Multiple sequence alignment - TraesCS5D01G238700

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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 TraesCS5D01G238700 chr5D 100.000 2525 0 0 1 2525 346690389 346687865 0.000000e+00 4663.0
1 TraesCS5D01G238700 chr5D 93.750 64 4 0 1934 1997 346688396 346688333 2.070000e-16 97.1
2 TraesCS5D01G238700 chr5D 93.750 64 4 0 1994 2057 346688456 346688393 2.070000e-16 97.1
3 TraesCS5D01G238700 chr5B 89.386 1140 59 26 544 1635 404183040 404184165 0.000000e+00 1378.0
4 TraesCS5D01G238700 chr5B 82.376 505 77 9 2000 2497 420473087 420472588 1.790000e-116 429.0
5 TraesCS5D01G238700 chr5B 90.196 255 18 4 224 474 404181014 404181265 2.420000e-85 326.0
6 TraesCS5D01G238700 chr5B 92.941 85 6 0 462 546 404182906 404182990 9.480000e-25 124.0
7 TraesCS5D01G238700 chr5A 93.764 898 43 11 859 1747 444890954 444891847 0.000000e+00 1336.0
8 TraesCS5D01G238700 chr5A 92.976 541 25 5 1994 2523 444895616 444896154 0.000000e+00 776.0
9 TraesCS5D01G238700 chr5A 92.750 400 23 5 1456 1853 444894592 444894987 7.830000e-160 573.0
10 TraesCS5D01G238700 chr5A 81.413 538 69 10 1994 2525 17382078 17382590 6.500000e-111 411.0
11 TraesCS5D01G238700 chr5A 93.082 159 10 1 381 538 444890152 444890310 5.430000e-57 231.0
12 TraesCS5D01G238700 chr5A 83.673 196 29 2 32 225 669120997 669121191 5.550000e-42 182.0
13 TraesCS5D01G238700 chr5A 95.283 106 5 0 293 398 444889968 444890073 4.320000e-38 169.0
14 TraesCS5D01G238700 chr5A 89.552 134 8 2 1849 1976 444895525 444895658 5.590000e-37 165.0
15 TraesCS5D01G238700 chr4D 86.008 486 64 3 1999 2481 236455852 236455368 3.720000e-143 518.0
16 TraesCS5D01G238700 chr1D 83.686 472 70 6 2001 2469 216531474 216531007 2.980000e-119 438.0
17 TraesCS5D01G238700 chr1A 90.132 152 12 2 1994 2145 277079646 277079498 7.130000e-46 195.0
18 TraesCS5D01G238700 chr4B 84.184 196 28 2 32 225 136674808 136675002 1.190000e-43 187.0
19 TraesCS5D01G238700 chr2B 84.184 196 28 2 32 225 717767739 717767545 1.190000e-43 187.0
20 TraesCS5D01G238700 chr2B 84.080 201 24 7 10 204 752824690 752824492 1.190000e-43 187.0
21 TraesCS5D01G238700 chr3D 81.624 234 34 3 1 225 29810442 29810209 4.290000e-43 185.0
22 TraesCS5D01G238700 chr1B 81.624 234 34 3 1 225 556064973 556065206 4.290000e-43 185.0
23 TraesCS5D01G238700 chr1B 83.163 196 30 2 32 225 655851105 655850911 2.580000e-40 176.0
24 TraesCS5D01G238700 chr3B 83.163 196 30 2 32 225 115239477 115239283 2.580000e-40 176.0
25 TraesCS5D01G238700 chr4A 80.769 234 36 3 1 225 476953595 476953362 9.280000e-40 174.0
26 TraesCS5D01G238700 chr7D 85.821 134 16 3 2027 2159 313852345 313852214 3.390000e-29 139.0
27 TraesCS5D01G238700 chr7A 85.821 134 16 3 2027 2159 344084893 344084762 3.390000e-29 139.0
28 TraesCS5D01G238700 chr2D 86.441 59 7 1 1894 1952 285348116 285348059 2.100000e-06 63.9


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 TraesCS5D01G238700 chr5D 346687865 346690389 2524 True 1619.066667 4663 95.833333 1 2525 3 chr5D.!!$R1 2524
1 TraesCS5D01G238700 chr5B 404181014 404184165 3151 False 609.333333 1378 90.841000 224 1635 3 chr5B.!!$F1 1411
2 TraesCS5D01G238700 chr5A 444889968 444896154 6186 False 541.666667 1336 92.901167 293 2523 6 chr5A.!!$F3 2230
3 TraesCS5D01G238700 chr5A 17382078 17382590 512 False 411.000000 411 81.413000 1994 2525 1 chr5A.!!$F1 531

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
20 21 0.100682 GTGCGCTCGTCTTATGGAGA 59.899 55.0 9.73 0.0 31.9 3.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1590 3703 0.538746 GGCCGGAAAAAGGACAAGGA 60.539 55.0 5.05 0.0 36.59 3.36 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
17 18 3.706140 GGTGCGCTCGTCTTATGG 58.294 61.111 9.73 0.00 0.00 2.74
18 19 1.141019 GGTGCGCTCGTCTTATGGA 59.859 57.895 9.73 0.00 0.00 3.41
19 20 0.872021 GGTGCGCTCGTCTTATGGAG 60.872 60.000 9.73 0.00 0.00 3.86
20 21 0.100682 GTGCGCTCGTCTTATGGAGA 59.899 55.000 9.73 0.00 31.90 3.71
21 22 1.032794 TGCGCTCGTCTTATGGAGAT 58.967 50.000 9.73 0.00 36.61 2.75
