Multiple sequence alignment - TraesCS4D01G272500

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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 TraesCS4D01G272500 chr4D 100.000 3269 0 0 1 3269 442737366 442740634 0.000000e+00 6037
1 TraesCS4D01G272500 chr4D 86.957 253 26 6 2704 2950 442739767 442740018 8.930000e-71 278
2 TraesCS4D01G272500 chr4D 86.957 253 26 6 2402 2653 442740069 442740315 8.930000e-71 278
3 TraesCS4D01G272500 chr4B 90.185 2160 131 41 882 2995 551075179 551077303 0.000000e+00 2739
4 TraesCS4D01G272500 chr4B 89.229 882 51 21 2402 3269 551077005 551077856 0.000000e+00 1062
5 TraesCS4D01G272500 chr4B 88.951 534 44 6 343 871 551073610 551074133 0.000000e+00 645
6 TraesCS4D01G272500 chr4B 84.039 307 38 8 2402 2707 551077300 551077596 5.340000e-73 285
7 TraesCS4D01G272500 chr4B 81.507 292 32 12 2723 2995 551076720 551077008 1.530000e-53 220
8 TraesCS4D01G272500 chr4A 95.138 1563 62 9 961 2520 24828195 24826644 0.000000e+00 2453
9 TraesCS4D01G272500 chr4A 81.322 605 60 26 2703 3269 24826762 24826173 2.990000e-120 442
10 TraesCS4D01G272500 chr4A 93.213 221 11 3 690 906 24828985 24828765 4.070000e-84 322
11 TraesCS4D01G272500 chr1D 93.249 711 45 3 1076 1784 58960845 58960136 0.000000e+00 1044
12 TraesCS4D01G272500 chr1D 83.473 478 63 10 1 468 306222448 306222919 6.480000e-117 431
13 TraesCS4D01G272500 chr6D 92.473 465 17 7 630 1093 225945422 225944975 0.000000e+00 649
14 TraesCS4D01G272500 chr6D 89.271 494 36 5 138 631 225945953 225945477 1.300000e-168 603
15 TraesCS4D01G272500 chr6D 83.229 477 63 9 1 473 18024700 18025163 3.900000e-114 422
16 TraesCS4D01G272500 chr7D 85.345 464 54 6 4 459 632121267 632120810 4.940000e-128 468
17 TraesCS4D01G272500 chr7D 83.830 470 59 9 4 463 628134951 628134489 6.480000e-117 431
18 TraesCS4D01G272500 chr3D 84.979 466 53 12 1 459 553333797 553334252 1.070000e-124 457
19 TraesCS4D01G272500 chr1B 84.009 469 57 12 1 460 666836181 666836640 5.010000e-118 435
20 TraesCS4D01G272500 chr2D 83.906 466 61 6 1 459 273021890 273021432 1.800000e-117 433
21 TraesCS4D01G272500 chr5B 83.696 460 63 8 1 459 542842274 542841826 1.080000e-114 424


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 TraesCS4D01G272500 chr4D 442737366 442740634 3268 False 2197.666667 6037 91.304667 1 3269 3 chr4D.!!$F1 3268
1 TraesCS4D01G272500 chr4B 551073610 551077856 4246 False 990.200000 2739 86.782200 343 3269 5 chr4B.!!$F1 2926
2 TraesCS4D01G272500 chr4A 24826173 24828985 2812 True 1072.333333 2453 89.891000 690 3269 3 chr4A.!!$R1 2579
3 TraesCS4D01G272500 chr1D 58960136 58960845 709 True 1044.000000 1044 93.249000 1076 1784 1 chr1D.!!$R1 708
4 TraesCS4D01G272500 chr6D 225944975 225945953 978 True 626.000000 649 90.872000 138 1093 2 chr6D.!!$R1 955

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
49 50 0.179081 GAATAAGGTTCTCGCGGCCT 60.179 55.0 6.13 6.44 0.00 5.19 F
76 77 0.321034 GTTCCGTTGGTGGGTCTACC 60.321 60.0 0.00 0.00 41.24 3.18 F
794 862 0.385751 CACATACGCCTCGTCCTCAT 59.614 55.0 0.00 0.00 41.54 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1500 3127 0.672711 AGGCGGCCGAGTACTTTTTC 60.673 55.000 33.48 6.4 0.00 2.29 R
1926 3553 1.137825 GAGCAGGTCCTCGAAGACG 59.862 63.158 8.04 0.0 37.66 4.18 R
2280 3907 0.250209 CAGAGGAAGGATCATGGCGG 60.250 60.000 0.00 0.0 0.00 6.13 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
26 27 4.821589 GACGGCGGCTCCCTGAAG 62.822 72.222 13.24 0.00 0.00 3.02
28 29 3.854669 CGGCGGCTCCCTGAAGAT 61.855 66.667 7.61 0.00 0.00 2.40
29 30 2.203126 GGCGGCTCCCTGAAGATG 60.203 66.667 0.00 0.00 0.00 2.90
30 31 2.203126 GCGGCTCCCTGAAGATGG 60.203 66.667 0.00 0.00 0.00 3.51
31 32 2.735772 GCGGCTCCCTGAAGATGGA 61.736 63.158 0.00 0.00 0.00 3.41
32 33 1.907739 CGGCTCCCTGAAGATGGAA 59.092 57.895 0.00 0.00 0.00 3.53
33 34 0.471617 CGGCTCCCTGAAGATGGAAT 59.528 55.000 0.00 0.00 0.00 3.01
34 35 1.694150 CGGCTCCCTGAAGATGGAATA 59.306 52.381 0.00 0.00 0.00 1.75
35 36 2.104792 CGGCTCCCTGAAGATGGAATAA 59.895 50.000 0.00 0.00 0.00 1.40
36 37 3.749226 GGCTCCCTGAAGATGGAATAAG 58.251 50.000 0.00 0.00 0.00 1.73
