Multiple sequence alignment - TraesCS1A01G120300

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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 TraesCS1A01G120300 chr1A 100.000 3566 0 0 1 3566 132794865 132798430 0.000000e+00 6586.0
1 TraesCS1A01G120300 chr1A 97.802 91 2 0 593 683 490796263 490796173 1.330000e-34 158.0
2 TraesCS1A01G120300 chr1A 88.889 54 6 0 2752 2805 25574207 25574260 2.300000e-07 67.6
3 TraesCS1A01G120300 chr1A 86.207 58 4 3 2752 2807 29197018 29197073 3.840000e-05 60.2
4 TraesCS1A01G120300 chr1D 93.707 2495 92 18 424 2880 121236670 121239137 0.000000e+00 3677.0
5 TraesCS1A01G120300 chr1D 94.548 697 22 9 2882 3566 121239747 121240439 0.000000e+00 1062.0
6 TraesCS1A01G120300 chr1D 86.517 178 11 7 249 417 121236296 121236469 2.190000e-42 183.0
7 TraesCS1A01G120300 chr1D 96.907 97 1 2 586 680 478271336 478271240 1.020000e-35 161.0
8 TraesCS1A01G120300 chr1D 86.869 99 10 3 153 250 121234588 121234684 1.350000e-19 108.0
9 TraesCS1A01G120300 chr1D 96.226 53 1 1 364 416 121236673 121236724 6.340000e-13 86.1
10 TraesCS1A01G120300 chr1B 94.422 2205 88 14 424 2620 184193761 184195938 0.000000e+00 3358.0
11 TraesCS1A01G120300 chr1B 95.274 656 19 6 2921 3566 184217814 184218467 0.000000e+00 1029.0
12 TraesCS1A01G120300 chr1B 95.745 94 4 0 587 680 376074231 376074324 6.170000e-33 152.0
13 TraesCS1A01G120300 chr1B 98.571 70 1 0 2618 2687 184195964 184196033 1.340000e-24 124.0
14 TraesCS1A01G120300 chr6D 90.972 144 11 1 2700 2843 209917257 209917398 3.630000e-45 193.0
15 TraesCS1A01G120300 chr6B 87.742 155 16 2 2688 2842 399737858 399738009 1.020000e-40 178.0
16 TraesCS1A01G120300 chr3D 96.875 96 1 2 587 680 70728505 70728410 3.680000e-35 159.0
17 TraesCS1A01G120300 chr4A 97.778 90 2 0 590 679 683916405 683916316 4.770000e-34 156.0
18 TraesCS1A01G120300 chr4D 94.059 101 3 3 586 683 507546479 507546579 2.220000e-32 150.0
19 TraesCS1A01G120300 chr4B 94.118 102 0 4 586 682 631578850 631578950 2.220000e-32 150.0
20 TraesCS1A01G120300 chr7A 79.503 161 16 7 2720 2880 63591100 63590957 8.150000e-17 99.0
21 TraesCS1A01G120300 chr6A 87.719 57 6 1 353 409 485349459 485349404 8.260000e-07 65.8


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 TraesCS1A01G120300 chr1A 132794865 132798430 3565 False 6586.00 6586 100.0000 1 3566 1 chr1A.!!$F3 3565
1 TraesCS1A01G120300 chr1D 121234588 121240439 5851 False 1023.22 3677 91.5734 153 3566 5 chr1D.!!$F1 3413
2 TraesCS1A01G120300 chr1B 184193761 184196033 2272 False 1741.00 3358 96.4965 424 2687 2 chr1B.!!$F3 2263
3 TraesCS1A01G120300 chr1B 184217814 184218467 653 False 1029.00 1029 95.2740 2921 3566 1 chr1B.!!$F1 645

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
835 2655 0.035036 TGAACCATTTACCGTCCGCA 59.965 50.0 0.0 0.0 0.0 5.69 F
837 2657 0.035739 AACCATTTACCGTCCGCACT 59.964 50.0 0.0 0.0 0.0 4.40 F
870 2690 0.107214 TCACATCAGCCGAAATCCCC 60.107 55.0 0.0 0.0 0.0 4.81 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1832 3656 1.219393 CCGCCTTGTCCTTCTCCTC 59.781 63.158 0.00 0.0 0.00 3.71 R
2396 4220 4.052518 CCAGGTCCTTGCCCAGGG 62.053 72.222 0.00 0.0 44.12 4.45 R
2844 4701 4.036262 GGTGCATGTCTTCAACAGTTAACA 59.964 41.667 8.61 0.0 42.37 2.41 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
22 23 4.427096 TGTCTCAGATTCGTGACTCTTC 57.573 45.455 0.00 0.00 32.05 2.87
23 24 4.075682 TGTCTCAGATTCGTGACTCTTCT 58.924 43.478 0.00 0.00 32.05 2.85
24 25 4.083057 TGTCTCAGATTCGTGACTCTTCTG 60.083 45.833 0.00 0.00 36.09 3.02
25 26 4.075682 TCTCAGATTCGTGACTCTTCTGT 58.924 43.478 0.00 0.00 36.17 3.41
26 27 4.520874 TCTCAGATTCGTGACTCTTCTGTT 59.479 41.667 0.00 0.00 36.17 3.16
27 28 5.705905 TCTCAGATTCGTGACTCTTCTGTTA 59.294 40.000 0.00 0.00 36.17 2.41
28 29 6.206829 TCTCAGATTCGTGACTCTTCTGTTAA 59.793 38.462 0.00 0.00 36.17 2.01
