Multiple sequence alignment - TraesCS4A01G487900

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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 TraesCS4A01G487900 chr4A 100.000 2390 0 0 1 2390 739886075 739888464 0.000000e+00 4414.0
1 TraesCS4A01G487900 chr4A 86.798 1977 236 15 399 2367 739607080 739609039 0.000000e+00 2182.0
2 TraesCS4A01G487900 chr4A 86.573 1914 230 15 389 2296 742021260 742023152 0.000000e+00 2085.0
3 TraesCS4A01G487900 chr4A 85.615 2009 262 16 389 2390 740495223 740497211 0.000000e+00 2084.0
4 TraesCS4A01G487900 chr4A 85.809 1952 241 23 389 2330 740122578 740120653 0.000000e+00 2037.0
5 TraesCS4A01G487900 chr4A 84.086 2036 273 20 279 2293 741421958 741423963 0.000000e+00 1917.0
6 TraesCS4A01G487900 chr4A 100.000 1026 0 0 2778 3803 739888852 739889877 0.000000e+00 1895.0
7 TraesCS4A01G487900 chr4A 84.153 1912 263 21 399 2302 742159608 742157729 0.000000e+00 1816.0
8 TraesCS4A01G487900 chr4A 88.031 1437 159 6 419 1850 740149510 740148082 0.000000e+00 1688.0
9 TraesCS4A01G487900 chr4A 87.174 1302 151 16 1095 2390 741505836 741504545 0.000000e+00 1465.0
10 TraesCS4A01G487900 chr4A 85.820 1347 180 10 975 2319 741805100 741806437 0.000000e+00 1419.0
11 TraesCS4A01G487900 chr4A 96.547 811 21 4 2994 3802 741504315 741503510 0.000000e+00 1336.0
12 TraesCS4A01G487900 chr4A 83.144 967 102 38 2838 3785 742023167 742024091 0.000000e+00 826.0
13 TraesCS4A01G487900 chr4A 81.730 925 102 42 2849 3756 733984337 733983463 0.000000e+00 710.0
14 TraesCS4A01G487900 chr4A 82.067 842 98 34 2886 3701 739609203 739610017 0.000000e+00 669.0
15 TraesCS4A01G487900 chr4A 80.994 684 76 35 3071 3729 740134414 740133760 9.490000e-136 494.0
16 TraesCS4A01G487900 chr4A 76.855 795 102 49 2778 3545 740120436 740119697 1.290000e-99 374.0
17 TraesCS4A01G487900 chr7D 85.047 2013 255 22 389 2390 4009208 4007231 0.000000e+00 2008.0
18 TraesCS4A01G487900 chr7D 88.716 1542 155 6 279 1802 3423793 3422253 0.000000e+00 1866.0
19 TraesCS4A01G487900 chr7D 83.017 842 96 33 2961 3785 4006747 4005936 0.000000e+00 719.0
20 TraesCS4A01G487900 chr7D 80.798 927 112 41 2875 3784 3421452 3420575 0.000000e+00 665.0
21 TraesCS4A01G487900 chr7D 82.247 721 115 10 1676 2390 2672106 2671393 9.030000e-171 610.0
22 TraesCS4A01G487900 chr7D 85.417 576 73 11 1794 2363 3422231 3421661 4.230000e-164 588.0
23 TraesCS4A01G487900 chr7D 88.333 480 34 11 3319 3785 2508328 2507858 1.190000e-154 556.0
24 TraesCS4A01G487900 chr7D 84.456 386 49 8 2878 3260 2678687 2678310 1.670000e-98 370.0
25 TraesCS4A01G487900 chr7D 82.197 264 33 10 2853 3103 2510073 2509811 8.270000e-52 215.0
26 TraesCS4A01G487900 chr7D 91.429 70 5 1 3717 3785 2676442 2676373 1.120000e-15 95.3
27 TraesCS4A01G487900 chr7A 84.600 2026 257 31 389 2390 3842683 3840689 0.000000e+00 1962.0
28 TraesCS4A01G487900 chr7A 83.804 1914 292 14 402 2309 2800436 2798535 0.000000e+00 1801.0
29 TraesCS4A01G487900 chr7A 82.079 837 107 26 2961 3785 3840309 3839504 0.000000e+00 675.0
30 TraesCS4A01G487900 chr7A 86.892 473 41 11 3323 3781 2126258 2125793 9.420000e-141 510.0
31 TraesCS4A01G487900 chr7A 85.507 69 5 3 3323 3386 330106666 330106598 2.450000e-07 67.6
32 TraesCS4A01G487900 chr3B 81.818 286 41 7 2875 3149 281971490 281971205 2.950000e-56 230.0
33 TraesCS4A01G487900 chr5B 91.071 56 5 0 3323 3378 7255958 7256013 4.070000e-10 76.8
34 TraesCS4A01G487900 chrUn 97.561 41 1 0 3323 3363 274666378 274666418 1.900000e-08 71.3
35 TraesCS4A01G487900 chr6D 97.561 41 1 0 3323 3363 160224783 160224823 1.900000e-08 71.3
36 TraesCS4A01G487900 chr6A 97.561 41 1 0 3323 3363 53869772 53869732 1.900000e-08 71.3
37 TraesCS4A01G487900 chr6A 97.561 41 1 0 3323 3363 93338287 93338247 1.900000e-08 71.3
38 TraesCS4A01G487900 chr6A 97.561 41 1 0 3323 3363 293922958 293922918 1.900000e-08 71.3
39 TraesCS4A01G487900 chr1A 97.561 41 1 0 3323 3363 419670212 419670252 1.900000e-08 71.3