37 38 3.497584 GGCTCCCTGAAGATGGAATAAGG 60.498 52.174 0.00 0.00 0.00 2.69
38 39 3.137360 GCTCCCTGAAGATGGAATAAGGT 59.863 47.826 0.00 0.00 0.00 3.50
39 40 4.385754 GCTCCCTGAAGATGGAATAAGGTT 60.386 45.833 0.00 0.00 0.00 3.50
40 41 5.372373 CTCCCTGAAGATGGAATAAGGTTC 58.628 45.833 0.00 0.00 0.00 3.62
41 42 5.039645 TCCCTGAAGATGGAATAAGGTTCT 58.960 41.667 0.00 0.00 0.00 3.01
42 43 5.131142 TCCCTGAAGATGGAATAAGGTTCTC 59.869 44.000 0.00 0.00 0.00 2.87
43 44 5.053145 CCTGAAGATGGAATAAGGTTCTCG 58.947 45.833 0.00 0.00 0.00 4.04
44 45 4.442706 TGAAGATGGAATAAGGTTCTCGC 58.557 43.478 0.00 0.00 0.00 5.03
45 46 3.099267 AGATGGAATAAGGTTCTCGCG 57.901 47.619 0.00 0.00 0.00 5.87
46 47 2.135933 GATGGAATAAGGTTCTCGCGG 58.864 52.381 6.13 0.00 0.00 6.46
47 48 0.461339 TGGAATAAGGTTCTCGCGGC 60.461 55.000 6.13 0.00 0.00 6.53
48 49 1.158484 GGAATAAGGTTCTCGCGGCC 61.158 60.000 6.13 3.91 0.00 6.13
49 50 0.179081 GAATAAGGTTCTCGCGGCCT 60.179 55.000 6.13 6.44 0.00 5.19
50 51 1.068127 GAATAAGGTTCTCGCGGCCTA 59.932 52.381 6.13 0.00 31.43 3.93
51 52 0.674534 ATAAGGTTCTCGCGGCCTAG 59.325 55.000 6.13 0.00 31.43 3.02
52 53 2.012902 TAAGGTTCTCGCGGCCTAGC 62.013 60.000 6.13 0.00 31.43 3.42
53 54 4.893601 GGTTCTCGCGGCCTAGCC 62.894 72.222 6.13 0.00 46.75 3.93
62 63 4.222847 GGCCTAGCCCTCGTTCCG 62.223 72.222 0.00 0.00 44.06 4.30
63 64 3.459063 GCCTAGCCCTCGTTCCGT 61.459 66.667 0.00 0.00 0.00 4.69
64 65 3.015312 GCCTAGCCCTCGTTCCGTT 62.015 63.158 0.00 0.00 0.00 4.44
65 66 1.153628 CCTAGCCCTCGTTCCGTTG 60.154 63.158 0.00 0.00 0.00 4.10
66 67 1.153628 CTAGCCCTCGTTCCGTTGG 60.154 63.158 0.00 0.00 0.00 3.77
67 68 1.885163 CTAGCCCTCGTTCCGTTGGT 61.885 60.000 0.00 0.00 0.00 3.67
68 69 2.162338 TAGCCCTCGTTCCGTTGGTG 62.162 60.000 0.00 0.00 0.00 4.17
69 70 2.358247 CCCTCGTTCCGTTGGTGG 60.358 66.667 0.00 0.00 0.00 4.61
70 71 2.358247 CCTCGTTCCGTTGGTGGG 60.358 66.667 0.00 0.00 0.00 4.61
71 72 2.424302 CTCGTTCCGTTGGTGGGT 59.576 61.111 0.00 0.00 0.00 4.51
72 73 1.666872 CTCGTTCCGTTGGTGGGTC 60.667 63.158 0.00 0.00 0.00 4.46
73 74 2.095978 CTCGTTCCGTTGGTGGGTCT 62.096 60.000 0.00 0.00 0.00 3.85
74 75 0.827089 TCGTTCCGTTGGTGGGTCTA 60.827 55.000 0.00 0.00 0.00 2.59
75 76 0.668401 CGTTCCGTTGGTGGGTCTAC 60.668 60.000 0.00 0.00 0.00 2.59
76 77 0.321034 GTTCCGTTGGTGGGTCTACC 60.321 60.000 0.00 0.00 41.24 3.18
88 89 3.576861 TGGGTCTACCATCATCAGTAGG 58.423 50.000 0.81 0.00 46.80 3.18
89 90 2.300437 GGGTCTACCATCATCAGTAGGC 59.700 54.545 0.81 0.00 39.86 3.93
90 91 2.029828 GGTCTACCATCATCAGTAGGCG 60.030 54.545 0.00 0.00 41.18 5.52
91 92 2.623889 GTCTACCATCATCAGTAGGCGT 59.376 50.000 0.00 0.00 37.22 5.68
92 93 2.623416 TCTACCATCATCAGTAGGCGTG 59.377 50.000 0.00 0.00 37.22 5.34
93 94 1.195115 ACCATCATCAGTAGGCGTGT 58.805 50.000 0.00 0.00 0.00 4.49
94 95 2.384828 ACCATCATCAGTAGGCGTGTA 58.615 47.619 0.00 0.00 0.00 2.90
95 96 2.362397 ACCATCATCAGTAGGCGTGTAG 59.638 50.000 0.00 0.00 0.00 2.74
96 97 2.623416 CCATCATCAGTAGGCGTGTAGA 59.377 50.000 0.00 0.00 0.00 2.59
97 98 3.256879 CCATCATCAGTAGGCGTGTAGAT 59.743 47.826 0.00 0.00 0.00 1.98
98 99 3.990318 TCATCAGTAGGCGTGTAGATG 57.010 47.619 9.23 9.23 35.42 2.90
99 100 3.288092 TCATCAGTAGGCGTGTAGATGT 58.712 45.455 12.99 0.00 35.56 3.06
100 101 3.066760 TCATCAGTAGGCGTGTAGATGTG 59.933 47.826 12.99 0.00 35.56 3.21
101 102 2.443416 TCAGTAGGCGTGTAGATGTGT 58.557 47.619 0.00 0.00 0.00 3.72
102 103 2.163613 TCAGTAGGCGTGTAGATGTGTG 59.836 50.000 0.00 0.00 0.00 3.82
103 104 2.094700 CAGTAGGCGTGTAGATGTGTGT 60.095 50.000 0.00 0.00 0.00 3.72
104 105 2.163815 AGTAGGCGTGTAGATGTGTGTC 59.836 50.000 0.00 0.00 0.00 3.67
105 106 1.257743 AGGCGTGTAGATGTGTGTCT 58.742 50.000 0.00 0.00 0.00 3.41
106 107 1.202582 AGGCGTGTAGATGTGTGTCTC 59.797 52.381 0.00 0.00 0.00 3.36
107 108 1.630148 GCGTGTAGATGTGTGTCTCC 58.370 55.000 0.00 0.00 0.00 3.71
108 109 1.896345 CGTGTAGATGTGTGTCTCCG 58.104 55.000 0.00 0.00 0.00 4.63
109 110 1.467543 CGTGTAGATGTGTGTCTCCGG 60.468 57.143 0.00 0.00 0.00 5.14
110 111 0.530744 TGTAGATGTGTGTCTCCGGC 59.469 55.000 0.00 0.00 0.00 6.13
111 112 0.525668 GTAGATGTGTGTCTCCGGCG 60.526 60.000 0.00 0.00 0.00 6.46