22 23 1.409064 TGCGCTCGTCTTATGGAGATT 59.591 47.619 9.73 0.00 36.61 2.40
23 24 2.159099 TGCGCTCGTCTTATGGAGATTT 60.159 45.455 9.73 0.00 36.61 2.17
24 25 3.067601 TGCGCTCGTCTTATGGAGATTTA 59.932 43.478 9.73 0.00 36.61 1.40
25 26 3.670991 GCGCTCGTCTTATGGAGATTTAG 59.329 47.826 0.00 0.00 36.61 1.85
26 27 3.670991 CGCTCGTCTTATGGAGATTTAGC 59.329 47.826 0.00 0.00 36.61 3.09
27 28 4.621991 GCTCGTCTTATGGAGATTTAGCA 58.378 43.478 0.00 0.00 36.77 3.49
28 29 4.446051 GCTCGTCTTATGGAGATTTAGCAC 59.554 45.833 0.00 0.00 36.77 4.40
29 30 4.607955 TCGTCTTATGGAGATTTAGCACG 58.392 43.478 0.00 0.00 36.61 5.34
30 31 4.337274 TCGTCTTATGGAGATTTAGCACGA 59.663 41.667 0.00 0.00 36.61 4.35
31 32 4.441415 CGTCTTATGGAGATTTAGCACGAC 59.559 45.833 0.00 0.00 36.61 4.34
32 33 4.441415 GTCTTATGGAGATTTAGCACGACG 59.559 45.833 0.00 0.00 36.61 5.12
33 34 4.337274 TCTTATGGAGATTTAGCACGACGA 59.663 41.667 0.00 0.00 0.00 4.20
34 35 2.273370 TGGAGATTTAGCACGACGAC 57.727 50.000 0.00 0.00 0.00 4.34
35 36 1.816835 TGGAGATTTAGCACGACGACT 59.183 47.619 0.00 0.59 0.00 4.18
36 37 2.230508 TGGAGATTTAGCACGACGACTT 59.769 45.455 0.00 0.00 0.00 3.01
37 38 3.251571 GGAGATTTAGCACGACGACTTT 58.748 45.455 0.00 0.00 0.00 2.66
38 39 3.303760 GGAGATTTAGCACGACGACTTTC 59.696 47.826 0.00 0.00 0.00 2.62
39 40 4.167268 GAGATTTAGCACGACGACTTTCT 58.833 43.478 0.00 2.60 0.00 2.52
40 41 4.167268 AGATTTAGCACGACGACTTTCTC 58.833 43.478 0.00 0.00 0.00 2.87
41 42 3.358707 TTTAGCACGACGACTTTCTCA 57.641 42.857 0.00 0.00 0.00 3.27
42 43 2.327081 TAGCACGACGACTTTCTCAC 57.673 50.000 0.00 0.00 0.00 3.51
43 44 0.669077 AGCACGACGACTTTCTCACT 59.331 50.000 0.00 0.00 0.00 3.41
44 45 1.878088 AGCACGACGACTTTCTCACTA 59.122 47.619 0.00 0.00 0.00 2.74
45 46 2.292569 AGCACGACGACTTTCTCACTAA 59.707 45.455 0.00 0.00 0.00 2.24
46 47 2.404361 GCACGACGACTTTCTCACTAAC 59.596 50.000 0.00 0.00 0.00 2.34
47 48 3.624900 CACGACGACTTTCTCACTAACA 58.375 45.455 0.00 0.00 0.00 2.41
48 49 4.039703 CACGACGACTTTCTCACTAACAA 58.960 43.478 0.00 0.00 0.00 2.83
49 50 4.146616 CACGACGACTTTCTCACTAACAAG 59.853 45.833 0.00 0.00 0.00 3.16
50 51 4.201990 ACGACGACTTTCTCACTAACAAGT 60.202 41.667 0.00 0.00 32.02 3.16
51 52 4.738740 CGACGACTTTCTCACTAACAAGTT 59.261 41.667 0.00 0.00 29.43 2.66
52 53 5.331607 CGACGACTTTCTCACTAACAAGTTG 60.332 44.000 0.00 0.00 36.89 3.16
53 54 5.416947 ACGACTTTCTCACTAACAAGTTGT 58.583 37.500 1.64 1.64 38.51 3.32
54 55 5.291128 ACGACTTTCTCACTAACAAGTTGTG 59.709 40.000 9.79 0.07 40.75 3.33
55 56 5.485662 ACTTTCTCACTAACAAGTTGTGC 57.514 39.130 9.79 0.00 0.00 4.57
56 57 4.335594 ACTTTCTCACTAACAAGTTGTGCC 59.664 41.667 9.79 0.00 0.00 5.01
57 58 2.846193 TCTCACTAACAAGTTGTGCCC 58.154 47.619 9.79 0.00 0.00 5.36
58 59 2.171659 TCTCACTAACAAGTTGTGCCCA 59.828 45.455 9.79 0.00 0.00 5.36
59 60 2.948979 CTCACTAACAAGTTGTGCCCAA 59.051 45.455 9.79 0.00 0.00 4.12
66 67 2.335011 GTTGTGCCCAACTTCGGC 59.665 61.111 4.66 0.00 46.07 5.54
71 72 2.644992 GCCCAACTTCGGCAACAG 59.355 61.111 0.00 0.00 46.27 3.16
72 73 1.896660 GCCCAACTTCGGCAACAGA 60.897 57.895 0.00 0.00 46.27 3.41
73 74 1.856265 GCCCAACTTCGGCAACAGAG 61.856 60.000 0.00 0.00 46.27 3.35
74 75 1.237285 CCCAACTTCGGCAACAGAGG 61.237 60.000 0.00 0.00 0.00 3.69
75 76 1.237285 CCAACTTCGGCAACAGAGGG 61.237 60.000 0.00 0.00 0.00 4.30
76 77 1.073199 AACTTCGGCAACAGAGGGG 59.927 57.895 0.00 0.00 0.00 4.79
77 78 2.747855 CTTCGGCAACAGAGGGGC 60.748 66.667 0.00 0.00 0.00 5.80
81 82 2.825836 GGCAACAGAGGGGCGATG 60.826 66.667 0.00 0.00 0.00 3.84
82 83 2.268920 GCAACAGAGGGGCGATGA 59.731 61.111 0.00 0.00 0.00 2.92
83 84 2.109126 GCAACAGAGGGGCGATGAC 61.109 63.158 0.00 0.00 0.00 3.06
84 85 1.811266 CAACAGAGGGGCGATGACG 60.811 63.158 0.00 0.00 42.93 4.35
85 86 3.019003 AACAGAGGGGCGATGACGG 62.019 63.158 0.00 0.00 40.15 4.79
106 107 3.807538 CGCGCCTTCAGCATGCTT 61.808 61.111 19.98 0.00 44.04 3.91
107 108 2.101770 GCGCCTTCAGCATGCTTC 59.898 61.111 19.98 4.11 44.04 3.86
108 109 2.693762 GCGCCTTCAGCATGCTTCA 61.694 57.895 19.98 4.46 44.04 3.02
