Multiple sequence alignment - TraesCS6A01G289700

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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 TraesCS6A01G289700 chr6A 100.000 5299 0 0 1 5299 521479819 521485117 0.000000e+00 9786
1 TraesCS6A01G289700 chr6A 90.411 219 16 5 2437 2652 521482060 521482276 3.120000e-72 283
2 TraesCS6A01G289700 chr6A 90.411 219 16 5 2242 2458 521482255 521482470 3.120000e-72 283
3 TraesCS6A01G289700 chr6A 94.545 110 6 0 16 125 25066516 25066407 2.540000e-38 171
4 TraesCS6A01G289700 chr6D 93.787 3348 156 31 131 3445 379521020 379517692 0.000000e+00 4983
5 TraesCS6A01G289700 chr6D 91.486 599 37 6 4705 5299 379482711 379482123 0.000000e+00 811
6 TraesCS6A01G289700 chr6D 95.395 456 21 0 3437 3892 379517660 379517205 0.000000e+00 726
7 TraesCS6A01G289700 chr6D 93.920 477 26 3 3895 4369 379516812 379516337 0.000000e+00 717
8 TraesCS6A01G289700 chr6D 91.038 212 15 4 2242 2451 379518706 379518497 3.120000e-72 283
9 TraesCS6A01G289700 chr6D 90.476 210 18 2 2437 2646 379518899 379518692 5.230000e-70 276
10 TraesCS6A01G289700 chr6D 86.897 145 8 4 4532 4665 379482955 379482811 9.190000e-33 152
11 TraesCS6A01G289700 chr6B 93.366 3045 129 28 429 3445 567472831 567475830 0.000000e+00 4436
12 TraesCS6A01G289700 chr6B 95.095 632 30 1 3895 4525 567476704 567477335 0.000000e+00 994
13 TraesCS6A01G289700 chr6B 87.832 641 51 14 4676 5299 567534413 567535043 0.000000e+00 726
14 TraesCS6A01G289700 chr6B 96.512 430 12 2 3464 3892 567475879 567476306 0.000000e+00 708
15 TraesCS6A01G289700 chr6B 90.868 219 15 5 2242 2458 567474822 567475037 6.710000e-74 289
16 TraesCS6A01G289700 chr6B 91.429 210 16 2 2437 2646 567474629 567474836 2.410000e-73 287
17 TraesCS6A01G289700 chr6B 93.296 179 11 1 132 309 567472614 567472792 4.070000e-66 263
18 TraesCS6A01G289700 chr6B 93.902 82 2 3 324 402 13827599 13827518 2.590000e-23 121
19 TraesCS6A01G289700 chr6B 87.356 87 9 2 4531 4617 567477364 567477448 1.210000e-16 99
20 TraesCS6A01G289700 chr2A 82.946 258 39 4 5034 5289 541012414 541012668 1.480000e-55 228
21 TraesCS6A01G289700 chr2A 92.793 111 8 0 16 126 442518838 442518728 1.530000e-35 161
22 TraesCS6A01G289700 chr2A 92.593 81 4 2 324 402 699439282 699439202 1.210000e-21 115
23 TraesCS6A01G289700 chr2D 82.090 268 42 5 5034 5299 403419230 403419493 1.920000e-54 224
24 TraesCS6A01G289700 chr2D 94.595 74 2 2 324 395 534925538 534925465 4.340000e-21 113
25 TraesCS6A01G289700 chr2D 90.805 87 5 2 313 396 592630994 592631080 4.340000e-21 113
26 TraesCS6A01G289700 chr5A 97.273 110 3 0 16 125 536254744 536254853 2.520000e-43 187
27 TraesCS6A01G289700 chr5A 96.364 110 4 0 16 125 676909754 676909645 1.170000e-41 182
28 TraesCS6A01G289700 chr4A 96.364 110 4 0 16 125 359577210 359577101 1.170000e-41 182
29 TraesCS6A01G289700 chr1A 94.545 110 6 0 16 125 432530689 432530798 2.540000e-38 171
30 TraesCS6A01G289700 chr1A 92.857 112 8 0 16 127 329587186 329587297 4.250000e-36 163
31 TraesCS6A01G289700 chr1A 92.727 110 8 0 16 125 384295639 384295748 5.490000e-35 159
32 TraesCS6A01G289700 chr3A 93.519 108 7 0 18 125 14070629 14070522 1.530000e-35 161
33 TraesCS6A01G289700 chr7B 93.827 81 3 2 324 402 84214261 84214181 2.590000e-23 121
34 TraesCS6A01G289700 chr4D 91.860 86 3 4 314 395 352127893 352127808 3.350000e-22 117
35 TraesCS6A01G289700 chr4D 92.771 83 3 3 324 403 498034020 498033938 3.350000e-22 117
36 TraesCS6A01G289700 chr4D 93.333 75 3 2 324 396 282080021 282079947 5.610000e-20 110


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 TraesCS6A01G289700 chr6A 521479819 521485117 5298 False 3450.666667 9786 93.607333 1 5299 3 chr6A.!!$F1 5298
1 TraesCS6A01G289700 chr6D 379516337 379521020 4683 True 1397.000000 4983 92.923200 131 4369 5 chr6D.!!$R2 4238
2 TraesCS6A01G289700 chr6D 379482123 379482955 832 True 481.500000 811 89.191500 4532 5299 2 chr6D.!!$R1 767
3 TraesCS6A01G289700 chr6B 567472614 567477448 4834 False 1010.857143 4436 92.560286 132 4617 7 chr6B.!!$F2 4485
4 TraesCS6A01G289700 chr6B 567534413 567535043 630 False 726.000000 726 87.832000 4676 5299 1 chr6B.!!$F1 623