112 113 1.663379 TAGATGTGTGTCTCCGGCGG 61.663 60.000 22.51 22.51 0.00 6.13
113 114 2.994995 ATGTGTGTCTCCGGCGGA 60.995 61.111 29.14 29.14 0.00 5.54
114 115 2.298158 GATGTGTGTCTCCGGCGGAT 62.298 60.000 31.23 12.21 0.00 4.18
115 116 2.202756 GTGTGTCTCCGGCGGATC 60.203 66.667 31.23 24.22 0.00 3.36
116 117 2.362503 TGTGTCTCCGGCGGATCT 60.363 61.111 31.23 0.00 0.00 2.75
117 118 2.105128 GTGTCTCCGGCGGATCTG 59.895 66.667 31.23 18.47 0.00 2.90
118 119 2.362503 TGTCTCCGGCGGATCTGT 60.363 61.111 31.23 0.00 0.00 3.41
119 120 2.413765 GTCTCCGGCGGATCTGTC 59.586 66.667 31.23 12.09 0.00 3.51
120 121 2.833582 TCTCCGGCGGATCTGTCC 60.834 66.667 31.23 2.84 41.40 4.02
121 122 2.835431 CTCCGGCGGATCTGTCCT 60.835 66.667 31.23 0.00 42.73 3.85
122 123 1.528542 CTCCGGCGGATCTGTCCTA 60.529 63.158 31.23 3.10 42.73 2.94
123 124 1.519751 CTCCGGCGGATCTGTCCTAG 61.520 65.000 31.23 10.58 42.73 3.02
124 125 2.565645 CCGGCGGATCTGTCCTAGG 61.566 68.421 24.41 0.82 42.73 3.02
125 126 1.828660 CGGCGGATCTGTCCTAGGT 60.829 63.158 9.08 0.00 42.73 3.08
126 127 1.742768 GGCGGATCTGTCCTAGGTG 59.257 63.158 9.08 0.75 42.73 4.00
127 128 1.742768 GCGGATCTGTCCTAGGTGG 59.257 63.158 9.08 0.40 42.73 4.61
128 129 0.755698 GCGGATCTGTCCTAGGTGGA 60.756 60.000 9.08 6.14 42.73 4.02
146 147 4.450419 GGTGGATTTGCTCAGATCTATTCG 59.550 45.833 0.00 0.00 0.00 3.34
148 149 5.525378 GTGGATTTGCTCAGATCTATTCGTT 59.475 40.000 0.00 0.00 0.00 3.85
156 157 6.417930 TGCTCAGATCTATTCGTTTATGTTCG 59.582 38.462 0.00 0.00 0.00 3.95
168 169 5.291371 TCGTTTATGTTCGTGTGTTTTCAGA 59.709 36.000 0.00 0.00 0.00 3.27
180 181 5.474876 GTGTGTTTTCAGATTGGATCCTTCT 59.525 40.000 14.23 12.26 0.00 2.85
225 226 1.672356 GGATGCTGTTCTGGTGCGT 60.672 57.895 0.00 0.00 0.00 5.24
228 229 3.357079 GCTGTTCTGGTGCGTGGG 61.357 66.667 0.00 0.00 0.00 4.61
252 253 3.766691 GGGGCCTTAGCACGACGA 61.767 66.667 0.84 0.00 46.55 4.20
253 254 2.508663 GGGCCTTAGCACGACGAC 60.509 66.667 0.84 0.00 42.56 4.34
254 255 2.572284 GGCCTTAGCACGACGACT 59.428 61.111 0.00 0.59 42.56 4.18
255 256 1.080025 GGCCTTAGCACGACGACTT 60.080 57.895 0.00 0.00 42.56 3.01
256 257 1.077089 GGCCTTAGCACGACGACTTC 61.077 60.000 0.00 0.00 42.56 3.01
276 277 7.393841 ACTTCCTGACTGTCTACTACAATAC 57.606 40.000 9.51 0.00 37.74 1.89
277 278 6.946583 ACTTCCTGACTGTCTACTACAATACA 59.053 38.462 9.51 0.00 37.74 2.29
278 279 7.450634 ACTTCCTGACTGTCTACTACAATACAA 59.549 37.037 9.51 0.00 37.74 2.41
279 280 7.154435 TCCTGACTGTCTACTACAATACAAC 57.846 40.000 9.51 0.00 37.74 3.32
280 281 6.717997 TCCTGACTGTCTACTACAATACAACA 59.282 38.462 9.51 0.00 37.74 3.33
285 286 8.589335 ACTGTCTACTACAATACAACAAGTTG 57.411 34.615 11.16 11.16 41.04 3.16
293 294 2.027460 CAACAAGTTGTGCCCGGC 59.973 61.111 9.79 1.04 35.92 6.13
295 296 1.756561 AACAAGTTGTGCCCGGCTT 60.757 52.632 9.79 0.00 0.00 4.35
371 372 3.801698 AGTCGTCGCTAGTTGGTCTATA 58.198 45.455 0.00 0.00 0.00 1.31
421 422 5.242434 TGGTGTTGATTGTACTACCATGAC 58.758 41.667 0.00 0.00 33.60 3.06
423 424 6.211785 TGGTGTTGATTGTACTACCATGACTA 59.788 38.462 0.00 0.00 33.60 2.59
430 431 7.710907 TGATTGTACTACCATGACTAAAGATGC 59.289 37.037 0.00 0.00 0.00 3.91
465 469 6.733721 GTTTTCCGCAAACAAAAACAAAAA 57.266 29.167 5.36 0.00 43.93 1.94
601 609 4.338964 TCGTCACAGTTGTGTCCTACTTTA 59.661 41.667 11.66 0.00 45.76 1.85
603 611 5.694910 CGTCACAGTTGTGTCCTACTTTATT 59.305 40.000 11.66 0.00 45.76 1.40
640 648 7.012943 TCTTGTCGTAATTTTAGTTCGCAATG 58.987 34.615 0.00 0.00 0.00 2.82
643 708 6.368243 TGTCGTAATTTTAGTTCGCAATGGTA 59.632 34.615 0.00 0.00 0.00 3.25
704 769 0.968405 AGCACGGGCAAACAATTCAT 59.032 45.000 14.57 0.00 44.61 2.57
708 773 2.730928 CACGGGCAAACAATTCATCAAC 59.269 45.455 0.00 0.00 0.00 3.18
794 862 0.385751 CACATACGCCTCGTCCTCAT 59.614 55.000 0.00 0.00 41.54 2.90
806 874 2.229062 TCGTCCTCATCACTGTCAAGTC 59.771 50.000 0.00 0.00 32.98 3.01
818 886 2.229784 CTGTCAAGTCTCAATTTGGCCC 59.770 50.000 0.00 0.00 0.00 5.80
864 933 1.069022 TGATTTCACTTTCGCTGCAGC 60.069 47.619 29.12 29.12 37.78 5.25
908 2121 3.582120 CACGGCACACCACACCAC 61.582 66.667 0.00 0.00 34.57 4.16
