Multiple sequence alignment - TraesCS5D01G258500

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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 TraesCS5D01G258500 chr5D 100.000 2156 0 0 1 2156 365080690 365082845 0.000000e+00 3982.0
1 TraesCS5D01G258500 chr5D 93.694 111 7 0 1 111 435494596 435494706 1.320000e-37 167.0
2 TraesCS5D01G258500 chr5A 96.225 1139 33 3 777 1908 466571349 466572484 0.000000e+00 1857.0
3 TraesCS5D01G258500 chr5A 95.833 216 8 1 1941 2156 466572481 466572695 4.400000e-92 348.0
4 TraesCS5D01G258500 chr5A 94.444 108 6 0 4 111 328663030 328662923 1.320000e-37 167.0
5 TraesCS5D01G258500 chr5A 89.286 56 4 1 97 150 100641893 100641948 3.840000e-08 69.4
6 TraesCS5D01G258500 chr5B 86.667 1350 82 40 717 2048 431060047 431061316 0.000000e+00 1406.0
7 TraesCS5D01G258500 chr5B 86.792 106 7 4 2051 2156 431061353 431061451 6.290000e-21 111.0
8 TraesCS5D01G258500 chr4D 86.059 538 48 13 154 679 294696671 294697193 8.700000e-154 553.0
9 TraesCS5D01G258500 chr4D 86.902 397 37 8 235 620 497067876 497067484 4.250000e-117 431.0
10 TraesCS5D01G258500 chr4D 85.448 268 10 10 4 242 16749880 16749613 3.550000e-63 252.0
11 TraesCS5D01G258500 chr4D 93.284 134 4 2 571 703 16749620 16749491 2.180000e-45 193.0
12 TraesCS5D01G258500 chr4D 89.865 148 13 1 104 251 464843120 464843265 2.820000e-44 189.0
13 TraesCS5D01G258500 chr6D 85.556 540 63 8 151 676 57182219 57181681 3.130000e-153 551.0
14 TraesCS5D01G258500 chr6D 85.979 485 57 7 192 667 462531957 462532439 1.910000e-140 508.0
15 TraesCS5D01G258500 chr6D 96.522 115 4 0 568 682 37048844 37048958 7.850000e-45 191.0
16 TraesCS5D01G258500 chr6D 96.078 102 4 0 150 251 37048744 37048845 1.320000e-37 167.0
17 TraesCS5D01G258500 chr6D 85.714 98 14 0 154 251 469273999 469274096 1.050000e-18 104.0
18 TraesCS5D01G258500 chr6D 97.727 44 1 0 107 150 31803207 31803250 2.290000e-10 76.8
19 TraesCS5D01G258500 chrUn 89.437 426 35 4 155 570 252262266 252261841 1.470000e-146 529.0
20 TraesCS5D01G258500 chrUn 92.913 127 4 2 568 693 312185343 312185221 1.700000e-41 180.0
21 TraesCS5D01G258500 chr2B 89.234 418 38 3 271 681 460963594 460964011 1.140000e-142 516.0
22 TraesCS5D01G258500 chr2B 85.819 409 38 12 235 629 92499027 92499429 1.190000e-112 416.0
23 TraesCS5D01G258500 chr2B 93.396 106 7 0 172 277 460963230 460963335 7.970000e-35 158.0
24 TraesCS5D01G258500 chr3D 86.996 446 46 7 191 627 291019192 291019634 1.920000e-135 492.0
25 TraesCS5D01G258500 chr3D 81.905 105 11 7 104 202 580856188 580856290 4.930000e-12 82.4
26 TraesCS5D01G258500 chr3D 83.871 62 9 1 670 731 94028246 94028306 8.310000e-05 58.4
27 TraesCS5D01G258500 chr3D 100.000 31 0 0 674 704 615142853 615142883 8.310000e-05 58.4
28 TraesCS5D01G258500 chr3D 87.755 49 4 2 670 718 235235194 235235148 2.990000e-04 56.5
29 TraesCS5D01G258500 chr2A 84.043 470 59 10 193 649 77792043 77792509 2.540000e-119 438.0
30 TraesCS5D01G258500 chr2A 94.444 108 6 0 4 111 331630431 331630324 1.320000e-37 167.0
31 TraesCS5D01G258500 chr2A 86.555 119 14 2 161 278 42777006 42776889 1.740000e-26 130.0
32 TraesCS5D01G258500 chr2A 92.308 39 1 2 675 713 46846563 46846527 1.000000e-03 54.7
33 TraesCS5D01G258500 chr4B 94.531 128 5 2 556 681 511372330 511372457 1.690000e-46 196.0
34 TraesCS5D01G258500 chr4B 92.913 127 4 2 568 693 117068450 117068572 1.700000e-41 180.0
35 TraesCS5D01G258500 chr4B 90.541 74 7 0 568 641 216349715 216349788 4.900000e-17 99.0
36 TraesCS5D01G258500 chr6A 91.729 133 10 1 4 136 22910206 22910337 1.310000e-42 183.0
37 TraesCS5D01G258500 chr6A 85.315 143 17 1 113 251 17521435 17521577 6.200000e-31 145.0
38 TraesCS5D01G258500 chr7B 95.370 108 5 0 4 111 107926194 107926087 2.840000e-39 172.0
39 TraesCS5D01G258500 chr7D 95.238 105 5 0 7 111 266504506 266504402 1.320000e-37 167.0
40 TraesCS5D01G258500 chr4A 94.444 108 6 0 4 111 553719430 553719537 1.320000e-37 167.0
41 TraesCS5D01G258500 chr3A 95.238 105 5 0 7 111 473446868 473446764 1.320000e-37 167.0
