Multiple sequence alignment - TraesCS7B01G234300

Loading Multiple Alignment...

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 TraesCS7B01G234300 chr7B 100.000 4490 0 0 1 4490 438420573 438425062 0.000000e+00 8292.0
1 TraesCS7B01G234300 chr7B 88.656 573 42 4 3830 4379 438435871 438436443 0.000000e+00 676.0
2 TraesCS7B01G234300 chr7B 88.312 231 19 8 4264 4490 707464414 707464640 2.060000e-68 270.0
3 TraesCS7B01G234300 chr7B 99.259 135 1 0 1 135 438400742 438400876 1.250000e-60 244.0
4 TraesCS7B01G234300 chr7B 100.000 60 0 0 3637 3696 164978141 164978082 1.320000e-20 111.0
5 TraesCS7B01G234300 chr6B 97.871 3522 45 8 131 3640 433272193 433275696 0.000000e+00 6061.0
6 TraesCS7B01G234300 chr6B 93.190 793 37 3 3698 4490 433275694 433276469 0.000000e+00 1149.0
7 TraesCS7B01G234300 chr6B 89.667 571 38 8 3830 4379 433277305 433277875 0.000000e+00 708.0
8 TraesCS7B01G234300 chr6D 97.253 2475 41 13 131 2590 272108964 272111426 0.000000e+00 4169.0
9 TraesCS7B01G234300 chr6D 94.742 1065 36 6 2584 3640 272111459 272112511 0.000000e+00 1639.0
10 TraesCS7B01G234300 chr6D 97.619 42 1 0 3698 3739 272112509 272112550 6.230000e-09 73.1
11 TraesCS7B01G234300 chr6A 96.728 2353 52 8 1298 3640 388211451 388213788 0.000000e+00 3895.0
12 TraesCS7B01G234300 chr6A 94.815 1138 49 6 131 1263 388210341 388211473 0.000000e+00 1766.0
13 TraesCS7B01G234300 chr6A 89.552 134 14 0 3698 3831 388213786 388213919 2.150000e-38 171.0
14 TraesCS7B01G234300 chr4B 87.500 656 57 15 3844 4476 22774532 22773879 0.000000e+00 734.0
15 TraesCS7B01G234300 chr4B 88.596 456 45 5 3830 4280 22763178 22762725 8.490000e-152 547.0
16 TraesCS7B01G234300 chr4B 86.897 290 37 1 3951 4239 3550601 3550312 1.560000e-84 324.0
17 TraesCS7B01G234300 chr3A 83.275 574 69 16 3936 4490 684769927 684769362 1.860000e-138 503.0
18 TraesCS7B01G234300 chr3A 94.030 67 4 0 3627 3693 438489028 438489094 7.950000e-18 102.0
19 TraesCS7B01G234300 chr1A 80.110 724 70 36 3830 4490 74427081 74427793 5.260000e-129 472.0
20 TraesCS7B01G234300 chr1A 83.863 409 36 15 3830 4217 74428598 74428997 3.300000e-96 363.0
21 TraesCS7B01G234300 chr1A 88.839 224 19 6 4269 4490 524462796 524462577 2.060000e-68 270.0
22 TraesCS7B01G234300 chr3B 85.294 340 29 9 3951 4276 828252320 828252652 9.310000e-87 331.0
23 TraesCS7B01G234300 chr3B 98.519 135 2 0 1 135 43059215 43059349 5.800000e-59 239.0