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
863 891 0.031616 TTGGGCCTTTGGAGGTGTTT 60.032 50.000 4.53 0.0 45.44 2.83 F
864 892 0.469144 TGGGCCTTTGGAGGTGTTTC 60.469 55.000 4.53 0.0 45.44 2.78 F
866 894 0.469144 GGCCTTTGGAGGTGTTTCCA 60.469 55.000 0.00 0.0 45.44 3.53 F
946 977 0.679002 GCCCGGTAGAAAGAAACCCC 60.679 60.000 0.00 0.0 31.68 4.95 F
1158 1189 0.963355 TTCCCCTTTATGCACGCACC 60.963 55.000 0.00 0.0 0.00 5.01 F
1600 1634 1.135315 CATGTGCACGGCAAAATAGCT 60.135 47.619 13.13 0.0 41.47 3.32 F
1605 1639 1.200020 GCACGGCAAAATAGCTTGAGT 59.800 47.619 0.00 0.0 34.17 3.41 F
1606 1640 2.351738 GCACGGCAAAATAGCTTGAGTT 60.352 45.455 0.00 0.0 34.17 3.01 F
2212 2249 2.827921 CAAGCAACTATGGCCTTTTCCT 59.172 45.455 3.32 0.0 0.00 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1695 1729 5.046910 ACATAGTTCCATTTCACGCTTTG 57.953 39.130 0.00 0.00 0.00 2.77 R
2843 2881 5.240623 AGTGAAATACATCTTTTCGGCAACA 59.759 36.000 0.00 0.00 36.16 3.33 R
2844 2882 5.699839 AGTGAAATACATCTTTTCGGCAAC 58.300 37.500 0.00 0.00 36.16 4.17 R
2925 2966 7.556275 TGATATTCCTTGGAAGTGTATTTGGAC 59.444 37.037 8.16 0.00 0.00 4.02 R
3066 3115 3.715315 ACTAATAAGGGCCCTTACAGTCC 59.285 47.826 40.64 3.83 40.76 3.85 R
3459 3549 6.089820 CAGTTGCTATGCCAAAACAAACATAG 59.910 38.462 0.00 0.00 43.08 2.23 R
3496 3586 8.415950 AATCAAATAGGTACCACATGACAAAA 57.584 30.769 15.94 0.00 0.00 2.44 R
3839 3930 3.152261 ACAGCGCTGAACATAGTCTAC 57.848 47.619 42.03 0.00 0.00 2.59 R
4331 4820 0.037232 AACCTAAGCGACTGCCTCAC 60.037 55.000 0.00 0.00 44.31 3.51 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
25 26 8.628630 TGTTTTAAATGACACATATGAGACCA 57.371 30.769 10.38 6.14 0.00 4.02
26 27 8.729756 TGTTTTAAATGACACATATGAGACCAG 58.270 33.333 10.38 0.00 0.00 4.00
27 28 7.864108 TTTAAATGACACATATGAGACCAGG 57.136 36.000 10.38 0.00 0.00 4.45
28 29 5.441718 AAATGACACATATGAGACCAGGT 57.558 39.130 10.38 0.00 0.00 4.00
29 30 4.679373 ATGACACATATGAGACCAGGTC 57.321 45.455 12.25 12.25 0.00 3.85
30 31 3.713003 TGACACATATGAGACCAGGTCT 58.287 45.455 23.18 23.18 46.42 3.85
37 38 4.621269 AGACCAGGTCTCACGGTT 57.379 55.556 17.31 0.00 38.71 4.44
38 39 3.759865 AGACCAGGTCTCACGGTTA 57.240 52.632 17.31 0.00 38.71 2.85
39 40 1.546961 AGACCAGGTCTCACGGTTAG 58.453 55.000 17.31 0.00 38.71 2.34
40 41 0.108756 GACCAGGTCTCACGGTTAGC 60.109 60.000 12.94 0.00 31.63 3.09
41 42 0.830444 ACCAGGTCTCACGGTTAGCA 60.830 55.000 0.00 0.00 0.00 3.49
42 43 0.108615 CCAGGTCTCACGGTTAGCAG 60.109 60.000 0.00 0.00 0.00 4.24
43 44 0.108615 CAGGTCTCACGGTTAGCAGG 60.109 60.000 0.00 0.00 0.00 4.85
44 45 0.542232 AGGTCTCACGGTTAGCAGGT 60.542 55.000 0.00 0.00 0.00 4.00
45 46 0.389948 GGTCTCACGGTTAGCAGGTG 60.390 60.000 0.00 0.00 0.00 4.00
46 47 0.601558 GTCTCACGGTTAGCAGGTGA 59.398 55.000 3.41 3.41 38.29 4.02
48 49 3.045518 TCACGGTTAGCAGGTGAGA 57.954 52.632 0.00 0.00 35.89 3.27
49 50 0.601558 TCACGGTTAGCAGGTGAGAC 59.398 55.000 0.00 0.00 35.89 3.36
50 51 0.389948 CACGGTTAGCAGGTGAGACC 60.390 60.000 0.00 0.00 38.99 3.85
51 52 1.218316 CGGTTAGCAGGTGAGACCC 59.782 63.158 0.00 0.00 39.75 4.46
52 53 1.218316 GGTTAGCAGGTGAGACCCG 59.782 63.158 0.00 0.00 39.75 5.28
53 54 1.542187 GGTTAGCAGGTGAGACCCGT 61.542 60.000 0.00 0.00 39.75 5.28
54 55 0.108756 GTTAGCAGGTGAGACCCGTC 60.109 60.000 0.00 0.00 39.75 4.79
55 56 1.255667 TTAGCAGGTGAGACCCGTCC 61.256 60.000 0.00 0.00 39.75 4.79
56 57 2.151307 TAGCAGGTGAGACCCGTCCT 62.151 60.000 0.00 0.00 39.75 3.85
57 58 2.973899 CAGGTGAGACCCGTCCTG 59.026 66.667 0.00 0.00 39.75 3.86
58 59 2.851801 AGGTGAGACCCGTCCTGA 59.148 61.111 0.00 0.00 39.75 3.86
59 60 1.388531 AGGTGAGACCCGTCCTGAT 59.611 57.895 0.00 0.00 39.75 2.90
60 61 0.972983 AGGTGAGACCCGTCCTGATG 60.973 60.000 0.00 0.00 39.75 3.07
61 62 1.517832 GTGAGACCCGTCCTGATGG 59.482 63.158 0.00 0.00 37.23 3.51
62 63 0.970937 GTGAGACCCGTCCTGATGGA 60.971 60.000 6.98 0.00 39.90 3.41
63 64 0.032117 TGAGACCCGTCCTGATGGAT 60.032 55.000 6.98 0.00 45.29 3.41
64 65 0.390860 GAGACCCGTCCTGATGGATG 59.609 60.000 6.98 0.00 45.29 3.51
71 72 1.645034 GTCCTGATGGATGACACGTG 58.355 55.000 15.48 15.48 45.29 4.49
