904 4304 8.029782 ACTATATAAACAGCCCAATACAGTGA 57.970 34.615 0.00 0.00 0.00 3.41
1905 4305 8.150945 ACTATATAAACAGCCCAATACAGTGAG 58.849 37.037 0.00 0.00 0.00 3.51
1906 4306 2.496899 AACAGCCCAATACAGTGAGG 57.503 50.000 0.00 0.00 0.00 3.86
1907 4307 1.656587 ACAGCCCAATACAGTGAGGA 58.343 50.000 0.00 0.00 0.00 3.71
1908 4308 2.200081 ACAGCCCAATACAGTGAGGAT 58.800 47.619 0.00 0.00 0.00 3.24
1909 4309 2.578021 ACAGCCCAATACAGTGAGGATT 59.422 45.455 0.00 0.00 0.00 3.01
1910 4310 3.780294 ACAGCCCAATACAGTGAGGATTA 59.220 43.478 0.00 0.00 0.00 1.75
1911 4311 4.413520 ACAGCCCAATACAGTGAGGATTAT 59.586 41.667 0.00 0.00 0.00 1.28
1912 4312 4.999950 CAGCCCAATACAGTGAGGATTATC 59.000 45.833 0.00 0.00 0.00 1.75
1913 4313 4.660303 AGCCCAATACAGTGAGGATTATCA 59.340 41.667 0.00 0.00 0.00 2.15
1924 4324 6.170675 GTGAGGATTATCACGGCAAATATC 57.829 41.667 0.00 0.00 40.18 1.63
1925 4325 5.934625 GTGAGGATTATCACGGCAAATATCT 59.065 40.000 0.00 0.00 40.18 1.98
1926 4326 6.091441 GTGAGGATTATCACGGCAAATATCTC 59.909 42.308 0.00 0.00 40.18 2.75
1927 4327 6.014242 TGAGGATTATCACGGCAAATATCTCT 60.014 38.462 0.00 0.00 0.00 3.10
1928 4328 6.773638 AGGATTATCACGGCAAATATCTCTT 58.226 36.000 0.00 0.00 0.00 2.85
1929 4329 6.876257 AGGATTATCACGGCAAATATCTCTTC 59.124 38.462 0.00 0.00 0.00 2.87
1930 4330 6.876257 GGATTATCACGGCAAATATCTCTTCT 59.124 38.462 0.00 0.00 0.00 2.85
1931 4331 8.035394 GGATTATCACGGCAAATATCTCTTCTA 58.965 37.037 0.00 0.00 0.00 2.10
1932 4332 9.593134 GATTATCACGGCAAATATCTCTTCTAT 57.407 33.333 0.00 0.00 0.00 1.98
1933 4333 8.988064 TTATCACGGCAAATATCTCTTCTATC 57.012 34.615 0.00 0.00 0.00 2.08
1934 4334 6.656632 TCACGGCAAATATCTCTTCTATCT 57.343 37.500 0.00 0.00 0.00 1.98
1935 4335 7.761038 TCACGGCAAATATCTCTTCTATCTA 57.239 36.000 0.00 0.00 0.00 1.98
1936 4336 7.821652 TCACGGCAAATATCTCTTCTATCTAG 58.178 38.462 0.00 0.00 0.00 2.43
1937 4337 6.529829 CACGGCAAATATCTCTTCTATCTAGC 59.470 42.308 0.00 0.00 0.00 3.42
1938 4338 5.741510 CGGCAAATATCTCTTCTATCTAGCG 59.258 44.000 0.00 0.00 0.00 4.26
1941 4341 6.127591 GCAAATATCTCTTCTATCTAGCGGGA 60.128 42.308 0.00 0.00 0.00 5.14
1943 4343 7.639113 AATATCTCTTCTATCTAGCGGGAAG 57.361 40.000 10.21 10.21 37.21 3.46
1976 4379 0.840722 TGAACCTCCTCTCCCAACCC 60.841 60.000 0.00 0.00 0.00 4.11
1986 4389 2.436646 CCCAACCCGCAGCTACAG 60.437 66.667 0.00 0.00 0.00 2.74