24 TraesCS7B01G234300 chr3B 98.519 135 2 0 1 135 168376682 168376816 5.800000e-59 239.0
25 TraesCS7B01G234300 chr3B 98.507 134 2 0 2 135 481312043 481311910 2.090000e-58 237.0
26 TraesCS7B01G234300 chr5B 79.957 469 61 14 3944 4381 610606604 610606138 9.380000e-82 315.0
27 TraesCS7B01G234300 chr5B 98.529 136 2 0 1 136 205156631 205156766 1.610000e-59 241.0
28 TraesCS7B01G234300 chr5B 92.547 161 5 7 1 158 685997520 685997364 1.630000e-54 224.0
29 TraesCS7B01G234300 chr3D 88.745 231 20 5 4263 4490 549382219 549381992 1.230000e-70 278.0
30 TraesCS7B01G234300 chr3D 95.652 69 3 0 3628 3696 26692039 26691971 1.320000e-20 111.0
31 TraesCS7B01G234300 chr1B 90.865 208 17 2 4284 4490 151287192 151287398 1.230000e-70 278.0
32 TraesCS7B01G234300 chr1B 97.778 135 3 0 1 135 9283150 9283284 2.700000e-57 233.0
33 TraesCS7B01G234300 chr1B 100.000 59 0 0 3638 3696 455169893 455169951 4.750000e-20 110.0
34 TraesCS7B01G234300 chr7A 89.286 224 18 6 4269 4490 735650940 735650721 4.420000e-70 276.0
35 TraesCS7B01G234300 chr7A 84.783 276 33 6 4218 4490 611975004 611974735 7.400000e-68 268.0
36 TraesCS7B01G234300 chr7A 95.455 66 3 0 3631 3696 719589473 719589408 6.140000e-19 106.0
37 TraesCS7B01G234300 chr1D 88.546 227 20 6 4266 4490 278113303 278113525 2.060000e-68 270.0
38 TraesCS7B01G234300 chr1D 100.000 59 0 0 3638 3696 477167076 477167018 4.750000e-20 110.0
39 TraesCS7B01G234300 chr2B 98.519 135 2 0 1 135 757077342 757077208 5.800000e-59 239.0
40 TraesCS7B01G234300 chrUn 95.775 142 6 0 1 142 75383608 75383467 3.490000e-56 230.0
41 TraesCS7B01G234300 chr2A 92.308 104 5 2 3830 3931 561257833 561257731 1.300000e-30 145.0
42 TraesCS7B01G234300 chr4A 88.034 117 8 3 3830 3942 214198263 214198149 2.820000e-27 134.0
43 TraesCS7B01G234300 chr4A 95.385 65 3 0 3632 3696 434312113 434312177 2.210000e-18 104.0
44 TraesCS7B01G234300 chr4A 87.143 70 3 3 4211 4279 723042283 723042219 1.730000e-09 75.0
45 TraesCS7B01G234300 chr5A 88.288 111 11 2 3832 3942 474021918 474021810 1.010000e-26 132.0
46 TraesCS7B01G234300 chr5A 88.288 111 11 2 3832 3942 474287467 474287359 1.010000e-26 132.0
47 TraesCS7B01G234300 chr5A 93.056 72 5 0 3625 3696 112099992 112099921 6.140000e-19 106.0
48 TraesCS7B01G234300 chr7D 100.000 59 0 0 3638 3696 232079716 232079774 4.750000e-20 110.0