72 73 0.536724 TCCTGATGGATGACACGTGG 59.463 55.000 21.57 1.66 37.46 4.94
73 74 1.091771 CCTGATGGATGACACGTGGC 61.092 60.000 21.57 19.24 34.57 5.01
74 75 0.391528 CTGATGGATGACACGTGGCA 60.392 55.000 29.28 29.28 37.54 4.92
76 77 1.339920 TGATGGATGACACGTGGCATT 60.340 47.619 36.07 22.11 45.42 3.56
77 78 1.331756 GATGGATGACACGTGGCATTC 59.668 52.381 36.07 34.16 45.42 2.67
78 79 0.036022 TGGATGACACGTGGCATTCA 59.964 50.000 36.64 36.64 46.54 2.57
79 80 0.729116 GGATGACACGTGGCATTCAG 59.271 55.000 36.07 0.29 45.42 3.02
80 81 0.097674 GATGACACGTGGCATTCAGC 59.902 55.000 36.07 20.55 45.42 4.26
81 82 0.606130 ATGACACGTGGCATTCAGCA 60.606 50.000 31.22 4.08 42.08 4.41
82 83 2.544072 ATGACACGTGGCATTCAGCAG 61.544 52.381 31.22 0.00 42.08 4.24
89 90 4.672251 GCATTCAGCAGGATGGGT 57.328 55.556 0.00 0.00 44.79 4.51
90 91 2.412605 GCATTCAGCAGGATGGGTC 58.587 57.895 0.00 0.00 44.79 4.46
91 92 0.106819 GCATTCAGCAGGATGGGTCT 60.107 55.000 0.00 0.00 44.79 3.85
92 93 1.964552 CATTCAGCAGGATGGGTCTC 58.035 55.000 0.00 0.00 35.86 3.36
93 94 0.467384 ATTCAGCAGGATGGGTCTCG 59.533 55.000 0.00 0.00 35.86 4.04
94 95 2.202987 CAGCAGGATGGGTCTCGC 60.203 66.667 0.00 0.00 35.86 5.03
95 96 3.842923 AGCAGGATGGGTCTCGCG 61.843 66.667 0.00 0.00 35.86 5.87
96 97 4.148825 GCAGGATGGGTCTCGCGT 62.149 66.667 5.77 0.00 35.86 6.01
97 98 2.202797 CAGGATGGGTCTCGCGTG 60.203 66.667 5.77 3.13 0.00 5.34
98 99 2.362503 AGGATGGGTCTCGCGTGA 60.363 61.111 5.77 6.33 0.00 4.35
99 100 2.105128 GGATGGGTCTCGCGTGAG 59.895 66.667 19.99 19.99 43.99 3.51
106 107 2.282251 TCTCGCGTGAGACCTGGT 60.282 61.111 24.28 0.00 46.25 4.00
107 108 2.179517 CTCGCGTGAGACCTGGTC 59.820 66.667 21.40 19.20 45.57 4.02
108 109 2.282251 TCGCGTGAGACCTGGTCT 60.282 61.111 28.70 28.70 46.42 3.85
121 122 6.882768 AGACCTGGTCTCATAGAATTCTTT 57.117 37.500 23.49 2.41 38.71 2.52
122 123 7.264294 AGACCTGGTCTCATAGAATTCTTTT 57.736 36.000 23.49 0.00 38.71 2.27
123 124 7.334858 AGACCTGGTCTCATAGAATTCTTTTC 58.665 38.462 23.49 0.00 38.71 2.29
124 125 6.418946 ACCTGGTCTCATAGAATTCTTTTCC 58.581 40.000 14.36 8.65 0.00 3.13
125 126 6.012508 ACCTGGTCTCATAGAATTCTTTTCCA 60.013 38.462 14.36 12.27 0.00 3.53
126 127 7.059156 CCTGGTCTCATAGAATTCTTTTCCAT 58.941 38.462 14.36 0.00 0.00 3.41
127 128 7.013083 CCTGGTCTCATAGAATTCTTTTCCATG 59.987 40.741 14.36 10.75 0.00 3.66
128 129 7.632861 TGGTCTCATAGAATTCTTTTCCATGA 58.367 34.615 14.36 14.33 0.00 3.07
129 130 7.554118 TGGTCTCATAGAATTCTTTTCCATGAC 59.446 37.037 14.36 12.11 0.00 3.06
130 131 7.554118 GGTCTCATAGAATTCTTTTCCATGACA 59.446 37.037 14.36 1.40 0.00 3.58
309 312 6.943718 AGCTCTCTAGGACAATACCATACTAC 59.056 42.308 0.00 0.00 0.00 2.73
364 370 7.310237 GGTTTAGATCACTAAAGTGGTGACCTA 60.310 40.741 10.11 0.00 45.42 3.08
383 389 8.880750 GTGACCTAAACGCTCTTATATTTCTTT 58.119 33.333 0.00 0.00 0.00 2.52
386 392 9.880157 ACCTAAACGCTCTTATATTTCTTTACA 57.120 29.630 0.00 0.00 0.00 2.41
393 399 8.138712 CGCTCTTATATTTCTTTACAGAGGAGT 58.861 37.037 0.00 0.00 0.00 3.85
416 423 3.967987 ACTAATTACTCCTACCAGCAGGG 59.032 47.826 0.00 0.00 44.81 4.45
421 428 1.576272 ACTCCTACCAGCAGGGACTAT 59.424 52.381 0.00 0.00 41.15 2.12
434 446 4.097589 GCAGGGACTATACAGTAAACGAGT 59.902 45.833 0.00 0.00 36.02 4.18
441 453 7.249186 ACTATACAGTAAACGAGTAGAGCTG 57.751 40.000 0.00 0.00 32.00 4.24
536 548 4.389576 GAGGCTGGCAAACACGCG 62.390 66.667 3.53 3.53 0.00 6.01
549 561 2.125065 ACGCGGACAACAACCACA 60.125 55.556 12.47 0.00 0.00 4.17
553 567 0.881118 GCGGACAACAACCACATCAT 59.119 50.000 0.00 0.00 0.00 2.45
556 570 2.551887 CGGACAACAACCACATCATGAA 59.448 45.455 0.00 0.00 0.00 2.57
570 584 4.708421 ACATCATGAATGAACCCAGGAAAG 59.292 41.667 0.00 0.00 40.69 2.62
579 593 3.321682 TGAACCCAGGAAAGCTTGATTTG 59.678 43.478 0.00 0.00 0.00 2.32
606 622 0.774908 AAAGGGAACGGGGACAATCA 59.225 50.000 0.00 0.00 0.00 2.57
858 886 3.380995 GCTTTGGGCCTTTGGAGG 58.619 61.111 4.53 0.00 46.50 4.30
859 887 1.533994 GCTTTGGGCCTTTGGAGGT 60.534 57.895 4.53 0.00 45.44 3.85
861 889 0.469892 CTTTGGGCCTTTGGAGGTGT 60.470 55.000 4.53 0.00 45.44 4.16