109 110 1.428219 CGCCTTCAGCATGCTTCAG 59.572 57.895 19.98 16.27 44.04 3.02
110 111 1.303799 CGCCTTCAGCATGCTTCAGT 61.304 55.000 19.98 0.00 44.04 3.41
111 112 0.170561 GCCTTCAGCATGCTTCAGTG 59.829 55.000 19.98 7.60 42.97 3.66
112 113 0.170561 CCTTCAGCATGCTTCAGTGC 59.829 55.000 19.98 0.00 41.57 4.40
120 121 4.465040 GCATGCTTCAGTGCTTATAGTC 57.535 45.455 11.37 0.00 38.30 2.59
121 122 3.060003 GCATGCTTCAGTGCTTATAGTCG 60.060 47.826 11.37 0.00 38.30 4.18
122 123 3.868757 TGCTTCAGTGCTTATAGTCGT 57.131 42.857 0.00 0.00 0.00 4.34
123 124 3.770666 TGCTTCAGTGCTTATAGTCGTC 58.229 45.455 0.00 0.00 0.00 4.20
124 125 3.192633 TGCTTCAGTGCTTATAGTCGTCA 59.807 43.478 0.00 0.00 0.00 4.35
125 126 3.548268 GCTTCAGTGCTTATAGTCGTCAC 59.452 47.826 0.00 0.00 0.00 3.67
126 127 4.675671 GCTTCAGTGCTTATAGTCGTCACT 60.676 45.833 0.00 0.00 38.40 3.41
127 128 5.448768 GCTTCAGTGCTTATAGTCGTCACTA 60.449 44.000 0.00 0.00 39.54 2.74
128 129 5.736486 TCAGTGCTTATAGTCGTCACTAG 57.264 43.478 0.00 0.00 38.56 2.57
129 130 4.575236 TCAGTGCTTATAGTCGTCACTAGG 59.425 45.833 0.00 0.00 38.56 3.02
130 131 4.335874 CAGTGCTTATAGTCGTCACTAGGT 59.664 45.833 0.00 0.00 38.56 3.08
131 132 4.335874 AGTGCTTATAGTCGTCACTAGGTG 59.664 45.833 0.00 0.00 38.56 4.00
132 133 3.630769 TGCTTATAGTCGTCACTAGGTGG 59.369 47.826 0.00 0.00 38.56 4.61
133 134 3.631227 GCTTATAGTCGTCACTAGGTGGT 59.369 47.826 0.00 0.00 38.56 4.16
134 135 4.097589 GCTTATAGTCGTCACTAGGTGGTT 59.902 45.833 0.00 0.00 38.56 3.67
135 136 5.393896 GCTTATAGTCGTCACTAGGTGGTTT 60.394 44.000 0.00 0.00 38.56 3.27
136 137 6.183360 GCTTATAGTCGTCACTAGGTGGTTTA 60.183 42.308 0.00 0.00 38.56 2.01
137 138 7.469732 GCTTATAGTCGTCACTAGGTGGTTTAT 60.470 40.741 0.00 0.00 38.56 1.40
138 139 4.451629 AGTCGTCACTAGGTGGTTTATG 57.548 45.455 0.00 0.00 33.87 1.90
139 140 4.084287 AGTCGTCACTAGGTGGTTTATGA 58.916 43.478 0.00 0.00 33.87 2.15
140 141 4.525487 AGTCGTCACTAGGTGGTTTATGAA 59.475 41.667 0.00 0.00 33.87 2.57
141 142 5.187186 AGTCGTCACTAGGTGGTTTATGAAT 59.813 40.000 0.00 0.00 33.87 2.57
142 143 5.519206 GTCGTCACTAGGTGGTTTATGAATC 59.481 44.000 0.00 0.00 33.87 2.52
143 144 5.421056 TCGTCACTAGGTGGTTTATGAATCT 59.579 40.000 0.00 0.00 33.87 2.40
144 145 5.520288 CGTCACTAGGTGGTTTATGAATCTG 59.480 44.000 0.00 0.00 33.87 2.90
145 146 6.627287 CGTCACTAGGTGGTTTATGAATCTGA 60.627 42.308 0.00 0.00 33.87 3.27
146 147 7.103641 GTCACTAGGTGGTTTATGAATCTGAA 58.896 38.462 0.00 0.00 33.87 3.02
147 148 7.770897 GTCACTAGGTGGTTTATGAATCTGAAT 59.229 37.037 0.00 0.00 33.87 2.57
148 149 7.770433 TCACTAGGTGGTTTATGAATCTGAATG 59.230 37.037 0.00 0.00 33.87 2.67
149 150 7.554118 CACTAGGTGGTTTATGAATCTGAATGT 59.446 37.037 0.00 0.00 0.00 2.71
150 151 8.768397 ACTAGGTGGTTTATGAATCTGAATGTA 58.232 33.333 0.00 0.00 0.00 2.29
151 152 9.784531 CTAGGTGGTTTATGAATCTGAATGTAT 57.215 33.333 0.00 0.00 0.00 2.29
153 154 9.479549 AGGTGGTTTATGAATCTGAATGTATTT 57.520 29.630 0.00 0.00 0.00 1.40
208 209 9.856162 TCATGATTGAAGATGAATAGATTGGAA 57.144 29.630 0.00 0.00 0.00 3.53
214 215 9.590451 TTGAAGATGAATAGATTGGAAATTTGC 57.410 29.630 2.22 2.22 0.00 3.68
215 216 8.974238 TGAAGATGAATAGATTGGAAATTTGCT 58.026 29.630 11.22 0.00 0.00 3.91
216 217 9.245962 GAAGATGAATAGATTGGAAATTTGCTG 57.754 33.333 11.22 0.00 0.00 4.41
217 218 7.723324 AGATGAATAGATTGGAAATTTGCTGG 58.277 34.615 11.22 0.00 0.00 4.85
218 219 6.224665 TGAATAGATTGGAAATTTGCTGGG 57.775 37.500 11.22 0.00 0.00 4.45
219 220 5.957168 TGAATAGATTGGAAATTTGCTGGGA 59.043 36.000 11.22 0.00 0.00 4.37
220 221 6.440010 TGAATAGATTGGAAATTTGCTGGGAA 59.560 34.615 11.22 0.00 0.00 3.97
221 222 6.872585 ATAGATTGGAAATTTGCTGGGAAA 57.127 33.333 11.22 0.00 0.00 3.13
222 223 5.565455 AGATTGGAAATTTGCTGGGAAAA 57.435 34.783 11.22 0.00 0.00 2.29
223 224 5.939447 AGATTGGAAATTTGCTGGGAAAAA 58.061 33.333 11.22 0.00 0.00 1.94
251 252 0.994995 CAAGCATTCTCTCACGTCCG 59.005 55.000 0.00 0.00 0.00 4.79
268 269 2.886124 GCTGGCGCGAAGACCTAC 60.886 66.667 12.10 0.00 0.00 3.18