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 TraesCS7B01G234300 chr7B 438420573 438425062 4489 False 8292.000000 8292 100.000000 1 4490 1 chr7B.!!$F2 4489
1 TraesCS7B01G234300 chr7B 438435871 438436443 572 False 676.000000 676 88.656000 3830 4379 1 chr7B.!!$F3 549
2 TraesCS7B01G234300 chr6B 433272193 433277875 5682 False 2639.333333 6061 93.576000 131 4490 3 chr6B.!!$F1 4359
3 TraesCS7B01G234300 chr6D 272108964 272112550 3586 False 1960.366667 4169 96.538000 131 3739 3 chr6D.!!$F1 3608
4 TraesCS7B01G234300 chr6A 388210341 388213919 3578 False 1944.000000 3895 93.698333 131 3831 3 chr6A.!!$F1 3700
5 TraesCS7B01G234300 chr4B 22773879 22774532 653 True 734.000000 734 87.500000 3844 4476 1 chr4B.!!$R3 632
6 TraesCS7B01G234300 chr3A 684769362 684769927 565 True 503.000000 503 83.275000 3936 4490 1 chr3A.!!$R1 554
7 TraesCS7B01G234300 chr1A 74427081 74428997 1916 False 417.500000 472 81.986500 3830 4490 2 chr1A.!!$F1 660

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
111 112 0.253327 AAACTGCTACTGGGCTAGGC 59.747 55.000 8.00 8.0 0.00 3.93 F
124 125 0.255890 GCTAGGCCCAAGATGGACAA 59.744 55.000 0.00 0.0 40.96 3.18 F
125 126 1.340991 GCTAGGCCCAAGATGGACAAA 60.341 52.381 0.00 0.0 40.96 2.83 F
1825 1842 1.968050 CTTGGATACGGCGGGTTCCT 61.968 60.000 20.51 0.0 42.51 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1444 1461 0.176449 GGTACCATCGTAAGGCGGTT 59.824 55.000 7.15 0.0 41.54 4.44 R
2480 2497 3.903714 TCTTCTCATCTGTTTCAGACCCA 59.096 43.478 1.44 0.0 43.63 4.51 R
2996 3054 6.940430 TGAATCCTGGCTCATAATCATCTA 57.060 37.500 0.00 0.0 0.00 1.98 R
4064 4172 0.179000 GACTGGATCGCCATGGACTT 59.821 55.000 18.40 0.0 44.91 3.01 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
24 25 5.959618 AAACTAGCAATGTGGGACTAAAC 57.040 39.130 0.00 0.00 0.00 2.01
25 26 4.910458 ACTAGCAATGTGGGACTAAACT 57.090 40.909 0.00 0.00 0.00 2.66
26 27 5.242795 ACTAGCAATGTGGGACTAAACTT 57.757 39.130 0.00 0.00 0.00 2.66
27 28 5.631119 ACTAGCAATGTGGGACTAAACTTT 58.369 37.500 0.00 0.00 0.00 2.66
28 29 6.775708 ACTAGCAATGTGGGACTAAACTTTA 58.224 36.000 0.00 0.00 0.00 1.85
29 30 6.879458 ACTAGCAATGTGGGACTAAACTTTAG 59.121 38.462 6.96 6.96 0.00 1.85
30 31 5.631119 AGCAATGTGGGACTAAACTTTAGT 58.369 37.500 13.09 13.09 0.00 2.24
31 32 6.068670 AGCAATGTGGGACTAAACTTTAGTT 58.931 36.000 14.17 0.00 40.50 2.24
32 33 6.206829 AGCAATGTGGGACTAAACTTTAGTTC 59.793 38.462 14.17 12.33 37.25 3.01