42 TraesCS5D01G258500 chr3A 93.333 45 1 2 670 714 674013713 674013671 4.970000e-07 65.8
43 TraesCS5D01G258500 chr3A 97.222 36 0 1 670 705 361806278 361806312 2.310000e-05 60.2
44 TraesCS5D01G258500 chr6B 86.885 122 11 4 155 276 263347129 263347245 4.830000e-27 132.0
45 TraesCS5D01G258500 chr7A 92.683 41 3 0 108 148 653391306 653391346 2.310000e-05 60.2


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 TraesCS5D01G258500 chr5D 365080690 365082845 2155 False 3982.0 3982 100.0000 1 2156 1 chr5D.!!$F1 2155
1 TraesCS5D01G258500 chr5A 466571349 466572695 1346 False 1102.5 1857 96.0290 777 2156 2 chr5A.!!$F2 1379
2 TraesCS5D01G258500 chr5B 431060047 431061451 1404 False 758.5 1406 86.7295 717 2156 2 chr5B.!!$F1 1439
3 TraesCS5D01G258500 chr4D 294696671 294697193 522 False 553.0 553 86.0590 154 679 1 chr4D.!!$F1 525
4 TraesCS5D01G258500 chr6D 57181681 57182219 538 True 551.0 551 85.5560 151 676 1 chr6D.!!$R1 525
5 TraesCS5D01G258500 chr2B 460963230 460964011 781 False 337.0 516 91.3150 172 681 2 chr2B.!!$F2 509

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
766 1050 0.035439 ATGTGATCGTTGTGTCCCCC 60.035 55.0 0.0 0.0 0.0 5.4 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2053 2400 0.607489 GTGAGCACTGGGCACAATCT 60.607 55.0 2.96 0.0 44.77 2.4 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
18 19 1.643832 GGCAGCGCTATGTTACAGC 59.356 57.895 10.99 6.57 35.61 4.40
19 20 1.089481 GGCAGCGCTATGTTACAGCA 61.089 55.000 10.99 0.00 39.04 4.41
20 21 0.726827 GCAGCGCTATGTTACAGCAA 59.273 50.000 10.99 0.00 39.04 3.91
21 22 1.529826 GCAGCGCTATGTTACAGCAAC 60.530 52.381 10.99 0.00 39.04 4.17
52 53 8.700439 ATGTTACTCTAAATACCTCTCTCCTC 57.300 38.462 0.00 0.00 0.00 3.71
53 54 7.640313 TGTTACTCTAAATACCTCTCTCCTCA 58.360 38.462 0.00 0.00 0.00 3.86
54 55 8.282982 TGTTACTCTAAATACCTCTCTCCTCAT 58.717 37.037 0.00 0.00 0.00 2.90
55 56 9.138596 GTTACTCTAAATACCTCTCTCCTCATT 57.861 37.037 0.00 0.00 0.00 2.57
58 59 9.138596 ACTCTAAATACCTCTCTCCTCATTAAC 57.861 37.037 0.00 0.00 0.00 2.01
59 60 9.362151 CTCTAAATACCTCTCTCCTCATTAACT 57.638 37.037 0.00 0.00 0.00 2.24
62 63 8.840200 AAATACCTCTCTCCTCATTAACTACA 57.160 34.615 0.00 0.00 0.00 2.74
63 64 9.440761 AAATACCTCTCTCCTCATTAACTACAT 57.559 33.333 0.00 0.00 0.00 2.29
64 65 6.723298 ACCTCTCTCCTCATTAACTACATG 57.277 41.667 0.00 0.00 0.00 3.21
65 66 5.069781 ACCTCTCTCCTCATTAACTACATGC 59.930 44.000 0.00 0.00 0.00 4.06
66 67 5.510520 CCTCTCTCCTCATTAACTACATGCC 60.511 48.000 0.00 0.00 0.00 4.40
67 68 4.962362 TCTCTCCTCATTAACTACATGCCA 59.038 41.667 0.00 0.00 0.00 4.92
68 69 5.023533 TCTCCTCATTAACTACATGCCAC 57.976 43.478 0.00 0.00 0.00 5.01
69 70 4.469586 TCTCCTCATTAACTACATGCCACA 59.530 41.667 0.00 0.00 0.00 4.17
70 71 5.130975 TCTCCTCATTAACTACATGCCACAT 59.869 40.000 0.00 0.00 0.00 3.21
71 72 6.326323 TCTCCTCATTAACTACATGCCACATA 59.674 38.462 0.00 0.00 0.00 2.29
72 73 6.894682 TCCTCATTAACTACATGCCACATAA 58.105 36.000 0.00 0.00 0.00 1.90
73 74 6.992123 TCCTCATTAACTACATGCCACATAAG 59.008 38.462 0.00 0.00 0.00 1.73
74 75 6.293626 CCTCATTAACTACATGCCACATAAGC 60.294 42.308 0.00 0.00 0.00 3.09
75 76 6.118852 TCATTAACTACATGCCACATAAGCA 58.881 36.000 0.00 0.00 45.94 3.91
76 77 6.601217 TCATTAACTACATGCCACATAAGCAA 59.399 34.615 0.00 0.00 44.83 3.91
77 78 6.825944 TTAACTACATGCCACATAAGCAAA 57.174 33.333 0.00 0.00 44.83 3.68
78 79 5.720371 AACTACATGCCACATAAGCAAAA 57.280 34.783 0.00 0.00 44.83 2.44
79 80 5.920193 ACTACATGCCACATAAGCAAAAT 57.080 34.783 0.00 0.00 44.83 1.82
80 81 6.284891 ACTACATGCCACATAAGCAAAATT 57.715 33.333 0.00 0.00 44.83 1.82
81 82 6.700352 ACTACATGCCACATAAGCAAAATTT 58.300 32.000 0.00 0.00 44.83 1.82
82 83 7.160726 ACTACATGCCACATAAGCAAAATTTT 58.839 30.769 0.00 0.00 44.83 1.82
83 84 6.484818 ACATGCCACATAAGCAAAATTTTC 57.515 33.333 0.00 0.00 44.83 2.29
84 85 6.232692 ACATGCCACATAAGCAAAATTTTCT 58.767 32.000 0.00 0.00 44.83 2.52
85 86 6.711645 ACATGCCACATAAGCAAAATTTTCTT 59.288 30.769 15.30 15.30 44.83 2.52
86 87 6.542574 TGCCACATAAGCAAAATTTTCTTG 57.457 33.333 18.15 10.58 37.28 3.02