1987 4390 2.347490 CCAACCCGCAGCTACAGT 59.653 61.111 0.00 0.00 0.00 3.55
1988 4391 1.302511 CCAACCCGCAGCTACAGTT 60.303 57.895 0.00 0.00 0.00 3.16
1995 4398 2.263077 CCGCAGCTACAGTTACAAGAG 58.737 52.381 0.00 0.00 0.00 2.85
2042 4445 0.109873 AACGATCACGACGAGGTGTC 60.110 55.000 0.00 6.75 44.53 3.67
2050 4453 0.523546 CGACGAGGTGTCTCCGAATG 60.524 60.000 0.00 0.00 45.87 2.67
2090 4493 1.289109 GACATCACCGGGTCGTGTTG 61.289 60.000 6.32 2.70 38.73 3.33
2096 4499 2.030958 CCGGGTCGTGTTGCCTTAC 61.031 63.158 0.00 0.00 0.00 2.34
2102 4505 0.319211 TCGTGTTGCCTTACCTGTCG 60.319 55.000 0.00 0.00 0.00 4.35
2112 4515 3.813443 CCTTACCTGTCGTAGCCTAGTA 58.187 50.000 0.00 0.00 0.00 1.82
2113 4516 3.814283 CCTTACCTGTCGTAGCCTAGTAG 59.186 52.174 0.00 0.00 0.00 2.57
2114 4517 2.345124 ACCTGTCGTAGCCTAGTAGG 57.655 55.000 12.27 12.27 38.80 3.18
2115 4518 1.563410 ACCTGTCGTAGCCTAGTAGGT 59.437 52.381 17.69 7.22 37.80 3.08
2126 4529 1.545204 CCTAGTAGGTACTCCCTCCGC 60.545 61.905 8.17 0.00 44.81 5.54
2127 4530 0.475906 TAGTAGGTACTCCCTCCGCC 59.524 60.000 0.00 0.00 44.81 6.13
2131 4534 2.446036 GTACTCCCTCCGCCCCAT 60.446 66.667 0.00 0.00 0.00 4.00
2136 4539 1.203440 ACTCCCTCCGCCCCATAATAT 60.203 52.381 0.00 0.00 0.00 1.28
2138 4541 3.112263 CTCCCTCCGCCCCATAATATAA 58.888 50.000 0.00 0.00 0.00 0.98
2141 4544 3.521937 CCCTCCGCCCCATAATATAAGAA 59.478 47.826 0.00 0.00 0.00 2.52
2143 4546 4.019681 CCTCCGCCCCATAATATAAGAACA 60.020 45.833 0.00 0.00 0.00 3.18
2144 4547 5.339200 CCTCCGCCCCATAATATAAGAACAT 60.339 44.000 0.00 0.00 0.00 2.71
2145 4548 5.496556 TCCGCCCCATAATATAAGAACATG 58.503 41.667 0.00 0.00 0.00 3.21
2146 4549 5.013704 TCCGCCCCATAATATAAGAACATGT 59.986 40.000 0.00 0.00 0.00 3.21
2150 4553 8.141268 CGCCCCATAATATAAGAACATGTTTTT 58.859 33.333 17.42 17.42 0.00 1.94
2226 4629 0.107831 TATGGGACCGGCAATGCTAC 59.892 55.000 4.82 0.00 0.00 3.58
2275 4678 3.640498 TGATGTGGCAGTTTTTCATTGGA 59.360 39.130 0.00 0.00 0.00 3.53
2365 4768 1.280998 TGTAAGAGCCTGTAAAGCCCC 59.719 52.381 0.00 0.00 0.00 5.80
2615 5154 3.811722 TGAATAACTTGCGAGCACTTG 57.188 42.857 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 1.371183 CTTGACCTCGACCTTGCCA 59.629 57.895 0.00 0.00 0.00 4.92
65 74 0.393820 TCGTTGTACCCAGGAACCAC 59.606 55.000 0.00 0.00 0.00 4.16
73 82 0.963962 GTCCAGTCTCGTTGTACCCA 59.036 55.000 0.00 0.00 0.00 4.51