33 34 6.569801 GCAATGTGGGACTAAACTTTAGTTCC 60.570 42.308 24.49 24.49 42.37 3.62
36 37 4.976864 TGGGACTAAACTTTAGTTCCACC 58.023 43.478 28.04 19.97 45.69 4.61
37 38 4.661709 TGGGACTAAACTTTAGTTCCACCT 59.338 41.667 28.04 2.35 45.69 4.00
38 39 5.221783 TGGGACTAAACTTTAGTTCCACCTC 60.222 44.000 28.04 11.92 45.69 3.85
39 40 5.012871 GGGACTAAACTTTAGTTCCACCTCT 59.987 44.000 25.64 0.00 41.78 3.69
40 41 6.465464 GGGACTAAACTTTAGTTCCACCTCTT 60.465 42.308 25.64 0.00 41.78 2.85
41 42 6.427242 GGACTAAACTTTAGTTCCACCTCTTG 59.573 42.308 14.17 0.00 37.25 3.02
42 43 5.763698 ACTAAACTTTAGTTCCACCTCTTGC 59.236 40.000 8.19 0.00 37.25 4.01
43 44 3.141767 ACTTTAGTTCCACCTCTTGCC 57.858 47.619 0.00 0.00 0.00 4.52
44 45 2.711547 ACTTTAGTTCCACCTCTTGCCT 59.288 45.455 0.00 0.00 0.00 4.75
45 46 3.138468 ACTTTAGTTCCACCTCTTGCCTT 59.862 43.478 0.00 0.00 0.00 4.35
46 47 2.859165 TAGTTCCACCTCTTGCCTTG 57.141 50.000 0.00 0.00 0.00 3.61
47 48 0.538287 AGTTCCACCTCTTGCCTTGC 60.538 55.000 0.00 0.00 0.00 4.01
48 49 0.823356 GTTCCACCTCTTGCCTTGCA 60.823 55.000 0.00 0.00 36.47 4.08
49 50 0.823356 TTCCACCTCTTGCCTTGCAC 60.823 55.000 0.00 0.00 38.71 4.57
50 51 1.529010 CCACCTCTTGCCTTGCACA 60.529 57.895 0.00 0.00 38.71 4.57
51 52 1.108727 CCACCTCTTGCCTTGCACAA 61.109 55.000 0.00 0.00 38.71 3.33
52 53 0.746063 CACCTCTTGCCTTGCACAAA 59.254 50.000 0.00 0.00 38.71 2.83
53 54 1.342174 CACCTCTTGCCTTGCACAAAT 59.658 47.619 0.00 0.00 38.71 2.32
54 55 1.342174 ACCTCTTGCCTTGCACAAATG 59.658 47.619 0.00 0.00 38.71 2.32
55 56 1.337447 CCTCTTGCCTTGCACAAATGG 60.337 52.381 0.00 0.00 38.71 3.16
56 57 0.680618 TCTTGCCTTGCACAAATGGG 59.319 50.000 0.00 0.00 38.71 4.00
57 58 0.952010 CTTGCCTTGCACAAATGGGC 60.952 55.000 0.00 0.00 46.69 5.36
58 59 1.409251 TTGCCTTGCACAAATGGGCT 61.409 50.000 9.34 0.00 46.62 5.19
59 60 1.375013 GCCTTGCACAAATGGGCTG 60.375 57.895 9.34 2.06 46.62 4.85
60 61 1.375013 CCTTGCACAAATGGGCTGC 60.375 57.895 9.34 0.00 46.62 5.25
61 62 1.735198 CTTGCACAAATGGGCTGCG 60.735 57.895 9.34 0.00 46.62 5.18
62 63 2.424705 CTTGCACAAATGGGCTGCGT 62.425 55.000 9.34 0.00 46.62 5.24
63 64 2.431260 GCACAAATGGGCTGCGTG 60.431 61.111 0.00 0.00 42.27 5.34
64 65 2.259204 CACAAATGGGCTGCGTGG 59.741 61.111 0.00 0.00 0.00 4.94
65 66 2.990967 ACAAATGGGCTGCGTGGG 60.991 61.111 0.00 0.00 0.00 4.61
66 67 4.440127 CAAATGGGCTGCGTGGGC 62.440 66.667 0.00 0.00 40.52 5.36