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 TraesCS4A01G487900 chr4A 739886075 739889877 3802 False 3154.500000 4414 100.0000 1 3803 2 chr4A.!!$F5 3802
1 TraesCS4A01G487900 chr4A 740495223 740497211 1988 False 2084.000000 2084 85.6150 389 2390 1 chr4A.!!$F1 2001
2 TraesCS4A01G487900 chr4A 741421958 741423963 2005 False 1917.000000 1917 84.0860 279 2293 1 chr4A.!!$F2 2014
3 TraesCS4A01G487900 chr4A 742157729 742159608 1879 True 1816.000000 1816 84.1530 399 2302 1 chr4A.!!$R4 1903
4 TraesCS4A01G487900 chr4A 740148082 740149510 1428 True 1688.000000 1688 88.0310 419 1850 1 chr4A.!!$R3 1431
5 TraesCS4A01G487900 chr4A 742021260 742024091 2831 False 1455.500000 2085 84.8585 389 3785 2 chr4A.!!$F6 3396
6 TraesCS4A01G487900 chr4A 739607080 739610017 2937 False 1425.500000 2182 84.4325 399 3701 2 chr4A.!!$F4 3302
7 TraesCS4A01G487900 chr4A 741805100 741806437 1337 False 1419.000000 1419 85.8200 975 2319 1 chr4A.!!$F3 1344
8 TraesCS4A01G487900 chr4A 741503510 741505836 2326 True 1400.500000 1465 91.8605 1095 3802 2 chr4A.!!$R6 2707
9 TraesCS4A01G487900 chr4A 740119697 740122578 2881 True 1205.500000 2037 81.3320 389 3545 2 chr4A.!!$R5 3156
10 TraesCS4A01G487900 chr4A 733983463 733984337 874 True 710.000000 710 81.7300 2849 3756 1 chr4A.!!$R1 907
11 TraesCS4A01G487900 chr4A 740133760 740134414 654 True 494.000000 494 80.9940 3071 3729 1 chr4A.!!$R2 658
12 TraesCS4A01G487900 chr7D 4005936 4009208 3272 True 1363.500000 2008 84.0320 389 3785 2 chr7D.!!$R5 3396
13 TraesCS4A01G487900 chr7D 3420575 3423793 3218 True 1039.666667 1866 84.9770 279 3784 3 chr7D.!!$R4 3505
14 TraesCS4A01G487900 chr7D 2671393 2672106 713 True 610.000000 610 82.2470 1676 2390 1 chr7D.!!$R1 714
15 TraesCS4A01G487900 chr7D 2507858 2510073 2215 True 385.500000 556 85.2650 2853 3785 2 chr7D.!!$R2 932
16 TraesCS4A01G487900 chr7D 2676373 2678687 2314 True 232.650000 370 87.9425 2878 3785 2 chr7D.!!$R3 907
17 TraesCS4A01G487900 chr7A 2798535 2800436 1901 True 1801.000000 1801 83.8040 402 2309 1 chr7A.!!$R2 1907
18 TraesCS4A01G487900 chr7A 3839504 3842683 3179 True 1318.500000 1962 83.3395 389 3785 2 chr7A.!!$R4 3396

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
635 651 1.091771 AAACGGCCTGATCATCTGCG 61.092 55.0 0.0 0.0 0.00 5.18 F
1030 1049 0.179000 GGTGGAGCAGTCCCAGTATG 59.821 60.0 0.0 0.0 43.15 2.39 F
2239 2302 0.029681 ATATGCCCCTCCTGTGGACT 60.030 55.0 0.0 0.0 0.00 3.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1977 2037 0.464036 ACCACGTGTTCAGCTCAAGA 59.536 50.0 15.65 0.0 0.00 3.02 R
2252 2315 0.597118 TGCACGCTTCACCATTTTGC 60.597 50.0 0.00 0.0 0.00 3.68 R
3622 5566 0.804364 CGGCTATGCAACAAGAAGCA 59.196 50.0 0.00 0.0 45.92 3.91 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
54 55 8.757982 AAATATAGTGAAGCATCATGTTTCCT 57.242 30.769 11.36 10.11 36.87 3.36
55 56 8.757982 AATATAGTGAAGCATCATGTTTCCTT 57.242 30.769 11.36 2.94 36.87 3.36
56 57 9.851686 AATATAGTGAAGCATCATGTTTCCTTA 57.148 29.630 11.36 4.88 36.87 2.69
57 58 9.851686 ATATAGTGAAGCATCATGTTTCCTTAA 57.148 29.630 11.36 2.06 36.87 1.85
58 59 6.259550 AGTGAAGCATCATGTTTCCTTAAC 57.740 37.500 11.36 3.52 36.87 2.01
59 60 6.006449 AGTGAAGCATCATGTTTCCTTAACT 58.994 36.000 11.36 5.62 36.87 2.24
60 61 6.491403 AGTGAAGCATCATGTTTCCTTAACTT 59.509 34.615 11.36 0.00 36.87 2.66
61 62 6.803807 GTGAAGCATCATGTTTCCTTAACTTC 59.196 38.462 11.36 1.18 36.87 3.01
62 63 6.716628 TGAAGCATCATGTTTCCTTAACTTCT 59.283 34.615 11.36 0.00 36.87 2.85
63 64 7.231317 TGAAGCATCATGTTTCCTTAACTTCTT 59.769 33.333 11.36 0.00 36.87 2.52
64 65 7.530426 AGCATCATGTTTCCTTAACTTCTTT 57.470 32.000 0.00 0.00 37.64 2.52
65 66 7.373493 AGCATCATGTTTCCTTAACTTCTTTG 58.627 34.615 0.00 0.00 37.64 2.77
66 67 6.089954 GCATCATGTTTCCTTAACTTCTTTGC 59.910 38.462 0.00 0.00 37.64 3.68
67 68 6.959639 TCATGTTTCCTTAACTTCTTTGCT 57.040 33.333 0.00 0.00 37.64 3.91