87 88 5.469421 TGCCACATAAGCAAAATTTTCTTGG 59.531 36.000 18.15 14.42 37.28 3.61
88 89 5.700373 GCCACATAAGCAAAATTTTCTTGGA 59.300 36.000 18.15 6.83 0.00 3.53
89 90 6.204495 GCCACATAAGCAAAATTTTCTTGGAA 59.796 34.615 18.15 6.35 0.00 3.53
90 91 7.094677 GCCACATAAGCAAAATTTTCTTGGAAT 60.095 33.333 18.15 7.73 0.00 3.01
91 92 8.231837 CCACATAAGCAAAATTTTCTTGGAATG 58.768 33.333 18.15 16.21 0.00 2.67
92 93 7.747357 CACATAAGCAAAATTTTCTTGGAATGC 59.253 33.333 18.15 10.79 0.00 3.56
93 94 4.996062 AGCAAAATTTTCTTGGAATGCG 57.004 36.364 0.00 0.00 37.61 4.73
94 95 3.187022 AGCAAAATTTTCTTGGAATGCGC 59.813 39.130 0.00 0.00 37.61 6.09
95 96 3.187022 GCAAAATTTTCTTGGAATGCGCT 59.813 39.130 9.73 0.00 0.00 5.92
96 97 4.388469 GCAAAATTTTCTTGGAATGCGCTA 59.612 37.500 9.73 0.00 0.00 4.26
97 98 5.063817 GCAAAATTTTCTTGGAATGCGCTAT 59.936 36.000 9.73 0.00 0.00 2.97
98 99 6.471839 CAAAATTTTCTTGGAATGCGCTATG 58.528 36.000 9.73 0.00 0.00 2.23
99 100 4.989279 ATTTTCTTGGAATGCGCTATGT 57.011 36.364 9.73 0.00 0.00 2.29
100 101 4.782019 TTTTCTTGGAATGCGCTATGTT 57.218 36.364 9.73 0.00 0.00 2.71
101 102 5.888691 TTTTCTTGGAATGCGCTATGTTA 57.111 34.783 9.73 0.00 0.00 2.41
102 103 4.875544 TTCTTGGAATGCGCTATGTTAC 57.124 40.909 9.73 0.00 0.00 2.50
103 104 4.137116 TCTTGGAATGCGCTATGTTACT 57.863 40.909 9.73 0.00 0.00 2.24
104 105 5.270893 TCTTGGAATGCGCTATGTTACTA 57.729 39.130 9.73 0.00 0.00 1.82
105 106 5.047847 TCTTGGAATGCGCTATGTTACTAC 58.952 41.667 9.73 0.00 0.00 2.73
106 107 3.724374 TGGAATGCGCTATGTTACTACC 58.276 45.455 9.73 0.00 0.00 3.18
107 108 3.386726 TGGAATGCGCTATGTTACTACCT 59.613 43.478 9.73 0.00 0.00 3.08
108 109 4.585581 TGGAATGCGCTATGTTACTACCTA 59.414 41.667 9.73 0.00 0.00 3.08
109 110 5.069383 TGGAATGCGCTATGTTACTACCTAA 59.931 40.000 9.73 0.00 0.00 2.69
110 111 5.634020 GGAATGCGCTATGTTACTACCTAAG 59.366 44.000 9.73 0.00 0.00 2.18
111 112 4.579454 TGCGCTATGTTACTACCTAAGG 57.421 45.455 9.73 0.00 0.00 2.69
112 113 3.243636 TGCGCTATGTTACTACCTAAGGC 60.244 47.826 9.73 0.00 0.00 4.35
113 114 3.005578 GCGCTATGTTACTACCTAAGGCT 59.994 47.826 0.00 0.00 0.00 4.58
114 115 4.547532 CGCTATGTTACTACCTAAGGCTG 58.452 47.826 0.00 0.00 0.00 4.85
115 116 4.558898 CGCTATGTTACTACCTAAGGCTGG 60.559 50.000 0.00 0.00 0.00 4.85
116 117 4.344390 GCTATGTTACTACCTAAGGCTGGT 59.656 45.833 1.78 1.78 41.28 4.00
117 118 5.509332 GCTATGTTACTACCTAAGGCTGGTC 60.509 48.000 0.00 0.00 38.88 4.02
118 119 3.781808 TGTTACTACCTAAGGCTGGTCA 58.218 45.455 0.00 0.00 38.88 4.02
119 120 4.359105 TGTTACTACCTAAGGCTGGTCAT 58.641 43.478 0.00 0.00 38.88 3.06
120 121 5.521696 TGTTACTACCTAAGGCTGGTCATA 58.478 41.667 0.00 0.00 38.88 2.15
121 122 5.597182 TGTTACTACCTAAGGCTGGTCATAG 59.403 44.000 0.00 0.00 38.88 2.23
122 123 4.267341 ACTACCTAAGGCTGGTCATAGT 57.733 45.455 0.00 0.00 38.88 2.12
123 124 3.961408 ACTACCTAAGGCTGGTCATAGTG 59.039 47.826 0.00 0.00 38.88 2.74
124 125 2.119495 ACCTAAGGCTGGTCATAGTGG 58.881 52.381 0.00 0.00 31.03 4.00
125 126 2.292918 ACCTAAGGCTGGTCATAGTGGA 60.293 50.000 0.00 0.00 31.03 4.02
126 127 2.366916 CCTAAGGCTGGTCATAGTGGAG 59.633 54.545 0.00 0.00 0.00 3.86
127 128 2.254152 AAGGCTGGTCATAGTGGAGA 57.746 50.000 0.00 0.00 0.00 3.71
128 129 1.786937 AGGCTGGTCATAGTGGAGAG 58.213 55.000 0.00 0.00 0.00 3.20
129 130 1.007721 AGGCTGGTCATAGTGGAGAGT 59.992 52.381 0.00 0.00 0.00 3.24
130 131 2.245028 AGGCTGGTCATAGTGGAGAGTA 59.755 50.000 0.00 0.00 0.00 2.59
131 132 3.031736 GGCTGGTCATAGTGGAGAGTAA 58.968 50.000 0.00 0.00 0.00 2.24
132 133 3.181474 GGCTGGTCATAGTGGAGAGTAAC 60.181 52.174 0.00 0.00 0.00 2.50
133 134 3.702045 GCTGGTCATAGTGGAGAGTAACT 59.298 47.826 0.00 0.00 0.00 2.24
134 135 4.160626 GCTGGTCATAGTGGAGAGTAACTT 59.839 45.833 0.00 0.00 0.00 2.66
135 136 5.360144 GCTGGTCATAGTGGAGAGTAACTTA 59.640 44.000 0.00 0.00 0.00 2.24
136 137 6.041069 GCTGGTCATAGTGGAGAGTAACTTAT 59.959 42.308 0.00 0.00 0.00 1.73
137 138 7.230913 GCTGGTCATAGTGGAGAGTAACTTATA 59.769 40.741 0.00 0.00 0.00 0.98
138 139 8.461249 TGGTCATAGTGGAGAGTAACTTATAC 57.539 38.462 0.00 0.00 0.00 1.47