909 2122 4.102815 ACGGCACACCACACCACA 62.103 61.111 0.00 0.00 34.57 4.17
910 2123 3.582120 CGGCACACCACACCACAC 61.582 66.667 0.00 0.00 34.57 3.82
911 2124 2.124320 GGCACACCACACCACACT 60.124 61.111 0.00 0.00 35.26 3.55
912 2125 2.186826 GGCACACCACACCACACTC 61.187 63.158 0.00 0.00 35.26 3.51
1512 3139 2.365408 AGGAGGCGAAAAAGTACTCG 57.635 50.000 0.00 0.00 38.11 4.18
1582 3209 4.096003 CGGACTTCGGGGCCATGT 62.096 66.667 4.39 0.00 45.62 3.21
1803 3430 2.230940 CGTCACCATCGCCATCGTC 61.231 63.158 0.00 0.00 36.96 4.20
1824 3451 2.600769 AAGGACCTCGTCGGCAGT 60.601 61.111 0.00 0.00 35.61 4.40
1863 3490 2.531206 GTGATGCTCGACTACAAGACC 58.469 52.381 0.00 0.00 0.00 3.85
1926 3553 0.320247 CCATCTACATCTGCGGGCTC 60.320 60.000 0.00 0.00 0.00 4.70
1929 3556 1.299468 CTACATCTGCGGGCTCGTC 60.299 63.158 8.30 0.00 38.89 4.20
1947 3574 3.708220 CTTCGAGGACCTGCTCGCC 62.708 68.421 11.03 0.00 42.17 5.54
2079 3706 2.027073 GTCGCTCATGAACGTGCCA 61.027 57.895 17.36 0.00 0.00 4.92
2208 3835 0.747644 CCATCTACAACGCCATGCCA 60.748 55.000 0.00 0.00 0.00 4.92
2270 3897 1.373570 CAAGCGAGGAACCCTTGATC 58.626 55.000 4.46 0.00 37.20 2.92
2292 3919 4.592192 CGTCGCCGCCATGATCCT 62.592 66.667 0.00 0.00 0.00 3.24
2323 3950 1.610363 TGCTCGCTCTAGTAGGATGG 58.390 55.000 0.00 0.00 0.00 3.51
2325 3952 0.885196 CTCGCTCTAGTAGGATGGGC 59.115 60.000 0.00 0.00 0.00 5.36
2400 4034 5.063186 CGCTCATATGAGATTTGCTATCCAC 59.937 44.000 32.38 11.45 44.74 4.02
2401 4035 5.353678 GCTCATATGAGATTTGCTATCCACC 59.646 44.000 32.38 8.82 44.74 4.61
2402 4036 6.692849 TCATATGAGATTTGCTATCCACCT 57.307 37.500 0.00 0.00 0.00 4.00
2403 4037 6.470278 TCATATGAGATTTGCTATCCACCTG 58.530 40.000 0.00 0.00 0.00 4.00
2405 4039 5.894298 ATGAGATTTGCTATCCACCTGTA 57.106 39.130 0.00 0.00 0.00 2.74
2406 4040 5.282055 TGAGATTTGCTATCCACCTGTAG 57.718 43.478 0.00 0.00 0.00 2.74
2407 4041 4.716784 TGAGATTTGCTATCCACCTGTAGT 59.283 41.667 0.00 0.00 0.00 2.73
2408 4042 5.897250 TGAGATTTGCTATCCACCTGTAGTA 59.103 40.000 0.00 0.00 0.00 1.82
2409 4043 6.554982 TGAGATTTGCTATCCACCTGTAGTAT 59.445 38.462 0.00 0.00 0.00 2.12
2410 4044 7.071196 TGAGATTTGCTATCCACCTGTAGTATT 59.929 37.037 0.00 0.00 0.00 1.89
2411 4045 8.492415 AGATTTGCTATCCACCTGTAGTATTA 57.508 34.615 0.00 0.00 0.00 0.98
2412 4046 8.589338 AGATTTGCTATCCACCTGTAGTATTAG 58.411 37.037 0.00 0.00 0.00 1.73
2416 4050 8.951614 TGCTATCCACCTGTAGTATTAGTTAT 57.048 34.615 0.00 0.00 0.00 1.89
2417 4051 8.803235 TGCTATCCACCTGTAGTATTAGTTATG 58.197 37.037 0.00 0.00 0.00 1.90
2418 4052 8.251721 GCTATCCACCTGTAGTATTAGTTATGG 58.748 40.741 0.00 0.00 0.00 2.74
2422 4056 8.917088 TCCACCTGTAGTATTAGTTATGGTAAC 58.083 37.037 0.00 0.00 0.00 2.50
2423 4057 8.146412 CCACCTGTAGTATTAGTTATGGTAACC 58.854 40.741 0.00 0.00 0.00 2.85
2436 4087 2.166829 TGGTAACCATTTCGCAATGCT 58.833 42.857 2.94 0.00 38.88 3.79
2452 4103 2.090524 GCTGCTGCATTTTCACCGC 61.091 57.895 11.11 0.00 39.41 5.68
2457 4108 0.777631 CTGCATTTTCACCGCGTTTG 59.222 50.000 4.92 1.27 0.00 2.93
2468 4119 2.861006 GCGTTTGCGGGACTCTTC 59.139 61.111 0.00 0.00 38.78 2.87
2470 4121 1.627550 GCGTTTGCGGGACTCTTCTC 61.628 60.000 0.00 0.00 38.78 2.87
2472 4123 0.034896 GTTTGCGGGACTCTTCTCCA 59.965 55.000 0.00 0.00 30.97 3.86
2473 4124 0.984230 TTTGCGGGACTCTTCTCCAT 59.016 50.000 0.00 0.00 30.97 3.41
2480 4131 2.275318 GGACTCTTCTCCATTTGCTCG 58.725 52.381 0.00 0.00 0.00 5.03
2489 4140 2.485426 CTCCATTTGCTCGCTTTTGAGA 59.515 45.455 0.00 0.00 38.28 3.27
2520 4171 6.379988 ACATGTTGTATTGGGGAATAAAGGTC 59.620 38.462 0.00 0.00 0.00 3.85
2522 4173 5.187687 GTTGTATTGGGGAATAAAGGTCGA 58.812 41.667 0.00 0.00 0.00 4.20
2524 4175 6.008696 TGTATTGGGGAATAAAGGTCGATT 57.991 37.500 0.00 0.00 0.00 3.34
2526 4177 3.290948 TGGGGAATAAAGGTCGATTGG 57.709 47.619 0.00 0.00 0.00 3.16
2540 4495 4.567159 GGTCGATTGGTGTCTTCAGATTAC 59.433 45.833 0.00 0.00 0.00 1.89
2602 4557 2.024369 AGACCCACTCAAGGTTTGGTTT 60.024 45.455 0.00 0.00 37.88 3.27
2609 4564 4.329801 CACTCAAGGTTTGGTTTGCTTTTC 59.670 41.667 0.00 0.00 0.00 2.29
2613 4568 4.123497 AGGTTTGGTTTGCTTTTCTGAC 57.877 40.909 0.00 0.00 0.00 3.51
2614 4569 3.513515 AGGTTTGGTTTGCTTTTCTGACA 59.486 39.130 0.00 0.00 0.00 3.58