863 891 0.031616 TTGGGCCTTTGGAGGTGTTT 60.032 50.000 4.53 0.00 45.44 2.83
864 892 0.469144 TGGGCCTTTGGAGGTGTTTC 60.469 55.000 4.53 0.00 45.44 2.78
865 893 1.185618 GGGCCTTTGGAGGTGTTTCC 61.186 60.000 0.84 0.00 45.44 3.13
866 894 0.469144 GGCCTTTGGAGGTGTTTCCA 60.469 55.000 0.00 0.00 45.44 3.53
872 901 1.217916 TGGAGGTGTTTCCACTGGAA 58.782 50.000 6.39 6.39 42.24 3.53
887 916 3.822192 GAATGCGGGCCCGGAAAC 61.822 66.667 42.75 31.92 43.97 2.78
888 917 4.669809 AATGCGGGCCCGGAAACA 62.670 61.111 42.75 31.61 43.97 2.83
892 921 2.938086 GCGGGCCCGGAAACAAATT 61.938 57.895 43.31 0.00 40.19 1.82
946 977 0.679002 GCCCGGTAGAAAGAAACCCC 60.679 60.000 0.00 0.00 31.68 4.95
1075 1106 1.993370 CACCGATTCTCTTCGTGTTCC 59.007 52.381 0.00 0.00 37.42 3.62
1137 1168 2.403259 CAAATCCAAAGGTGCGGAAAC 58.597 47.619 0.00 0.00 34.22 2.78
1158 1189 0.963355 TTCCCCTTTATGCACGCACC 60.963 55.000 0.00 0.00 0.00 5.01
1179 1210 3.064545 CCCTGTTGCTTCTCGATTGAATC 59.935 47.826 0.00 0.00 0.00 2.52
1180 1211 3.686241 CCTGTTGCTTCTCGATTGAATCA 59.314 43.478 5.95 0.00 0.00 2.57
1192 1223 6.368791 TCTCGATTGAATCAGTTCGAATTTGT 59.631 34.615 16.95 0.00 39.80 2.83
1237 1268 2.485814 CTGCTTTGTAGACAAGAAGGCC 59.514 50.000 0.00 0.00 37.15 5.19
1379 1410 2.433868 TGCTATCGCGGAAGGTATTC 57.566 50.000 6.13 0.00 39.65 1.75
1380 1411 1.335597 TGCTATCGCGGAAGGTATTCG 60.336 52.381 6.13 0.00 39.65 3.34
1411 1442 7.774625 CCCTGCCATTTTGTTTTGGATAATTAT 59.225 33.333 0.00 0.00 34.81 1.28
1421 1455 7.787028 TGTTTTGGATAATTATGGGTTAAGCC 58.213 34.615 17.01 17.01 0.00 4.35
1457 1491 8.699749 GTGAAGTTTGTATGCTTAAAAATGTCC 58.300 33.333 0.00 0.00 0.00 4.02
1491 1525 4.578105 CCAGCAAAGGGTAAGAGAATGATC 59.422 45.833 0.00 0.00 0.00 2.92
1548 1582 6.812160 ACGTAGAATGGTATGACAGAAAAGAC 59.188 38.462 0.00 0.00 0.00 3.01
1600 1634 1.135315 CATGTGCACGGCAAAATAGCT 60.135 47.619 13.13 0.00 41.47 3.32
1605 1639 1.200020 GCACGGCAAAATAGCTTGAGT 59.800 47.619 0.00 0.00 34.17 3.41
1606 1640 2.351738 GCACGGCAAAATAGCTTGAGTT 60.352 45.455 0.00 0.00 34.17 3.01
1679 1713 7.990886 TGAGTTGTTTATTAGGCCCTACTTATG 59.009 37.037 0.00 0.00 0.00 1.90
1716 1750 5.088739 GTCAAAGCGTGAAATGGAACTATG 58.911 41.667 0.00 0.00 38.23 2.23
1757 1791 8.541312 GGTTTATCTCTTATCGTTGCTTCTTAC 58.459 37.037 0.00 0.00 0.00 2.34
2212 2249 2.827921 CAAGCAACTATGGCCTTTTCCT 59.172 45.455 3.32 0.00 0.00 3.36
2620 2657 9.468532 AACAAAGTTTTTCTCAATTATCAGCTC 57.531 29.630 0.00 0.00 0.00 4.09
2909 2950 5.760253 ACTGTCTAGTGTCCACAATGAAAAG 59.240 40.000 0.00 0.51 35.34 2.27
2918 2959 5.710513 TCCACAATGAAAAGGACAGAATG 57.289 39.130 0.00 0.00 46.00 2.67
2991 3032 6.441093 AAATCAAAAGATTCATGCGAGCTA 57.559 33.333 0.00 0.00 0.00 3.32
3046 3095 6.036191 GTCTAGCTTGTTACAATCAGCCTAAC 59.964 42.308 0.00 0.00 0.00 2.34
3066 3115 4.801147 ACTGTTAATCATATGCAGTGCG 57.199 40.909 11.20 0.00 38.74 5.34
3335 3384 4.111916 GGGTGCGTATTTTCCATTCATTG 58.888 43.478 0.00 0.00 0.00 2.82
3496 3586 4.740268 CATAGCAACTGCATCATTGTTGT 58.260 39.130 14.86 6.79 45.16 3.32
3839 3930 9.211485 TCAGTACATGTATGATGCATTAGAATG 57.789 33.333 9.18 5.08 39.40 2.67
3854 3945 7.439356 TGCATTAGAATGTAGACTATGTTCAGC 59.561 37.037 4.27 9.22 38.65 4.26
3856 3947 4.363999 AGAATGTAGACTATGTTCAGCGC 58.636 43.478 0.00 0.00 0.00 5.92
3871 3962 1.137404 GCGCTGTAGTTTGCCATGG 59.863 57.895 7.63 7.63 0.00 3.66
3922 4408 1.533625 TATGCAACTTGAGTGTGGCC 58.466 50.000 0.00 0.00 0.00 5.36
3923 4409 0.467844 ATGCAACTTGAGTGTGGCCA 60.468 50.000 0.00 0.00 0.00 5.36
3936 4422 1.905894 TGTGGCCACAGATAACTGCTA 59.094 47.619 34.74 7.31 46.95 3.49
4155 4642 0.871722 TGCTATGTTGAACGTGCACC 59.128 50.000 12.15 0.00 0.00 5.01
4156 4643 0.871722 GCTATGTTGAACGTGCACCA 59.128 50.000 12.15 0.00 0.00 4.17
4223 4710 2.553904 CCATGCTTCTTGACTGGGAACT 60.554 50.000 0.00 0.00 0.00 3.01
4254 4741 4.083537 TCGTGTACAATGGCTTGAACATTC 60.084 41.667 0.00 0.00 36.47 2.67
4262 4749 1.602668 GGCTTGAACATTCGCAGCAAA 60.603 47.619 14.35 0.00 37.67 3.68
4331 4820 2.232298 GAGGAGCTGAAGGTGGTCGG 62.232 65.000 0.00 0.00 33.26 4.79
4352 4841 0.533032 GAGGCAGTCGCTTAGGTTCT 59.467 55.000 0.00 0.00 38.60 3.01
4407 4896 2.029073 CCGTGCCGTGTCTCTTGT 59.971 61.111 0.00 0.00 0.00 3.16