68 69 6.970484 TCATGTTTCCTTAACTTCTTTGCTC 58.030 36.000 0.00 0.00 37.64 4.26
69 70 6.772716 TCATGTTTCCTTAACTTCTTTGCTCT 59.227 34.615 0.00 0.00 37.64 4.09
70 71 7.936847 TCATGTTTCCTTAACTTCTTTGCTCTA 59.063 33.333 0.00 0.00 37.64 2.43
71 72 8.567948 CATGTTTCCTTAACTTCTTTGCTCTAA 58.432 33.333 0.00 0.00 37.64 2.10
72 73 8.691661 TGTTTCCTTAACTTCTTTGCTCTAAT 57.308 30.769 0.00 0.00 37.64 1.73
73 74 9.131791 TGTTTCCTTAACTTCTTTGCTCTAATT 57.868 29.630 0.00 0.00 37.64 1.40
74 75 9.967346 GTTTCCTTAACTTCTTTGCTCTAATTT 57.033 29.630 0.00 0.00 33.79 1.82
75 76 9.965824 TTTCCTTAACTTCTTTGCTCTAATTTG 57.034 29.630 0.00 0.00 0.00 2.32
76 77 8.110860 TCCTTAACTTCTTTGCTCTAATTTGG 57.889 34.615 0.00 0.00 0.00 3.28
77 78 7.176690 TCCTTAACTTCTTTGCTCTAATTTGGG 59.823 37.037 0.00 0.00 0.00 4.12
78 79 7.039714 CCTTAACTTCTTTGCTCTAATTTGGGT 60.040 37.037 0.00 0.00 0.00 4.51
79 80 5.966742 ACTTCTTTGCTCTAATTTGGGTC 57.033 39.130 0.00 0.00 0.00 4.46
80 81 5.385198 ACTTCTTTGCTCTAATTTGGGTCA 58.615 37.500 0.00 0.00 0.00 4.02
81 82 5.833131 ACTTCTTTGCTCTAATTTGGGTCAA 59.167 36.000 0.00 0.00 0.00 3.18
82 83 6.494835 ACTTCTTTGCTCTAATTTGGGTCAAT 59.505 34.615 0.00 0.00 0.00 2.57
83 84 7.669722 ACTTCTTTGCTCTAATTTGGGTCAATA 59.330 33.333 0.00 0.00 0.00 1.90
84 85 7.630242 TCTTTGCTCTAATTTGGGTCAATAG 57.370 36.000 0.00 0.00 0.00 1.73
85 86 5.835113 TTGCTCTAATTTGGGTCAATAGC 57.165 39.130 0.00 0.00 0.00 2.97
86 87 5.116084 TGCTCTAATTTGGGTCAATAGCT 57.884 39.130 0.00 0.00 0.00 3.32
87 88 6.247229 TGCTCTAATTTGGGTCAATAGCTA 57.753 37.500 0.00 0.00 0.00 3.32
88 89 6.291377 TGCTCTAATTTGGGTCAATAGCTAG 58.709 40.000 0.00 0.00 0.00 3.42
89 90 6.126768 TGCTCTAATTTGGGTCAATAGCTAGT 60.127 38.462 0.00 0.00 0.00 2.57
90 91 6.203723 GCTCTAATTTGGGTCAATAGCTAGTG 59.796 42.308 14.95 14.95 0.00 2.74
91 92 7.432148 TCTAATTTGGGTCAATAGCTAGTGA 57.568 36.000 19.39 19.39 0.00 3.41
92 93 7.272978 TCTAATTTGGGTCAATAGCTAGTGAC 58.727 38.462 35.05 35.05 46.95 3.67
99 100 5.975410 GTCAATAGCTAGTGACCATCAAC 57.025 43.478 33.66 15.06 43.30 3.18
100 101 4.811557 GTCAATAGCTAGTGACCATCAACC 59.188 45.833 33.66 13.94 43.30 3.77
101 102 4.469586 TCAATAGCTAGTGACCATCAACCA 59.530 41.667 19.39 0.00 0.00 3.67
102 103 5.130975 TCAATAGCTAGTGACCATCAACCAT 59.869 40.000 19.39 0.00 0.00 3.55
103 104 5.636903 ATAGCTAGTGACCATCAACCATT 57.363 39.130 0.00 0.00 0.00 3.16
104 105 3.878778 AGCTAGTGACCATCAACCATTC 58.121 45.455 0.00 0.00 0.00 2.67
105 106 3.521126 AGCTAGTGACCATCAACCATTCT 59.479 43.478 0.00 0.00 0.00 2.40
106 107 4.716784 AGCTAGTGACCATCAACCATTCTA 59.283 41.667 0.00 0.00 0.00 2.10
107 108 4.811557 GCTAGTGACCATCAACCATTCTAC 59.188 45.833 0.00 0.00 0.00 2.59
108 109 4.222124 AGTGACCATCAACCATTCTACC 57.778 45.455 0.00 0.00 0.00 3.18
109 110 3.587061 AGTGACCATCAACCATTCTACCA 59.413 43.478 0.00 0.00 0.00 3.25
110 111 4.228210 AGTGACCATCAACCATTCTACCAT 59.772 41.667 0.00 0.00 0.00 3.55
111 112 4.336433 GTGACCATCAACCATTCTACCATG 59.664 45.833 0.00 0.00 0.00 3.66
204 205 9.297586 AGAATTTGATTTGTCGATGATGAAATG 57.702 29.630 0.00 0.00 0.00 2.32
205 206 9.292846 GAATTTGATTTGTCGATGATGAAATGA 57.707 29.630 0.00 0.00 0.00 2.57
206 207 9.642327 AATTTGATTTGTCGATGATGAAATGAA 57.358 25.926 0.00 0.00 0.00 2.57
207 208 9.642327 ATTTGATTTGTCGATGATGAAATGAAA 57.358 25.926 0.00 0.00 29.54 2.69
208 209 9.642327 TTTGATTTGTCGATGATGAAATGAAAT 57.358 25.926 0.00 0.00 0.00 2.17
257 258 7.400599 AAAAATCACATATGTCTCATGCAGT 57.599 32.000 5.07 0.00 0.00 4.40
258 259 7.400599 AAAATCACATATGTCTCATGCAGTT 57.599 32.000 5.07 0.00 0.00 3.16
259 260 7.400599 AAATCACATATGTCTCATGCAGTTT 57.599 32.000 5.07 0.00 0.00 2.66
260 261 7.400599 AATCACATATGTCTCATGCAGTTTT 57.599 32.000 5.07 0.00 0.00 2.43
261 262 6.426980 TCACATATGTCTCATGCAGTTTTC 57.573 37.500 5.07 0.00 0.00 2.29
262 263 5.355071 TCACATATGTCTCATGCAGTTTTCC 59.645 40.000 5.07 0.00 0.00 3.13
263 264 5.356190 CACATATGTCTCATGCAGTTTTCCT 59.644 40.000 5.07 0.00 0.00 3.36