139 140 8.280084 TGGTCATAGTGGAGAGTAACTTATACT 58.720 37.037 0.00 0.00 0.00 2.12
140 141 9.790344 GGTCATAGTGGAGAGTAACTTATACTA 57.210 37.037 0.00 0.00 0.00 1.82
146 147 9.696572 AGTGGAGAGTAACTTATACTAATGTCA 57.303 33.333 0.00 0.00 0.00 3.58
149 150 9.413048 GGAGAGTAACTTATACTAATGTCATGC 57.587 37.037 0.00 0.00 0.00 4.06
164 165 2.954318 GTCATGCCTCCATAGTGCAAAT 59.046 45.455 0.00 0.00 38.69 2.32
258 264 9.021807 GCTATGTTACAGTAATATACTCCCTCA 57.978 37.037 5.82 0.00 36.76 3.86
277 548 4.461198 CTCATTTCCGGTTTATAGGGCTT 58.539 43.478 0.00 0.00 0.00 4.35
294 565 5.954335 AGGGCTTAATTCAAAAATCTCACG 58.046 37.500 0.00 0.00 0.00 4.35
364 641 7.775053 ACCAATTAATGCTCTTGTTTTCCTA 57.225 32.000 0.00 0.00 0.00 2.94
436 714 6.996509 AGTACATGCATTGGTCAATTTTCTT 58.003 32.000 0.00 0.00 0.00 2.52
481 759 6.899393 TTAATGCACCTTGAAATCTGAACT 57.101 33.333 0.00 0.00 0.00 3.01
485 763 5.129634 TGCACCTTGAAATCTGAACTTGTA 58.870 37.500 0.00 0.00 0.00 2.41
489 767 7.522073 GCACCTTGAAATCTGAACTTGTAATGA 60.522 37.037 0.00 0.00 0.00 2.57
490 768 8.352201 CACCTTGAAATCTGAACTTGTAATGAA 58.648 33.333 0.00 0.00 0.00 2.57
491 769 8.571336 ACCTTGAAATCTGAACTTGTAATGAAG 58.429 33.333 0.00 0.00 0.00 3.02
586 870 6.062095 GGGAGTATTATGTTACCACAAGCAT 58.938 40.000 0.00 0.00 36.16 3.79
596 880 3.515602 ACCACAAGCATCTCTTTCCTT 57.484 42.857 0.00 0.00 31.27 3.36
642 926 6.481644 GCAAAATTGTCTTGGGATGTGTTAAA 59.518 34.615 0.00 0.00 0.00 1.52
649 933 8.556213 TGTCTTGGGATGTGTTAAATTACTAC 57.444 34.615 0.00 0.00 0.00 2.73
650 934 7.608761 TGTCTTGGGATGTGTTAAATTACTACC 59.391 37.037 0.00 0.00 0.00 3.18
651 935 7.827729 GTCTTGGGATGTGTTAAATTACTACCT 59.172 37.037 0.00 0.00 0.00 3.08
652 936 9.049050 TCTTGGGATGTGTTAAATTACTACCTA 57.951 33.333 0.00 0.00 0.00 3.08
653 937 9.675464 CTTGGGATGTGTTAAATTACTACCTAA 57.325 33.333 0.00 0.00 0.00 2.69
654 938 9.675464 TTGGGATGTGTTAAATTACTACCTAAG 57.325 33.333 0.00 0.00 0.00 2.18
655 939 8.828751 TGGGATGTGTTAAATTACTACCTAAGT 58.171 33.333 0.00 0.00 42.62 2.24
656 940 9.676861 GGGATGTGTTAAATTACTACCTAAGTT 57.323 33.333 0.00 0.00 39.80 2.66
660 944 9.942850 TGTGTTAAATTACTACCTAAGTTACCC 57.057 33.333 0.00 0.00 39.80 3.69
668 952 9.819754 ATTACTACCTAAGTTACCCTACTATGG 57.180 37.037 0.00 0.00 39.80 2.74
669 953 6.073981 ACTACCTAAGTTACCCTACTATGGC 58.926 44.000 0.00 0.00 33.35 4.40
670 954 5.153670 ACCTAAGTTACCCTACTATGGCT 57.846 43.478 0.00 0.00 0.00 4.75
671 955 6.285329 ACCTAAGTTACCCTACTATGGCTA 57.715 41.667 0.00 0.00 0.00 3.93
672 956 6.313324 ACCTAAGTTACCCTACTATGGCTAG 58.687 44.000 0.00 0.00 0.00 3.42
703 987 5.081315 ACTCCCACTATGACTAGCCTTAT 57.919 43.478 0.00 0.00 0.00 1.73
705 989 5.305644 ACTCCCACTATGACTAGCCTTATTG 59.694 44.000 0.00 0.00 0.00 1.90
706 990 5.464069 TCCCACTATGACTAGCCTTATTGA 58.536 41.667 0.00 0.00 0.00 2.57
707 991 5.304614 TCCCACTATGACTAGCCTTATTGAC 59.695 44.000 0.00 0.00 0.00 3.18
708 992 5.223382 CCACTATGACTAGCCTTATTGACG 58.777 45.833 0.00 0.00 0.00 4.35
709 993 5.223382 CACTATGACTAGCCTTATTGACGG 58.777 45.833 0.00 0.00 0.00 4.79
710 994 5.009710 CACTATGACTAGCCTTATTGACGGA 59.990 44.000 0.00 0.00 0.00 4.69
711 995 4.592485 ATGACTAGCCTTATTGACGGAG 57.408 45.455 0.00 0.00 0.00 4.63
712 996 3.628008 TGACTAGCCTTATTGACGGAGA 58.372 45.455 0.00 0.00 0.00 3.71
713 997 4.215908 TGACTAGCCTTATTGACGGAGAT 58.784 43.478 0.00 0.00 0.00 2.75
714 998 5.382616 TGACTAGCCTTATTGACGGAGATA 58.617 41.667 0.00 0.00 0.00 1.98
715 999 5.473846 TGACTAGCCTTATTGACGGAGATAG 59.526 44.000 0.00 0.00 0.00 2.08
716 1000 5.386924 ACTAGCCTTATTGACGGAGATAGT 58.613 41.667 0.00 0.00 0.00 2.12
717 1001 6.540995 ACTAGCCTTATTGACGGAGATAGTA 58.459 40.000 0.00 0.00 0.00 1.82
718 1002 5.708877 AGCCTTATTGACGGAGATAGTAC 57.291 43.478 0.00 0.00 0.00 2.73
719 1003 4.215827 AGCCTTATTGACGGAGATAGTACG 59.784 45.833 0.00 0.00 0.00 3.67
720 1004 4.214971 GCCTTATTGACGGAGATAGTACGA 59.785 45.833 0.00 0.00 0.00 3.43
761 1045 4.071423 TGATTTCCATGTGATCGTTGTGT 58.929 39.130 0.00 0.00 0.00 3.72
763 1047 2.093306 TCCATGTGATCGTTGTGTCC 57.907 50.000 0.00 0.00 0.00 4.02