2619 4574 6.707440 TTGGTTTGCTTTTCTGACATCTAA 57.293 33.333 0.00 0.00 0.00 2.10
2633 4588 6.542005 TCTGACATCTAAACAAGCAAGTTTGA 59.458 34.615 14.48 10.74 41.48 2.69
2642 4597 4.787598 ACAAGCAAGTTTGACGATCATTC 58.212 39.130 3.63 0.00 0.00 2.67
2644 4599 4.675190 AGCAAGTTTGACGATCATTCTG 57.325 40.909 0.00 0.00 0.00 3.02
2645 4600 4.067896 AGCAAGTTTGACGATCATTCTGT 58.932 39.130 0.00 0.00 0.00 3.41
2657 4612 3.107402 TCATTCTGTCCTAGAGGCAGT 57.893 47.619 15.28 0.95 39.08 4.40
2658 4613 4.251103 TCATTCTGTCCTAGAGGCAGTA 57.749 45.455 15.28 9.47 39.08 2.74
2662 4617 3.567397 TCTGTCCTAGAGGCAGTATTCC 58.433 50.000 15.28 0.00 39.08 3.01
2670 4625 3.445008 AGAGGCAGTATTCCTGTTCTCA 58.555 45.455 13.20 0.00 43.55 3.27
2684 4639 4.822026 CTGTTCTCAGGATTTTCGTAGGT 58.178 43.478 0.00 0.00 37.97 3.08
2709 4664 0.811616 CCGGTGCAGGATTCTGTAGC 60.812 60.000 10.98 10.98 46.01 3.58
2723 4678 8.368668 AGGATTCTGTAGCATTAGTATGGTAAC 58.631 37.037 0.00 0.00 44.00 2.50
2740 4695 3.857093 GGTAACTATTTTGCAATGCCACG 59.143 43.478 1.53 0.00 0.00 4.94
2755 4710 1.007964 CACGGCATTTTTCCACGCA 60.008 52.632 0.00 0.00 0.00 5.24
2835 4790 7.970614 GGAATAAAGGTTGATTGATGTCTTCAC 59.029 37.037 0.00 0.00 32.84 3.18
2950 4913 4.527944 TGTCGATCATTGTCTCCTAGAGT 58.472 43.478 0.00 0.00 0.00 3.24
2978 4956 6.387192 TCTTGGGATCTGGTAGATTTTTCA 57.613 37.500 0.00 0.00 34.53 2.69
3058 5051 1.188219 TCAGACAGGCAGACAGGTCC 61.188 60.000 0.00 0.00 0.00 4.46
3065 5058 1.133976 AGGCAGACAGGTCCATTATGC 60.134 52.381 1.59 1.59 0.00 3.14
3131 5124 0.550914 TTTGGAGGTTGGTGAGCAGT 59.449 50.000 0.00 0.00 0.00 4.40
3160 5153 4.036971 CCCGAGAGTTTGGTGATCTACTAG 59.963 50.000 0.00 0.00 0.00 2.57
3161 5154 4.498345 CCGAGAGTTTGGTGATCTACTAGC 60.498 50.000 0.00 0.00 0.00 3.42
3196 5191 0.832135 TCCAGTGTCCCTGTCTGTCC 60.832 60.000 0.00 0.00 39.74 4.02
3246 5241 1.798813 GCACCAAAATACAGATGCGGC 60.799 52.381 0.00 0.00 0.00 6.53
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 10 4.821589 CTTCAGGGAGCCGCCGTC 62.822 72.222 0.00 0.00 37.63 4.79
11 12 3.854669 ATCTTCAGGGAGCCGCCG 61.855 66.667 0.00 0.00 37.63 6.46
12 13 2.203126 CATCTTCAGGGAGCCGCC 60.203 66.667 0.00 0.00 0.00 6.13
13 14 2.203126 CCATCTTCAGGGAGCCGC 60.203 66.667 0.00 0.00 0.00 6.53
14 15 0.471617 ATTCCATCTTCAGGGAGCCG 59.528 55.000 0.00 0.00 34.02 5.52
15 16 3.497584 CCTTATTCCATCTTCAGGGAGCC 60.498 52.174 0.00 0.00 34.02 4.70
16 17 3.137360 ACCTTATTCCATCTTCAGGGAGC 59.863 47.826 0.00 0.00 34.02 4.70
17 18 5.131809 AGAACCTTATTCCATCTTCAGGGAG 59.868 44.000 0.00 0.00 34.02 4.30
18 19 5.039645 AGAACCTTATTCCATCTTCAGGGA 58.960 41.667 0.00 0.00 0.00 4.20
19 20 5.372373 GAGAACCTTATTCCATCTTCAGGG 58.628 45.833 0.00 0.00 0.00 4.45
20 21 5.053145 CGAGAACCTTATTCCATCTTCAGG 58.947 45.833 0.00 0.00 0.00 3.86
21 22 4.509600 GCGAGAACCTTATTCCATCTTCAG 59.490 45.833 0.00 0.00 0.00 3.02
22 23 4.442706 GCGAGAACCTTATTCCATCTTCA 58.557 43.478 0.00 0.00 0.00 3.02
23 24 3.491267 CGCGAGAACCTTATTCCATCTTC 59.509 47.826 0.00 0.00 0.00 2.87
24 25 3.458189 CGCGAGAACCTTATTCCATCTT 58.542 45.455 0.00 0.00 0.00 2.40
25 26 2.224066 CCGCGAGAACCTTATTCCATCT 60.224 50.000 8.23 0.00 0.00 2.90
26 27 2.135933 CCGCGAGAACCTTATTCCATC 58.864 52.381 8.23 0.00 0.00 3.51
27 28 1.810412 GCCGCGAGAACCTTATTCCAT 60.810 52.381 8.23 0.00 0.00 3.41
28 29 0.461339 GCCGCGAGAACCTTATTCCA 60.461 55.000 8.23 0.00 0.00 3.53
29 30 1.158484 GGCCGCGAGAACCTTATTCC 61.158 60.000 8.23 0.00 0.00 3.01
30 31 0.179081 AGGCCGCGAGAACCTTATTC 60.179 55.000 8.23 0.00 34.34 1.75
31 32 1.068741 CTAGGCCGCGAGAACCTTATT 59.931 52.381 8.23 0.00 38.28 1.40
32 33 0.674534 CTAGGCCGCGAGAACCTTAT 59.325 55.000 8.23 0.00 38.28 1.73
33 34 2.012902 GCTAGGCCGCGAGAACCTTA 62.013 60.000 8.23 0.00 38.28 2.69
34 35 2.893398 CTAGGCCGCGAGAACCTT 59.107 61.111 8.23 0.00 38.28 3.50
35 36 3.839432 GCTAGGCCGCGAGAACCT 61.839 66.667 8.23 11.52 40.09 3.50
36 37 4.893601 GGCTAGGCCGCGAGAACC 62.894 72.222 8.23 3.07 39.62 3.62
57 58 0.321034 GGTAGACCCACCAACGGAAC 60.321 60.000 0.00 0.00 38.55 3.62
58 59 0.763604 TGGTAGACCCACCAACGGAA 60.764 55.000 0.00 0.00 45.65 4.30