269 270 2.571757 CTGGCGCGAAGACCTACA 59.428 61.111 12.10 0.00 0.00 2.74
270 271 1.805945 CTGGCGCGAAGACCTACAC 60.806 63.158 12.10 0.00 0.00 2.90
359 363 1.228124 CCAACCTTCCTTCACGCCA 60.228 57.895 0.00 0.00 0.00 5.69
388 392 4.975132 CCACCAGGTCACACACAA 57.025 55.556 0.00 0.00 0.00 3.33
398 402 1.461512 GTCACACACAAACACACACGA 59.538 47.619 0.00 0.00 0.00 4.35
495 2247 6.939551 AATCAAATCAAAATTCAGTCGCAG 57.060 33.333 0.00 0.00 0.00 5.18
498 2250 6.144854 TCAAATCAAAATTCAGTCGCAGAAG 58.855 36.000 0.00 0.00 39.69 2.85
561 2366 1.377202 GAGGCTGCGTGGAATTCCA 60.377 57.895 23.63 23.63 45.30 3.53
695 2510 2.053984 CGCGCGACAATTCCATCG 60.054 61.111 28.94 0.00 41.32 3.84
703 2518 2.621338 GACAATTCCATCGCTCTCACA 58.379 47.619 0.00 0.00 0.00 3.58
748 2563 3.047877 GTCCGGCGTTTCCACCAG 61.048 66.667 6.01 0.00 34.01 4.00
794 2609 3.077907 CTCCCGGCTTTCTTCCCA 58.922 61.111 0.00 0.00 0.00 4.37
836 2651 1.429299 CCCCTTCCAACTTCTTTCCCT 59.571 52.381 0.00 0.00 0.00 4.20
849 2664 1.605058 TTTCCCTCCTTCTCGCGAGG 61.605 60.000 33.98 20.73 44.59 4.63
851 2666 3.452786 CCTCCTTCTCGCGAGGCA 61.453 66.667 33.98 20.57 39.36 4.75
855 2670 2.815647 CTTCTCGCGAGGCAACCC 60.816 66.667 33.98 0.00 37.17 4.11
868 2944 3.105283 AGGCAACCCGGGACTATATATC 58.895 50.000 32.02 6.31 35.76 1.63
928 3011 3.698539 AGCGACAATTCTCATCTCAGAGA 59.301 43.478 1.54 1.54 42.62 3.10
932 3015 5.505489 CGACAATTCTCATCTCAGAGACGAT 60.505 44.000 0.91 0.00 43.91 3.73
982 3075 1.490490 AGAGGAAACAGGCACAGACAA 59.510 47.619 0.00 0.00 0.00 3.18
1305 3414 2.440430 TTCGAGGAGGAGGAGGCG 60.440 66.667 0.00 0.00 0.00 5.52
1577 3690 4.022464 TGCTCAATTCGTTTGTTCGTTT 57.978 36.364 0.00 0.00 36.65 3.60
1582 3695 4.492645 TCAATTCGTTTGTTCGTTTGTTCG 59.507 37.500 1.83 0.00 36.65 3.95
1583 3696 3.452466 TTCGTTTGTTCGTTTGTTCGT 57.548 38.095 0.00 0.00 0.00 3.85
1584 3697 3.452466 TCGTTTGTTCGTTTGTTCGTT 57.548 38.095 0.00 0.00 0.00 3.85
1586 3699 3.598668 TCGTTTGTTCGTTTGTTCGTTTG 59.401 39.130 0.00 0.00 0.00 2.93
1587 3700 3.358407 CGTTTGTTCGTTTGTTCGTTTGT 59.642 39.130 0.00 0.00 0.00 2.83
1588 3701 4.143783 CGTTTGTTCGTTTGTTCGTTTGTT 60.144 37.500 0.00 0.00 0.00 2.83
1589 3702 5.291957 GTTTGTTCGTTTGTTCGTTTGTTC 58.708 37.500 0.00 0.00 0.00 3.18
1590 3703 4.407496 TGTTCGTTTGTTCGTTTGTTCT 57.593 36.364 0.00 0.00 0.00 3.01
1591 3704 4.396519 TGTTCGTTTGTTCGTTTGTTCTC 58.603 39.130 0.00 0.00 0.00 2.87
1649 6799 0.944311 ACCGTGCACACAATCTCGTC 60.944 55.000 18.64 0.00 0.00 4.20
1655 6805 3.304559 GTGCACACAATCTCGTCTGTATC 59.695 47.826 13.17 0.00 0.00 2.24
1662 6812 4.651503 ACAATCTCGTCTGTATCCAATCCT 59.348 41.667 0.00 0.00 0.00 3.24
1713 6863 8.427902 TTTAGCACTATATGATGAGATGGAGT 57.572 34.615 0.00 0.00 0.00 3.85
1756 6906 8.160521 TCACTAAATCATTTTTCTTTGACGGA 57.839 30.769 0.00 0.00 0.00 4.69
1781 6931 9.377312 GATTCTATCTTTAGCCATGGTTCTATC 57.623 37.037 14.67 0.00 0.00 2.08
1784 6934 4.693283 TCTTTAGCCATGGTTCTATCGTG 58.307 43.478 14.67 0.00 0.00 4.35
1785 6935 4.161565 TCTTTAGCCATGGTTCTATCGTGT 59.838 41.667 14.67 0.00 0.00 4.49
1821 6973 6.147492 TGCCTTGCATCAAATTTTAATGACAC 59.853 34.615 12.44 0.00 31.71 3.67
1844 6996 1.282875 GCCGAGGCACTTTGTTGTC 59.717 57.895 9.58 0.00 41.55 3.18
1853 7005 4.757149 AGGCACTTTGTTGTCTCATCTAAC 59.243 41.667 0.00 0.00 27.25 2.34
1865 7559 5.038033 GTCTCATCTAACGCTAACTCCAAG 58.962 45.833 0.00 0.00 0.00 3.61
1871 7565 2.046314 GCTAACTCCAAGGCGCCA 60.046 61.111 31.54 6.61 0.00 5.69
1877 7571 1.224592 CTCCAAGGCGCCAACCTAT 59.775 57.895 31.54 2.66 39.93 2.57
1920 7620 1.406539 CCATTTGAGAATTCGGCCAGG 59.593 52.381 2.24 0.00 0.00 4.45
1948 7648 7.016153 TGAACACATCTACCAATCCTAAGTT 57.984 36.000 0.00 0.00 0.00 2.66
1952 7652 7.509546 ACACATCTACCAATCCTAAGTTATGG 58.490 38.462 0.00 0.00 37.19 2.74
1975 7675 3.433343 TGAACGGTGGTAGGATGAACTA 58.567 45.455 0.00 0.00 0.00 2.24
1976 7676 3.194116 TGAACGGTGGTAGGATGAACTAC 59.806 47.826 0.00 0.00 42.00 2.73
1977 7677 2.811410 ACGGTGGTAGGATGAACTACA 58.189 47.619 5.82 0.00 43.99 2.74
1978 7678 3.167485 ACGGTGGTAGGATGAACTACAA 58.833 45.455 5.82 0.00 43.99 2.41