765 1049 1.086696 CATGTGATCGTTGTGTCCCC 58.913 55.000 0.00 0.00 0.00 4.81
766 1050 0.035439 ATGTGATCGTTGTGTCCCCC 60.035 55.000 0.00 0.00 0.00 5.40
767 1051 1.125093 TGTGATCGTTGTGTCCCCCT 61.125 55.000 0.00 0.00 0.00 4.79
768 1052 0.899720 GTGATCGTTGTGTCCCCCTA 59.100 55.000 0.00 0.00 0.00 3.53
769 1053 1.276989 GTGATCGTTGTGTCCCCCTAA 59.723 52.381 0.00 0.00 0.00 2.69
770 1054 1.979308 TGATCGTTGTGTCCCCCTAAA 59.021 47.619 0.00 0.00 0.00 1.85
771 1055 2.372504 TGATCGTTGTGTCCCCCTAAAA 59.627 45.455 0.00 0.00 0.00 1.52
772 1056 3.181442 TGATCGTTGTGTCCCCCTAAAAA 60.181 43.478 0.00 0.00 0.00 1.94
887 1177 1.456705 CTTCTCCTCCCCCTCCTCG 60.457 68.421 0.00 0.00 0.00 4.63
1267 1567 1.701031 TTCCAAGGTTGTGCCCTCGA 61.701 55.000 0.00 0.00 38.26 4.04
1286 1586 4.669318 TCGACGATGAGAAATACTGGAAC 58.331 43.478 0.00 0.00 0.00 3.62
1487 1796 1.227674 CAGCACGATTCCCCTAGCC 60.228 63.158 0.00 0.00 0.00 3.93
1613 1922 4.248058 ACATTTGCTAAGGCTGCATTTTC 58.752 39.130 4.39 0.00 40.34 2.29
1811 2124 4.454847 GCATGATAGTCATCTGGGTGATTG 59.545 45.833 0.00 0.00 34.28 2.67
1910 2223 5.395682 AAAATAGCATCAGAAAGCTGCAA 57.604 34.783 10.25 0.00 41.73 4.08
1915 2228 3.439476 AGCATCAGAAAGCTGCAACTAAG 59.561 43.478 1.02 0.00 41.73 2.18
1924 2237 3.173965 AGCTGCAACTAAGGGTCTTAGA 58.826 45.455 18.21 0.00 0.00 2.10
1940 2253 2.107950 TAGATCTTGTTTGGCCACCG 57.892 50.000 3.88 0.00 0.00 4.94
1957 2270 1.217882 CCGCTGAGTGAAACGACTTT 58.782 50.000 0.00 0.00 45.86 2.66
1999 2312 0.106519 CCATCCCTGCCTACTTTGGG 60.107 60.000 0.00 0.00 40.95 4.12
2053 2400 3.190327 CGACAGCCAAAACCATGTGAATA 59.810 43.478 0.00 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.089481 TGCTGTAACATAGCGCTGCC 61.089 55.000 22.90 1.42 44.01 4.85
1 2 0.726827 TTGCTGTAACATAGCGCTGC 59.273 50.000 22.90 12.96 44.01 5.25
3 4 2.093306 TGTTGCTGTAACATAGCGCT 57.907 45.000 17.26 17.26 44.07 5.92
26 27 9.796180 GAGGAGAGAGGTATTTAGAGTAACATA 57.204 37.037 0.00 0.00 0.00 2.29
27 28 8.282982 TGAGGAGAGAGGTATTTAGAGTAACAT 58.717 37.037 0.00 0.00 0.00 2.71
28 29 7.640313 TGAGGAGAGAGGTATTTAGAGTAACA 58.360 38.462 0.00 0.00 0.00 2.41
29 30 8.700439 ATGAGGAGAGAGGTATTTAGAGTAAC 57.300 38.462 0.00 0.00 0.00 2.50
32 33 9.138596 GTTAATGAGGAGAGAGGTATTTAGAGT 57.861 37.037 0.00 0.00 0.00 3.24
33 34 9.362151 AGTTAATGAGGAGAGAGGTATTTAGAG 57.638 37.037 0.00 0.00 0.00 2.43
36 37 9.931698 TGTAGTTAATGAGGAGAGAGGTATTTA 57.068 33.333 0.00 0.00 0.00 1.40
37 38 8.840200 TGTAGTTAATGAGGAGAGAGGTATTT 57.160 34.615 0.00 0.00 0.00 1.40
38 39 8.865090 CATGTAGTTAATGAGGAGAGAGGTATT 58.135 37.037 0.00 0.00 0.00 1.89
39 40 7.039363 GCATGTAGTTAATGAGGAGAGAGGTAT 60.039 40.741 0.00 0.00 0.00 2.73
40 41 6.265649 GCATGTAGTTAATGAGGAGAGAGGTA 59.734 42.308 0.00 0.00 0.00 3.08
41 42 5.069781 GCATGTAGTTAATGAGGAGAGAGGT 59.930 44.000 0.00 0.00 0.00 3.85
42 43 5.510520 GGCATGTAGTTAATGAGGAGAGAGG 60.511 48.000 0.00 0.00 0.00 3.69
43 44 5.069648 TGGCATGTAGTTAATGAGGAGAGAG 59.930 44.000 0.00 0.00 0.00 3.20
44 45 4.962362 TGGCATGTAGTTAATGAGGAGAGA 59.038 41.667 0.00 0.00 0.00 3.10
45 46 5.053145 GTGGCATGTAGTTAATGAGGAGAG 58.947 45.833 0.00 0.00 0.00 3.20
46 47 4.469586 TGTGGCATGTAGTTAATGAGGAGA 59.530 41.667 0.00 0.00 0.00 3.71
47 48 4.769688 TGTGGCATGTAGTTAATGAGGAG 58.230 43.478 0.00 0.00 0.00 3.69
48 49 4.835284 TGTGGCATGTAGTTAATGAGGA 57.165 40.909 0.00 0.00 0.00 3.71
49 50 6.293626 GCTTATGTGGCATGTAGTTAATGAGG 60.294 42.308 0.00 0.00 0.00 3.86
50 51 6.260714 TGCTTATGTGGCATGTAGTTAATGAG 59.739 38.462 0.00 0.00 34.56 2.90
51 52 6.118852 TGCTTATGTGGCATGTAGTTAATGA 58.881 36.000 0.00 0.00 34.56 2.57
52 53 6.375945 TGCTTATGTGGCATGTAGTTAATG 57.624 37.500 0.00 0.00 34.56 1.90
53 54 7.403312 TTTGCTTATGTGGCATGTAGTTAAT 57.597 32.000 0.00 0.00 39.54 1.40
54 55 6.825944 TTTGCTTATGTGGCATGTAGTTAA 57.174 33.333 0.00 0.00 39.54 2.01
55 56 6.825944 TTTTGCTTATGTGGCATGTAGTTA 57.174 33.333 0.00 0.00 39.54 2.24
56 57 5.720371 TTTTGCTTATGTGGCATGTAGTT 57.280 34.783 0.00 0.00 39.54 2.24
57 58 5.920193 ATTTTGCTTATGTGGCATGTAGT 57.080 34.783 0.00 0.00 39.54 2.73