72 73 4.537433 GGCTGCGTGGGCCTCTAG 62.537 72.222 4.53 3.75 45.57 2.43
73 74 4.537433 GCTGCGTGGGCCTCTAGG 62.537 72.222 4.53 0.00 38.85 3.02
74 75 2.759973 CTGCGTGGGCCTCTAGGA 60.760 66.667 4.53 0.00 38.85 2.94
75 76 2.041922 TGCGTGGGCCTCTAGGAT 60.042 61.111 4.53 0.00 38.85 3.24
76 77 1.689233 TGCGTGGGCCTCTAGGATT 60.689 57.895 4.53 0.00 38.85 3.01
77 78 1.271840 TGCGTGGGCCTCTAGGATTT 61.272 55.000 4.53 0.00 38.85 2.17
78 79 0.756903 GCGTGGGCCTCTAGGATTTA 59.243 55.000 4.53 0.00 37.39 1.40
79 80 1.540580 GCGTGGGCCTCTAGGATTTAC 60.541 57.143 4.53 0.00 37.39 2.01
80 81 2.040178 CGTGGGCCTCTAGGATTTACT 58.960 52.381 4.53 0.00 37.39 2.24
81 82 3.228453 CGTGGGCCTCTAGGATTTACTA 58.772 50.000 4.53 0.00 37.39 1.82
82 83 3.256136 CGTGGGCCTCTAGGATTTACTAG 59.744 52.174 4.53 0.00 41.41 2.57
83 84 3.579151 GTGGGCCTCTAGGATTTACTAGG 59.421 52.174 4.53 0.00 40.63 3.02
84 85 3.469771 TGGGCCTCTAGGATTTACTAGGA 59.530 47.826 4.53 0.00 40.63 2.94
85 86 4.078219 TGGGCCTCTAGGATTTACTAGGAA 60.078 45.833 4.53 0.00 40.63 3.36
86 87 5.095097 GGGCCTCTAGGATTTACTAGGAAT 58.905 45.833 0.84 0.00 40.63 3.01
87 88 5.548446 GGGCCTCTAGGATTTACTAGGAATT 59.452 44.000 0.84 0.00 40.63 2.17
88 89 6.044520 GGGCCTCTAGGATTTACTAGGAATTT 59.955 42.308 0.84 0.00 40.63 1.82
89 90 7.162761 GGCCTCTAGGATTTACTAGGAATTTC 58.837 42.308 0.00 0.00 40.63 2.17
90 91 7.016760 GGCCTCTAGGATTTACTAGGAATTTCT 59.983 40.741 0.00 0.00 40.63 2.52
91 92 7.875554 GCCTCTAGGATTTACTAGGAATTTCTG 59.124 40.741 0.00 0.00 40.63 3.02
92 93 9.148879 CCTCTAGGATTTACTAGGAATTTCTGA 57.851 37.037 0.00 0.00 40.63 3.27
97 98 9.454859 AGGATTTACTAGGAATTTCTGAAACTG 57.545 33.333 4.73 0.00 0.00 3.16
98 99 8.184848 GGATTTACTAGGAATTTCTGAAACTGC 58.815 37.037 4.73 0.00 0.00 4.40
99 100 8.870075 ATTTACTAGGAATTTCTGAAACTGCT 57.130 30.769 10.32 10.32 0.00 4.24
100 101 9.959721 ATTTACTAGGAATTTCTGAAACTGCTA 57.040 29.630 11.37 11.37 0.00 3.49
101 102 8.773404 TTACTAGGAATTTCTGAAACTGCTAC 57.227 34.615 8.44 0.00 0.00 3.58
102 103 7.010339 ACTAGGAATTTCTGAAACTGCTACT 57.990 36.000 8.44 0.00 0.00 2.57
103 104 6.876257 ACTAGGAATTTCTGAAACTGCTACTG 59.124 38.462 8.44 4.00 0.00 2.74
104 105 5.006386 AGGAATTTCTGAAACTGCTACTGG 58.994 41.667 3.77 0.00 0.00 4.00
105 106 4.156739 GGAATTTCTGAAACTGCTACTGGG 59.843 45.833 4.73 0.00 0.00 4.45
106 107 2.185004 TTCTGAAACTGCTACTGGGC 57.815 50.000 0.00 0.00 0.00 5.36