1979 7679 3.579586 ACGGTGGTAGGATGAACTACAAA 59.420 43.478 5.82 0.00 43.99 2.83
1980 7680 4.224370 ACGGTGGTAGGATGAACTACAAAT 59.776 41.667 5.82 0.00 43.99 2.32
1981 7681 4.570772 CGGTGGTAGGATGAACTACAAATG 59.429 45.833 5.82 0.00 43.99 2.32
1982 7682 4.881850 GGTGGTAGGATGAACTACAAATGG 59.118 45.833 5.82 0.00 43.99 3.16
1983 7683 5.338871 GGTGGTAGGATGAACTACAAATGGA 60.339 44.000 5.82 0.00 43.99 3.41
1984 7684 5.585047 GTGGTAGGATGAACTACAAATGGAC 59.415 44.000 5.82 0.00 43.99 4.02
1985 7685 5.249622 TGGTAGGATGAACTACAAATGGACA 59.750 40.000 5.82 0.00 43.99 4.02
1986 7686 6.069673 TGGTAGGATGAACTACAAATGGACAT 60.070 38.462 5.82 0.00 43.99 3.06
1987 7687 7.126573 TGGTAGGATGAACTACAAATGGACATA 59.873 37.037 5.82 0.00 43.99 2.29
1988 7688 7.990886 GGTAGGATGAACTACAAATGGACATAA 59.009 37.037 5.82 0.00 43.99 1.90
1989 7689 9.391006 GTAGGATGAACTACAAATGGACATAAA 57.609 33.333 0.00 0.00 42.24 1.40
1990 7690 8.877864 AGGATGAACTACAAATGGACATAAAA 57.122 30.769 0.00 0.00 0.00 1.52
1991 7691 9.308000 AGGATGAACTACAAATGGACATAAAAA 57.692 29.630 0.00 0.00 0.00 1.94
2018 7718 8.211629 ACTACCAATCCTAAGTTATGGATGAAC 58.788 37.037 7.17 0.00 41.76 3.18
2023 7723 4.468510 TCCTAAGTTATGGATGAACGGTGT 59.531 41.667 0.00 0.00 31.85 4.16
2024 7724 5.046159 TCCTAAGTTATGGATGAACGGTGTT 60.046 40.000 0.00 0.00 31.85 3.32
2025 7725 6.154877 TCCTAAGTTATGGATGAACGGTGTTA 59.845 38.462 0.00 0.00 31.85 2.41
2121 7821 6.162777 GCCTTGTTTCTTATTGCAATGGTAA 58.837 36.000 22.27 11.22 0.00 2.85
2212 7917 1.067295 TTGTCAATGGAGGACCTGCT 58.933 50.000 14.77 0.00 37.04 4.24
2328 8033 2.270874 GACGTCCTCCCGGGGTAGTA 62.271 65.000 23.50 0.00 35.33 1.82
2350 8055 4.077552 TGTTACCCCCTGATACTTACCA 57.922 45.455 0.00 0.00 0.00 3.25
2369 8077 2.224606 CAGCCTCCTTCGGTATACGTA 58.775 52.381 0.00 0.00 44.69 3.57
2376 8084 2.301346 CTTCGGTATACGTAGGGTGGT 58.699 52.381 0.08 0.00 44.69 4.16
2513 8221 3.662759 ACCTTTGTCCCTTTTCTGACA 57.337 42.857 0.00 0.00 39.61 3.58
2517 8225 3.924114 TTGTCCCTTTTCTGACACAGA 57.076 42.857 0.00 0.00 40.96 3.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.872021 CTCCATAAGACGAGCGCACC 60.872 60.000 11.47 0.00 0.00 5.01
1 2 0.100682 TCTCCATAAGACGAGCGCAC 59.899 55.000 11.47 0.96 0.00 5.34
2 3 1.032794 ATCTCCATAAGACGAGCGCA 58.967 50.000 11.47 0.00 36.65 6.09
4 5 3.670991 GCTAAATCTCCATAAGACGAGCG 59.329 47.826 0.00 0.00 36.65 5.03
5 6 4.446051 GTGCTAAATCTCCATAAGACGAGC 59.554 45.833 0.00 0.00 36.65 5.03
6 7 4.677378 CGTGCTAAATCTCCATAAGACGAG 59.323 45.833 0.00 0.00 36.65 4.18
7 8 4.337274 TCGTGCTAAATCTCCATAAGACGA 59.663 41.667 0.00 0.00 36.65 4.20
8 9 4.441415 GTCGTGCTAAATCTCCATAAGACG 59.559 45.833 0.00 0.00 36.65 4.18
9 10 4.441415 CGTCGTGCTAAATCTCCATAAGAC 59.559 45.833 0.00 0.00 36.65 3.01
10 11 4.337274 TCGTCGTGCTAAATCTCCATAAGA 59.663 41.667 0.00 0.00 38.72 2.10
11 12 4.441415 GTCGTCGTGCTAAATCTCCATAAG 59.559 45.833 0.00 0.00 0.00 1.73
12 13 4.097437 AGTCGTCGTGCTAAATCTCCATAA 59.903 41.667 0.00 0.00 0.00 1.90
13 14 3.630769 AGTCGTCGTGCTAAATCTCCATA 59.369 43.478 0.00 0.00 0.00 2.74
14 15 2.427453 AGTCGTCGTGCTAAATCTCCAT 59.573 45.455 0.00 0.00 0.00 3.41
15 16 1.816835 AGTCGTCGTGCTAAATCTCCA 59.183 47.619 0.00 0.00 0.00 3.86
16 17 2.563471 AGTCGTCGTGCTAAATCTCC 57.437 50.000 0.00 0.00 0.00 3.71
17 18 4.167268 AGAAAGTCGTCGTGCTAAATCTC 58.833 43.478 0.00 0.00 0.00 2.75
18 19 4.167268 GAGAAAGTCGTCGTGCTAAATCT 58.833 43.478 0.00 0.00 0.00 2.40
19 20 3.918591 TGAGAAAGTCGTCGTGCTAAATC 59.081 43.478 0.00 0.00 0.00 2.17
20 21 3.673809 GTGAGAAAGTCGTCGTGCTAAAT 59.326 43.478 0.00 0.00 0.00 1.40
21 22 3.047796 GTGAGAAAGTCGTCGTGCTAAA 58.952 45.455 0.00 0.00 0.00 1.85
22 23 2.292569 AGTGAGAAAGTCGTCGTGCTAA 59.707 45.455 0.00 0.00 0.00 3.09
23 24 1.878088 AGTGAGAAAGTCGTCGTGCTA 59.122 47.619 0.00 0.00 0.00 3.49
24 25 0.669077 AGTGAGAAAGTCGTCGTGCT 59.331 50.000 0.00 0.00 0.00 4.40
25 26 2.327081 TAGTGAGAAAGTCGTCGTGC 57.673 50.000 0.00 0.00 0.00 5.34
26 27 3.624900 TGTTAGTGAGAAAGTCGTCGTG 58.375 45.455 0.00 0.00 0.00 4.35