88 97 4.631740 TGAGACAGGGCGGGTCCA 62.632 66.667 3.87 0.46 35.89 4.02
121 130 0.758123 TGAAGTCGGGGTAACGGTTT 59.242 50.000 0.00 0.00 37.60 3.27
256 265 2.044352 TGCGAGACGATGGAGGGA 60.044 61.111 0.00 0.00 0.00 4.20
432 442 4.920640 TGACGCCTTTTTGGTTAAATCA 57.079 36.364 0.00 0.00 38.35 2.57
451 462 7.421530 CTGACTAAGGAAAGAAAACGAATGA 57.578 36.000 0.00 0.00 0.00 2.57
507 2701 9.431887 ACAACTACAAGGTATTACAATGTACTG 57.568 33.333 0.00 8.87 0.00 2.74
806 3161 8.665643 TGTCGTTGAAATTTTCTAGTTAAGGA 57.334 30.769 10.33 4.61 0.00 3.36
836 3191 3.814283 GAGAGGCCACAGATTGATTGATC 59.186 47.826 5.01 0.00 0.00 2.92
848 3203 2.327325 AAGGAACTAGAGAGGCCACA 57.673 50.000 5.01 0.00 38.49 4.17
853 3208 3.839293 CACACGAAAGGAACTAGAGAGG 58.161 50.000 0.00 0.00 38.49 3.69
889 3244 8.296713 TGTCAAGGTCAAATTTAGAGCATAAAC 58.703 33.333 16.60 11.38 36.03 2.01
920 3277 1.420514 GGGATTTAGTGGGGGAGTAGC 59.579 57.143 0.00 0.00 0.00 3.58
1031 3401 1.568504 TATCAAGGACGCCAGGACTT 58.431 50.000 0.00 0.00 0.00 3.01
1044 3414 3.384668 CACGTGGTAGAGGCATATCAAG 58.615 50.000 7.95 0.00 0.00 3.02
1048 3418 0.393077 GGCACGTGGTAGAGGCATAT 59.607 55.000 18.88 0.00 0.00 1.78
1070 3443 2.284258 AGAGCGAGAAGGCCCTGT 60.284 61.111 0.00 0.00 0.00 4.00
1072 3445 2.762043 GGAGAGCGAGAAGGCCCT 60.762 66.667 0.00 0.00 0.00 5.19
1107 3480 2.359850 GAACCAGCACCGGCATCA 60.360 61.111 0.00 0.00 44.61 3.07
1110 3483 4.980805 GACGAACCAGCACCGGCA 62.981 66.667 0.00 0.00 44.61 5.69
1119 3492 1.624487 CGACAATGATCGACGAACCA 58.376 50.000 0.00 3.53 45.13 3.67
1143 3516 0.038251 GTGGACTGATGAGTGCGTCA 60.038 55.000 0.00 0.00 43.32 4.35
1232 3605 2.076622 GAAGCTAGCCATCTCGCCGA 62.077 60.000 12.13 0.00 31.96 5.54
1272 3645 1.912043 CTGTCCTTCTCTGGGGTGATT 59.088 52.381 0.00 0.00 0.00 2.57
1306 3685 3.461773 CATCCTCCTGTCGCCGGT 61.462 66.667 1.90 0.00 0.00 5.28
1308 3687 4.899239 GCCATCCTCCTGTCGCCG 62.899 72.222 0.00 0.00 0.00 6.46
1314 3693 0.182299 GGAAGAAGGCCATCCTCCTG 59.818 60.000 16.88 0.00 43.40 3.86
1375 3757 4.803426 GCCTGTCCCGTCAGCGAG 62.803 72.222 0.00 0.00 41.33 5.03
1380 3765 2.110213 GTGTTGCCTGTCCCGTCA 59.890 61.111 0.00 0.00 0.00 4.35
1382 3767 4.265056 GGGTGTTGCCTGTCCCGT 62.265 66.667 0.00 0.00 37.43 5.28
1393 3781 4.752879 CGCCACGATCCGGGTGTT 62.753 66.667 0.00 0.00 33.56 3.32
1426 3814 0.107508 ATGCCGACATGGTTGAGGAG 60.108 55.000 0.00 0.00 41.21 3.69