264 265 5.948162 ACATATGTCTCATGCAGTTTTCCTT 59.052 36.000 1.41 0.00 0.00 3.36
265 266 7.066163 CACATATGTCTCATGCAGTTTTCCTTA 59.934 37.037 5.07 0.00 0.00 2.69
266 267 7.776969 ACATATGTCTCATGCAGTTTTCCTTAT 59.223 33.333 1.41 0.00 0.00 1.73
267 268 8.627403 CATATGTCTCATGCAGTTTTCCTTATT 58.373 33.333 0.00 0.00 0.00 1.40
268 269 6.500684 TGTCTCATGCAGTTTTCCTTATTC 57.499 37.500 0.00 0.00 0.00 1.75
269 270 5.415701 TGTCTCATGCAGTTTTCCTTATTCC 59.584 40.000 0.00 0.00 0.00 3.01
270 271 5.649831 GTCTCATGCAGTTTTCCTTATTCCT 59.350 40.000 0.00 0.00 0.00 3.36
271 272 6.823689 GTCTCATGCAGTTTTCCTTATTCCTA 59.176 38.462 0.00 0.00 0.00 2.94
272 273 7.336931 GTCTCATGCAGTTTTCCTTATTCCTAA 59.663 37.037 0.00 0.00 0.00 2.69
273 274 7.336931 TCTCATGCAGTTTTCCTTATTCCTAAC 59.663 37.037 0.00 0.00 0.00 2.34
274 275 7.175104 TCATGCAGTTTTCCTTATTCCTAACT 58.825 34.615 0.00 0.00 0.00 2.24
275 276 8.325787 TCATGCAGTTTTCCTTATTCCTAACTA 58.674 33.333 0.00 0.00 0.00 2.24
276 277 8.956426 CATGCAGTTTTCCTTATTCCTAACTAA 58.044 33.333 0.00 0.00 0.00 2.24
277 278 8.927675 TGCAGTTTTCCTTATTCCTAACTAAA 57.072 30.769 0.00 0.00 0.00 1.85
278 279 9.528489 TGCAGTTTTCCTTATTCCTAACTAAAT 57.472 29.630 0.00 0.00 0.00 1.40
331 332 3.563390 GCTGGCTTTCATACATCCTCTTC 59.437 47.826 0.00 0.00 0.00 2.87
335 336 6.248433 TGGCTTTCATACATCCTCTTCTTTT 58.752 36.000 0.00 0.00 0.00 2.27
336 337 6.721208 TGGCTTTCATACATCCTCTTCTTTTT 59.279 34.615 0.00 0.00 0.00 1.94
342 343 9.618890 TTCATACATCCTCTTCTTTTTAGATGG 57.381 33.333 0.00 0.00 36.32 3.51
361 362 2.236644 TGGTTTACATACTTAGGCGCCA 59.763 45.455 31.54 12.31 0.00 5.69
371 372 6.768861 ACATACTTAGGCGCCATACAAAATAA 59.231 34.615 31.54 14.48 0.00 1.40
375 376 7.200455 ACTTAGGCGCCATACAAAATAATTTC 58.800 34.615 31.54 0.00 0.00 2.17
405 420 7.407393 TTTATGAATGAATGCCAATGACAGA 57.593 32.000 0.00 0.00 0.00 3.41
415 430 5.101648 TGCCAATGACAGATACTTCATCA 57.898 39.130 0.00 0.00 35.96 3.07
491 507 4.380023 GGTGCGTAATAATTGTGGAAGCAA 60.380 41.667 0.00 0.00 33.75 3.91
492 508 5.157781 GTGCGTAATAATTGTGGAAGCAAA 58.842 37.500 0.00 0.00 33.75 3.68
546 562 3.429822 CCACAACGACCGGTGAAGTATAT 60.430 47.826 14.63 0.00 37.18 0.86
583 599 4.527509 TCGCTGGATTTATCTGAGGATC 57.472 45.455 0.00 0.00 33.71 3.36
625 641 3.322526 GGCGAAATAAAACGGCCTG 57.677 52.632 0.00 0.00 46.41 4.85
635 651 1.091771 AAACGGCCTGATCATCTGCG 61.092 55.000 0.00 0.00 0.00 5.18
652 671 3.316588 TCTGCGAGCAGAGGTAGATAAAG 59.683 47.826 22.28 0.00 46.80 1.85
807 826 6.423905 TGGAGAACACGAGAAAAATACTTCTG 59.576 38.462 0.00 0.00 35.76 3.02
988 1007 3.887110 TGAGAGGTACTTCAACGAGTTGA 59.113 43.478 13.96 13.96 46.72 3.18
1030 1049 0.179000 GGTGGAGCAGTCCCAGTATG 59.821 60.000 0.00 0.00 43.15 2.39
1033 1052 2.500098 GTGGAGCAGTCCCAGTATGTTA 59.500 50.000 0.00 0.00 43.15 2.41
1038 1057 3.967326 AGCAGTCCCAGTATGTTAGCATA 59.033 43.478 0.00 0.00 36.58 3.14
1039 1058 4.408921 AGCAGTCCCAGTATGTTAGCATAA 59.591 41.667 0.31 0.00 39.09 1.90
1045 1064 7.285401 AGTCCCAGTATGTTAGCATAAAAATGG 59.715 37.037 0.31 7.41 39.09 3.16
1046 1065 6.549364 TCCCAGTATGTTAGCATAAAAATGGG 59.451 38.462 21.87 21.87 42.83 4.00
1126 1145 8.985805 GTCTATTGTCGAAGGAAGAAAACTTTA 58.014 33.333 0.00 0.00 0.00 1.85
1134 1153 8.770828 TCGAAGGAAGAAAACTTTATTACTGTG 58.229 33.333 0.00 0.00 33.15 3.66
1198 1217 2.604914 CGTAGGCTAGCTGTTCAACATG 59.395 50.000 15.72 0.00 0.00 3.21
1234 1255 3.187637 GGCTAGCACGTCAACATTACAAA 59.812 43.478 18.24 0.00 0.00 2.83
1254 1275 5.070313 ACAAACAAGGTCACTTAATGCCATT 59.930 36.000 0.00 0.00 34.49 3.16
1275 1296 0.524816 GCAATGCTGAGATGTTGCCG 60.525 55.000 0.00 0.00 40.66 5.69
1319 1340 1.337823 GCGTGTCCTAGCTTTGGAAGA 60.338 52.381 9.35 0.00 35.10 2.87
1324 1345 0.256177 CCTAGCTTTGGAAGACCCCC 59.744 60.000 0.00 0.00 34.81 5.40
1325 1346 1.290134 CTAGCTTTGGAAGACCCCCT 58.710 55.000 0.00 0.00 34.81 4.79
1505 1529 2.100197 TCCAGAGAGTATTGGTGGACG 58.900 52.381 0.00 0.00 35.89 4.79