4409 4898 2.939022 GTGCCGTGTCTCTTGTGC 59.061 61.111 0.00 0.00 0.00 4.57
4441 4930 6.250819 CAAGCGTACTGGTCAATTATTTCTG 58.749 40.000 0.00 0.00 0.00 3.02
4442 4931 4.332819 AGCGTACTGGTCAATTATTTCTGC 59.667 41.667 0.00 0.00 0.00 4.26
4445 4934 5.006746 CGTACTGGTCAATTATTTCTGCTCC 59.993 44.000 0.00 0.00 0.00 4.70
4482 4971 2.159184 TCAGGCGCTCTACTCATTTCAG 60.159 50.000 7.64 0.00 0.00 3.02
4498 4987 7.653311 ACTCATTTCAGTAACAGAAAAATTGCC 59.347 33.333 0.00 0.00 38.36 4.52
4510 4999 1.278537 AAATTGCCTGGGTTCATGGG 58.721 50.000 0.00 0.00 0.00 4.00
4525 5014 1.705186 CATGGGGGATAGGTCGGAATT 59.295 52.381 0.00 0.00 0.00 2.17
4527 5016 1.137697 GGGGGATAGGTCGGAATTGT 58.862 55.000 0.00 0.00 0.00 2.71
4528 5017 2.332117 GGGGGATAGGTCGGAATTGTA 58.668 52.381 0.00 0.00 0.00 2.41
4529 5018 2.302157 GGGGGATAGGTCGGAATTGTAG 59.698 54.545 0.00 0.00 0.00 2.74
4572 5084 8.922229 TTCTAATTTCTAGGGTTAAGGGTAGT 57.078 34.615 0.00 0.00 0.00 2.73
4589 5101 4.530553 GGGTAGTTGTGATTTGGGGATTTT 59.469 41.667 0.00 0.00 0.00 1.82
4644 5167 4.098914 TGTTAGATCCCCAATACCATGC 57.901 45.455 0.00 0.00 0.00 4.06
4648 5171 2.448194 AGATCCCCAATACCATGCATGT 59.552 45.455 24.58 15.01 0.00 3.21
4655 5178 4.342951 CCCAATACCATGCATGTCTTCATT 59.657 41.667 24.58 12.71 31.15 2.57
4698 5303 1.273327 GGAGGTTTTTGGGATGTGCAG 59.727 52.381 0.00 0.00 0.00 4.41
4754 5361 7.820648 TGTTCATTTAGAGAGAAGGCAATTTC 58.179 34.615 0.00 0.00 0.00 2.17
4763 5370 7.994194 AGAGAGAAGGCAATTTCATGAATTAC 58.006 34.615 9.40 2.28 35.79 1.89
4787 5394 5.835113 TTGGCCACTAAATATTCTTCAGC 57.165 39.130 3.88 0.00 0.00 4.26
4793 5400 6.115446 CCACTAAATATTCTTCAGCCAGACA 58.885 40.000 0.00 0.00 0.00 3.41
4838 5445 7.754924 AGTGTTTTTCAGTTAGACAATGTTGTG 59.245 33.333 2.65 0.00 42.43 3.33
4915 5522 9.859427 GAATTTTGACCACTGATTATTCATTCA 57.141 29.630 0.00 0.00 0.00 2.57
4921 5528 7.446319 TGACCACTGATTATTCATTCATCCATC 59.554 37.037 0.00 0.00 0.00 3.51
4936 5543 6.332735 TCATCCATCCATACTTAGAGAACG 57.667 41.667 0.00 0.00 0.00 3.95
4969 5576 5.435686 TGTTCAGAATAGGCAATGTAGGT 57.564 39.130 0.00 0.00 0.00 3.08
4970 5577 5.185454 TGTTCAGAATAGGCAATGTAGGTG 58.815 41.667 0.00 0.00 0.00 4.00
5071 5678 8.073768 GGAGAAAGTTGTGATTTTATTCAACGA 58.926 33.333 0.00 0.00 43.00 3.85
5091 5698 2.673368 GAGTTGATTTAGAGTGGCCACG 59.327 50.000 29.68 0.00 36.20 4.94
5109 5716 3.303791 CCACGAACACTAAAGAAAGCACC 60.304 47.826 0.00 0.00 0.00 5.01
5289 5910 6.842437 ATCAAGTGACACTAGCTCTAAAGA 57.158 37.500 8.91 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.628630 TGGTCTCATATGTGTCATTTAAAACA 57.371 30.769 1.90 0.00 0.00 2.83
1 2 8.184192 CCTGGTCTCATATGTGTCATTTAAAAC 58.816 37.037 1.90 0.00 0.00 2.43
2 3 7.888021 ACCTGGTCTCATATGTGTCATTTAAAA 59.112 33.333 1.90 0.00 0.00 1.52
4 5 6.957631 ACCTGGTCTCATATGTGTCATTTAA 58.042 36.000 1.90 0.00 0.00 1.52
5 6 6.384015 AGACCTGGTCTCATATGTGTCATTTA 59.616 38.462 23.49 0.00 38.71 1.40
6 7 5.190528 AGACCTGGTCTCATATGTGTCATTT 59.809 40.000 23.49 0.00 38.71 2.32
7 8 4.718774 AGACCTGGTCTCATATGTGTCATT 59.281 41.667 23.49 0.00 38.71 2.57
8 9 4.293494 AGACCTGGTCTCATATGTGTCAT 58.707 43.478 23.49 0.00 38.71 3.06
9 10 3.713003 AGACCTGGTCTCATATGTGTCA 58.287 45.455 23.49 3.57 38.71 3.58
20 21 1.546961 CTAACCGTGAGACCTGGTCT 58.453 55.000 28.70 28.70 46.42 3.85
21 22 0.108756 GCTAACCGTGAGACCTGGTC 60.109 60.000 19.20 19.20 34.11 4.02
22 23 0.830444 TGCTAACCGTGAGACCTGGT 60.830 55.000 0.00 0.00 37.68 4.00
23 24 0.108615 CTGCTAACCGTGAGACCTGG 60.109 60.000 0.00 0.00 0.00 4.45
24 25 0.108615 CCTGCTAACCGTGAGACCTG 60.109 60.000 0.00 0.00 0.00 4.00
25 26 0.542232 ACCTGCTAACCGTGAGACCT 60.542 55.000 0.00 0.00 0.00 3.85
26 27 0.389948 CACCTGCTAACCGTGAGACC 60.390 60.000 0.00 0.00 0.00 3.85
27 28 0.601558 TCACCTGCTAACCGTGAGAC 59.398 55.000 0.00 0.00 32.85 3.36
28 29 3.045518 TCACCTGCTAACCGTGAGA 57.954 52.632 0.00 0.00 32.85 3.27
29 30 3.425578 CTCACCTGCTAACCGTGAG 57.574 57.895 2.35 2.35 45.33 3.51
30 31 0.601558 GTCTCACCTGCTAACCGTGA 59.398 55.000 0.00 0.00 35.34 4.35
31 32 0.389948 GGTCTCACCTGCTAACCGTG 60.390 60.000 0.00 0.00 34.73 4.94