29 30 6.745116 TCAGATTCGTGACTCTTCTGTTAAA 58.255 36.000 0.00 0.00 36.17 1.52
30 31 7.207383 TCAGATTCGTGACTCTTCTGTTAAAA 58.793 34.615 0.00 0.00 36.17 1.52
31 32 7.382488 TCAGATTCGTGACTCTTCTGTTAAAAG 59.618 37.037 0.00 0.00 36.17 2.27
32 33 7.169982 CAGATTCGTGACTCTTCTGTTAAAAGT 59.830 37.037 0.00 0.00 31.36 2.66
33 34 7.711339 AGATTCGTGACTCTTCTGTTAAAAGTT 59.289 33.333 0.00 0.00 0.00 2.66
34 35 6.583912 TCGTGACTCTTCTGTTAAAAGTTG 57.416 37.500 0.00 0.00 0.00 3.16
35 36 6.103997 TCGTGACTCTTCTGTTAAAAGTTGT 58.896 36.000 0.00 0.00 0.00 3.32
36 37 6.255020 TCGTGACTCTTCTGTTAAAAGTTGTC 59.745 38.462 0.00 1.40 33.43 3.18
37 38 6.255887 CGTGACTCTTCTGTTAAAAGTTGTCT 59.744 38.462 0.00 0.00 33.69 3.41
38 39 7.402640 GTGACTCTTCTGTTAAAAGTTGTCTG 58.597 38.462 0.00 0.00 33.69 3.51
39 40 6.538742 TGACTCTTCTGTTAAAAGTTGTCTGG 59.461 38.462 0.00 0.00 33.69 3.86
40 41 6.650120 ACTCTTCTGTTAAAAGTTGTCTGGA 58.350 36.000 0.00 0.00 0.00 3.86
41 42 6.539103 ACTCTTCTGTTAAAAGTTGTCTGGAC 59.461 38.462 0.00 0.00 0.00 4.02
42 43 6.650120 TCTTCTGTTAAAAGTTGTCTGGACT 58.350 36.000 2.38 0.00 0.00 3.85
43 44 6.761714 TCTTCTGTTAAAAGTTGTCTGGACTC 59.238 38.462 2.38 0.00 0.00 3.36
44 45 5.984725 TCTGTTAAAAGTTGTCTGGACTCA 58.015 37.500 2.38 0.00 0.00 3.41
45 46 6.049149 TCTGTTAAAAGTTGTCTGGACTCAG 58.951 40.000 2.38 0.00 42.21 3.35
46 47 4.574828 TGTTAAAAGTTGTCTGGACTCAGC 59.425 41.667 2.38 0.00 40.69 4.26
47 48 3.567478 AAAAGTTGTCTGGACTCAGCT 57.433 42.857 2.38 0.00 40.69 4.24
48 49 3.567478 AAAGTTGTCTGGACTCAGCTT 57.433 42.857 2.38 0.00 40.69 3.74
49 50 2.540265 AGTTGTCTGGACTCAGCTTG 57.460 50.000 2.38 0.00 40.69 4.01
50 51 2.042464 AGTTGTCTGGACTCAGCTTGA 58.958 47.619 2.38 0.00 40.69 3.02
51 52 2.139118 GTTGTCTGGACTCAGCTTGAC 58.861 52.381 2.38 0.00 40.69 3.18
52 53 1.709578 TGTCTGGACTCAGCTTGACT 58.290 50.000 2.38 0.00 40.69 3.41
53 54 1.615883 TGTCTGGACTCAGCTTGACTC 59.384 52.381 2.38 0.00 40.69 3.36
54 55 1.615883 GTCTGGACTCAGCTTGACTCA 59.384 52.381 0.00 0.00 40.69 3.41
55 56 2.233431 GTCTGGACTCAGCTTGACTCAT 59.767 50.000 0.00 0.00 40.69 2.90
56 57 2.902486 TCTGGACTCAGCTTGACTCATT 59.098 45.455 0.00 0.00 40.69 2.57
57 58 3.056250 TCTGGACTCAGCTTGACTCATTC 60.056 47.826 0.00 0.00 40.69 2.67
58 59 2.634453 TGGACTCAGCTTGACTCATTCA 59.366 45.455 0.00 0.00 0.00 2.57
59 60 3.262660 TGGACTCAGCTTGACTCATTCAT 59.737 43.478 0.00 0.00 32.84 2.57
60 61 3.622163 GGACTCAGCTTGACTCATTCATG 59.378 47.826 0.00 0.00 32.84 3.07
61 62 3.607741 ACTCAGCTTGACTCATTCATGG 58.392 45.455 0.00 0.00 32.84 3.66
62 63 2.355132 CTCAGCTTGACTCATTCATGGC 59.645 50.000 0.00 0.00 32.84 4.40
63 64 1.063616 CAGCTTGACTCATTCATGGCG 59.936 52.381 0.00 0.00 37.97 5.69
64 65 1.089920 GCTTGACTCATTCATGGCGT 58.910 50.000 0.00 0.00 32.84 5.68
65 66 1.202110 GCTTGACTCATTCATGGCGTG 60.202 52.381 0.00 0.00 32.84 5.34
66 67 0.804364 TTGACTCATTCATGGCGTGC 59.196 50.000 0.65 0.00 32.84 5.34
67 68 1.349627 GACTCATTCATGGCGTGCG 59.650 57.895 0.65 0.00 0.00 5.34
68 69 2.040213 GACTCATTCATGGCGTGCGG 62.040 60.000 0.65 0.00 0.00 5.69
69 70 2.823593 TCATTCATGGCGTGCGGG 60.824 61.111 0.65 0.00 0.00 6.13
70 71 3.891400 CATTCATGGCGTGCGGGG 61.891 66.667 0.65 0.00 0.00 5.73
84 85 3.782443 GGGGCGAGGTAGGTGGTG 61.782 72.222 0.00 0.00 0.00 4.17
85 86 3.782443 GGGCGAGGTAGGTGGTGG 61.782 72.222 0.00 0.00 0.00 4.61
86 87 2.682494 GGCGAGGTAGGTGGTGGA 60.682 66.667 0.00 0.00 0.00 4.02
87 88 2.722201 GGCGAGGTAGGTGGTGGAG 61.722 68.421 0.00 0.00 0.00 3.86
88 89 2.722201 GCGAGGTAGGTGGTGGAGG 61.722 68.421 0.00 0.00 0.00 4.30
89 90 1.000019 CGAGGTAGGTGGTGGAGGA 60.000 63.158 0.00 0.00 0.00 3.71
90 91 1.038130 CGAGGTAGGTGGTGGAGGAG 61.038 65.000 0.00 0.00 0.00 3.69
91 92 0.688087 GAGGTAGGTGGTGGAGGAGG 60.688 65.000 0.00 0.00 0.00 4.30
92 93 1.153695 AGGTAGGTGGTGGAGGAGGA 61.154 60.000 0.00 0.00 0.00 3.71