1530 1554 6.064846 AGTCAACTAAAGTGCTTGAACATG 57.935 37.500 0.00 0.00 0.00 3.21
1613 1637 1.148310 CTAGGACAAGTTGGTGTGCG 58.852 55.000 7.96 0.00 43.94 5.34
1649 1674 4.164258 ACTGGGCAAGTTGACAGC 57.836 55.556 21.09 3.46 34.57 4.40
1803 1834 7.201776 CGGAGAGATTCTAGTGATGAAGAGAAA 60.202 40.741 0.00 0.00 32.00 2.52
1867 1927 3.194755 ACACATGTGCTACGATGAACCTA 59.805 43.478 25.68 0.00 0.00 3.08
1870 1930 2.453521 TGTGCTACGATGAACCTAGGT 58.546 47.619 9.21 9.21 0.00 3.08
1914 1974 3.181454 GGCTTCTTCCGAATCTATCCCAA 60.181 47.826 0.00 0.00 0.00 4.12
1921 1981 9.640952 TTCTTCCGAATCTATCCCAATTAAAAT 57.359 29.630 0.00 0.00 0.00 1.82
1977 2037 2.919228 AGTTTCCACGAGCTTGTTTCT 58.081 42.857 3.02 0.00 0.00 2.52
2052 2115 0.040204 CATTCCCCAAGCTGAGGGTT 59.960 55.000 20.06 8.26 45.28 4.11
2063 2126 1.067060 GCTGAGGGTTTTCAACACACC 59.933 52.381 0.00 0.00 37.23 4.16
2070 2133 2.267426 GTTTTCAACACACCAGCAACC 58.733 47.619 0.00 0.00 0.00 3.77
2090 2153 1.270839 CCTTGGCTCGTTTCAAGAGGA 60.271 52.381 13.05 0.00 41.94 3.71
2163 2226 6.277605 CAATGATGATGGCATTAGCTTTGAA 58.722 36.000 23.00 0.00 41.70 2.69
2203 2266 0.884514 GAACCTCCCTTTGCTTCAGC 59.115 55.000 0.00 0.00 42.50 4.26
2239 2302 0.029681 ATATGCCCCTCCTGTGGACT 60.030 55.000 0.00 0.00 0.00 3.85
2244 2307 2.124411 GCCCCTCCTGTGGACTATAAA 58.876 52.381 0.00 0.00 0.00 1.40
2252 2315 6.235231 TCCTGTGGACTATAAAAAGGCTAG 57.765 41.667 0.00 0.00 0.00 3.42
2253 2316 4.816925 CCTGTGGACTATAAAAAGGCTAGC 59.183 45.833 6.04 6.04 0.00 3.42
2319 2385 5.468072 CAGTCCTTATATCAGCACAATGGAC 59.532 44.000 0.00 0.00 41.00 4.02
2385 2590 2.167662 TCGTTAGTGCTGATCTCCACA 58.832 47.619 15.43 0.00 34.48 4.17
2809 3014 3.063510 ACAGATTGAGCTAAGCTTGCA 57.936 42.857 9.86 0.00 39.88 4.08
2822 3027 0.453950 GCTTGCAGTGCATCTTCACG 60.454 55.000 20.50 3.07 41.61 4.35
2828 3036 2.030412 TGCATCTTCACGTGCGGT 59.970 55.556 11.67 0.00 44.11 5.68
2831 3061 1.011968 GCATCTTCACGTGCGGTACA 61.012 55.000 11.67 0.00 0.00 2.90
2834 3064 2.267188 TCTTCACGTGCGGTACATAC 57.733 50.000 11.67 0.00 0.00 2.39
2838 3068 0.526954 CACGTGCGGTACATACCTCC 60.527 60.000 0.82 0.00 44.25 4.30
2839 3069 1.066918 CGTGCGGTACATACCTCCC 59.933 63.158 6.52 0.00 44.25 4.30
2841 3172 0.388294 GTGCGGTACATACCTCCCTC 59.612 60.000 6.52 0.00 44.25 4.30
2843 3174 0.960286 GCGGTACATACCTCCCTCTC 59.040 60.000 6.52 0.00 44.25 3.20
2845 3176 2.224719 GCGGTACATACCTCCCTCTCTA 60.225 54.545 6.52 0.00 44.25 2.43
2847 3178 4.011023 CGGTACATACCTCCCTCTCTATG 58.989 52.174 6.52 0.00 44.25 2.23
2951 3322 4.412207 TGCGTGCACGATACATATATCTC 58.588 43.478 41.19 19.17 43.02 2.75
2954 3325 5.267009 CGTGCACGATACATATATCTCTCC 58.733 45.833 34.93 0.00 43.02 3.71
2978 3485 9.535170 TCCCATCATTTTAAACAGTAACCATTA 57.465 29.630 0.00 0.00 0.00 1.90
3320 5185 5.793026 AAAAAGTGCTTGAAAATCGCAAA 57.207 30.435 0.00 0.00 35.16 3.68
3321 5186 5.793026 AAAAGTGCTTGAAAATCGCAAAA 57.207 30.435 0.00 0.00 35.16 2.44
3327 5192 5.616785 GTGCTTGAAAATCGCAAAATGTTTC 59.383 36.000 0.00 0.00 35.16 2.78
3328 5193 5.523188 TGCTTGAAAATCGCAAAATGTTTCT 59.477 32.000 0.00 0.00 0.00 2.52
3345 5210 8.409358 AATGTTTCTCTGCCTTTTGTAGTAAT 57.591 30.769 0.00 0.00 0.00 1.89
3349 5214 5.734720 TCTCTGCCTTTTGTAGTAATGGAG 58.265 41.667 0.00 0.00 0.00 3.86
3364 5232 9.167311 GTAGTAATGGAGAATGAAAATCACACT 57.833 33.333 0.00 0.00 0.00 3.55
3365 5233 8.641498 AGTAATGGAGAATGAAAATCACACTT 57.359 30.769 0.00 0.00 0.00 3.16
3533 5477 5.627367 CGTGTTTTTGTGTCTTGTTCTTTGA 59.373 36.000 0.00 0.00 0.00 2.69
3591 5535 2.752807 GGTGTGTGTGGAGTGGGGT 61.753 63.158 0.00 0.00 0.00 4.95
3622 5566 4.141846 CCGCCTATGCTAAGATGATGGTAT 60.142 45.833 0.00 0.00 34.43 2.73
3628 5572 5.557576 TGCTAAGATGATGGTATGCTTCT 57.442 39.130 0.00 0.00 0.00 2.85
3785 7376 1.794512 CTGGTTTTTGCCATTTCCCG 58.205 50.000 0.00 0.00 37.96 5.14
3802 7393 1.261619 CCCGATGCAATTTCTACTCGC 59.738 52.381 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