32 33 1.542187 GGGTCTCACCTGCTAACCGT 61.542 60.000 0.00 0.00 38.64 4.83
33 34 1.218316 GGGTCTCACCTGCTAACCG 59.782 63.158 0.00 0.00 38.64 4.44
34 35 1.218316 CGGGTCTCACCTGCTAACC 59.782 63.158 0.00 0.00 37.90 2.85
35 36 4.913126 CGGGTCTCACCTGCTAAC 57.087 61.111 0.00 0.00 37.90 2.34
41 42 0.972983 CATCAGGACGGGTCTCACCT 60.973 60.000 0.00 0.00 38.64 4.00
42 43 1.517832 CATCAGGACGGGTCTCACC 59.482 63.158 0.00 0.00 37.60 4.02
43 44 0.970937 TCCATCAGGACGGGTCTCAC 60.971 60.000 0.00 0.00 39.61 3.51
44 45 1.386550 TCCATCAGGACGGGTCTCA 59.613 57.895 0.00 0.00 39.61 3.27
45 46 4.356979 TCCATCAGGACGGGTCTC 57.643 61.111 0.00 0.00 39.61 3.36
54 55 1.091771 GCCACGTGTCATCCATCAGG 61.092 60.000 15.65 0.00 0.00 3.86
55 56 0.391528 TGCCACGTGTCATCCATCAG 60.392 55.000 15.65 0.00 0.00 2.90
56 57 0.252761 ATGCCACGTGTCATCCATCA 59.747 50.000 15.65 0.00 0.00 3.07
57 58 1.331756 GAATGCCACGTGTCATCCATC 59.668 52.381 13.12 3.25 0.00 3.51
58 59 1.339920 TGAATGCCACGTGTCATCCAT 60.340 47.619 13.12 0.00 0.00 3.41
59 60 0.036022 TGAATGCCACGTGTCATCCA 59.964 50.000 13.12 2.86 0.00 3.41
60 61 0.729116 CTGAATGCCACGTGTCATCC 59.271 55.000 13.12 0.00 0.00 3.51
61 62 0.097674 GCTGAATGCCACGTGTCATC 59.902 55.000 13.12 7.23 35.15 2.92
62 63 0.606130 TGCTGAATGCCACGTGTCAT 60.606 50.000 15.65 11.07 42.00 3.06
63 64 1.227793 TGCTGAATGCCACGTGTCA 60.228 52.632 15.65 8.63 42.00 3.58
64 65 1.499056 CTGCTGAATGCCACGTGTC 59.501 57.895 15.65 0.98 42.00 3.67
65 66 1.968017 CCTGCTGAATGCCACGTGT 60.968 57.895 15.65 0.00 42.00 4.49
66 67 1.028330 ATCCTGCTGAATGCCACGTG 61.028 55.000 9.08 9.08 42.00 4.49
67 68 1.028330 CATCCTGCTGAATGCCACGT 61.028 55.000 0.00 0.00 42.00 4.49
68 69 1.721664 CCATCCTGCTGAATGCCACG 61.722 60.000 0.00 0.00 42.00 4.94
69 70 1.389609 CCCATCCTGCTGAATGCCAC 61.390 60.000 0.00 0.00 42.00 5.01
70 71 1.076559 CCCATCCTGCTGAATGCCA 60.077 57.895 0.00 0.00 42.00 4.92
71 72 1.076485 ACCCATCCTGCTGAATGCC 60.076 57.895 0.00 0.00 42.00 4.40
72 73 0.106819 AGACCCATCCTGCTGAATGC 60.107 55.000 0.00 0.00 43.25 3.56
73 74 1.809271 CGAGACCCATCCTGCTGAATG 60.809 57.143 0.00 0.00 0.00 2.67
74 75 0.467384 CGAGACCCATCCTGCTGAAT 59.533 55.000 0.00 0.00 0.00 2.57
75 76 1.900351 CGAGACCCATCCTGCTGAA 59.100 57.895 0.00 0.00 0.00 3.02
76 77 2.725312 GCGAGACCCATCCTGCTGA 61.725 63.158 0.00 0.00 0.00 4.26
77 78 2.202987 GCGAGACCCATCCTGCTG 60.203 66.667 0.00 0.00 0.00 4.41
78 79 3.842923 CGCGAGACCCATCCTGCT 61.843 66.667 0.00 0.00 0.00 4.24
79 80 4.148825 ACGCGAGACCCATCCTGC 62.149 66.667 15.93 0.00 0.00 4.85
80 81 2.202797 CACGCGAGACCCATCCTG 60.203 66.667 15.93 0.00 0.00 3.86
81 82 2.362503 TCACGCGAGACCCATCCT 60.363 61.111 15.93 0.00 0.00 3.24
82 83 2.105128 CTCACGCGAGACCCATCC 59.895 66.667 15.93 0.00 42.34 3.51
83 84 3.197614 TCTCACGCGAGACCCATC 58.802 61.111 15.93 0.00 43.55 3.51
89 90 2.282251 ACCAGGTCTCACGCGAGA 60.282 61.111 15.93 10.37 46.28 4.04
90 91 2.179517 GACCAGGTCTCACGCGAG 59.820 66.667 15.93 4.59 40.98 5.03
91 92 2.282251 AGACCAGGTCTCACGCGA 60.282 61.111 17.31 0.00 38.71 5.87
98 99 6.882768 AAAGAATTCTATGAGACCAGGTCT 57.117 37.500 23.18 23.18 46.42 3.85
99 100 6.540551 GGAAAAGAATTCTATGAGACCAGGTC 59.459 42.308 12.25 12.25 0.00 3.85
100 101 6.012508 TGGAAAAGAATTCTATGAGACCAGGT 60.013 38.462 8.75 0.00 0.00 4.00
101 102 6.418101 TGGAAAAGAATTCTATGAGACCAGG 58.582 40.000 8.75 0.00 0.00 4.45
102 103 7.772292 TCATGGAAAAGAATTCTATGAGACCAG 59.228 37.037 8.75 7.43 40.11 4.00
103 104 7.554118 GTCATGGAAAAGAATTCTATGAGACCA 59.446 37.037 15.15 14.71 43.71 4.02
104 105 7.554118 TGTCATGGAAAAGAATTCTATGAGACC 59.446 37.037 15.15 10.76 43.71 3.85
105 106 8.498054 TGTCATGGAAAAGAATTCTATGAGAC 57.502 34.615 15.15 13.34 43.71 3.36
109 110 9.622004 GCATATGTCATGGAAAAGAATTCTATG 57.378 33.333 8.75 8.50 38.33 2.23
110 111 9.358406 TGCATATGTCATGGAAAAGAATTCTAT 57.642 29.630 8.75 0.41 0.00 1.98
111 112 8.623903 GTGCATATGTCATGGAAAAGAATTCTA 58.376 33.333 8.75 0.00 0.00 2.10
112 113 7.341256 AGTGCATATGTCATGGAAAAGAATTCT 59.659 33.333 0.88 0.88 0.00 2.40
113 114 7.486647 AGTGCATATGTCATGGAAAAGAATTC 58.513 34.615 4.29 0.00 0.00 2.17