93 94 0.976590 GGTAGGTGGTGGAGGAGGAC 60.977 65.000 0.00 0.00 0.00 3.85
94 95 0.976590 GTAGGTGGTGGAGGAGGACC 60.977 65.000 0.00 0.00 0.00 4.46
95 96 2.509931 TAGGTGGTGGAGGAGGACCG 62.510 65.000 0.00 0.00 41.83 4.79
96 97 4.083862 GTGGTGGAGGAGGACCGC 62.084 72.222 0.00 0.00 41.83 5.68
99 100 4.436998 GTGGAGGAGGACCGCGTG 62.437 72.222 4.92 0.00 41.83 5.34
102 103 3.379445 GAGGAGGACCGCGTGGAA 61.379 66.667 24.59 0.00 41.83 3.53
103 104 2.920912 AGGAGGACCGCGTGGAAA 60.921 61.111 24.59 0.00 41.83 3.13
104 105 2.741211 GGAGGACCGCGTGGAAAC 60.741 66.667 24.59 11.06 39.21 2.78
105 106 2.741211 GAGGACCGCGTGGAAACC 60.741 66.667 24.59 20.26 39.21 3.27
106 107 3.524648 GAGGACCGCGTGGAAACCA 62.525 63.158 24.59 0.00 39.21 3.67
119 120 4.771114 TGGAAACCACTTCTCTTCTCAA 57.229 40.909 0.00 0.00 34.17 3.02
120 121 5.110814 TGGAAACCACTTCTCTTCTCAAA 57.889 39.130 0.00 0.00 34.17 2.69
121 122 4.881850 TGGAAACCACTTCTCTTCTCAAAC 59.118 41.667 0.00 0.00 34.17 2.93
122 123 5.126779 GGAAACCACTTCTCTTCTCAAACT 58.873 41.667 0.00 0.00 34.17 2.66
123 124 5.590663 GGAAACCACTTCTCTTCTCAAACTT 59.409 40.000 0.00 0.00 34.17 2.66
124 125 6.238511 GGAAACCACTTCTCTTCTCAAACTTC 60.239 42.308 0.00 0.00 34.17 3.01
125 126 5.359194 ACCACTTCTCTTCTCAAACTTCA 57.641 39.130 0.00 0.00 0.00 3.02
126 127 5.745227 ACCACTTCTCTTCTCAAACTTCAA 58.255 37.500 0.00 0.00 0.00 2.69
127 128 6.360618 ACCACTTCTCTTCTCAAACTTCAAT 58.639 36.000 0.00 0.00 0.00 2.57
128 129 7.509546 ACCACTTCTCTTCTCAAACTTCAATA 58.490 34.615 0.00 0.00 0.00 1.90
129 130 7.993183 ACCACTTCTCTTCTCAAACTTCAATAA 59.007 33.333 0.00 0.00 0.00 1.40
130 131 8.286097 CCACTTCTCTTCTCAAACTTCAATAAC 58.714 37.037 0.00 0.00 0.00 1.89
131 132 8.830580 CACTTCTCTTCTCAAACTTCAATAACA 58.169 33.333 0.00 0.00 0.00 2.41
132 133 9.566432 ACTTCTCTTCTCAAACTTCAATAACAT 57.434 29.630 0.00 0.00 0.00 2.71
195 196 6.072230 TGCGATGAACTCCAATAACATTTTGA 60.072 34.615 0.00 0.00 0.00 2.69
218 219 6.959366 TGAAAAAGGATTCATTATGAAGGGGT 59.041 34.615 13.29 0.00 40.05 4.95
221 222 4.054369 AGGATTCATTATGAAGGGGTCCA 58.946 43.478 20.68 0.00 40.05 4.02
231 232 1.705745 GAAGGGGTCCAACTCTTCCTT 59.294 52.381 0.00 0.00 37.32 3.36
238 239 4.019231 GGGTCCAACTCTTCCTTCACTATT 60.019 45.833 0.00 0.00 0.00 1.73
239 240 4.938226 GGTCCAACTCTTCCTTCACTATTG 59.062 45.833 0.00 0.00 0.00 1.90
241 242 4.019321 TCCAACTCTTCCTTCACTATTGGG 60.019 45.833 0.00 0.00 36.75 4.12
243 244 3.532102 ACTCTTCCTTCACTATTGGGGT 58.468 45.455 0.00 0.00 0.00 4.95
244 245 3.264450 ACTCTTCCTTCACTATTGGGGTG 59.736 47.826 0.00 0.00 36.17 4.61
245 246 3.519510 CTCTTCCTTCACTATTGGGGTGA 59.480 47.826 0.00 0.00 41.23 4.02
246 247 4.111577 TCTTCCTTCACTATTGGGGTGAT 58.888 43.478 0.00 0.00 42.26 3.06
247 248 5.285401 TCTTCCTTCACTATTGGGGTGATA 58.715 41.667 0.00 0.00 42.26 2.15
250 1865 5.784023 TCCTTCACTATTGGGGTGATACTA 58.216 41.667 0.00 0.00 42.26 1.82
258 1873 4.579647 TTGGGGTGATACTAAACTTCCC 57.420 45.455 0.00 0.00 0.00 3.97
260 1875 3.521937 TGGGGTGATACTAAACTTCCCAG 59.478 47.826 0.00 0.00 38.18 4.45
267 1882 7.603024 GGTGATACTAAACTTCCCAGCATATAC 59.397 40.741 0.00 0.00 0.00 1.47
290 1912 5.612688 ACCTTGTCATGATATGGGTCCTTAT 59.387 40.000 22.91 3.34 0.00 1.73
292 1914 7.038017 ACCTTGTCATGATATGGGTCCTTATAG 60.038 40.741 22.91 1.91 0.00 1.31
294 1916 8.685257 TTGTCATGATATGGGTCCTTATAGAT 57.315 34.615 0.00 0.00 0.00 1.98
325 1947 1.006998 TGTTGGATGGGCCTAAAGCAT 59.993 47.619 4.53 0.00 46.50 3.79
329 1951 1.425448 GGATGGGCCTAAAGCATACCT 59.575 52.381 4.53 0.00 46.50 3.08
341 1964 8.507249 GCCTAAAGCATACCTATATTTCAACAG 58.493 37.037 0.00 0.00 42.97 3.16
381 2004 5.283294 GCTACGTGTGGGTTTGTAATTTTT 58.717 37.500 0.00 0.00 0.00 1.94
382 2005 5.174216 GCTACGTGTGGGTTTGTAATTTTTG 59.826 40.000 0.00 0.00 0.00 2.44