59 60 1.152290 TGGTAGACCCACCAACGGA 60.152 57.895 0.00 0.00 45.65 4.69
60 61 3.474000 TGGTAGACCCACCAACGG 58.526 61.111 0.00 0.00 45.65 4.44
68 69 2.300437 GCCTACTGATGATGGTAGACCC 59.700 54.545 0.00 0.00 38.03 4.46
69 70 2.029828 CGCCTACTGATGATGGTAGACC 60.030 54.545 0.00 0.00 38.03 3.85
70 71 2.623889 ACGCCTACTGATGATGGTAGAC 59.376 50.000 0.00 0.00 38.03 2.59
71 72 2.623416 CACGCCTACTGATGATGGTAGA 59.377 50.000 0.00 0.00 38.03 2.59
72 73 2.362397 ACACGCCTACTGATGATGGTAG 59.638 50.000 0.00 0.00 36.23 3.18
73 74 2.384828 ACACGCCTACTGATGATGGTA 58.615 47.619 0.00 0.00 0.00 3.25
74 75 1.195115 ACACGCCTACTGATGATGGT 58.805 50.000 0.00 0.00 0.00 3.55
75 76 2.623416 TCTACACGCCTACTGATGATGG 59.377 50.000 0.00 0.00 0.00 3.51
76 77 3.990318 TCTACACGCCTACTGATGATG 57.010 47.619 0.00 0.00 0.00 3.07
77 78 3.891977 ACATCTACACGCCTACTGATGAT 59.108 43.478 0.00 0.00 36.25 2.45
78 79 3.066760 CACATCTACACGCCTACTGATGA 59.933 47.826 0.00 0.00 36.25 2.92
79 80 3.181486 ACACATCTACACGCCTACTGATG 60.181 47.826 0.00 0.00 37.77 3.07
80 81 3.024547 ACACATCTACACGCCTACTGAT 58.975 45.455 0.00 0.00 0.00 2.90
81 82 2.163613 CACACATCTACACGCCTACTGA 59.836 50.000 0.00 0.00 0.00 3.41
82 83 2.094700 ACACACATCTACACGCCTACTG 60.095 50.000 0.00 0.00 0.00 2.74
83 84 2.163815 GACACACATCTACACGCCTACT 59.836 50.000 0.00 0.00 0.00 2.57
84 85 2.163815 AGACACACATCTACACGCCTAC 59.836 50.000 0.00 0.00 0.00 3.18
85 86 2.422479 GAGACACACATCTACACGCCTA 59.578 50.000 0.00 0.00 0.00 3.93
86 87 1.202582 GAGACACACATCTACACGCCT 59.797 52.381 0.00 0.00 0.00 5.52
87 88 1.630148 GAGACACACATCTACACGCC 58.370 55.000 0.00 0.00 0.00 5.68
88 89 1.630148 GGAGACACACATCTACACGC 58.370 55.000 0.00 0.00 28.92 5.34
89 90 1.467543 CCGGAGACACACATCTACACG 60.468 57.143 0.00 0.00 28.92 4.49
90 91 1.736032 GCCGGAGACACACATCTACAC 60.736 57.143 5.05 0.00 28.92 2.90
91 92 0.530744 GCCGGAGACACACATCTACA 59.469 55.000 5.05 0.00 28.92 2.74
92 93 0.525668 CGCCGGAGACACACATCTAC 60.526 60.000 5.05 0.00 0.00 2.59
93 94 1.663379 CCGCCGGAGACACACATCTA 61.663 60.000 5.05 0.00 0.00 1.98
94 95 2.573869 CGCCGGAGACACACATCT 59.426 61.111 5.05 0.00 0.00 2.90
95 96 2.298158 ATCCGCCGGAGACACACATC 62.298 60.000 13.12 0.00 34.05 3.06
96 97 2.298158 GATCCGCCGGAGACACACAT 62.298 60.000 13.12 0.00 34.05 3.21
97 98 2.994995 ATCCGCCGGAGACACACA 60.995 61.111 13.12 0.00 34.05 3.72
98 99 2.202756 GATCCGCCGGAGACACAC 60.203 66.667 13.12 0.00 34.05 3.82
99 100 2.362503 AGATCCGCCGGAGACACA 60.363 61.111 13.12 0.00 34.05 3.72
100 101 2.105128 CAGATCCGCCGGAGACAC 59.895 66.667 13.12 3.15 34.05 3.67
101 102 2.362503 ACAGATCCGCCGGAGACA 60.363 61.111 13.12 0.00 34.05 3.41
102 103 2.413765 GACAGATCCGCCGGAGAC 59.586 66.667 13.12 8.53 34.05 3.36
103 104 2.833582 GGACAGATCCGCCGGAGA 60.834 66.667 13.12 0.00 34.05 3.71
119 120 3.390639 AGATCTGAGCAAATCCACCTAGG 59.609 47.826 7.41 7.41 39.47 3.02
120 121 4.686191 AGATCTGAGCAAATCCACCTAG 57.314 45.455 0.00 0.00 0.00 3.02
121 122 6.517362 CGAATAGATCTGAGCAAATCCACCTA 60.517 42.308 5.18 0.00 0.00 3.08
122 123 5.619220 GAATAGATCTGAGCAAATCCACCT 58.381 41.667 5.18 0.00 0.00 4.00
123 124 4.450419 CGAATAGATCTGAGCAAATCCACC 59.550 45.833 5.18 0.00 0.00 4.61
124 125 5.053145 ACGAATAGATCTGAGCAAATCCAC 58.947 41.667 5.18 0.00 0.00 4.02
125 126 5.282055 ACGAATAGATCTGAGCAAATCCA 57.718 39.130 5.18 0.00 0.00 3.41
126 127 6.610741 AAACGAATAGATCTGAGCAAATCC 57.389 37.500 5.18 0.00 0.00 3.01
127 128 8.768955 ACATAAACGAATAGATCTGAGCAAATC 58.231 33.333 5.18 0.00 0.00 2.17
128 129 8.668510 ACATAAACGAATAGATCTGAGCAAAT 57.331 30.769 5.18 0.00 0.00 2.32
129 130 8.492673 AACATAAACGAATAGATCTGAGCAAA 57.507 30.769 5.18 0.00 0.00 3.68
130 131 7.043391 CGAACATAAACGAATAGATCTGAGCAA 60.043 37.037 5.18 0.00 0.00 3.91
131 132 6.417930 CGAACATAAACGAATAGATCTGAGCA 59.582 38.462 5.18 0.00 0.00 4.26
132 133 6.418226 ACGAACATAAACGAATAGATCTGAGC 59.582 38.462 5.18 0.00 0.00 4.26
133 134 7.432545 ACACGAACATAAACGAATAGATCTGAG 59.567 37.037 5.18 0.00 0.00 3.35
134 135 7.220108 CACACGAACATAAACGAATAGATCTGA 59.780 37.037 5.18 0.00 0.00 3.27