107 108 1.352083 TCTGAAACTGCTACTGGGCT 58.648 50.000 0.00 0.00 0.00 5.19
108 109 2.536066 TCTGAAACTGCTACTGGGCTA 58.464 47.619 0.00 0.00 0.00 3.93
109 110 2.497675 TCTGAAACTGCTACTGGGCTAG 59.502 50.000 0.00 0.00 0.00 3.42
110 111 1.555075 TGAAACTGCTACTGGGCTAGG 59.445 52.381 2.02 0.00 0.00 3.02
111 112 0.253327 AAACTGCTACTGGGCTAGGC 59.747 55.000 8.00 8.00 0.00 3.93
121 122 3.660724 GGCTAGGCCCAAGATGGA 58.339 61.111 4.61 0.00 44.06 3.41
122 123 1.149401 GGCTAGGCCCAAGATGGAC 59.851 63.158 4.61 0.00 44.06 4.02
123 124 1.635817 GGCTAGGCCCAAGATGGACA 61.636 60.000 4.61 0.00 44.06 4.02
124 125 0.255890 GCTAGGCCCAAGATGGACAA 59.744 55.000 0.00 0.00 40.96 3.18
125 126 1.340991 GCTAGGCCCAAGATGGACAAA 60.341 52.381 0.00 0.00 40.96 2.83
126 127 2.883888 GCTAGGCCCAAGATGGACAAAA 60.884 50.000 0.00 0.00 40.96 2.44
127 128 2.629017 AGGCCCAAGATGGACAAAAT 57.371 45.000 0.00 0.00 40.96 1.82
128 129 2.906568 AGGCCCAAGATGGACAAAATT 58.093 42.857 0.00 0.00 40.96 1.82
129 130 2.833943 AGGCCCAAGATGGACAAAATTC 59.166 45.455 0.00 0.00 40.96 2.17
152 153 6.656902 TCCAGCAGTAATCTCTGAATTTGAT 58.343 36.000 0.00 0.00 37.61 2.57
156 157 7.701078 CAGCAGTAATCTCTGAATTTGATTTGG 59.299 37.037 0.00 0.00 37.61 3.28
314 318 3.126171 CGGACGCCAAAACAAGAATCATA 59.874 43.478 0.00 0.00 0.00 2.15
319 329 6.795399 ACGCCAAAACAAGAATCATATAAGG 58.205 36.000 0.00 0.00 0.00 2.69
350 363 5.224888 AGCAATTGCACATTACACAAGAAG 58.775 37.500 30.89 0.00 45.16 2.85
360 373 7.521529 CACATTACACAAGAAGATTGGTACTG 58.478 38.462 0.00 0.00 0.00 2.74
361 374 7.173218 CACATTACACAAGAAGATTGGTACTGT 59.827 37.037 0.00 0.00 0.00 3.55
362 375 8.372459 ACATTACACAAGAAGATTGGTACTGTA 58.628 33.333 0.00 0.00 0.00 2.74
597 610 2.030958 CGTTTACGGCGGCCTTCTT 61.031 57.895 18.34 0.92 35.37 2.52
814 828 2.267642 CCCCGCGGAGAAATGTCA 59.732 61.111 30.73 0.00 0.00 3.58
1128 1143 6.047870 CCCTAGTCTGATCACAAGAATCTTG 58.952 44.000 20.35 20.35 0.00 3.02
1825 1842 1.968050 CTTGGATACGGCGGGTTCCT 61.968 60.000 20.51 0.00 42.51 3.36
2249 2266 2.805099 CAGCACCTGAAGAACTTGTCTC 59.195 50.000 0.00 0.00 34.56 3.36
2361 2378 4.540824 GTGTTGTTCTCTCAGATTTTGGC 58.459 43.478 0.00 0.00 0.00 4.52
2691 2747 4.584029 AAATGTCTCGACGCTGTTTATG 57.416 40.909 0.00 0.00 0.00 1.90
2942 3000 3.672808 GCTAGATAGCCACATGAGCAAT 58.327 45.455 13.56 0.00 43.39 3.56
2996 3054 7.488322 ACAGCAACTAAACACACATTTTGTAT 58.512 30.769 0.00 0.00 35.67 2.29