28 29 9.851686 AGGAAACATGATGCTTCACTATATTTA 57.148 29.630 10.36 0.00 33.85 1.40
29 30 8.757982 AGGAAACATGATGCTTCACTATATTT 57.242 30.769 10.36 2.05 33.85 1.40
30 31 8.757982 AAGGAAACATGATGCTTCACTATATT 57.242 30.769 10.36 0.00 33.85 1.28
31 32 9.851686 TTAAGGAAACATGATGCTTCACTATAT 57.148 29.630 10.36 0.00 33.85 0.86
32 33 9.109393 GTTAAGGAAACATGATGCTTCACTATA 57.891 33.333 10.36 0.00 38.05 1.31
33 34 7.831193 AGTTAAGGAAACATGATGCTTCACTAT 59.169 33.333 16.40 0.00 40.83 2.12
34 35 7.168219 AGTTAAGGAAACATGATGCTTCACTA 58.832 34.615 16.40 0.00 40.83 2.74
35 36 6.006449 AGTTAAGGAAACATGATGCTTCACT 58.994 36.000 10.36 13.96 40.83 3.41
36 37 6.259550 AGTTAAGGAAACATGATGCTTCAC 57.740 37.500 10.36 11.41 40.83 3.18
37 38 6.716628 AGAAGTTAAGGAAACATGATGCTTCA 59.283 34.615 10.36 4.57 40.83 3.02
38 39 7.150783 AGAAGTTAAGGAAACATGATGCTTC 57.849 36.000 11.78 0.06 40.83 3.86
39 40 7.530426 AAGAAGTTAAGGAAACATGATGCTT 57.470 32.000 0.00 7.46 40.83 3.91
40 41 7.373493 CAAAGAAGTTAAGGAAACATGATGCT 58.627 34.615 0.00 0.00 40.83 3.79
41 42 6.089954 GCAAAGAAGTTAAGGAAACATGATGC 59.910 38.462 0.00 0.00 40.83 3.91
42 43 7.373493 AGCAAAGAAGTTAAGGAAACATGATG 58.627 34.615 0.00 0.00 40.83 3.07
43 44 7.449704 AGAGCAAAGAAGTTAAGGAAACATGAT 59.550 33.333 0.00 0.00 40.83 2.45
44 45 6.772716 AGAGCAAAGAAGTTAAGGAAACATGA 59.227 34.615 0.00 0.00 40.83 3.07
45 46 6.974965 AGAGCAAAGAAGTTAAGGAAACATG 58.025 36.000 0.00 0.00 40.83 3.21
46 47 8.691661 TTAGAGCAAAGAAGTTAAGGAAACAT 57.308 30.769 0.00 0.00 40.83 2.71
47 48 8.691661 ATTAGAGCAAAGAAGTTAAGGAAACA 57.308 30.769 0.00 0.00 40.83 2.83
48 49 9.967346 AAATTAGAGCAAAGAAGTTAAGGAAAC 57.033 29.630 0.00 0.00 38.46 2.78
49 50 9.965824 CAAATTAGAGCAAAGAAGTTAAGGAAA 57.034 29.630 0.00 0.00 0.00 3.13
50 51 8.576442 CCAAATTAGAGCAAAGAAGTTAAGGAA 58.424 33.333 0.00 0.00 0.00 3.36
51 52 7.176690 CCCAAATTAGAGCAAAGAAGTTAAGGA 59.823 37.037 0.00 0.00 0.00 3.36
52 53 7.039714 ACCCAAATTAGAGCAAAGAAGTTAAGG 60.040 37.037 0.00 0.00 0.00 2.69
53 54 7.886338 ACCCAAATTAGAGCAAAGAAGTTAAG 58.114 34.615 0.00 0.00 0.00 1.85
54 55 7.504238 TGACCCAAATTAGAGCAAAGAAGTTAA 59.496 33.333 0.00 0.00 0.00 2.01
55 56 7.001674 TGACCCAAATTAGAGCAAAGAAGTTA 58.998 34.615 0.00 0.00 0.00 2.24
56 57 5.833131 TGACCCAAATTAGAGCAAAGAAGTT 59.167 36.000 0.00 0.00 0.00 2.66
57 58 5.385198 TGACCCAAATTAGAGCAAAGAAGT 58.615 37.500 0.00 0.00 0.00 3.01
58 59 5.964958 TGACCCAAATTAGAGCAAAGAAG 57.035 39.130 0.00 0.00 0.00 2.85
59 60 6.916360 ATTGACCCAAATTAGAGCAAAGAA 57.084 33.333 0.00 0.00 0.00 2.52
60 61 6.095440 GCTATTGACCCAAATTAGAGCAAAGA 59.905 38.462 0.00 0.00 0.00 2.52
61 62 6.096001 AGCTATTGACCCAAATTAGAGCAAAG 59.904 38.462 0.00 0.00 0.00 2.77
62 63 5.951747 AGCTATTGACCCAAATTAGAGCAAA 59.048 36.000 0.00 0.00 0.00 3.68
63 64 5.509498 AGCTATTGACCCAAATTAGAGCAA 58.491 37.500 0.00 0.00 0.00 3.91
64 65 5.116084 AGCTATTGACCCAAATTAGAGCA 57.884 39.130 0.00 0.00 0.00 4.26
65 66 6.203723 CACTAGCTATTGACCCAAATTAGAGC 59.796 42.308 5.16 0.00 0.00 4.09
66 67 7.439655 GTCACTAGCTATTGACCCAAATTAGAG 59.560 40.741 25.99 0.36 36.85 2.43
67 68 7.272978 GTCACTAGCTATTGACCCAAATTAGA 58.727 38.462 25.99 0.00 36.85 2.10
68 69 7.484035 GTCACTAGCTATTGACCCAAATTAG 57.516 40.000 25.99 1.34 36.85 1.73
77 78 4.811557 GGTTGATGGTCACTAGCTATTGAC 59.188 45.833 27.54 27.54 41.28 3.18
78 79 4.469586 TGGTTGATGGTCACTAGCTATTGA 59.530 41.667 9.56 9.56 0.00 2.57
79 80 4.769688 TGGTTGATGGTCACTAGCTATTG 58.230 43.478 4.75 4.75 0.00 1.90
80 81 5.636903 ATGGTTGATGGTCACTAGCTATT 57.363 39.130 0.00 0.00 0.00 1.73
81 82 5.367937 AGAATGGTTGATGGTCACTAGCTAT 59.632 40.000 0.00 0.00 0.00 2.97
82 83 4.716784 AGAATGGTTGATGGTCACTAGCTA 59.283 41.667 0.00 0.00 0.00 3.32
83 84 3.521126 AGAATGGTTGATGGTCACTAGCT 59.479 43.478 0.00 0.00 0.00 3.32
84 85 3.878778 AGAATGGTTGATGGTCACTAGC 58.121 45.455 0.00 0.00 0.00 3.42
85 86 5.104941 TGGTAGAATGGTTGATGGTCACTAG 60.105 44.000 0.00 0.00 0.00 2.57