135 136 7.009265 ACACACGAACATAAACGAATAGATCTG 59.991 37.037 5.18 0.00 0.00 2.90
136 137 7.033791 ACACACGAACATAAACGAATAGATCT 58.966 34.615 0.00 0.00 0.00 2.75
146 147 7.096640 CCAATCTGAAAACACACGAACATAAAC 60.097 37.037 0.00 0.00 0.00 2.01
148 149 6.261158 TCCAATCTGAAAACACACGAACATAA 59.739 34.615 0.00 0.00 0.00 1.90
156 157 5.474876 AGAAGGATCCAATCTGAAAACACAC 59.525 40.000 15.82 0.00 0.00 3.82
180 181 3.498777 CCGATGAAGAGTAGCGTAGATCA 59.501 47.826 0.00 0.00 0.00 2.92
187 188 1.658717 CCGCCGATGAAGAGTAGCG 60.659 63.158 0.00 0.00 42.99 4.26
252 253 6.946583 TGTATTGTAGTAGACAGTCAGGAAGT 59.053 38.462 2.66 0.00 39.88 3.01
253 254 7.392494 TGTATTGTAGTAGACAGTCAGGAAG 57.608 40.000 2.66 0.00 39.88 3.46
254 255 7.231925 TGTTGTATTGTAGTAGACAGTCAGGAA 59.768 37.037 2.66 0.00 39.88 3.36
255 256 6.717997 TGTTGTATTGTAGTAGACAGTCAGGA 59.282 38.462 2.66 0.00 39.88 3.86
256 257 6.920817 TGTTGTATTGTAGTAGACAGTCAGG 58.079 40.000 2.66 0.00 39.88 3.86
276 277 2.015227 AAGCCGGGCACAACTTGTTG 62.015 55.000 23.09 11.44 0.00 3.33
277 278 1.326951 AAAGCCGGGCACAACTTGTT 61.327 50.000 23.09 0.31 0.00 2.83
278 279 1.756561 AAAGCCGGGCACAACTTGT 60.757 52.632 23.09 0.00 0.00 3.16
279 280 1.300080 CAAAGCCGGGCACAACTTG 60.300 57.895 23.09 11.84 0.00 3.16
280 281 2.498056 CCAAAGCCGGGCACAACTT 61.498 57.895 23.09 2.81 0.00 2.66
285 286 3.365265 CTCACCAAAGCCGGGCAC 61.365 66.667 23.09 0.00 0.00 5.01
293 294 2.356667 GCCCCTCCCTCACCAAAG 59.643 66.667 0.00 0.00 0.00 2.77
295 296 3.943137 ATCGCCCCTCCCTCACCAA 62.943 63.158 0.00 0.00 0.00 3.67
333 334 4.413087 ACGACTACAATCACTAAAGCGAG 58.587 43.478 0.00 0.00 0.00 5.03
340 341 4.186926 ACTAGCGACGACTACAATCACTA 58.813 43.478 0.00 0.00 0.00 2.74
405 406 7.710907 TGCATCTTTAGTCATGGTAGTACAATC 59.289 37.037 2.06 0.00 0.00 2.67
421 422 2.620251 TCCGACCCATGCATCTTTAG 57.380 50.000 0.00 0.00 0.00 1.85
423 424 1.064463 ACATCCGACCCATGCATCTTT 60.064 47.619 0.00 0.00 0.00 2.52
546 554 2.464459 GCCAGGAAGTTGATCGCCG 61.464 63.158 0.00 0.00 0.00 6.46
704 769 1.626321 TGTTGCGAATCTAGGGGTTGA 59.374 47.619 0.00 0.00 0.00 3.18
708 773 4.196193 TGTTTATGTTGCGAATCTAGGGG 58.804 43.478 0.00 0.00 0.00 4.79
794 862 3.565482 GCCAAATTGAGACTTGACAGTGA 59.435 43.478 0.00 0.00 31.22 3.41
806 874 2.362889 AGCCGGGGCCAAATTGAG 60.363 61.111 4.39 0.00 43.17 3.02
818 886 2.125832 CAAATTGCAGGCAGCCGG 60.126 61.111 7.31 7.31 44.83 6.13
864 933 4.687948 GTGGCTGTCTGCTATGTGTATATG 59.312 45.833 1.44 0.00 42.39 1.78
1500 3127 0.672711 AGGCGGCCGAGTACTTTTTC 60.673 55.000 33.48 6.40 0.00 2.29
1503 3130 2.577593 GAGGCGGCCGAGTACTTT 59.422 61.111 33.48 4.57 0.00 2.66
1803 3430 4.796231 CCGACGAGGTCCTTGCGG 62.796 72.222 20.69 20.69 31.99 5.69
1926 3553 1.137825 GAGCAGGTCCTCGAAGACG 59.862 63.158 8.04 0.00 37.66 4.18
2079 3706 2.361610 CCCTTGGCCAGCGTGAAT 60.362 61.111 5.11 0.00 0.00 2.57
2106 3733 0.737367 CGGCGATGAACTGCTTCTCA 60.737 55.000 0.00 0.00 0.00 3.27
2181 3808 1.883084 GTTGTAGATGGAGGCGCGG 60.883 63.158 8.83 0.00 0.00 6.46
2280 3907 0.250209 CAGAGGAAGGATCATGGCGG 60.250 60.000 0.00 0.00 0.00 6.13
2288 3915 2.366916 CGAGCAATACCAGAGGAAGGAT 59.633 50.000 0.00 0.00 0.00 3.24
2289 3916 1.757118 CGAGCAATACCAGAGGAAGGA 59.243 52.381 0.00 0.00 0.00 3.36
2290 3917 1.808133 GCGAGCAATACCAGAGGAAGG 60.808 57.143 0.00 0.00 0.00 3.46
2291 3918 1.137872 AGCGAGCAATACCAGAGGAAG 59.862 52.381 0.00 0.00 0.00 3.46
2292 3919 1.137086 GAGCGAGCAATACCAGAGGAA 59.863 52.381 0.00 0.00 0.00 3.36
2405 4039 7.988599 TGCGAAATGGTTACCATAACTAATACT 59.011 33.333 18.07 0.00 44.40 2.12
2406 4040 8.145316 TGCGAAATGGTTACCATAACTAATAC 57.855 34.615 18.07 3.24 44.40 1.89
2407 4041 8.734218 TTGCGAAATGGTTACCATAACTAATA 57.266 30.769 18.07 0.00 44.40 0.98
2408 4042 7.633193 TTGCGAAATGGTTACCATAACTAAT 57.367 32.000 18.07 0.00 44.40 1.73
2409 4043 7.476667 CATTGCGAAATGGTTACCATAACTAA 58.523 34.615 18.07 9.81 44.40 2.24
2410 4044 6.459024 GCATTGCGAAATGGTTACCATAACTA 60.459 38.462 18.07 5.10 44.40 2.24
2411 4045 5.678616 GCATTGCGAAATGGTTACCATAACT 60.679 40.000 18.07 5.31 44.40 2.24
2412 4046 4.502645 GCATTGCGAAATGGTTACCATAAC 59.497 41.667 18.07 12.96 44.40 1.89