383 2006 3.866327 ACGTGTGGGTTTGTAATTTTTGC 59.134 39.130 0.00 0.00 0.00 3.68
384 2007 4.116238 CGTGTGGGTTTGTAATTTTTGCT 58.884 39.130 0.00 0.00 0.00 3.91
401 2024 6.768029 TTTTGCTTAAGAATGAATGCACAC 57.232 33.333 6.67 0.00 0.00 3.82
465 2282 2.848302 GCTTAAGAATGAATGCACACGC 59.152 45.455 6.67 0.00 39.24 5.34
557 2375 3.048602 CGTCCCCGCGGATATTCT 58.951 61.111 30.73 0.00 41.40 2.40
558 2376 1.080705 CGTCCCCGCGGATATTCTC 60.081 63.158 30.73 8.45 41.40 2.87
560 2378 0.038159 GTCCCCGCGGATATTCTCAG 60.038 60.000 30.73 5.91 41.40 3.35
561 2379 0.178973 TCCCCGCGGATATTCTCAGA 60.179 55.000 30.73 5.73 31.13 3.27
562 2380 0.898320 CCCCGCGGATATTCTCAGAT 59.102 55.000 30.73 0.00 0.00 2.90
563 2381 1.134965 CCCCGCGGATATTCTCAGATC 60.135 57.143 30.73 0.00 0.00 2.75
564 2382 1.546029 CCCGCGGATATTCTCAGATCA 59.454 52.381 30.73 0.00 0.00 2.92
574 2392 8.128582 CGGATATTCTCAGATCAGTCTTATAGC 58.871 40.741 0.00 0.00 30.42 2.97
575 2393 9.189156 GGATATTCTCAGATCAGTCTTATAGCT 57.811 37.037 0.00 0.00 30.42 3.32
585 2403 9.553064 AGATCAGTCTTATAGCTAATTGTTTGG 57.447 33.333 0.00 0.00 0.00 3.28
670 2488 2.124151 GATTCCCGGCTGGTGCAT 60.124 61.111 11.58 0.00 41.91 3.96
672 2490 1.305213 ATTCCCGGCTGGTGCATTT 60.305 52.632 11.58 0.00 41.91 2.32
673 2491 0.904394 ATTCCCGGCTGGTGCATTTT 60.904 50.000 11.58 0.00 41.91 1.82
674 2492 1.118356 TTCCCGGCTGGTGCATTTTT 61.118 50.000 11.58 0.00 41.91 1.94
699 2517 4.800355 GGTATCGACCACGTCCAC 57.200 61.111 0.00 0.00 46.12 4.02
714 2532 2.049156 CACGTTGGAGCGCAGAGA 60.049 61.111 11.47 0.00 34.88 3.10
715 2533 1.664649 CACGTTGGAGCGCAGAGAA 60.665 57.895 11.47 0.00 34.88 2.87
735 2553 2.444700 AAAACAGTCGCCCGTCGGAT 62.445 55.000 14.39 0.00 39.05 4.18
760 2580 1.006825 TCAACAAGTCGATCCGTGCG 61.007 55.000 0.00 0.00 0.00 5.34
790 2610 4.680237 CGACCCAAGCCGCAGTCA 62.680 66.667 0.00 0.00 0.00 3.41
831 2651 1.063469 CGGCATGAACCATTTACCGTC 59.937 52.381 0.00 0.00 31.70 4.79
832 2652 1.404035 GGCATGAACCATTTACCGTCC 59.596 52.381 0.00 0.00 0.00 4.79
833 2653 1.063469 GCATGAACCATTTACCGTCCG 59.937 52.381 0.00 0.00 0.00 4.79
834 2654 1.063469 CATGAACCATTTACCGTCCGC 59.937 52.381 0.00 0.00 0.00 5.54
835 2655 0.035036 TGAACCATTTACCGTCCGCA 59.965 50.000 0.00 0.00 0.00 5.69
836 2656 0.445043 GAACCATTTACCGTCCGCAC 59.555 55.000 0.00 0.00 0.00 5.34
837 2657 0.035739 AACCATTTACCGTCCGCACT 59.964 50.000 0.00 0.00 0.00 4.40
838 2658 0.896923 ACCATTTACCGTCCGCACTA 59.103 50.000 0.00 0.00 0.00 2.74
839 2659 1.134907 ACCATTTACCGTCCGCACTAG 60.135 52.381 0.00 0.00 0.00 2.57
840 2660 0.928229 CATTTACCGTCCGCACTAGC 59.072 55.000 0.00 0.00 37.42 3.42
841 2661 0.533491 ATTTACCGTCCGCACTAGCA 59.467 50.000 0.00 0.00 42.27 3.49
842 2662 0.388907 TTTACCGTCCGCACTAGCAC 60.389 55.000 0.00 0.00 42.27 4.40
843 2663 1.246056 TTACCGTCCGCACTAGCACT 61.246 55.000 0.00 0.00 42.27 4.40
844 2664 1.651240 TACCGTCCGCACTAGCACTC 61.651 60.000 0.00 0.00 42.27 3.51
845 2665 2.701780 CCGTCCGCACTAGCACTCT 61.702 63.158 0.00 0.00 42.27 3.24
870 2690 0.107214 TCACATCAGCCGAAATCCCC 60.107 55.000 0.00 0.00 0.00 4.81
905 2725 1.728323 TGTGAATCTCACCACTCCCA 58.272 50.000 4.42 0.00 46.40 4.37
959 2783 9.971922 CTGATCATCAGTATCAGTACATTAACA 57.028 33.333 6.48 0.00 43.50 2.41
993 2817 2.125552 CACTCCATTCGGCAGCGA 60.126 61.111 0.00 0.00 0.00 4.93
1380 3204 3.603365 GGCAACGGGCTGCTAAAT 58.397 55.556 0.00 0.00 44.01 1.40
1455 3279 2.032071 CCCGTGTTCCGCTCCTTT 59.968 61.111 0.00 0.00 34.38 3.11
1456 3280 2.033194 CCCGTGTTCCGCTCCTTTC 61.033 63.158 0.00 0.00 34.38 2.62
1809 3633 1.329906 GTCTACCTCGAGATCGCGAAA 59.670 52.381 21.83 9.94 40.13 3.46
2396 4220 4.785453 CTGCGGGCCCAGGAGTTC 62.785 72.222 24.92 1.42 0.00 3.01
2580 4404 4.261489 GCGGCTTGATGAAGATGAATGAAT 60.261 41.667 0.00 0.00 0.00 2.57
2809 4663 2.307098 AGAAGACCTGTTTGGCTAGCAT 59.693 45.455 18.24 0.00 40.22 3.79