3160 3227 1.195115 TCCCTTCTTCCCATCAGTCG 58.805 55.000 0.00 0.00 0.00 4.18
3208 3275 2.279582 GTCAGACGACATAGGTGGTG 57.720 55.000 0.00 0.00 42.13 4.17
3209 3276 1.544691 GTCAGACGACATAGGTGGTGT 59.455 52.381 0.00 0.00 42.13 4.16
3210 3277 2.751259 GTCAGACGACATAGGTGGTGTA 59.249 50.000 0.00 0.00 42.13 2.90
3211 3278 3.014623 TCAGACGACATAGGTGGTGTAG 58.985 50.000 0.00 0.00 35.99 2.74
3212 3279 2.099263 CAGACGACATAGGTGGTGTAGG 59.901 54.545 0.00 0.00 35.99 3.18
3213 3280 0.822164 ACGACATAGGTGGTGTAGGC 59.178 55.000 0.00 0.00 34.43 3.93
3286 3361 7.815549 TGCTTTTCGTGATAGATGTAAGTAACA 59.184 33.333 0.00 0.00 43.86 2.41
3625 3711 8.669946 TTGAAGAAAAAGTTGTTTTTGAGGTT 57.330 26.923 0.72 0.00 44.30 3.50
3642 3728 3.069079 GGTTTCCTTGGAACCTACTCC 57.931 52.381 0.98 0.00 42.58 3.85
3643 3729 2.290768 GGTTTCCTTGGAACCTACTCCC 60.291 54.545 0.98 0.00 42.58 4.30
3644 3730 2.643304 GTTTCCTTGGAACCTACTCCCT 59.357 50.000 0.98 0.00 34.22 4.20
3645 3731 2.249309 TCCTTGGAACCTACTCCCTC 57.751 55.000 0.00 0.00 34.22 4.30
3646 3732 1.722851 TCCTTGGAACCTACTCCCTCT 59.277 52.381 0.00 0.00 34.22 3.69
3647 3733 1.834263 CCTTGGAACCTACTCCCTCTG 59.166 57.143 0.00 0.00 34.22 3.35
3648 3734 2.541466 CTTGGAACCTACTCCCTCTGT 58.459 52.381 0.00 0.00 34.22 3.41
3649 3735 3.565890 CCTTGGAACCTACTCCCTCTGTA 60.566 52.174 0.00 0.00 34.22 2.74
3650 3736 3.839323 TGGAACCTACTCCCTCTGTAA 57.161 47.619 0.00 0.00 34.22 2.41
3651 3737 4.136341 TGGAACCTACTCCCTCTGTAAA 57.864 45.455 0.00 0.00 34.22 2.01
3652 3738 3.836562 TGGAACCTACTCCCTCTGTAAAC 59.163 47.826 0.00 0.00 34.22 2.01
3653 3739 4.095211 GGAACCTACTCCCTCTGTAAACT 58.905 47.826 0.00 0.00 0.00 2.66
3654 3740 5.222400 TGGAACCTACTCCCTCTGTAAACTA 60.222 44.000 0.00 0.00 34.22 2.24
3655 3741 5.718607 GGAACCTACTCCCTCTGTAAACTAA 59.281 44.000 0.00 0.00 0.00 2.24
3656 3742 6.383436 GGAACCTACTCCCTCTGTAAACTAAT 59.617 42.308 0.00 0.00 0.00 1.73
3657 3743 7.562821 GGAACCTACTCCCTCTGTAAACTAATA 59.437 40.741 0.00 0.00 0.00 0.98
3658 3744 9.145442 GAACCTACTCCCTCTGTAAACTAATAT 57.855 37.037 0.00 0.00 0.00 1.28
3664 3750 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
3665 3751 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
3666 3752 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
3667 3753 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
3668 3754 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