114 115 7.414222 AGTGCATATGTCATGGAAAAGAATT 57.586 32.000 4.29 0.00 0.00 2.17
115 116 7.557358 TGTAGTGCATATGTCATGGAAAAGAAT 59.443 33.333 4.29 0.00 0.00 2.40
116 117 6.883756 TGTAGTGCATATGTCATGGAAAAGAA 59.116 34.615 4.29 0.00 0.00 2.52
117 118 6.316140 GTGTAGTGCATATGTCATGGAAAAGA 59.684 38.462 4.29 0.00 0.00 2.52
118 119 6.317140 AGTGTAGTGCATATGTCATGGAAAAG 59.683 38.462 4.29 0.00 0.00 2.27
119 120 6.179756 AGTGTAGTGCATATGTCATGGAAAA 58.820 36.000 4.29 0.00 0.00 2.29
120 121 5.744171 AGTGTAGTGCATATGTCATGGAAA 58.256 37.500 4.29 0.00 0.00 3.13
121 122 5.357742 AGTGTAGTGCATATGTCATGGAA 57.642 39.130 4.29 0.00 0.00 3.53
122 123 5.598417 AGTAGTGTAGTGCATATGTCATGGA 59.402 40.000 4.29 0.00 0.00 3.41
123 124 5.847304 AGTAGTGTAGTGCATATGTCATGG 58.153 41.667 4.29 0.00 0.00 3.66
124 125 7.805542 GTCTAGTAGTGTAGTGCATATGTCATG 59.194 40.741 4.29 0.00 0.00 3.07
125 126 7.502561 TGTCTAGTAGTGTAGTGCATATGTCAT 59.497 37.037 4.29 0.00 0.00 3.06
126 127 6.826741 TGTCTAGTAGTGTAGTGCATATGTCA 59.173 38.462 4.29 0.11 0.00 3.58
127 128 7.133513 GTGTCTAGTAGTGTAGTGCATATGTC 58.866 42.308 4.29 0.00 0.00 3.06
128 129 6.602009 TGTGTCTAGTAGTGTAGTGCATATGT 59.398 38.462 4.29 0.00 0.00 2.29
129 130 7.027778 TGTGTCTAGTAGTGTAGTGCATATG 57.972 40.000 0.00 0.00 0.00 1.78
130 131 7.339721 AGTTGTGTCTAGTAGTGTAGTGCATAT 59.660 37.037 0.00 0.00 0.00 1.78
364 370 9.099454 CCTCTGTAAAGAAATATAAGAGCGTTT 57.901 33.333 0.00 0.00 0.00 3.60
393 399 5.103387 TCCCTGCTGGTAGGAGTAATTAGTA 60.103 44.000 9.00 0.00 40.42 1.82
416 423 7.346695 CAGCTCTACTCGTTTACTGTATAGTC 58.653 42.308 0.00 0.00 38.36 2.59
421 428 4.582869 TCCAGCTCTACTCGTTTACTGTA 58.417 43.478 0.00 0.00 0.00 2.74
441 453 2.496070 GGAGCAAAGGGTTGGTATTTCC 59.504 50.000 0.00 0.00 45.34 3.13
526 538 1.226435 TTGTTGTCCGCGTGTTTGC 60.226 52.632 4.92 0.00 0.00 3.68
527 539 0.863957 GGTTGTTGTCCGCGTGTTTG 60.864 55.000 4.92 0.00 0.00 2.93
536 548 4.218200 TCATTCATGATGTGGTTGTTGTCC 59.782 41.667 0.00 0.00 37.06 4.02
549 561 3.703052 GCTTTCCTGGGTTCATTCATGAT 59.297 43.478 0.00 0.00 36.56 2.45
553 567 2.892852 CAAGCTTTCCTGGGTTCATTCA 59.107 45.455 0.00 0.00 0.00 2.57
556 570 2.978156 TCAAGCTTTCCTGGGTTCAT 57.022 45.000 0.00 0.00 0.00 2.57
601 617 1.787847 GCCGAGGTTCGTGTGATTG 59.212 57.895 0.00 0.00 38.40 2.67
606 622 2.355481 GTTCGCCGAGGTTCGTGT 60.355 61.111 0.00 0.00 38.40 4.49
767 786 1.743995 CCCACCTAAACCCGCGAAG 60.744 63.158 8.23 0.00 0.00 3.79
859 887 0.893270 CCCGCATTCCAGTGGAAACA 60.893 55.000 27.93 6.59 45.41 2.83
861 889 1.976474 GCCCGCATTCCAGTGGAAA 60.976 57.895 27.93 12.13 45.41 3.13
863 891 4.424711 GGCCCGCATTCCAGTGGA 62.425 66.667 8.12 8.12 41.75 4.02
872 901 4.669809 TTGTTTCCGGGCCCGCAT 62.670 61.111 39.46 0.00 38.24 4.73
885 914 2.158385 TGACAGGTGGGCCTAATTTGTT 60.158 45.455 4.53 0.00 44.97 2.83
887 916 2.094675 CTGACAGGTGGGCCTAATTTG 58.905 52.381 4.53 0.00 44.97 2.32
888 917 1.992557 TCTGACAGGTGGGCCTAATTT 59.007 47.619 4.53 0.00 44.97 1.82
892 921 0.911769 CATTCTGACAGGTGGGCCTA 59.088 55.000 4.53 0.00 44.97 3.93
946 977 0.609131 AGGGTTTGGGCGTCTCAATG 60.609 55.000 0.00 0.00 0.00 2.82
1053 1084 1.254026 ACACGAAGAGAATCGGTGGA 58.746 50.000 1.59 0.00 46.82 4.02
1075 1106 2.202492 CGAAGCGTCCACGAGGAG 60.202 66.667 0.21 0.00 46.92 3.69
1137 1168 1.135402 GTGCGTGCATAAAGGGGAAAG 60.135 52.381 0.00 0.00 0.00 2.62
1158 1189 3.686241 TGATTCAATCGAGAAGCAACAGG 59.314 43.478 3.18 0.00 40.54 4.00
1179 1210 1.798223 TCGCCTCACAAATTCGAACTG 59.202 47.619 0.00 3.53 0.00 3.16
1180 1211 2.163818 TCGCCTCACAAATTCGAACT 57.836 45.000 0.00 0.00 0.00 3.01
1209 1240 1.879380 TGTCTACAAAGCAGCGCATTT 59.121 42.857 11.47 4.64 0.00 2.32
1214 1245 2.158449 CCTTCTTGTCTACAAAGCAGCG 59.842 50.000 0.00 0.00 35.15 5.18
1237 1268 3.901797 AACCTTGGCTTCCCGCGAG 62.902 63.158 8.23 0.00 40.44 5.03
1421 1455 5.525378 GCATACAAACTTCACTCTAGGATGG 59.475 44.000 0.00 0.00 0.00 3.51
1457 1491 0.101759 CTTTGCTGGGGCGATGAATG 59.898 55.000 0.00 0.00 42.25 2.67
1491 1525 2.930040 GTGATTGACGATGTACCACTGG 59.070 50.000 0.00 0.00 0.00 4.00
1548 1582 7.171447 GATGAGTTCGAAGGTTATCAGAATG 57.829 40.000 0.00 0.00 37.54 2.67