2843 4700 3.611766 ACGTAGAAATTGCTGGCTAGT 57.388 42.857 0.00 0.00 0.00 2.57
2844 4701 3.939066 ACGTAGAAATTGCTGGCTAGTT 58.061 40.909 0.00 0.00 0.00 2.24
2865 4722 5.356751 AGTTGTTAACTGTTGAAGACATGCA 59.643 36.000 7.22 0.00 41.01 3.96
2867 4724 4.036262 TGTTAACTGTTGAAGACATGCACC 59.964 41.667 7.22 0.00 37.69 5.01
2880 4737 3.753272 GACATGCACCTTCTTGAAGCTAA 59.247 43.478 4.94 0.00 0.00 3.09
2892 5357 7.705325 CCTTCTTGAAGCTAAAATTGATGATGG 59.295 37.037 4.94 0.00 0.00 3.51
3085 5553 3.850122 ATATTACTCAGCTCGCGCATA 57.150 42.857 8.75 0.00 39.10 3.14
3086 5554 2.509052 ATTACTCAGCTCGCGCATAA 57.491 45.000 8.75 0.00 39.10 1.90
3188 5657 5.345741 GCCAGCACAAAATTGTACAGTAATG 59.654 40.000 0.00 0.00 39.91 1.90
3249 5726 2.213499 CAATCCTTCGATTTCTCCCGG 58.787 52.381 0.00 0.00 36.54 5.73
3325 5802 6.371278 ACTTCATTCCTCAAGGATATGCATT 58.629 36.000 3.54 0.00 44.98 3.56
3422 5899 7.012894 CACACATTACCAGTAAAACAGAAAGGA 59.987 37.037 0.00 0.00 0.00 3.36
3468 5945 0.104671 ATTGCCTGCACACACCAAAC 59.895 50.000 0.00 0.00 0.00 2.93
3486 5963 6.040391 CACCAAACCAGAGGAAACATAAGAAA 59.960 38.462 0.00 0.00 0.00 2.52
3496 5973 9.408648 AGAGGAAACATAAGAAAGAAAACTCAA 57.591 29.630 0.00 0.00 0.00 3.02
3519 5996 7.913297 TCAATTGCTAACAGTGTACAAGAAAAC 59.087 33.333 0.00 0.00 0.00 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.704540 AGAAGAGTCACGAATCTGAGACAT 59.295 41.667 0.00 0.00 35.75 3.06
1 2 4.075682 AGAAGAGTCACGAATCTGAGACA 58.924 43.478 0.00 0.00 35.75 3.41
2 3 4.083003 ACAGAAGAGTCACGAATCTGAGAC 60.083 45.833 12.06 0.00 39.85 3.36
3 4 4.075682 ACAGAAGAGTCACGAATCTGAGA 58.924 43.478 12.06 0.00 39.85 3.27
4 5 4.433186 ACAGAAGAGTCACGAATCTGAG 57.567 45.455 12.06 0.00 39.85 3.35
5 6 4.855715 AACAGAAGAGTCACGAATCTGA 57.144 40.909 12.06 0.00 39.85 3.27
6 7 7.169982 ACTTTTAACAGAAGAGTCACGAATCTG 59.830 37.037 0.00 5.52 42.43 2.90
7 8 7.210873 ACTTTTAACAGAAGAGTCACGAATCT 58.789 34.615 0.00 0.00 37.35 2.40
8 9 7.409465 ACTTTTAACAGAAGAGTCACGAATC 57.591 36.000 0.00 0.00 0.00 2.52
9 10 7.280205 ACAACTTTTAACAGAAGAGTCACGAAT 59.720 33.333 0.00 0.00 0.00 3.34
10 11 6.592607 ACAACTTTTAACAGAAGAGTCACGAA 59.407 34.615 0.00 0.00 0.00 3.85
11 12 6.103997 ACAACTTTTAACAGAAGAGTCACGA 58.896 36.000 0.00 0.00 0.00 4.35
12 13 6.255887 AGACAACTTTTAACAGAAGAGTCACG 59.744 38.462 0.00 0.00 36.32 4.35
13 14 7.402640 CAGACAACTTTTAACAGAAGAGTCAC 58.597 38.462 0.00 0.00 36.32 3.67
14 15 6.538742 CCAGACAACTTTTAACAGAAGAGTCA 59.461 38.462 0.00 0.00 36.32 3.41
15 16 6.761714 TCCAGACAACTTTTAACAGAAGAGTC 59.238 38.462 0.00 2.62 35.26 3.36
16 17 6.539103 GTCCAGACAACTTTTAACAGAAGAGT 59.461 38.462 0.00 0.00 0.00 3.24
17 18 6.763610 AGTCCAGACAACTTTTAACAGAAGAG 59.236 38.462 0.00 0.00 0.00 2.85
18 19 6.650120 AGTCCAGACAACTTTTAACAGAAGA 58.350 36.000 0.00 0.00 0.00 2.87
19 20 6.538742 TGAGTCCAGACAACTTTTAACAGAAG 59.461 38.462 0.00 0.00 0.00 2.85
20 21 6.411376 TGAGTCCAGACAACTTTTAACAGAA 58.589 36.000 0.00 0.00 0.00 3.02
21 22 5.984725 TGAGTCCAGACAACTTTTAACAGA 58.015 37.500 0.00 0.00 0.00 3.41
22 23 5.277538 GCTGAGTCCAGACAACTTTTAACAG 60.278 44.000 0.00 0.00 43.02 3.16
23 24 4.574828 GCTGAGTCCAGACAACTTTTAACA 59.425 41.667 0.00 0.00 43.02 2.41
24 25 4.816925 AGCTGAGTCCAGACAACTTTTAAC 59.183 41.667 0.00 0.00 43.02 2.01
25 26 5.036117 AGCTGAGTCCAGACAACTTTTAA 57.964 39.130 0.00 0.00 43.02 1.52
26 27 4.689612 AGCTGAGTCCAGACAACTTTTA 57.310 40.909 0.00 0.00 43.02 1.52
27 28 3.567478 AGCTGAGTCCAGACAACTTTT 57.433 42.857 0.00 0.00 43.02 2.27
28 29 3.118261 TCAAGCTGAGTCCAGACAACTTT 60.118 43.478 0.00 0.00 43.02 2.66
29 30 2.435805 TCAAGCTGAGTCCAGACAACTT 59.564 45.455 0.00 0.00 43.02 2.66
30 31 2.042464 TCAAGCTGAGTCCAGACAACT 58.958 47.619 0.00 0.00 43.02 3.16
31 32 2.139118 GTCAAGCTGAGTCCAGACAAC 58.861 52.381 0.00 0.00 43.02 3.32