58 59 7.546667 AGAAAATTTTGCTTATGTGGCATGTAG 59.453 33.333 8.47 0.00 39.54 2.74
59 60 7.385267 AGAAAATTTTGCTTATGTGGCATGTA 58.615 30.769 8.47 0.00 39.54 2.29
60 61 6.232692 AGAAAATTTTGCTTATGTGGCATGT 58.767 32.000 8.47 0.00 39.54 3.21
61 62 6.730960 AGAAAATTTTGCTTATGTGGCATG 57.269 33.333 8.47 0.00 39.54 4.06
62 63 6.149807 CCAAGAAAATTTTGCTTATGTGGCAT 59.850 34.615 8.47 0.00 39.54 4.40
63 64 5.469421 CCAAGAAAATTTTGCTTATGTGGCA 59.531 36.000 8.47 0.00 37.97 4.92
64 65 5.700373 TCCAAGAAAATTTTGCTTATGTGGC 59.300 36.000 8.47 0.00 0.00 5.01
65 66 7.727331 TTCCAAGAAAATTTTGCTTATGTGG 57.273 32.000 8.47 9.46 0.00 4.17
66 67 7.747357 GCATTCCAAGAAAATTTTGCTTATGTG 59.253 33.333 8.47 9.17 0.00 3.21
67 68 7.360269 CGCATTCCAAGAAAATTTTGCTTATGT 60.360 33.333 8.47 0.00 0.00 2.29
68 69 6.957077 CGCATTCCAAGAAAATTTTGCTTATG 59.043 34.615 8.47 11.88 0.00 1.90
69 70 6.402442 GCGCATTCCAAGAAAATTTTGCTTAT 60.402 34.615 8.47 0.90 0.00 1.73
70 71 5.107143 GCGCATTCCAAGAAAATTTTGCTTA 60.107 36.000 8.47 0.00 0.00 3.09
71 72 4.319694 GCGCATTCCAAGAAAATTTTGCTT 60.320 37.500 8.47 8.67 0.00 3.91
72 73 3.187022 GCGCATTCCAAGAAAATTTTGCT 59.813 39.130 8.47 2.82 0.00 3.91
73 74 3.187022 AGCGCATTCCAAGAAAATTTTGC 59.813 39.130 11.47 2.64 0.00 3.68
74 75 4.996062 AGCGCATTCCAAGAAAATTTTG 57.004 36.364 11.47 0.00 0.00 2.44
75 76 6.165577 ACATAGCGCATTCCAAGAAAATTTT 58.834 32.000 11.47 2.28 0.00 1.82
76 77 5.723295 ACATAGCGCATTCCAAGAAAATTT 58.277 33.333 11.47 0.00 0.00 1.82
77 78 5.329035 ACATAGCGCATTCCAAGAAAATT 57.671 34.783 11.47 0.00 0.00 1.82
78 79 4.989279 ACATAGCGCATTCCAAGAAAAT 57.011 36.364 11.47 0.00 0.00 1.82
79 80 4.782019 AACATAGCGCATTCCAAGAAAA 57.218 36.364 11.47 0.00 0.00 2.29
80 81 4.941263 AGTAACATAGCGCATTCCAAGAAA 59.059 37.500 11.47 0.00 0.00 2.52
81 82 4.513442 AGTAACATAGCGCATTCCAAGAA 58.487 39.130 11.47 0.00 0.00 2.52
82 83 4.137116 AGTAACATAGCGCATTCCAAGA 57.863 40.909 11.47 0.00 0.00 3.02
83 84 4.211374 GGTAGTAACATAGCGCATTCCAAG 59.789 45.833 11.47 0.00 0.00 3.61
84 85 4.124238 GGTAGTAACATAGCGCATTCCAA 58.876 43.478 11.47 0.00 0.00 3.53
85 86 3.386726 AGGTAGTAACATAGCGCATTCCA 59.613 43.478 11.47 0.00 0.00 3.53
86 87 3.991367 AGGTAGTAACATAGCGCATTCC 58.009 45.455 11.47 0.00 0.00 3.01
87 88 5.634020 CCTTAGGTAGTAACATAGCGCATTC 59.366 44.000 11.47 0.00 0.00 2.67
88 89 5.539048 CCTTAGGTAGTAACATAGCGCATT 58.461 41.667 11.47 0.20 0.00 3.56
89 90 4.560919 GCCTTAGGTAGTAACATAGCGCAT 60.561 45.833 11.47 0.00 0.00 4.73
90 91 3.243636 GCCTTAGGTAGTAACATAGCGCA 60.244 47.826 11.47 0.00 0.00 6.09
91 92 3.005578 AGCCTTAGGTAGTAACATAGCGC 59.994 47.826 0.00 0.00 0.00 5.92
92 93 4.547532 CAGCCTTAGGTAGTAACATAGCG 58.452 47.826 0.00 0.00 0.00 4.26
93 94 4.344390 ACCAGCCTTAGGTAGTAACATAGC 59.656 45.833 0.00 0.00 37.67 2.97
94 95 5.597182 TGACCAGCCTTAGGTAGTAACATAG 59.403 44.000 0.00 0.00 40.09 2.23
95 96 5.521696 TGACCAGCCTTAGGTAGTAACATA 58.478 41.667 0.00 0.00 40.09 2.29
96 97 4.359105 TGACCAGCCTTAGGTAGTAACAT 58.641 43.478 0.00 0.00 40.09 2.71
97 98 3.781808 TGACCAGCCTTAGGTAGTAACA 58.218 45.455 0.00 0.00 40.09 2.41
98 99 5.597594 ACTATGACCAGCCTTAGGTAGTAAC 59.402 44.000 0.00 0.00 40.09 2.50
99 100 5.597182 CACTATGACCAGCCTTAGGTAGTAA 59.403 44.000 0.00 0.00 40.09 2.24
100 101 5.138276 CACTATGACCAGCCTTAGGTAGTA 58.862 45.833 0.00 0.00 40.09 1.82
101 102 3.961408 CACTATGACCAGCCTTAGGTAGT 59.039 47.826 0.00 0.00 40.09 2.73
102 103 3.322254 CCACTATGACCAGCCTTAGGTAG 59.678 52.174 0.00 0.00 40.09 3.18
103 104 3.052414 TCCACTATGACCAGCCTTAGGTA 60.052 47.826 0.00 0.00 40.09 3.08
104 105 2.119495 CCACTATGACCAGCCTTAGGT 58.881 52.381 0.00 0.00 43.46 3.08
105 106 2.366916 CTCCACTATGACCAGCCTTAGG 59.633 54.545 0.00 0.00 0.00 2.69
106 107 3.300388 TCTCCACTATGACCAGCCTTAG 58.700 50.000 0.00 0.00 0.00 2.18
107 108 3.300388 CTCTCCACTATGACCAGCCTTA 58.700 50.000 0.00 0.00 0.00 2.69
108 109 2.114616 CTCTCCACTATGACCAGCCTT 58.885 52.381 0.00 0.00 0.00 4.35
109 110 1.007721 ACTCTCCACTATGACCAGCCT 59.992 52.381 0.00 0.00 0.00 4.58
110 111 1.490574 ACTCTCCACTATGACCAGCC 58.509 55.000 0.00 0.00 0.00 4.85