1695 1729 5.046910 ACATAGTTCCATTTCACGCTTTG 57.953 39.130 0.00 0.00 0.00 2.77
2843 2881 5.240623 AGTGAAATACATCTTTTCGGCAACA 59.759 36.000 0.00 0.00 36.16 3.33
2844 2882 5.699839 AGTGAAATACATCTTTTCGGCAAC 58.300 37.500 0.00 0.00 36.16 4.17
2925 2966 7.556275 TGATATTCCTTGGAAGTGTATTTGGAC 59.444 37.037 8.16 0.00 0.00 4.02
2938 2979 9.618890 CAAGTCTAAGAAATGATATTCCTTGGA 57.381 33.333 0.00 0.00 0.00 3.53
3046 3095 3.809279 TCCGCACTGCATATGATTAACAG 59.191 43.478 6.97 6.33 0.00 3.16
3066 3115 3.715315 ACTAATAAGGGCCCTTACAGTCC 59.285 47.826 40.64 3.83 40.76 3.85
3335 3384 7.802251 CAGTTGACTTCAGATTCTTGAATGTTC 59.198 37.037 0.09 0.00 36.55 3.18
3351 3400 7.044798 AGCTATAAATCAGGACAGTTGACTTC 58.955 38.462 0.00 0.00 0.00 3.01
3459 3549 6.089820 CAGTTGCTATGCCAAAACAAACATAG 59.910 38.462 0.00 0.00 43.08 2.23
3496 3586 8.415950 AATCAAATAGGTACCACATGACAAAA 57.584 30.769 15.94 0.00 0.00 2.44
3839 3930 3.152261 ACAGCGCTGAACATAGTCTAC 57.848 47.619 42.03 0.00 0.00 2.59
3854 3945 1.137404 GCCATGGCAAACTACAGCG 59.863 57.895 32.08 0.00 41.49 5.18
3936 4422 5.958987 ACAAATACAGGTAAGTAGCTCTCCT 59.041 40.000 0.00 0.00 30.45 3.69
3948 4434 3.751175 GCTCTGCACAACAAATACAGGTA 59.249 43.478 0.00 0.00 0.00 3.08
4223 4710 1.507562 CATTGTACACGACTGGCACA 58.492 50.000 0.00 0.00 0.00 4.57
4262 4749 3.834231 GGGCCAGATAACCAATAATGCAT 59.166 43.478 4.39 0.00 0.00 3.96
4265 4752 6.423776 AAATGGGCCAGATAACCAATAATG 57.576 37.500 13.78 0.00 37.89 1.90
4300 4788 0.471617 AGCTCCTCAACAGCACAAGT 59.528 50.000 0.00 0.00 39.56 3.16
4331 4820 0.037232 AACCTAAGCGACTGCCTCAC 60.037 55.000 0.00 0.00 44.31 3.51
4352 4841 1.905839 TCATAATCCCCAGGAAGGCA 58.094 50.000 0.00 0.00 34.34 4.75
4392 4881 1.160329 AAGCACAAGAGACACGGCAC 61.160 55.000 0.00 0.00 0.00 5.01
4409 4898 3.435327 TGACCAGTACGCTTGCATTAAAG 59.565 43.478 0.00 0.00 0.00 1.85
4426 4915 6.916360 AAAAGGAGCAGAAATAATTGACCA 57.084 33.333 0.00 0.00 0.00 4.02
4441 4930 6.146184 GCCTGATTTTTCTGTTAAAAAGGAGC 59.854 38.462 0.00 0.00 31.22 4.70
4442 4931 6.363357 CGCCTGATTTTTCTGTTAAAAAGGAG 59.637 38.462 0.00 0.00 31.22 3.69
4445 4934 5.691754 AGCGCCTGATTTTTCTGTTAAAAAG 59.308 36.000 2.29 0.00 33.28 2.27
4482 4971 4.600692 ACCCAGGCAATTTTTCTGTTAC 57.399 40.909 0.00 0.00 0.00 2.50
4498 4987 0.773644 CCTATCCCCCATGAACCCAG 59.226 60.000 0.00 0.00 0.00 4.45
4510 4999 2.609737 CGCTACAATTCCGACCTATCCC 60.610 54.545 0.00 0.00 0.00 3.85
4525 5014 7.041721 AGAAATCAAATACTCACATCGCTACA 58.958 34.615 0.00 0.00 0.00 2.74
4527 5016 9.764363 ATTAGAAATCAAATACTCACATCGCTA 57.236 29.630 0.00 0.00 0.00 4.26
4528 5017 8.668510 ATTAGAAATCAAATACTCACATCGCT 57.331 30.769 0.00 0.00 0.00 4.93
4529 5018 9.722056 AAATTAGAAATCAAATACTCACATCGC 57.278 29.630 0.00 0.00 0.00 4.58
4572 5084 9.804977 ATGAAATTTAAAATCCCCAAATCACAA 57.195 25.926 0.00 0.00 0.00 3.33
4672 5277 1.923356 TCCCAAAAACCTCCTGCATC 58.077 50.000 0.00 0.00 0.00 3.91
4698 5303 3.181497 GCATACACACCATGAACATGTCC 60.181 47.826 12.74 0.00 37.11 4.02
4763 5370 6.268566 GCTGAAGAATATTTAGTGGCCAAAG 58.731 40.000 7.24 0.00 0.00 2.77
4816 5423 7.913297 GCTACACAACATTGTCTAACTGAAAAA 59.087 33.333 0.00 0.00 39.91 1.94
4825 5432 6.888088 TCCTACTAGCTACACAACATTGTCTA 59.112 38.462 0.00 0.00 39.91 2.59
4895 5502 6.661777 TGGATGAATGAATAATCAGTGGTCA 58.338 36.000 0.00 0.00 39.39 4.02
4915 5522 6.551601 AGTTCGTTCTCTAAGTATGGATGGAT 59.448 38.462 0.00 0.00 0.00 3.41
4917 5524 6.150396 AGTTCGTTCTCTAAGTATGGATGG 57.850 41.667 0.00 0.00 0.00 3.51
4921 5528 8.928270 AAACATAGTTCGTTCTCTAAGTATGG 57.072 34.615 12.21 0.00 40.76 2.74
4936 5543 7.816640 TGCCTATTCTGAACAAAACATAGTTC 58.183 34.615 0.00 0.00 43.31 3.01
4969 5576 0.762418 ACAACCTCGGACCAACATCA 59.238 50.000 0.00 0.00 0.00 3.07
4970 5577 2.618053 CTACAACCTCGGACCAACATC 58.382 52.381 0.00 0.00 0.00 3.06
5071 5678 2.301870 TCGTGGCCACTCTAAATCAACT 59.698 45.455 32.28 0.00 0.00 3.16
5091 5698 3.059120 GGTCGGTGCTTTCTTTAGTGTTC 60.059 47.826 0.00 0.00 0.00 3.18
5109 5716 3.383505 TCATACATGTCCCTAGTTGGTCG 59.616 47.826 0.00 0.00 0.00 4.79


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

AutoCloner maintained by Alex Coulton.