1483 3883 1.212751 GTTTCTTGCCCGTCCATGC 59.787 57.895 0.00 0.00 0.00 4.06
1489 3889 0.878961 GTCGTGAGTTTCTTGCCCGT 60.879 55.000 0.00 0.00 0.00 5.28
1500 3900 1.099295 TGACACTGGACGTCGTGAGT 61.099 55.000 24.50 16.36 36.11 3.41
1534 3934 2.094182 TCCTGGAGTCGCTGTTGTATTC 60.094 50.000 0.00 0.00 0.00 1.75
1540 3940 1.078848 GCATCCTGGAGTCGCTGTT 60.079 57.895 1.52 0.00 0.00 3.16
1587 3987 2.884639 AGTTGCATTGACCTGGTACAAC 59.115 45.455 0.00 9.75 38.70 3.32
1588 3988 2.884012 CAGTTGCATTGACCTGGTACAA 59.116 45.455 0.00 6.74 38.70 2.41
1608 4008 5.357257 GGTAGAATTCTGCGGAGATTAACA 58.643 41.667 18.47 0.00 0.00 2.41
1612 4012 2.224066 CCGGTAGAATTCTGCGGAGATT 60.224 50.000 25.69 0.55 32.28 2.40
1677 4077 2.687200 AGTATCCGGTGCAGCCCA 60.687 61.111 10.90 0.00 0.00 5.36
1735 4135 3.486841 GCACTAAGTCGTAACGTTTGACA 59.513 43.478 25.64 12.07 35.09 3.58
1736 4136 3.732721 AGCACTAAGTCGTAACGTTTGAC 59.267 43.478 19.82 19.82 0.00 3.18
1737 4137 3.732219 CAGCACTAAGTCGTAACGTTTGA 59.268 43.478 5.91 1.96 0.00 2.69
1738 4138 3.488310 ACAGCACTAAGTCGTAACGTTTG 59.512 43.478 5.91 0.00 0.00 2.93
1739 4139 3.709987 ACAGCACTAAGTCGTAACGTTT 58.290 40.909 5.91 0.00 0.00 3.60
1740 4140 3.004106 AGACAGCACTAAGTCGTAACGTT 59.996 43.478 5.88 5.88 39.67 3.99
1741 4141 2.551459 AGACAGCACTAAGTCGTAACGT 59.449 45.455 0.00 0.00 39.67 3.99
1742 4142 3.198863 AGACAGCACTAAGTCGTAACG 57.801 47.619 0.00 0.00 39.67 3.18
1757 4157 5.501413 CGTTGCAACTCATTATGCTAGACAG 60.501 44.000 26.09 1.66 42.97 3.51
1758 4158 4.329801 CGTTGCAACTCATTATGCTAGACA 59.670 41.667 26.09 0.00 42.97 3.41
1759 4159 4.783450 GCGTTGCAACTCATTATGCTAGAC 60.783 45.833 26.09 0.00 42.97 2.59
1760 4160 3.309682 GCGTTGCAACTCATTATGCTAGA 59.690 43.478 26.09 0.00 42.97 2.43
1761 4161 3.546815 GGCGTTGCAACTCATTATGCTAG 60.547 47.826 26.09 8.02 42.97 3.42
1762 4162 2.354510 GGCGTTGCAACTCATTATGCTA 59.645 45.455 26.09 0.00 42.97 3.49
1763 4163 1.133025 GGCGTTGCAACTCATTATGCT 59.867 47.619 26.09 0.00 42.97 3.79
1764 4164 1.133025 AGGCGTTGCAACTCATTATGC 59.867 47.619 26.09 19.05 42.86 3.14
1765 4165 3.546815 GCTAGGCGTTGCAACTCATTATG 60.547 47.826 26.09 10.63 0.00 1.90
1766 4166 2.614057 GCTAGGCGTTGCAACTCATTAT 59.386 45.455 26.09 9.09 0.00 1.28
1767 4167 2.006888 GCTAGGCGTTGCAACTCATTA 58.993 47.619 26.09 13.74 0.00 1.90
1768 4168 0.804989 GCTAGGCGTTGCAACTCATT 59.195 50.000 26.09 13.36 0.00 2.57