2416 4050 2.094803 CAGCATTGCGAAATGGTTACCA 60.095 45.455 18.21 6.53 38.68 3.25
2417 4051 2.529151 CAGCATTGCGAAATGGTTACC 58.471 47.619 18.21 0.29 38.68 2.85
2418 4052 1.919918 GCAGCATTGCGAAATGGTTAC 59.080 47.619 18.21 9.89 41.13 2.50
2420 4054 3.126729 GCAGCATTGCGAAATGGTT 57.873 47.368 18.21 0.00 41.13 3.67
2436 4087 2.069465 AACGCGGTGAAAATGCAGCA 62.069 50.000 12.47 0.00 36.11 4.41
2452 4103 1.014564 GGAGAAGAGTCCCGCAAACG 61.015 60.000 0.00 0.00 39.67 3.60
2457 4108 1.373570 CAAATGGAGAAGAGTCCCGC 58.626 55.000 0.00 0.00 35.49 6.13
2463 4114 2.021355 AGCGAGCAAATGGAGAAGAG 57.979 50.000 0.00 0.00 0.00 2.85
2464 4115 2.479566 AAGCGAGCAAATGGAGAAGA 57.520 45.000 0.00 0.00 0.00 2.87
2465 4116 3.058016 TCAAAAGCGAGCAAATGGAGAAG 60.058 43.478 0.00 0.00 0.00 2.85
2466 4117 2.884012 TCAAAAGCGAGCAAATGGAGAA 59.116 40.909 0.00 0.00 0.00 2.87
2467 4118 2.485426 CTCAAAAGCGAGCAAATGGAGA 59.515 45.455 0.00 0.00 0.00 3.71
2468 4119 2.485426 TCTCAAAAGCGAGCAAATGGAG 59.515 45.455 0.00 0.00 32.75 3.86
2470 4121 2.995466 TCTCAAAAGCGAGCAAATGG 57.005 45.000 0.00 0.00 32.75 3.16
2472 4123 3.507233 TCCAATCTCAAAAGCGAGCAAAT 59.493 39.130 0.00 0.00 32.75 2.32
2473 4124 2.884012 TCCAATCTCAAAAGCGAGCAAA 59.116 40.909 0.00 0.00 32.75 3.68
2480 4131 5.291971 ACAACATGTTCCAATCTCAAAAGC 58.708 37.500 8.48 0.00 0.00 3.51
2489 4140 4.682563 TCCCCAATACAACATGTTCCAAT 58.317 39.130 8.48 0.00 0.00 3.16
2520 4171 4.568359 CAGGTAATCTGAAGACACCAATCG 59.432 45.833 12.95 0.00 46.18 3.34
2568 4523 7.993183 CCTTGAGTGGGTCTATTTGTAACATAT 59.007 37.037 0.00 0.00 0.00 1.78
2602 4557 5.299028 TGCTTGTTTAGATGTCAGAAAAGCA 59.701 36.000 0.00 0.00 43.61 3.91
2609 4564 6.634436 GTCAAACTTGCTTGTTTAGATGTCAG 59.366 38.462 7.18 0.00 37.98 3.51
2613 4568 5.747565 TCGTCAAACTTGCTTGTTTAGATG 58.252 37.500 7.18 11.06 37.98 2.90
2614 4569 6.204688 TGATCGTCAAACTTGCTTGTTTAGAT 59.795 34.615 7.18 10.99 37.98 1.98
2619 4574 4.836125 ATGATCGTCAAACTTGCTTGTT 57.164 36.364 0.00 0.00 0.00 2.83
2633 4588 2.625790 GCCTCTAGGACAGAATGATCGT 59.374 50.000 0.00 0.00 35.80 3.73
2642 4597 3.320541 CAGGAATACTGCCTCTAGGACAG 59.679 52.174 14.87 14.87 40.97 3.51
2662 4617 4.822026 ACCTACGAAAATCCTGAGAACAG 58.178 43.478 0.00 0.00 43.12 3.16
2723 4678 1.280066 GCCGTGGCATTGCAAAATAG 58.720 50.000 11.39 0.00 41.49 1.73
2740 4695 2.529151 CTGTATGCGTGGAAAAATGCC 58.471 47.619 0.00 0.00 0.00 4.40
2748 4703 2.073252 AGAGATCCTGTATGCGTGGA 57.927 50.000 0.00 0.00 0.00 4.02
2755 4710 6.011122 AGCAATGGAAAAGAGATCCTGTAT 57.989 37.500 0.00 0.00 37.85 2.29
2835 4790 9.559732 TCAACCATACATAAGAATCAGGTAATG 57.440 33.333 0.00 0.00 0.00 1.90
2870 4831 5.930135 ACTTTGAGTTGGTCTCTGTAACAT 58.070 37.500 0.00 0.00 43.13 2.71
2950 4913 4.061131 TCTACCAGATCCCAAGAACAGA 57.939 45.455 0.00 0.00 0.00 3.41
3037 5019 1.070758 GACCTGTCTGCCTGTCTGAAA 59.929 52.381 0.00 0.00 0.00 2.69
3039 5021 1.188219 GGACCTGTCTGCCTGTCTGA 61.188 60.000 0.00 0.00 0.00 3.27
3040 5022 1.294780 GGACCTGTCTGCCTGTCTG 59.705 63.158 0.00 0.00 0.00 3.51
3041 5023 0.546267 ATGGACCTGTCTGCCTGTCT 60.546 55.000 0.00 0.00 0.00 3.41
3042 5024 0.326264 AATGGACCTGTCTGCCTGTC 59.674 55.000 0.00 0.00 0.00 3.51
3043 5025 1.656587 TAATGGACCTGTCTGCCTGT 58.343 50.000 0.00 0.00 0.00 4.00
3044 5026 2.569059 CATAATGGACCTGTCTGCCTG 58.431 52.381 0.00 0.00 0.00 4.85
3045 5027 1.133976 GCATAATGGACCTGTCTGCCT 60.134 52.381 0.00 0.00 0.00 4.75
3046 5028 1.133976 AGCATAATGGACCTGTCTGCC 60.134 52.381 5.23 0.00 0.00 4.85
3047 5029 1.945394 CAGCATAATGGACCTGTCTGC 59.055 52.381 0.00 0.00 0.00 4.26
3051 5044 2.171448 GTCCTCAGCATAATGGACCTGT 59.829 50.000 0.00 0.00 42.11 4.00
3058 5051 2.357009 GTGCTTGGTCCTCAGCATAATG 59.643 50.000 16.64 0.00 39.57 1.90
3065 5058 0.321122 GGTCTGTGCTTGGTCCTCAG 60.321 60.000 0.00 0.00 0.00 3.35
3131 5124 1.275291 CACCAAACTCTCGGGAGCTTA 59.725 52.381 13.59 0.00 42.98 3.09
3160 5153 4.558538 CTGGAACCAGCAAATATACTGC 57.441 45.455 7.95 2.19 40.24 4.40
3246 5241 1.206578 GCACCAAACCGTCACATCG 59.793 57.895 0.00 0.00 0.00 3.84


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

AutoCloner maintained by Alex Coulton.