32 33 2.036475 GAGTCAAGCTGAGTCCAGACAA 59.964 50.000 0.00 0.00 43.02 3.18
33 34 1.615883 GAGTCAAGCTGAGTCCAGACA 59.384 52.381 0.00 0.00 43.02 3.41
34 35 1.615883 TGAGTCAAGCTGAGTCCAGAC 59.384 52.381 14.52 0.00 44.22 3.51
35 36 2.001076 TGAGTCAAGCTGAGTCCAGA 57.999 50.000 14.52 0.00 44.22 3.86
36 37 3.260740 GAATGAGTCAAGCTGAGTCCAG 58.739 50.000 14.52 0.00 44.22 3.86
37 38 2.634453 TGAATGAGTCAAGCTGAGTCCA 59.366 45.455 14.52 6.50 44.22 4.02
38 39 3.325293 TGAATGAGTCAAGCTGAGTCC 57.675 47.619 14.52 4.67 44.22 3.85
39 40 3.622163 CCATGAATGAGTCAAGCTGAGTC 59.378 47.826 0.00 11.76 44.89 3.36
40 41 3.607741 CCATGAATGAGTCAAGCTGAGT 58.392 45.455 0.00 0.00 40.50 3.41
41 42 2.355132 GCCATGAATGAGTCAAGCTGAG 59.645 50.000 0.00 0.00 40.50 3.35
42 43 2.362736 GCCATGAATGAGTCAAGCTGA 58.637 47.619 0.00 0.00 40.50 4.26
43 44 1.063616 CGCCATGAATGAGTCAAGCTG 59.936 52.381 0.00 0.00 40.50 4.24
44 45 1.339438 ACGCCATGAATGAGTCAAGCT 60.339 47.619 0.00 0.00 40.50 3.74
45 46 1.089920 ACGCCATGAATGAGTCAAGC 58.910 50.000 0.00 0.00 40.50 4.01
46 47 1.202110 GCACGCCATGAATGAGTCAAG 60.202 52.381 0.00 0.00 40.50 3.02
47 48 0.804364 GCACGCCATGAATGAGTCAA 59.196 50.000 0.00 0.00 40.50 3.18
48 49 1.360931 CGCACGCCATGAATGAGTCA 61.361 55.000 0.00 0.00 41.67 3.41
49 50 1.349627 CGCACGCCATGAATGAGTC 59.650 57.895 0.00 0.00 0.00 3.36
50 51 2.108514 CCGCACGCCATGAATGAGT 61.109 57.895 0.00 0.00 0.00 3.41
51 52 2.711311 CCGCACGCCATGAATGAG 59.289 61.111 0.00 0.00 0.00 2.90
52 53 2.823593 CCCGCACGCCATGAATGA 60.824 61.111 0.00 0.00 0.00 2.57
53 54 3.891400 CCCCGCACGCCATGAATG 61.891 66.667 0.00 0.00 0.00 2.67
67 68 3.782443 CACCACCTACCTCGCCCC 61.782 72.222 0.00 0.00 0.00 5.80
68 69 3.782443 CCACCACCTACCTCGCCC 61.782 72.222 0.00 0.00 0.00 6.13
69 70 2.682494 TCCACCACCTACCTCGCC 60.682 66.667 0.00 0.00 0.00 5.54
70 71 2.722201 CCTCCACCACCTACCTCGC 61.722 68.421 0.00 0.00 0.00 5.03
71 72 1.000019 TCCTCCACCACCTACCTCG 60.000 63.158 0.00 0.00 0.00 4.63
72 73 0.688087 CCTCCTCCACCACCTACCTC 60.688 65.000 0.00 0.00 0.00 3.85
73 74 1.153695 TCCTCCTCCACCACCTACCT 61.154 60.000 0.00 0.00 0.00 3.08
74 75 0.976590 GTCCTCCTCCACCACCTACC 60.977 65.000 0.00 0.00 0.00 3.18
75 76 0.976590 GGTCCTCCTCCACCACCTAC 60.977 65.000 0.00 0.00 32.33 3.18
76 77 1.390926 GGTCCTCCTCCACCACCTA 59.609 63.158 0.00 0.00 32.33 3.08
77 78 2.122954 GGTCCTCCTCCACCACCT 59.877 66.667 0.00 0.00 32.33 4.00
78 79 3.391382 CGGTCCTCCTCCACCACC 61.391 72.222 0.00 0.00 32.33 4.61
79 80 4.083862 GCGGTCCTCCTCCACCAC 62.084 72.222 0.00 0.00 32.33 4.16
82 83 4.436998 CACGCGGTCCTCCTCCAC 62.437 72.222 12.47 0.00 0.00 4.02
85 86 2.939261 TTTCCACGCGGTCCTCCTC 61.939 63.158 12.47 0.00 0.00 3.71
86 87 2.920912 TTTCCACGCGGTCCTCCT 60.921 61.111 12.47 0.00 0.00 3.69
87 88 2.741211 GTTTCCACGCGGTCCTCC 60.741 66.667 12.47 0.00 0.00 4.30
88 89 2.741211 GGTTTCCACGCGGTCCTC 60.741 66.667 12.47 0.00 0.00 3.71
89 90 3.552384 TGGTTTCCACGCGGTCCT 61.552 61.111 12.47 0.00 0.00 3.85
90 91 3.351416 GTGGTTTCCACGCGGTCC 61.351 66.667 12.47 3.82 44.95 4.46
98 99 4.771114 TTGAGAAGAGAAGTGGTTTCCA 57.229 40.909 0.00 0.00 36.40 3.53
99 100 5.126779 AGTTTGAGAAGAGAAGTGGTTTCC 58.873 41.667 0.00 0.00 36.40 3.13
100 101 6.316390 TGAAGTTTGAGAAGAGAAGTGGTTTC 59.684 38.462 0.00 0.00 35.97 2.78
101 102 6.180472 TGAAGTTTGAGAAGAGAAGTGGTTT 58.820 36.000 0.00 0.00 0.00 3.27
102 103 5.745227 TGAAGTTTGAGAAGAGAAGTGGTT 58.255 37.500 0.00 0.00 0.00 3.67
103 104 5.359194 TGAAGTTTGAGAAGAGAAGTGGT 57.641 39.130 0.00 0.00 0.00 4.16
104 105 6.874288 ATTGAAGTTTGAGAAGAGAAGTGG 57.126 37.500 0.00 0.00 0.00 4.00
105 106 8.830580 TGTTATTGAAGTTTGAGAAGAGAAGTG 58.169 33.333 0.00 0.00 0.00 3.16
106 107 8.964476 TGTTATTGAAGTTTGAGAAGAGAAGT 57.036 30.769 0.00 0.00 0.00 3.01
136 137 9.829507 AAATGTTATTGGAGTTCATCACAAAAA 57.170 25.926 0.00 0.00 0.00 1.94