86 87 4.780554 TGGTAGAATGGTTGATGGTCACTA 59.219 41.667 0.00 0.00 0.00 2.74
87 88 3.587061 TGGTAGAATGGTTGATGGTCACT 59.413 43.478 0.00 0.00 0.00 3.41
88 89 3.950397 TGGTAGAATGGTTGATGGTCAC 58.050 45.455 0.00 0.00 0.00 3.67
89 90 4.525996 CATGGTAGAATGGTTGATGGTCA 58.474 43.478 0.00 0.00 0.00 4.02
90 91 3.885297 CCATGGTAGAATGGTTGATGGTC 59.115 47.826 2.57 0.00 41.98 4.02
91 92 3.902218 CCATGGTAGAATGGTTGATGGT 58.098 45.455 2.57 0.00 41.98 3.55
178 179 9.297586 CATTTCATCATCGACAAATCAAATTCT 57.702 29.630 0.00 0.00 0.00 2.40
179 180 9.292846 TCATTTCATCATCGACAAATCAAATTC 57.707 29.630 0.00 0.00 0.00 2.17
180 181 9.642327 TTCATTTCATCATCGACAAATCAAATT 57.358 25.926 0.00 0.00 0.00 1.82
181 182 9.642327 TTTCATTTCATCATCGACAAATCAAAT 57.358 25.926 0.00 0.00 0.00 2.32
182 183 9.642327 ATTTCATTTCATCATCGACAAATCAAA 57.358 25.926 0.00 0.00 0.00 2.69
233 234 7.400599 ACTGCATGAGACATATGTGATTTTT 57.599 32.000 14.43 0.00 0.00 1.94
234 235 7.400599 AACTGCATGAGACATATGTGATTTT 57.599 32.000 14.43 0.00 0.00 1.82
235 236 7.400599 AAACTGCATGAGACATATGTGATTT 57.599 32.000 14.43 0.00 0.00 2.17
236 237 7.400599 AAAACTGCATGAGACATATGTGATT 57.599 32.000 14.43 0.00 0.00 2.57
237 238 6.039047 GGAAAACTGCATGAGACATATGTGAT 59.961 38.462 14.43 0.91 0.00 3.06
238 239 5.355071 GGAAAACTGCATGAGACATATGTGA 59.645 40.000 14.43 0.00 0.00 3.58
239 240 5.356190 AGGAAAACTGCATGAGACATATGTG 59.644 40.000 14.43 0.00 0.00 3.21
240 241 5.503927 AGGAAAACTGCATGAGACATATGT 58.496 37.500 8.43 8.43 0.00 2.29
241 242 6.446781 AAGGAAAACTGCATGAGACATATG 57.553 37.500 0.00 0.00 0.00 1.78
242 243 8.757982 AATAAGGAAAACTGCATGAGACATAT 57.242 30.769 0.00 0.00 0.00 1.78
243 244 7.283127 GGAATAAGGAAAACTGCATGAGACATA 59.717 37.037 0.00 0.00 0.00 2.29
244 245 6.096001 GGAATAAGGAAAACTGCATGAGACAT 59.904 38.462 0.00 0.00 0.00 3.06
245 246 5.415701 GGAATAAGGAAAACTGCATGAGACA 59.584 40.000 0.00 0.00 0.00 3.41
246 247 5.649831 AGGAATAAGGAAAACTGCATGAGAC 59.350 40.000 0.00 0.00 0.00 3.36
247 248 5.819991 AGGAATAAGGAAAACTGCATGAGA 58.180 37.500 0.00 0.00 0.00 3.27
248 249 7.337942 AGTTAGGAATAAGGAAAACTGCATGAG 59.662 37.037 0.00 0.00 0.00 2.90
249 250 7.175104 AGTTAGGAATAAGGAAAACTGCATGA 58.825 34.615 0.00 0.00 0.00 3.07
250 251 7.396540 AGTTAGGAATAAGGAAAACTGCATG 57.603 36.000 0.00 0.00 0.00 4.06
251 252 9.528489 TTTAGTTAGGAATAAGGAAAACTGCAT 57.472 29.630 0.00 0.00 0.00 3.96
252 253 8.927675 TTTAGTTAGGAATAAGGAAAACTGCA 57.072 30.769 0.00 0.00 0.00 4.41
335 336 5.987347 GCGCCTAAGTATGTAAACCATCTAA 59.013 40.000 0.00 0.00 34.86 2.10
336 337 5.510179 GGCGCCTAAGTATGTAAACCATCTA 60.510 44.000 22.15 0.00 34.86 1.98
341 342 2.908916 TGGCGCCTAAGTATGTAAACC 58.091 47.619 29.70 0.00 0.00 3.27
342 343 5.051816 TGTATGGCGCCTAAGTATGTAAAC 58.948 41.667 29.70 7.63 0.00 2.01
375 376 9.752961 TCATTGGCATTCATTCATAAATTAGTG 57.247 29.630 0.00 0.00 0.00 2.74
437 452 7.064609 CGAGCTTGACTATTTTCCATGTTTCTA 59.935 37.037 0.00 0.00 0.00 2.10
564 580 5.226194 ACAGATCCTCAGATAAATCCAGC 57.774 43.478 0.00 0.00 30.90 4.85
567 583 9.434420 CTATGAAACAGATCCTCAGATAAATCC 57.566 37.037 0.00 0.00 30.90 3.01
583 599 7.041508 GCCACCAGATAATCTTCTATGAAACAG 60.042 40.741 0.00 0.00 0.00 3.16
635 651 8.950208 ATGTAAAACTTTATCTACCTCTGCTC 57.050 34.615 0.00 0.00 0.00 4.26
652 671 8.516234 TGGTACACCATCACATTTATGTAAAAC 58.484 33.333 0.00 0.00 42.01 2.43
807 826 9.982651 TGACAAGGTAGATCATAATAGCTAAAC 57.017 33.333 0.00 0.00 0.00 2.01
906 925 0.683412 AACCTTCGGCGACCTACTTT 59.317 50.000 10.16 0.00 0.00 2.66
911 930 1.406477 GGATAAAACCTTCGGCGACCT 60.406 52.381 10.16 0.00 0.00 3.85
1014 1033 2.483889 GCTAACATACTGGGACTGCTCC 60.484 54.545 0.00 0.00 35.50 4.70
1030 1049 4.629634 GCCAACACCCATTTTTATGCTAAC 59.370 41.667 0.00 0.00 0.00 2.34
1033 1052 2.636893 TGCCAACACCCATTTTTATGCT 59.363 40.909 0.00 0.00 0.00 3.79
1038 1057 5.012975 AGTTATGATGCCAACACCCATTTTT 59.987 36.000 0.00 0.00 0.00 1.94
1039 1058 4.531732 AGTTATGATGCCAACACCCATTTT 59.468 37.500 0.00 0.00 0.00 1.82