1769 4169 0.321564 TGCTAGGCGTTGCAACTCAT 60.322 50.000 26.09 19.13 36.15 2.90
1770 4170 0.533978 TTGCTAGGCGTTGCAACTCA 60.534 50.000 26.09 11.52 43.17 3.41
1771 4171 2.244000 TTGCTAGGCGTTGCAACTC 58.756 52.632 26.09 19.06 43.17 3.01
1772 4172 4.473643 TTGCTAGGCGTTGCAACT 57.526 50.000 26.09 11.27 43.17 3.16
1775 4175 1.737236 CTGTAATTGCTAGGCGTTGCA 59.263 47.619 11.41 11.41 37.42 4.08
1776 4176 1.531883 GCTGTAATTGCTAGGCGTTGC 60.532 52.381 5.87 5.87 0.00 4.17
1777 4177 2.009774 AGCTGTAATTGCTAGGCGTTG 58.990 47.619 0.00 0.00 39.21 4.10
1778 4178 2.403252 AGCTGTAATTGCTAGGCGTT 57.597 45.000 0.00 0.00 39.21 4.84
1779 4179 2.403252 AAGCTGTAATTGCTAGGCGT 57.597 45.000 0.00 0.00 40.22 5.68
1780 4180 3.246226 CACTAAGCTGTAATTGCTAGGCG 59.754 47.826 0.00 0.00 40.22 5.52
1781 4181 3.002759 GCACTAAGCTGTAATTGCTAGGC 59.997 47.826 0.00 0.00 40.22 3.93
1782 4182 4.802876 GCACTAAGCTGTAATTGCTAGG 57.197 45.455 0.00 0.00 40.22 3.02
1795 4195 5.908341 ACCTTCTACATTCTAGCACTAAGC 58.092 41.667 0.00 0.00 46.19 3.09
1796 4196 7.341445 AGACCTTCTACATTCTAGCACTAAG 57.659 40.000 0.00 0.00 0.00 2.18
1797 4197 8.272889 TCTAGACCTTCTACATTCTAGCACTAA 58.727 37.037 0.00 0.00 38.21 2.24
1798 4198 7.803131 TCTAGACCTTCTACATTCTAGCACTA 58.197 38.462 0.00 0.00 38.21 2.74
1799 4199 6.664714 TCTAGACCTTCTACATTCTAGCACT 58.335 40.000 0.00 0.00 38.21 4.40
1800 4200 6.768861 TCTCTAGACCTTCTACATTCTAGCAC 59.231 42.308 0.00 0.00 38.21 4.40
1801 4201 6.768861 GTCTCTAGACCTTCTACATTCTAGCA 59.231 42.308 0.00 0.00 38.21 3.49
1802 4202 7.198306 GTCTCTAGACCTTCTACATTCTAGC 57.802 44.000 0.00 0.00 38.21 3.42
1823 4223 4.582656 CGTGGAATATCAAGAGAGAGGTCT 59.417 45.833 0.00 0.00 34.86 3.85
1824 4224 4.339814 ACGTGGAATATCAAGAGAGAGGTC 59.660 45.833 0.00 0.00 0.00 3.85
1825 4225 4.282496 ACGTGGAATATCAAGAGAGAGGT 58.718 43.478 0.00 0.00 0.00 3.85
1826 4226 4.261825 GGACGTGGAATATCAAGAGAGAGG 60.262 50.000 0.00 0.00 0.00 3.69
1827 4227 4.582656 AGGACGTGGAATATCAAGAGAGAG 59.417 45.833 0.00 0.00 0.00 3.20
1828 4228 4.537751 AGGACGTGGAATATCAAGAGAGA 58.462 43.478 0.00 0.00 0.00 3.10
1829 4229 4.927978 AGGACGTGGAATATCAAGAGAG 57.072 45.455 0.00 0.00 0.00 3.20
1830 4230 6.549736 TCATTAGGACGTGGAATATCAAGAGA 59.450 38.462 0.00 0.00 0.00 3.10
1831 4231 6.642950 GTCATTAGGACGTGGAATATCAAGAG 59.357 42.308 0.00 0.00 36.65 2.85