27 28 3.976793 TGTTAGTGAGAAAGTCGTCGT 57.023 42.857 0.00 0.00 0.00 4.34
28 29 4.288531 ACTTGTTAGTGAGAAAGTCGTCG 58.711 43.478 0.00 0.00 31.99 5.12
29 30 5.519206 ACAACTTGTTAGTGAGAAAGTCGTC 59.481 40.000 0.00 0.00 34.01 4.20
30 31 5.291128 CACAACTTGTTAGTGAGAAAGTCGT 59.709 40.000 0.00 0.00 35.33 4.34
31 32 5.728255 CACAACTTGTTAGTGAGAAAGTCG 58.272 41.667 0.00 0.00 35.33 4.18
32 33 5.502606 GCACAACTTGTTAGTGAGAAAGTC 58.497 41.667 15.07 0.00 35.33 3.01
33 34 4.335594 GGCACAACTTGTTAGTGAGAAAGT 59.664 41.667 15.07 0.00 35.33 2.66
34 35 4.261197 GGGCACAACTTGTTAGTGAGAAAG 60.261 45.833 15.07 0.00 35.33 2.62
35 36 3.630312 GGGCACAACTTGTTAGTGAGAAA 59.370 43.478 15.07 0.00 35.33 2.52
36 37 3.211045 GGGCACAACTTGTTAGTGAGAA 58.789 45.455 15.07 0.00 35.33 2.87
37 38 2.171659 TGGGCACAACTTGTTAGTGAGA 59.828 45.455 15.07 2.02 35.33 3.27
38 39 2.571212 TGGGCACAACTTGTTAGTGAG 58.429 47.619 15.07 0.00 35.33 3.51
39 40 2.719531 TGGGCACAACTTGTTAGTGA 57.280 45.000 15.07 0.00 35.33 3.41
55 56 1.237285 CCTCTGTTGCCGAAGTTGGG 61.237 60.000 0.00 0.00 0.00 4.12
56 57 1.237285 CCCTCTGTTGCCGAAGTTGG 61.237 60.000 0.00 0.00 0.00 3.77
57 58 1.237285 CCCCTCTGTTGCCGAAGTTG 61.237 60.000 0.00 0.00 0.00 3.16
58 59 1.073199 CCCCTCTGTTGCCGAAGTT 59.927 57.895 0.00 0.00 0.00 2.66
59 60 2.750350 CCCCTCTGTTGCCGAAGT 59.250 61.111 0.00 0.00 0.00 3.01
60 61 2.747855 GCCCCTCTGTTGCCGAAG 60.748 66.667 0.00 0.00 0.00 3.79
61 62 4.697756 CGCCCCTCTGTTGCCGAA 62.698 66.667 0.00 0.00 0.00 4.30
63 64 4.473520 ATCGCCCCTCTGTTGCCG 62.474 66.667 0.00 0.00 0.00 5.69
64 65 2.825836 CATCGCCCCTCTGTTGCC 60.826 66.667 0.00 0.00 0.00 4.52
65 66 2.109126 GTCATCGCCCCTCTGTTGC 61.109 63.158 0.00 0.00 0.00 4.17
66 67 1.811266 CGTCATCGCCCCTCTGTTG 60.811 63.158 0.00 0.00 0.00 3.33
67 68 2.579201 CGTCATCGCCCCTCTGTT 59.421 61.111 0.00 0.00 0.00 3.16
68 69 3.461773 CCGTCATCGCCCCTCTGT 61.462 66.667 0.00 0.00 35.54 3.41
69 70 4.899239 GCCGTCATCGCCCCTCTG 62.899 72.222 0.00 0.00 35.54 3.35
89 90 3.729906 GAAGCATGCTGAAGGCGCG 62.730 63.158 23.48 0.00 45.43 6.86
90 91 2.101770 GAAGCATGCTGAAGGCGC 59.898 61.111 23.48 0.00 45.43 6.53
91 92 1.303799 ACTGAAGCATGCTGAAGGCG 61.304 55.000 23.48 9.34 45.43 5.52
92 93 0.170561 CACTGAAGCATGCTGAAGGC 59.829 55.000 23.48 9.23 42.22 4.35
93 94 0.170561 GCACTGAAGCATGCTGAAGG 59.829 55.000 23.48 14.06 38.84 3.46
94 95 3.696782 GCACTGAAGCATGCTGAAG 57.303 52.632 23.48 22.71 38.84 3.02
99 100 3.060003 CGACTATAAGCACTGAAGCATGC 60.060 47.826 10.51 10.51 42.39 4.06
100 101 4.115516 ACGACTATAAGCACTGAAGCATG 58.884 43.478 0.00 0.00 36.85 4.06
101 102 4.142160 TGACGACTATAAGCACTGAAGCAT 60.142 41.667 0.00 0.00 36.85 3.79
102 103 3.192633 TGACGACTATAAGCACTGAAGCA 59.807 43.478 0.00 0.00 36.85 3.91
103 104 3.548268 GTGACGACTATAAGCACTGAAGC 59.452 47.826 0.00 0.00 0.00 3.86
104 105 4.987832 AGTGACGACTATAAGCACTGAAG 58.012 43.478 0.00 0.00 38.30 3.02
105 106 5.066117 CCTAGTGACGACTATAAGCACTGAA 59.934 44.000 0.00 0.00 39.84 3.02
106 107 4.575236 CCTAGTGACGACTATAAGCACTGA 59.425 45.833 0.00 0.00 39.84 3.41
107 108 4.335874 ACCTAGTGACGACTATAAGCACTG 59.664 45.833 0.00 0.00 39.84 3.66
108 109 4.335874 CACCTAGTGACGACTATAAGCACT 59.664 45.833 0.00 0.00 42.04 4.40
109 110 4.497674 CCACCTAGTGACGACTATAAGCAC 60.498 50.000 0.00 0.00 35.23 4.40
110 111 3.630769 CCACCTAGTGACGACTATAAGCA 59.369 47.826 0.00 0.00 35.23 3.91
111 112 3.631227 ACCACCTAGTGACGACTATAAGC 59.369 47.826 0.00 0.00 35.23 3.09
112 113 5.831702 AACCACCTAGTGACGACTATAAG 57.168 43.478 0.00 0.00 35.23 1.73
113 114 7.557358 TCATAAACCACCTAGTGACGACTATAA 59.443 37.037 0.00 0.00 35.23 0.98
114 115 7.056006 TCATAAACCACCTAGTGACGACTATA 58.944 38.462 0.00 0.00 35.23 1.31
115 116 5.889853 TCATAAACCACCTAGTGACGACTAT 59.110 40.000 0.00 0.00 35.23 2.12
116 117 5.255687 TCATAAACCACCTAGTGACGACTA 58.744 41.667 0.00 0.00 35.23 2.59
117 118 4.084287 TCATAAACCACCTAGTGACGACT 58.916 43.478 0.00 0.00 35.23 4.18
118 119 4.445452 TCATAAACCACCTAGTGACGAC 57.555 45.455 0.00 0.00 35.23 4.34