111 112 3.702045 AGTTACTCTCCACTATGACCAGC 59.298 47.826 0.00 0.00 0.00 4.85
112 113 5.923733 AAGTTACTCTCCACTATGACCAG 57.076 43.478 0.00 0.00 0.00 4.00
113 114 8.280084 AGTATAAGTTACTCTCCACTATGACCA 58.720 37.037 0.00 0.00 0.00 4.02
114 115 8.694581 AGTATAAGTTACTCTCCACTATGACC 57.305 38.462 0.00 0.00 0.00 4.02
120 121 9.696572 TGACATTAGTATAAGTTACTCTCCACT 57.303 33.333 0.00 0.00 0.00 4.00
123 124 9.413048 GCATGACATTAGTATAAGTTACTCTCC 57.587 37.037 0.00 0.00 0.00 3.71
124 125 9.413048 GGCATGACATTAGTATAAGTTACTCTC 57.587 37.037 0.00 0.00 0.00 3.20
125 126 9.148879 AGGCATGACATTAGTATAAGTTACTCT 57.851 33.333 0.00 0.00 0.00 3.24
126 127 9.413048 GAGGCATGACATTAGTATAAGTTACTC 57.587 37.037 0.00 0.00 0.00 2.59
127 128 8.368668 GGAGGCATGACATTAGTATAAGTTACT 58.631 37.037 0.00 0.00 0.00 2.24
128 129 8.148351 TGGAGGCATGACATTAGTATAAGTTAC 58.852 37.037 0.00 0.00 0.00 2.50
129 130 8.257602 TGGAGGCATGACATTAGTATAAGTTA 57.742 34.615 0.00 0.00 0.00 2.24
130 131 7.136822 TGGAGGCATGACATTAGTATAAGTT 57.863 36.000 0.00 0.00 0.00 2.66
131 132 6.747414 TGGAGGCATGACATTAGTATAAGT 57.253 37.500 0.00 0.00 0.00 2.24
132 133 8.535335 ACTATGGAGGCATGACATTAGTATAAG 58.465 37.037 0.00 0.00 0.00 1.73
133 134 8.314021 CACTATGGAGGCATGACATTAGTATAA 58.686 37.037 0.00 0.00 0.00 0.98
134 135 7.579531 GCACTATGGAGGCATGACATTAGTATA 60.580 40.741 0.00 0.00 0.00 1.47
135 136 6.705302 CACTATGGAGGCATGACATTAGTAT 58.295 40.000 0.00 0.00 0.00 2.12
136 137 5.511373 GCACTATGGAGGCATGACATTAGTA 60.511 44.000 0.00 0.00 0.00 1.82
137 138 4.744867 GCACTATGGAGGCATGACATTAGT 60.745 45.833 0.00 0.00 0.00 2.24
138 139 3.750130 GCACTATGGAGGCATGACATTAG 59.250 47.826 0.00 0.00 0.00 1.73
139 140 3.136260 TGCACTATGGAGGCATGACATTA 59.864 43.478 0.00 0.00 31.58 1.90
140 141 2.092267 TGCACTATGGAGGCATGACATT 60.092 45.455 0.00 0.00 31.58 2.71
141 142 1.491754 TGCACTATGGAGGCATGACAT 59.508 47.619 0.00 0.00 31.58 3.06
142 143 0.911053 TGCACTATGGAGGCATGACA 59.089 50.000 0.00 0.00 31.58 3.58
143 144 2.042686 TTGCACTATGGAGGCATGAC 57.957 50.000 0.00 0.00 37.39 3.06
144 145 2.804986 TTTGCACTATGGAGGCATGA 57.195 45.000 0.00 0.00 37.39 3.07
145 146 5.163530 TGTTAATTTGCACTATGGAGGCATG 60.164 40.000 0.00 0.00 37.39 4.06
146 147 4.955450 TGTTAATTTGCACTATGGAGGCAT 59.045 37.500 0.00 0.00 37.39 4.40
147 148 4.339748 TGTTAATTTGCACTATGGAGGCA 58.660 39.130 0.00 0.00 35.41 4.75
148 149 4.981806 TGTTAATTTGCACTATGGAGGC 57.018 40.909 0.00 0.00 0.00 4.70
149 150 7.807977 ACTATGTTAATTTGCACTATGGAGG 57.192 36.000 0.00 0.00 0.00 4.30
186 187 8.286097 GTCTATGAGCTAATAAATGAAGCAACC 58.714 37.037 0.00 0.00 38.75 3.77
187 188 9.050601 AGTCTATGAGCTAATAAATGAAGCAAC 57.949 33.333 0.00 0.00 38.75 4.17
258 264 7.064229 TGAATTAAGCCCTATAAACCGGAAAT 58.936 34.615 9.46 0.08 0.00 2.17
277 548 7.013846 ACCTTGGTTCGTGAGATTTTTGAATTA 59.986 33.333 0.00 0.00 41.60 1.40
294 565 3.600388 CACTCACCATCTACCTTGGTTC 58.400 50.000 0.00 0.00 45.19 3.62
334 605 5.232463 ACAAGAGCATTAATTGGTTGCAAG 58.768 37.500 0.00 0.00 38.84 4.01
450 728 8.533657 AGATTTCAAGGTGCATTAAATCATTGA 58.466 29.630 17.06 9.23 38.45 2.57
485 763 7.951347 AGGCTCTATTTGATTGTTCTTCATT 57.049 32.000 0.00 0.00 0.00 2.57
535 813 6.072673 CCTTTTCGGTTTACAGTGCTTATCTT 60.073 38.462 0.00 0.00 0.00 2.40
544 822 2.707257 TCCCTCCTTTTCGGTTTACAGT 59.293 45.455 0.00 0.00 0.00 3.55
547 825 3.413846 ACTCCCTCCTTTTCGGTTTAC 57.586 47.619 0.00 0.00 0.00 2.01
586 870 9.174166 GTGGCAAGTATTTAATAAGGAAAGAGA 57.826 33.333 0.00 0.00 0.00 3.10
642 926 9.819754 CCATAGTAGGGTAACTTAGGTAGTAAT 57.180 37.037 0.00 0.00 35.54 1.89
649 933 5.185442 GCTAGCCATAGTAGGGTAACTTAGG 59.815 48.000 2.29 0.00 40.80 2.69
650 934 5.185442 GGCTAGCCATAGTAGGGTAACTTAG 59.815 48.000 29.33 0.00 40.80 2.18
651 935 5.082425 GGCTAGCCATAGTAGGGTAACTTA 58.918 45.833 29.33 0.00 40.80 2.24
652 936 3.902467 GGCTAGCCATAGTAGGGTAACTT 59.098 47.826 29.33 0.00 40.80 2.66
653 937 3.142407 AGGCTAGCCATAGTAGGGTAACT 59.858 47.826 34.70 6.54 40.80 2.24
654 938 3.508426 AGGCTAGCCATAGTAGGGTAAC 58.492 50.000 34.70 3.04 40.80 2.50