1832 4232 6.513180 GTCATTAGGACGTGGAATATCAAGA 58.487 40.000 0.00 0.00 36.65 3.02
1833 4233 6.771188 GTCATTAGGACGTGGAATATCAAG 57.229 41.667 0.00 0.00 36.65 3.02
1875 4275 9.944376 CTGTATTGGGCTGTTTATATAGTACAT 57.056 33.333 0.00 0.00 0.00 2.29
1876 4276 8.930527 ACTGTATTGGGCTGTTTATATAGTACA 58.069 33.333 0.00 1.34 0.00 2.90
1877 4277 9.204570 CACTGTATTGGGCTGTTTATATAGTAC 57.795 37.037 0.00 0.00 0.00 2.73
1878 4278 9.150028 TCACTGTATTGGGCTGTTTATATAGTA 57.850 33.333 0.00 0.00 0.00 1.82
1879 4279 8.029782 TCACTGTATTGGGCTGTTTATATAGT 57.970 34.615 0.00 0.00 0.00 2.12
1880 4280 7.604164 CCTCACTGTATTGGGCTGTTTATATAG 59.396 40.741 0.00 0.00 0.00 1.31
1881 4281 7.291416 TCCTCACTGTATTGGGCTGTTTATATA 59.709 37.037 0.00 0.00 0.00 0.86
1882 4282 6.101150 TCCTCACTGTATTGGGCTGTTTATAT 59.899 38.462 0.00 0.00 0.00 0.86
1883 4283 5.427157 TCCTCACTGTATTGGGCTGTTTATA 59.573 40.000 0.00 0.00 0.00 0.98
1884 4284 4.227300 TCCTCACTGTATTGGGCTGTTTAT 59.773 41.667 0.00 0.00 0.00 1.40
1885 4285 3.585289 TCCTCACTGTATTGGGCTGTTTA 59.415 43.478 0.00 0.00 0.00 2.01
1886 4286 2.375174 TCCTCACTGTATTGGGCTGTTT 59.625 45.455 0.00 0.00 0.00 2.83
1887 4287 1.985159 TCCTCACTGTATTGGGCTGTT 59.015 47.619 0.00 0.00 0.00 3.16
1888 4288 1.656587 TCCTCACTGTATTGGGCTGT 58.343 50.000 0.00 0.00 0.00 4.40
1889 4289 3.287867 AATCCTCACTGTATTGGGCTG 57.712 47.619 0.00 0.00 0.00 4.85
1890 4290 4.660303 TGATAATCCTCACTGTATTGGGCT 59.340 41.667 0.00 0.00 0.00 5.19
1891 4291 4.757149 GTGATAATCCTCACTGTATTGGGC 59.243 45.833 0.00 0.00 41.87 5.36
1892 4292 4.991056 CGTGATAATCCTCACTGTATTGGG 59.009 45.833 3.07 0.00 42.73 4.12
1893 4293 4.991056 CCGTGATAATCCTCACTGTATTGG 59.009 45.833 3.07 0.00 42.73 3.16
1894 4294 4.449068 GCCGTGATAATCCTCACTGTATTG 59.551 45.833 3.07 0.00 42.73 1.90
1895 4295 4.100963 TGCCGTGATAATCCTCACTGTATT 59.899 41.667 3.07 0.00 42.73 1.89
1896 4296 3.641436 TGCCGTGATAATCCTCACTGTAT 59.359 43.478 3.07 0.00 42.73 2.29
1897 4297 3.028130 TGCCGTGATAATCCTCACTGTA 58.972 45.455 3.07 0.00 42.73 2.74
1898 4298 1.831106 TGCCGTGATAATCCTCACTGT 59.169 47.619 3.07 0.00 42.73 3.55
1899 4299 2.602257 TGCCGTGATAATCCTCACTG 57.398 50.000 3.07 0.00 42.73 3.66
1900 4300 3.627395 TTTGCCGTGATAATCCTCACT 57.373 42.857 3.07 0.00 42.73 3.41
1901 4301 5.934625 AGATATTTGCCGTGATAATCCTCAC 59.065 40.000 0.00 0.00 41.73 3.51