119 120 5.421056 AGATTCATAAACCACCTAGTGACGA 59.579 40.000 0.00 0.00 35.23 4.20
120 121 5.520288 CAGATTCATAAACCACCTAGTGACG 59.480 44.000 0.00 0.00 35.23 4.35
121 122 6.640518 TCAGATTCATAAACCACCTAGTGAC 58.359 40.000 0.00 0.00 35.23 3.67
122 123 6.867519 TCAGATTCATAAACCACCTAGTGA 57.132 37.500 0.00 0.00 35.23 3.41
123 124 7.554118 ACATTCAGATTCATAAACCACCTAGTG 59.446 37.037 0.00 0.00 0.00 2.74
124 125 7.633789 ACATTCAGATTCATAAACCACCTAGT 58.366 34.615 0.00 0.00 0.00 2.57
125 126 9.784531 ATACATTCAGATTCATAAACCACCTAG 57.215 33.333 0.00 0.00 0.00 3.02
127 128 9.479549 AAATACATTCAGATTCATAAACCACCT 57.520 29.630 0.00 0.00 0.00 4.00
182 183 9.856162 TTCCAATCTATTCATCTTCAATCATGA 57.144 29.630 0.00 0.00 0.00 3.07
188 189 9.590451 GCAAATTTCCAATCTATTCATCTTCAA 57.410 29.630 0.00 0.00 0.00 2.69
189 190 8.974238 AGCAAATTTCCAATCTATTCATCTTCA 58.026 29.630 0.00 0.00 0.00 3.02
190 191 9.245962 CAGCAAATTTCCAATCTATTCATCTTC 57.754 33.333 0.00 0.00 0.00 2.87
191 192 8.202137 CCAGCAAATTTCCAATCTATTCATCTT 58.798 33.333 0.00 0.00 0.00 2.40
192 193 7.201974 CCCAGCAAATTTCCAATCTATTCATCT 60.202 37.037 0.00 0.00 0.00 2.90
193 194 6.927381 CCCAGCAAATTTCCAATCTATTCATC 59.073 38.462 0.00 0.00 0.00 2.92
194 195 6.612456 TCCCAGCAAATTTCCAATCTATTCAT 59.388 34.615 0.00 0.00 0.00 2.57
195 196 5.957168 TCCCAGCAAATTTCCAATCTATTCA 59.043 36.000 0.00 0.00 0.00 2.57
196 197 6.469782 TCCCAGCAAATTTCCAATCTATTC 57.530 37.500 0.00 0.00 0.00 1.75
197 198 6.872585 TTCCCAGCAAATTTCCAATCTATT 57.127 33.333 0.00 0.00 0.00 1.73
198 199 6.872585 TTTCCCAGCAAATTTCCAATCTAT 57.127 33.333 0.00 0.00 0.00 1.98
199 200 6.678568 TTTTCCCAGCAAATTTCCAATCTA 57.321 33.333 0.00 0.00 0.00 1.98
200 201 5.565455 TTTTCCCAGCAAATTTCCAATCT 57.435 34.783 0.00 0.00 0.00 2.40
220 221 7.758528 GTGAGAGAATGCTTGATAATGCTTTTT 59.241 33.333 0.00 0.00 0.00 1.94
221 222 7.256286 GTGAGAGAATGCTTGATAATGCTTTT 58.744 34.615 0.00 0.00 0.00 2.27
222 223 6.457934 CGTGAGAGAATGCTTGATAATGCTTT 60.458 38.462 0.00 0.00 0.00 3.51
223 224 5.007430 CGTGAGAGAATGCTTGATAATGCTT 59.993 40.000 0.00 0.00 0.00 3.91
224 225 4.510711 CGTGAGAGAATGCTTGATAATGCT 59.489 41.667 0.00 0.00 0.00 3.79
225 226 4.272018 ACGTGAGAGAATGCTTGATAATGC 59.728 41.667 0.00 0.00 0.00 3.56
226 227 5.050499 GGACGTGAGAGAATGCTTGATAATG 60.050 44.000 0.00 0.00 0.00 1.90
227 228 5.053145 GGACGTGAGAGAATGCTTGATAAT 58.947 41.667 0.00 0.00 0.00 1.28
228 229 4.433615 GGACGTGAGAGAATGCTTGATAA 58.566 43.478 0.00 0.00 0.00 1.75
229 230 3.489229 CGGACGTGAGAGAATGCTTGATA 60.489 47.826 0.00 0.00 0.00 2.15
251 252 2.886124 GTAGGTCTTCGCGCCAGC 60.886 66.667 0.00 0.00 40.74 4.85
259 260 2.417719 CAAGCAGTGGTGTAGGTCTTC 58.582 52.381 0.00 0.00 0.00 2.87
362 366 3.638132 ACCTGGTGGTATACGGCC 58.362 61.111 0.00 0.00 46.43 6.13
388 392 7.259290 AGAAAAATTAGACATCGTGTGTGTT 57.741 32.000 1.13 0.00 42.36 3.32
441 541 2.047560 GTACGGTGGTGGACTGGC 60.048 66.667 0.00 0.00 34.90 4.85
495 2247 4.034285 TCCTCCTGGTTGATTTTCCTTC 57.966 45.455 0.00 0.00 34.23 3.46
498 2250 2.826128 GGTTCCTCCTGGTTGATTTTCC 59.174 50.000 0.00 0.00 34.23 3.13
552 2357 1.182385 GGGTTGGCGTTGGAATTCCA 61.182 55.000 23.63 23.63 45.94 3.53
561 2366 4.192453 TCGGTTGGGGTTGGCGTT 62.192 61.111 0.00 0.00 0.00 4.84
603 2408 3.417224 TCGGTCGTCTCGTCACGG 61.417 66.667 0.00 0.00 40.35 4.94
604 2409 2.202146 GTCGGTCGTCTCGTCACG 60.202 66.667 0.00 0.00 41.36 4.35
695 2510 1.569479 GGTTCGTGCCTTGTGAGAGC 61.569 60.000 0.00 0.00 0.00 4.09
815 2630 1.550179 GGGAAAGAAGTTGGAAGGGGG 60.550 57.143 0.00 0.00 0.00 5.40
816 2631 1.429299 AGGGAAAGAAGTTGGAAGGGG 59.571 52.381 0.00 0.00 0.00 4.79
836 2651 2.261671 GTTGCCTCGCGAGAAGGA 59.738 61.111 36.59 19.64 41.32 3.36
849 2664 2.169978 GGGATATATAGTCCCGGGTTGC 59.830 54.545 22.86 12.33 45.47 4.17
857 2672 3.315749 CGAAGGCTCGGGATATATAGTCC 59.684 52.174 0.00 0.00 41.57 3.85
928 3011 1.160137 GGTGCTTGCTTCTTGATCGT 58.840 50.000 0.00 0.00 0.00 3.73
932 3015 1.321474 CCTTGGTGCTTGCTTCTTGA 58.679 50.000 0.00 0.00 0.00 3.02