167 168 5.697473 TGTTATTGGAGTTCATCGCAAAA 57.303 34.783 0.00 0.00 0.00 2.44
195 196 6.384015 GGACCCCTTCATAATGAATCCTTTTT 59.616 38.462 0.00 0.00 35.59 1.94
200 201 4.453480 TGGACCCCTTCATAATGAATCC 57.547 45.455 0.00 0.00 35.59 3.01
206 207 4.079730 GGAAGAGTTGGACCCCTTCATAAT 60.080 45.833 0.00 0.00 37.38 1.28
211 212 1.363246 AGGAAGAGTTGGACCCCTTC 58.637 55.000 0.00 0.00 35.52 3.46
214 215 1.064825 TGAAGGAAGAGTTGGACCCC 58.935 55.000 0.00 0.00 0.00 4.95
218 219 4.019321 CCCAATAGTGAAGGAAGAGTTGGA 60.019 45.833 0.00 0.00 37.61 3.53
221 222 3.916989 ACCCCAATAGTGAAGGAAGAGTT 59.083 43.478 6.26 0.00 0.00 3.01
238 239 3.521937 CTGGGAAGTTTAGTATCACCCCA 59.478 47.826 0.00 0.00 40.03 4.96
239 240 3.684697 GCTGGGAAGTTTAGTATCACCCC 60.685 52.174 0.00 0.00 35.48 4.95
241 242 4.216411 TGCTGGGAAGTTTAGTATCACC 57.784 45.455 0.00 0.00 0.00 4.02
243 244 7.512746 AGGTATATGCTGGGAAGTTTAGTATCA 59.487 37.037 0.00 0.00 0.00 2.15
244 245 7.908453 AGGTATATGCTGGGAAGTTTAGTATC 58.092 38.462 0.00 0.00 0.00 2.24
245 246 7.873699 AGGTATATGCTGGGAAGTTTAGTAT 57.126 36.000 0.00 0.00 0.00 2.12
246 247 7.126726 ACAAGGTATATGCTGGGAAGTTTAGTA 59.873 37.037 0.00 0.00 0.00 1.82
247 248 6.069615 ACAAGGTATATGCTGGGAAGTTTAGT 60.070 38.462 0.00 0.00 0.00 2.24
250 1865 5.193099 ACAAGGTATATGCTGGGAAGTTT 57.807 39.130 0.00 0.00 0.00 2.66
258 1873 6.541278 CCCATATCATGACAAGGTATATGCTG 59.459 42.308 0.00 0.00 31.90 4.41
260 1875 6.418101 ACCCATATCATGACAAGGTATATGC 58.582 40.000 0.00 0.00 31.90 3.14
267 1882 4.443978 AAGGACCCATATCATGACAAGG 57.556 45.455 0.00 0.00 0.00 3.61
298 1920 6.688073 TTTAGGCCCATCCAACAATTTTAA 57.312 33.333 0.00 0.00 37.29 1.52
309 1931 1.425448 AGGTATGCTTTAGGCCCATCC 59.575 52.381 0.00 0.00 40.92 3.51
325 1947 7.931015 AGGACATCCTGTTGAAATATAGGTA 57.069 36.000 0.00 0.00 46.55 3.08
341 1964 1.333177 AGCCACGATCTAGGACATCC 58.667 55.000 4.63 0.00 0.00 3.51
381 2004 3.119884 CCGTGTGCATTCATTCTTAAGCA 60.120 43.478 0.00 0.00 0.00 3.91
382 2005 3.119849 ACCGTGTGCATTCATTCTTAAGC 60.120 43.478 0.00 0.00 0.00 3.09
383 2006 4.685169 ACCGTGTGCATTCATTCTTAAG 57.315 40.909 0.00 0.00 0.00 1.85
384 2007 5.446143 AAACCGTGTGCATTCATTCTTAA 57.554 34.783 0.00 0.00 0.00 1.85
422 2045 7.637631 AGCAAAATTACAAACCCACATTTTT 57.362 28.000 0.00 0.00 0.00 1.94
426 2243 7.731054 TCTTAAGCAAAATTACAAACCCACAT 58.269 30.769 0.00 0.00 0.00 3.21
480 2297 6.289064 ACAAAGGAATTCTGGACCGATATAC 58.711 40.000 5.23 0.00 0.00 1.47
481 2298 6.494666 ACAAAGGAATTCTGGACCGATATA 57.505 37.500 5.23 0.00 0.00 0.86
497 2314 5.757886 CGTAGCATTCTTTTGAACAAAGGA 58.242 37.500 7.76 7.76 41.77 3.36
528 2345 3.851128 GGGACGGTAGGCAGCTCC 61.851 72.222 0.00 0.00 0.00 4.70
548 2366 8.128582 GCTATAAGACTGATCTGAGAATATCCG 58.871 40.741 6.60 0.00 34.48 4.18
556 2374 9.979578 AACAATTAGCTATAAGACTGATCTGAG 57.020 33.333 6.60 0.00 34.48 3.35
560 2378 9.547753 TCCAAACAATTAGCTATAAGACTGATC 57.452 33.333 0.00 0.00 0.00 2.92
561 2379 9.905713 TTCCAAACAATTAGCTATAAGACTGAT 57.094 29.630 0.00 0.00 0.00 2.90
562 2380 9.733556 TTTCCAAACAATTAGCTATAAGACTGA 57.266 29.630 0.00 0.00 0.00 3.41
575 2393 9.770097 TGCTTCATGTTAATTTCCAAACAATTA 57.230 25.926 0.00 0.00 38.95 1.40
577 2395 7.173047 GGTGCTTCATGTTAATTTCCAAACAAT 59.827 33.333 0.00 0.00 38.95 2.71
585 2403 5.163513 CCACTGGTGCTTCATGTTAATTTC 58.836 41.667 0.00 0.00 0.00 2.17
595 2413 1.344438 CACTAGACCACTGGTGCTTCA 59.656 52.381 5.10 0.00 45.52 3.02
682 2500 1.226491 CGTGGACGTGGTCGATACC 60.226 63.158 0.00 0.00 46.98 2.73
683 2501 4.372235 CGTGGACGTGGTCGATAC 57.628 61.111 0.00 0.00 40.62 2.24
695 2513 3.573772 CTCTGCGCTCCAACGTGGA 62.574 63.158 9.73 0.00 45.98 4.02
698 2516 0.531974 TTTTCTCTGCGCTCCAACGT 60.532 50.000 9.73 0.00 34.88 3.99
699 2517 0.586319 TTTTTCTCTGCGCTCCAACG 59.414 50.000 9.73 0.00 0.00 4.10
735 2553 1.066858 GGATCGACTTGTTGAGGCTGA 60.067 52.381 0.00 0.00 0.00 4.26