1045 1064 2.825532 ACCAAGTTATGATGCCAACACC 59.174 45.455 0.00 0.00 0.00 4.16
1046 1065 3.255642 ACACCAAGTTATGATGCCAACAC 59.744 43.478 0.00 0.00 0.00 3.32
1134 1153 5.817296 TGTATATTGCTCATCACTGTCCAAC 59.183 40.000 0.00 0.00 0.00 3.77
1234 1255 4.561326 GCAAATGGCATTAAGTGACCTTGT 60.561 41.667 14.05 0.00 43.97 3.16
1254 1275 2.357327 GCAACATCTCAGCATTGCAA 57.643 45.000 11.91 0.00 45.38 4.08
1324 1345 4.701956 AATTAGGATTGTGCGAACCAAG 57.298 40.909 0.00 0.00 0.00 3.61
1325 1346 6.119536 AGATAATTAGGATTGTGCGAACCAA 58.880 36.000 0.00 0.00 0.00 3.67
1390 1414 2.628178 CACGGATACCCATGCTCTCTAA 59.372 50.000 0.00 0.00 0.00 2.10
1394 1418 1.043816 CTCACGGATACCCATGCTCT 58.956 55.000 0.00 0.00 0.00 4.09
1505 1529 6.119144 TGTTCAAGCACTTTAGTTGACTTC 57.881 37.500 0.00 0.00 29.97 3.01
1515 1539 4.717233 TTCACACATGTTCAAGCACTTT 57.283 36.364 0.00 0.00 0.00 2.66
1530 1554 4.504097 GGCACTTCAATTTCTGTTTCACAC 59.496 41.667 0.00 0.00 0.00 3.82
1613 1637 2.945668 AGTTCTGTCACAAAGTTGGAGC 59.054 45.455 0.00 0.00 0.00 4.70
1803 1834 1.203440 AGGACATACTGTTCCCAGGGT 60.203 52.381 5.01 0.00 43.36 4.34
1867 1927 2.905415 TTGATCCTTGCCATCAACCT 57.095 45.000 0.00 0.00 35.71 3.50
1870 1930 2.024177 TGGGATTGATCCTTGCCATCAA 60.024 45.455 9.73 0.00 46.35 2.57
1977 2037 0.464036 ACCACGTGTTCAGCTCAAGA 59.536 50.000 15.65 0.00 0.00 3.02
2052 2115 0.820871 GGGTTGCTGGTGTGTTGAAA 59.179 50.000 0.00 0.00 0.00 2.69
2063 2126 1.455383 AAACGAGCCAAGGGTTGCTG 61.455 55.000 5.46 0.00 38.11 4.41
2070 2133 1.160137 CCTCTTGAAACGAGCCAAGG 58.840 55.000 12.63 0.00 39.98 3.61
2163 2226 3.850173 TCCCTAGGCTACCAAAGTCAAAT 59.150 43.478 2.05 0.00 29.52 2.32
2203 2266 5.008019 GGGCATATAAAGTGACTGTGACATG 59.992 44.000 0.00 0.00 0.00 3.21
2239 2302 7.710676 TCACCATTTTGCTAGCCTTTTTATA 57.289 32.000 13.29 0.00 0.00 0.98
2244 2307 3.306294 GCTTCACCATTTTGCTAGCCTTT 60.306 43.478 13.29 0.00 0.00 3.11
2252 2315 0.597118 TGCACGCTTCACCATTTTGC 60.597 50.000 0.00 0.00 0.00 3.68
2253 2316 1.850377 TTGCACGCTTCACCATTTTG 58.150 45.000 0.00 0.00 0.00 2.44
2319 2385 2.101582 CCTCCGACTCCAGTCCTTTATG 59.898 54.545 1.01 0.00 41.86 1.90
2791 2996 3.008330 CACTGCAAGCTTAGCTCAATCT 58.992 45.455 7.36 0.00 38.25 2.40
2809 3014 2.029288 CCGCACGTGAAGATGCACT 61.029 57.895 22.23 0.00 42.17 4.40
2828 3036 5.664815 ACACATAGAGAGGGAGGTATGTA 57.335 43.478 0.00 0.00 34.95 2.29
2831 3061 5.386924 GTGTACACATAGAGAGGGAGGTAT 58.613 45.833 21.14 0.00 0.00 2.73
2834 3064 2.959707 GGTGTACACATAGAGAGGGAGG 59.040 54.545 26.51 0.00 0.00 4.30
2838 3068 6.547880 ACAGATAAGGTGTACACATAGAGAGG 59.452 42.308 26.51 11.44 0.00 3.69
2839 3069 7.575414 ACAGATAAGGTGTACACATAGAGAG 57.425 40.000 26.51 13.17 0.00 3.20
2841 3172 9.436957 AAAAACAGATAAGGTGTACACATAGAG 57.563 33.333 26.51 12.23 0.00 2.43
2881 3237 2.367241 TGACTGGCAACTGCTGTTACTA 59.633 45.455 8.79 0.60 41.70 1.82
2951 3322 7.461182 TGGTTACTGTTTAAAATGATGGGAG 57.539 36.000 0.00 0.00 0.00 4.30
3318 5183 7.112452 ACTACAAAAGGCAGAGAAACATTTT 57.888 32.000 0.00 0.00 0.00 1.82
3319 5184 6.715347 ACTACAAAAGGCAGAGAAACATTT 57.285 33.333 0.00 0.00 0.00 2.32
3320 5185 7.817418 TTACTACAAAAGGCAGAGAAACATT 57.183 32.000 0.00 0.00 0.00 2.71
3321 5186 7.094205 CCATTACTACAAAAGGCAGAGAAACAT 60.094 37.037 0.00 0.00 0.00 2.71
3327 5192 5.734720 TCTCCATTACTACAAAAGGCAGAG 58.265 41.667 0.00 0.00 0.00 3.35
3328 5193 5.755409 TCTCCATTACTACAAAAGGCAGA 57.245 39.130 0.00 0.00 0.00 4.26
3460 5398 4.717280 ACCCAAGATACAAACCCAAACAAA 59.283 37.500 0.00 0.00 0.00 2.83
3516 5460 6.155827 CCAAAACTCAAAGAACAAGACACAA 58.844 36.000 0.00 0.00 0.00 3.33
3533 5477 5.492895 CCCACTAAACCAAAAACCAAAACT 58.507 37.500 0.00 0.00 0.00 2.66
3622 5566 0.804364 CGGCTATGCAACAAGAAGCA 59.196 50.000 0.00 0.00 45.92 3.91
3628 5572 1.377987 GGGACCGGCTATGCAACAA 60.378 57.895 0.00 0.00 0.00 2.83


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

AutoCloner maintained by Alex Coulton.