1902 4302 6.014242 AGAGATATTTGCCGTGATAATCCTCA 60.014 38.462 0.00 0.00 0.00 3.86
1903 4303 6.402222 AGAGATATTTGCCGTGATAATCCTC 58.598 40.000 0.00 0.00 0.00 3.71
1904 4304 6.365970 AGAGATATTTGCCGTGATAATCCT 57.634 37.500 0.00 0.00 0.00 3.24
1905 4305 6.876257 AGAAGAGATATTTGCCGTGATAATCC 59.124 38.462 0.00 0.00 0.00 3.01
1906 4306 7.897575 AGAAGAGATATTTGCCGTGATAATC 57.102 36.000 0.00 0.00 0.00 1.75
1907 4307 9.593134 GATAGAAGAGATATTTGCCGTGATAAT 57.407 33.333 0.00 0.00 0.00 1.28
1908 4308 8.807118 AGATAGAAGAGATATTTGCCGTGATAA 58.193 33.333 0.00 0.00 0.00 1.75
1909 4309 8.354711 AGATAGAAGAGATATTTGCCGTGATA 57.645 34.615 0.00 0.00 0.00 2.15
1910 4310 7.238486 AGATAGAAGAGATATTTGCCGTGAT 57.762 36.000 0.00 0.00 0.00 3.06
1911 4311 6.656632 AGATAGAAGAGATATTTGCCGTGA 57.343 37.500 0.00 0.00 0.00 4.35
1912 4312 6.529829 GCTAGATAGAAGAGATATTTGCCGTG 59.470 42.308 0.00 0.00 0.00 4.94
1913 4313 6.623986 CGCTAGATAGAAGAGATATTTGCCGT 60.624 42.308 0.00 0.00 0.00 5.68
1914 4314 5.741510 CGCTAGATAGAAGAGATATTTGCCG 59.258 44.000 0.00 0.00 0.00 5.69
1915 4315 6.039616 CCGCTAGATAGAAGAGATATTTGCC 58.960 44.000 0.00 0.00 0.00 4.52
1916 4316 6.039616 CCCGCTAGATAGAAGAGATATTTGC 58.960 44.000 0.00 0.00 0.00 3.68
1917 4317 7.397892 TCCCGCTAGATAGAAGAGATATTTG 57.602 40.000 0.00 0.00 0.00 2.32
1918 4318 7.363443 GCTTCCCGCTAGATAGAAGAGATATTT 60.363 40.741 16.04 0.00 38.38 1.40
1919 4319 6.096282 GCTTCCCGCTAGATAGAAGAGATATT 59.904 42.308 16.04 0.00 38.38 1.28
1920 4320 5.592688 GCTTCCCGCTAGATAGAAGAGATAT 59.407 44.000 16.04 0.00 38.38 1.63
1921 4321 4.944930 GCTTCCCGCTAGATAGAAGAGATA 59.055 45.833 16.04 0.00 38.38 1.98
1922 4322 3.761752 GCTTCCCGCTAGATAGAAGAGAT 59.238 47.826 16.04 0.00 38.38 2.75
1923 4323 3.150767 GCTTCCCGCTAGATAGAAGAGA 58.849 50.000 16.04 0.00 38.38 3.10
1924 4324 2.887783 TGCTTCCCGCTAGATAGAAGAG 59.112 50.000 16.04 0.00 38.38 2.85
1925 4325 2.623889 GTGCTTCCCGCTAGATAGAAGA 59.376 50.000 16.04 3.65 38.38 2.87
1926 4326 2.288518 GGTGCTTCCCGCTAGATAGAAG 60.289 54.545 10.22 10.22 40.11 2.85
1927 4327 1.687123 GGTGCTTCCCGCTAGATAGAA 59.313 52.381 0.00 0.00 40.11 2.10
1928 4328 1.133450 AGGTGCTTCCCGCTAGATAGA 60.133 52.381 0.00 0.00 40.11 1.98
1929 4329 1.271102 GAGGTGCTTCCCGCTAGATAG 59.729 57.143 0.00 0.00 40.11 2.08
1930 4330 1.329256 GAGGTGCTTCCCGCTAGATA 58.671 55.000 0.00 0.00 40.11 1.98