655 939 3.917324 AGGCTAGCCATAGTAGGGTAA 57.083 47.619 34.70 0.00 40.80 2.85
656 940 4.356190 ACTTAGGCTAGCCATAGTAGGGTA 59.644 45.833 34.70 12.72 40.47 3.69
657 941 3.142407 ACTTAGGCTAGCCATAGTAGGGT 59.858 47.826 34.70 17.36 43.00 4.34
658 942 3.780626 ACTTAGGCTAGCCATAGTAGGG 58.219 50.000 34.70 16.77 38.92 3.53
659 943 6.011481 AGTAACTTAGGCTAGCCATAGTAGG 58.989 44.000 34.70 20.15 38.92 3.18
660 944 6.151480 GGAGTAACTTAGGCTAGCCATAGTAG 59.849 46.154 34.70 23.19 38.92 2.57
661 945 6.008960 GGAGTAACTTAGGCTAGCCATAGTA 58.991 44.000 34.70 16.12 38.92 1.82
662 946 4.833938 GGAGTAACTTAGGCTAGCCATAGT 59.166 45.833 34.70 29.95 38.92 2.12
663 947 4.221041 GGGAGTAACTTAGGCTAGCCATAG 59.779 50.000 34.70 29.33 38.92 2.23
664 948 4.158015 GGGAGTAACTTAGGCTAGCCATA 58.842 47.826 34.70 20.51 38.92 2.74
665 949 2.973406 GGGAGTAACTTAGGCTAGCCAT 59.027 50.000 34.70 21.45 38.92 4.40
666 950 2.292653 TGGGAGTAACTTAGGCTAGCCA 60.293 50.000 34.70 18.26 38.92 4.75
667 951 2.102757 GTGGGAGTAACTTAGGCTAGCC 59.897 54.545 27.19 27.19 0.00 3.93
668 952 3.032459 AGTGGGAGTAACTTAGGCTAGC 58.968 50.000 6.04 6.04 0.00 3.42
669 953 6.016108 GTCATAGTGGGAGTAACTTAGGCTAG 60.016 46.154 0.00 0.00 0.00 3.42
670 954 5.832060 GTCATAGTGGGAGTAACTTAGGCTA 59.168 44.000 0.00 0.00 0.00 3.93
671 955 4.650131 GTCATAGTGGGAGTAACTTAGGCT 59.350 45.833 0.00 0.00 0.00 4.58
672 956 4.650131 AGTCATAGTGGGAGTAACTTAGGC 59.350 45.833 0.00 0.00 0.00 3.93
725 1009 9.811995 CACATGGAAATCAGAAAATGTGATATT 57.188 29.630 7.63 0.00 44.81 1.28
737 1021 4.392754 CACAACGATCACATGGAAATCAGA 59.607 41.667 0.00 0.00 0.00 3.27
771 1055 2.217847 CGTGACACGACGATCACTTTTT 59.782 45.455 23.39 0.00 46.05 1.94
772 1056 1.784856 CGTGACACGACGATCACTTTT 59.215 47.619 23.39 0.00 46.05 2.27
773 1057 1.405461 CGTGACACGACGATCACTTT 58.595 50.000 23.39 0.00 46.05 2.66
774 1058 0.386858 CCGTGACACGACGATCACTT 60.387 55.000 28.83 0.00 46.05 3.16
775 1059 1.209383 CCGTGACACGACGATCACT 59.791 57.895 28.83 0.00 46.05 3.41
779 1063 0.386858 CTGAACCGTGACACGACGAT 60.387 55.000 28.83 11.52 46.05 3.73
784 1068 2.927618 CGTGCTGAACCGTGACACG 61.928 63.158 21.02 21.02 46.57 4.49
878 1168 2.443016 CCAGAGGACGAGGAGGGG 60.443 72.222 0.00 0.00 0.00 4.79
879 1169 3.151022 GCCAGAGGACGAGGAGGG 61.151 72.222 0.00 0.00 0.00 4.30
880 1170 2.043450 AGCCAGAGGACGAGGAGG 60.043 66.667 0.00 0.00 0.00 4.30
887 1177 2.888863 CGGACAGAGCCAGAGGAC 59.111 66.667 0.00 0.00 0.00 3.85
976 1271 0.849540 TTCCCTTCCCTTCCCTTCCC 60.850 60.000 0.00 0.00 0.00 3.97
977 1272 0.626382 CTTCCCTTCCCTTCCCTTCC 59.374 60.000 0.00 0.00 0.00 3.46
978 1273 1.562008 CTCTTCCCTTCCCTTCCCTTC 59.438 57.143 0.00 0.00 0.00 3.46
979 1274 1.675007 CTCTTCCCTTCCCTTCCCTT 58.325 55.000 0.00 0.00 0.00 3.95
980 1275 0.253394 CCTCTTCCCTTCCCTTCCCT 60.253 60.000 0.00 0.00 0.00 4.20
1086 1381 3.400590 GTGGTGACGACGGCGAAC 61.401 66.667 22.49 15.91 41.64 3.95
1162 1457 4.748144 GGCTTGGTGGGAGGCAGG 62.748 72.222 0.00 0.00 39.31 4.85
1267 1567 4.451629 ACGTTCCAGTATTTCTCATCGT 57.548 40.909 0.00 0.00 0.00 3.73
1286 1586 3.320078 CGATTCCACCGCGCTACG 61.320 66.667 5.56 0.00 43.15 3.51
1487 1796 7.915508 TGAAGTAATGTAACACAAGACACAAG 58.084 34.615 0.00 0.00 0.00 3.16
1811 2124 3.119137 AGGTCGCAAAAAGAAATATGCCC 60.119 43.478 0.00 0.00 35.41 5.36
1907 2220 5.735766 ACAAGATCTAAGACCCTTAGTTGC 58.264 41.667 11.98 5.07 0.00 4.17
1910 2223 6.712276 CCAAACAAGATCTAAGACCCTTAGT 58.288 40.000 11.98 2.47 0.00 2.24
1915 2228 3.017442 GGCCAAACAAGATCTAAGACCC 58.983 50.000 0.00 0.00 0.00 4.46
1924 2237 1.228552 AGCGGTGGCCAAACAAGAT 60.229 52.632 7.24 0.00 41.24 2.40
1940 2253 5.198274 CAACTTAAAGTCGTTTCACTCAGC 58.802 41.667 0.00 0.00 0.00 4.26
1957 2270 6.325028 TGGTGATTTGTGAAATTCCCAACTTA 59.675 34.615 0.00 0.00 31.84 2.24
1999 2312 9.730420 ATGTTTCATTGTGAAAGTTACAGTTAC 57.270 29.630 5.44 0.00 45.83 2.50
2053 2400 0.607489 GTGAGCACTGGGCACAATCT 60.607 55.000 2.96 0.00 44.77 2.40


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

AutoCloner maintained by Alex Coulton.