982 3075 3.117745 TCATCTCCATGTCCATGTCCTT 58.882 45.455 6.53 0.00 37.11 3.36
1381 3490 4.803426 CGACCTCAGCACGCTCCC 62.803 72.222 0.00 0.00 0.00 4.30
1577 3690 2.940410 GGACAAGGAGAACAAACGAACA 59.060 45.455 0.00 0.00 0.00 3.18
1582 3695 5.348986 GGAAAAAGGACAAGGAGAACAAAC 58.651 41.667 0.00 0.00 0.00 2.93
1583 3696 4.097286 CGGAAAAAGGACAAGGAGAACAAA 59.903 41.667 0.00 0.00 0.00 2.83
1584 3697 3.630312 CGGAAAAAGGACAAGGAGAACAA 59.370 43.478 0.00 0.00 0.00 2.83
1586 3699 2.552743 CCGGAAAAAGGACAAGGAGAAC 59.447 50.000 0.00 0.00 0.00 3.01
1587 3700 2.858745 CCGGAAAAAGGACAAGGAGAA 58.141 47.619 0.00 0.00 0.00 2.87
1588 3701 1.544759 GCCGGAAAAAGGACAAGGAGA 60.545 52.381 5.05 0.00 0.00 3.71
1589 3702 0.881796 GCCGGAAAAAGGACAAGGAG 59.118 55.000 5.05 0.00 0.00 3.69
1590 3703 0.538746 GGCCGGAAAAAGGACAAGGA 60.539 55.000 5.05 0.00 36.59 3.36
1591 3704 1.532604 GGGCCGGAAAAAGGACAAGG 61.533 60.000 5.05 0.00 38.96 3.61
1731 6881 8.160521 TCCGTCAAAGAAAAATGATTTAGTGA 57.839 30.769 0.00 0.00 0.00 3.41
1746 6896 6.127168 TGGCTAAAGATAGAATCCGTCAAAGA 60.127 38.462 0.00 0.00 0.00 2.52
1756 6906 8.037758 CGATAGAACCATGGCTAAAGATAGAAT 58.962 37.037 13.04 0.00 39.76 2.40
1781 6931 6.567760 TGCAAGGCAAAAGTTGGATACACG 62.568 45.833 0.00 0.00 41.24 4.49
1784 6934 3.658757 TGCAAGGCAAAAGTTGGATAC 57.341 42.857 0.00 0.00 34.76 2.24
1785 6935 3.831333 TGATGCAAGGCAAAAGTTGGATA 59.169 39.130 0.00 0.00 43.62 2.59
1838 6990 5.386958 AGTTAGCGTTAGATGAGACAACA 57.613 39.130 0.00 0.00 0.00 3.33
1844 6996 4.363999 CCTTGGAGTTAGCGTTAGATGAG 58.636 47.826 0.00 0.00 0.00 2.90
1871 7565 4.623647 GCAAATGCATGGACCAAATAGGTT 60.624 41.667 0.00 0.00 46.31 3.50
1877 7571 2.896044 TGTAGCAAATGCATGGACCAAA 59.104 40.909 0.00 0.00 45.16 3.28
1888 7582 7.201376 CGAATTCTCAAATGGTTGTAGCAAATG 60.201 37.037 3.52 0.00 36.07 2.32
1920 7620 4.080863 AGGATTGGTAGATGTGTTCAGTCC 60.081 45.833 0.00 0.00 35.38 3.85
1931 7631 8.742125 TCATCCATAACTTAGGATTGGTAGAT 57.258 34.615 0.00 0.00 41.80 1.98
1948 7648 3.035055 TCCTACCACCGTTCATCCATA 57.965 47.619 0.00 0.00 0.00 2.74
1952 7652 3.118738 AGTTCATCCTACCACCGTTCATC 60.119 47.826 0.00 0.00 0.00 2.92
1988 7688 9.990868 ATCCATAACTTAGGATTGGTAGTTTTT 57.009 29.630 0.00 0.00 41.80 1.94
1989 7689 9.408648 CATCCATAACTTAGGATTGGTAGTTTT 57.591 33.333 0.00 0.00 41.80 2.43
1990 7690 8.778059 TCATCCATAACTTAGGATTGGTAGTTT 58.222 33.333 0.00 0.00 41.80 2.66
1991 7691 8.331931 TCATCCATAACTTAGGATTGGTAGTT 57.668 34.615 0.00 0.00 41.80 2.24
1992 7692 7.931015 TCATCCATAACTTAGGATTGGTAGT 57.069 36.000 0.00 0.00 41.80 2.73
1993 7693 7.385205 CGTTCATCCATAACTTAGGATTGGTAG 59.615 40.741 0.00 0.00 41.80 3.18
1994 7694 7.214381 CGTTCATCCATAACTTAGGATTGGTA 58.786 38.462 0.00 0.00 41.80 3.25
1995 7695 6.055588 CGTTCATCCATAACTTAGGATTGGT 58.944 40.000 0.00 0.00 41.80 3.67
1996 7696 5.470098 CCGTTCATCCATAACTTAGGATTGG 59.530 44.000 0.00 0.00 41.80 3.16
2008 7708 4.651962 TCATCCTAACACCGTTCATCCATA 59.348 41.667 0.00 0.00 0.00 2.74
2018 7718 4.713824 TCTGTAGTTCATCCTAACACCG 57.286 45.455 0.00 0.00 0.00 4.94
2023 7723 7.239763 TGTGTTCATCTGTAGTTCATCCTAA 57.760 36.000 0.00 0.00 0.00 2.69
2024 7724 6.850752 TGTGTTCATCTGTAGTTCATCCTA 57.149 37.500 0.00 0.00 0.00 2.94
2025 7725 5.745312 TGTGTTCATCTGTAGTTCATCCT 57.255 39.130 0.00 0.00 0.00 3.24
2121 7821 5.835113 AACAGACACACATTGTAGCTTTT 57.165 34.783 0.00 0.00 39.17 2.27
2180 7882 7.519355 TCCTCCATTGACAATATAAATAGGGGA 59.481 37.037 0.00 0.00 0.00 4.81
2212 7917 2.131709 CGACCAATAGGGGCCTCGA 61.132 63.158 0.84 0.00 44.62 4.04
2293 7998 3.486108 GGACGTCATCATCATTCGTACAC 59.514 47.826 18.91 0.00 35.73 2.90
2328 8033 4.637600 TGGTAAGTATCAGGGGGTAACAT 58.362 43.478 0.00 0.00 39.74 2.71
2339 8044 2.693591 CGAAGGAGGCTGGTAAGTATCA 59.306 50.000 0.00 0.00 0.00 2.15
2369 8077 0.683504 CAGTACCTCGCTACCACCCT 60.684 60.000 0.00 0.00 0.00 4.34
2376 8084 0.611062 ACAGTGGCAGTACCTCGCTA 60.611 55.000 0.00 0.00 40.22 4.26


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

AutoCloner maintained by Alex Coulton.