740 2558 0.716108 GCACGGATCGACTTGTTGAG 59.284 55.000 0.00 0.00 0.00 3.02
741 2559 1.006825 CGCACGGATCGACTTGTTGA 61.007 55.000 0.00 0.00 0.00 3.18
831 2651 0.249238 GATGGAGAGTGCTAGTGCGG 60.249 60.000 0.00 0.00 43.34 5.69
832 2652 0.743688 AGATGGAGAGTGCTAGTGCG 59.256 55.000 0.00 0.00 43.34 5.34
833 2653 1.753649 TGAGATGGAGAGTGCTAGTGC 59.246 52.381 0.00 0.00 40.20 4.40
834 2654 2.757314 TGTGAGATGGAGAGTGCTAGTG 59.243 50.000 0.00 0.00 0.00 2.74
835 2655 3.093057 TGTGAGATGGAGAGTGCTAGT 57.907 47.619 0.00 0.00 0.00 2.57
836 2656 3.635836 TGATGTGAGATGGAGAGTGCTAG 59.364 47.826 0.00 0.00 0.00 3.42
837 2657 3.635591 TGATGTGAGATGGAGAGTGCTA 58.364 45.455 0.00 0.00 0.00 3.49
838 2658 2.431419 CTGATGTGAGATGGAGAGTGCT 59.569 50.000 0.00 0.00 0.00 4.40
839 2659 2.823984 CTGATGTGAGATGGAGAGTGC 58.176 52.381 0.00 0.00 0.00 4.40
840 2660 2.483363 GGCTGATGTGAGATGGAGAGTG 60.483 54.545 0.00 0.00 0.00 3.51
841 2661 1.761784 GGCTGATGTGAGATGGAGAGT 59.238 52.381 0.00 0.00 0.00 3.24
842 2662 1.269673 CGGCTGATGTGAGATGGAGAG 60.270 57.143 0.00 0.00 0.00 3.20
843 2663 0.749049 CGGCTGATGTGAGATGGAGA 59.251 55.000 0.00 0.00 0.00 3.71
844 2664 0.749049 TCGGCTGATGTGAGATGGAG 59.251 55.000 0.00 0.00 0.00 3.86
845 2665 1.194218 TTCGGCTGATGTGAGATGGA 58.806 50.000 0.00 0.00 0.00 3.41
870 2690 2.258013 ACAACGATTGTGTGGGCCG 61.258 57.895 0.00 0.00 43.48 6.13
905 2725 1.493022 TGGCACTTGTTAGTTCCCTGT 59.507 47.619 0.00 0.00 36.93 4.00
936 2760 9.973450 GACTGTTAATGTACTGATACTGATGAT 57.027 33.333 0.00 0.00 32.00 2.45
943 2767 4.440103 CGCCGACTGTTAATGTACTGATAC 59.560 45.833 0.00 0.00 0.00 2.24
944 2768 4.096833 ACGCCGACTGTTAATGTACTGATA 59.903 41.667 0.00 0.00 0.00 2.15
945 2769 3.119245 ACGCCGACTGTTAATGTACTGAT 60.119 43.478 0.00 0.00 0.00 2.90
993 2817 2.681064 ATGGTGGCCATTTGCGCT 60.681 55.556 9.72 0.00 42.23 5.92
1455 3279 1.652563 CGCGACGGTGGATATGAGA 59.347 57.895 0.00 0.00 0.00 3.27
1456 3280 2.016704 GCGCGACGGTGGATATGAG 61.017 63.158 12.10 0.00 0.00 2.90
1710 3534 1.376942 CCTCAGCAGCTTCCACCAG 60.377 63.158 0.00 0.00 0.00 4.00
1809 3633 4.626081 AGCGGTTCTGCCTTGCGT 62.626 61.111 0.00 0.00 34.65 5.24
1832 3656 1.219393 CCGCCTTGTCCTTCTCCTC 59.781 63.158 0.00 0.00 0.00 3.71
2396 4220 4.052518 CCAGGTCCTTGCCCAGGG 62.053 72.222 0.00 0.00 44.12 4.45
2442 4266 4.783227 ACCCGGAAGTTATATATGATGGCT 59.217 41.667 0.73 0.00 0.00 4.75
2580 4404 4.458989 AGAATATGCAACGAAAAGCCTGAA 59.541 37.500 0.00 0.00 0.00 3.02
2772 4626 8.190888 CAGGTCTTCTGTATTGTTGATACTTC 57.809 38.462 0.00 0.00 41.05 3.01
2809 4663 6.768029 ATTTCTACGTTAAGTTACGCACAA 57.232 33.333 0.00 0.00 45.06 3.33
2843 4700 5.449862 GGTGCATGTCTTCAACAGTTAACAA 60.450 40.000 8.61 0.00 42.37 2.83
2844 4701 4.036262 GGTGCATGTCTTCAACAGTTAACA 59.964 41.667 8.61 0.00 42.37 2.41
2867 4724 8.464404 TCCATCATCAATTTTAGCTTCAAGAAG 58.536 33.333 5.46 5.46 41.24 2.85
2880 4737 7.909485 AAAATCTAGCCTCCATCATCAATTT 57.091 32.000 0.00 0.00 0.00 1.82
3085 5553 4.454678 TCAGGCGCAATCAGAAGATTATT 58.545 39.130 10.83 0.00 42.46 1.40
3086 5554 4.077300 TCAGGCGCAATCAGAAGATTAT 57.923 40.909 10.83 0.00 42.46 1.28
3188 5657 1.654105 CCGTCATTTGCTCGAGTGTAC 59.346 52.381 15.13 0.00 0.00 2.90
3249 5726 8.882736 CCTTTGTTAATCAATTGCTTAAATCCC 58.117 33.333 14.33 5.08 35.84 3.85
3325 5802 5.069648 ACAGTAGCTAGCTGCAAGATATTCA 59.930 40.000 30.79 3.46 45.94 2.57
3422 5899 6.280643 TGTTTACAGCAGCGACTATCATTAT 58.719 36.000 0.00 0.00 0.00 1.28
3468 5945 8.171164 AGTTTTCTTTCTTATGTTTCCTCTGG 57.829 34.615 0.00 0.00 0.00 3.86
3486 5963 6.699575 ACACTGTTAGCAATTGAGTTTTCT 57.300 33.333 10.34 0.00 0.00 2.52
3496 5973 7.328277 TGTTTTCTTGTACACTGTTAGCAAT 57.672 32.000 0.00 0.00 0.00 3.56


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

AutoCloner maintained by Alex Coulton.