1931 4331 1.403687 GGAGGTGCTTCCCGCTAGAT 61.404 60.000 0.00 0.00 40.11 1.98
1932 4332 2.058595 GGAGGTGCTTCCCGCTAGA 61.059 63.158 0.00 0.00 40.11 2.43
1933 4333 2.501610 GGAGGTGCTTCCCGCTAG 59.498 66.667 0.00 0.00 40.11 3.42
1934 4334 3.458163 CGGAGGTGCTTCCCGCTA 61.458 66.667 0.00 0.00 40.11 4.26
1938 4338 4.785453 CAGGCGGAGGTGCTTCCC 62.785 72.222 0.00 0.00 36.75 3.97
1943 4343 4.704833 TTCAGCAGGCGGAGGTGC 62.705 66.667 0.00 0.00 40.17 5.01
1945 4345 4.021925 GGTTCAGCAGGCGGAGGT 62.022 66.667 0.00 0.00 0.00 3.85
1950 4350 2.125350 GAGGAGGTTCAGCAGGCG 60.125 66.667 0.00 0.00 0.00 5.52
1976 4379 2.094700 TCCTCTTGTAACTGTAGCTGCG 60.095 50.000 0.00 0.00 0.00 5.18
1986 4389 4.816925 GGACCAATGCTATCCTCTTGTAAC 59.183 45.833 0.00 0.00 0.00 2.50
1987 4390 4.721776 AGGACCAATGCTATCCTCTTGTAA 59.278 41.667 0.00 0.00 38.55 2.41
1988 4391 4.298626 AGGACCAATGCTATCCTCTTGTA 58.701 43.478 0.00 0.00 38.55 2.41
1995 4398 5.485708 AGGAATAGTAGGACCAATGCTATCC 59.514 44.000 0.00 0.00 30.59 2.59
2042 4445 3.063997 CGAAACTGAAATCCCATTCGGAG 59.936 47.826 3.06 0.00 46.60 4.63
2050 4453 5.181245 TGTCTTGAATCGAAACTGAAATCCC 59.819 40.000 0.00 0.00 0.00 3.85
2090 4493 1.337387 CTAGGCTACGACAGGTAAGGC 59.663 57.143 0.00 0.00 0.00 4.35
2096 4499 2.345124 ACCTACTAGGCTACGACAGG 57.655 55.000 1.55 0.00 39.63 4.00
2113 4516 2.668106 TATGGGGCGGAGGGAGTACC 62.668 65.000 0.00 0.00 40.67 3.34
2114 4517 0.761702 TTATGGGGCGGAGGGAGTAC 60.762 60.000 0.00 0.00 0.00 2.73
2115 4518 0.192566 ATTATGGGGCGGAGGGAGTA 59.807 55.000 0.00 0.00 0.00 2.59
2150 4553 9.893634 TCAATAACGTTCTTATATTTCCCTCAA 57.106 29.630 2.82 0.00 0.00 3.02
2152 4555 9.321562 TGTCAATAACGTTCTTATATTTCCCTC 57.678 33.333 2.82 0.00 0.00 4.30
2153 4556 9.106070 GTGTCAATAACGTTCTTATATTTCCCT 57.894 33.333 2.82 0.00 0.00 4.20
2154 4557 9.106070 AGTGTCAATAACGTTCTTATATTTCCC 57.894 33.333 2.82 0.00 0.00 3.97
2164 4567 7.211966 ACTACAGTAGTGTCAATAACGTTCT 57.788 36.000 12.75 0.00 37.69 3.01
2275 4678 2.432300 CCGCGTCCTCCCCTTACAT 61.432 63.158 4.92 0.00 0.00 2.29
2320 4723 6.040504 AGACTCCTTCCAAACATAAAAACCAC 59.959 38.462 0.00 0.00 0.00 4.16
2365 4768 5.730802 CCATAACAAAAATGCTACACGTACG 59.269 40.000 15.01 15.01 0.00 3.67
2615 5154 0.108138 ACCGTGCTTGTAGATGCTCC 60.108 55.000 0.00 0.00 0.00 4.70


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

AutoCloner maintained by Alex Coulton.