3764 3850 1.195115 AGTGGCAGAGCTAAATCCGA 58.805 50.000 0.00 0.00 0.00 4.55
3802 3888 2.633488 GTCCCAATCTGGTAGTCTTGC 58.367 52.381 0.00 0.00 35.17 4.01
3903 3998 1.302511 CACAGGAGTTTCACCCGGG 60.303 63.158 22.25 22.25 0.00 5.73
3969 4077 7.268586 CACATACAGACTAGGATTTTACAGCT 58.731 38.462 0.00 0.00 0.00 4.24
4031 4139 2.150397 ACAGACTCAAACGTACAGCC 57.850 50.000 0.00 0.00 0.00 4.85
4032 4140 1.411246 ACAGACTCAAACGTACAGCCA 59.589 47.619 0.00 0.00 0.00 4.75
4046 4154 5.535406 ACGTACAGCCAGTTATCTAGCTAAT 59.465 40.000 0.00 0.00 36.59 1.73
4064 4172 3.614159 AATAATACGTAGCGCTCACGA 57.386 42.857 31.55 20.82 43.93 4.35
4080 4188 1.613317 ACGAAGTCCATGGCGATCCA 61.613 55.000 15.23 0.00 42.87 3.41
4100 4208 0.896226 GTCTTCCCTAGAACCTGCGT 59.104 55.000 0.00 0.00 33.81 5.24
4144 4252 2.586079 CCATCGTGCTACCGCTGG 60.586 66.667 0.00 0.00 37.72 4.85
4165 4273 3.371063 CTGCCTGCCTTGCCACAG 61.371 66.667 0.00 0.00 0.00 3.66
4173 4281 1.675310 CCTTGCCACAGGATCGCAA 60.675 57.895 5.11 5.11 40.06 4.85
4182 4290 1.003580 ACAGGATCGCAACTCAACCAT 59.996 47.619 0.00 0.00 0.00 3.55
4199 4307 3.288964 ACCATAGTCCGACTCAACCTAG 58.711 50.000 3.74 0.00 0.00 3.02
4203 4311 5.069251 CCATAGTCCGACTCAACCTAGATTT 59.931 44.000 3.74 0.00 0.00 2.17
4220 4328 4.735132 TCTACACGCACGCAGGCC 62.735 66.667 0.00 0.00 0.00 5.19
4229 4337 1.064621 CACGCAGGCCATACAATGC 59.935 57.895 5.01 3.44 35.32 3.56
4267 4375 3.747976 GCCATGCCGTTGTGTCCC 61.748 66.667 0.00 0.00 0.00 4.46
4268 4376 2.282110 CCATGCCGTTGTGTCCCA 60.282 61.111 0.00 0.00 0.00 4.37
4312 4420 1.406887 GCCCGACCACATCAGTGTATT 60.407 52.381 0.00 0.00 44.39 1.89
4383 4491 1.593006 CCGCGGCTTATTCTAACACAG 59.407 52.381 14.67 0.00 0.00 3.66
4384 4492 2.536365 CGCGGCTTATTCTAACACAGA 58.464 47.619 0.00 0.00 0.00 3.41
4419 4527 0.107800 CCTAGAGGAGTCCGTCGTCA 60.108 60.000 2.76 0.00 41.74 4.35
4421 4529 2.290464 CTAGAGGAGTCCGTCGTCATT 58.710 52.381 2.76 0.00 41.74 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.879458 AGTTTAGTCCCACATTGCTAGTTTAG 59.121 38.462 0.00 0.00 0.00 1.85
1 2 6.775708 AGTTTAGTCCCACATTGCTAGTTTA 58.224 36.000 0.00 0.00 0.00 2.01
3 4 5.242795 AGTTTAGTCCCACATTGCTAGTT 57.757 39.130 0.00 0.00 0.00 2.24
4 5 4.910458 AGTTTAGTCCCACATTGCTAGT 57.090 40.909 0.00 0.00 0.00 2.57
5 6 6.879458 ACTAAAGTTTAGTCCCACATTGCTAG 59.121 38.462 20.34 0.00 0.00 3.42
6 7 6.775708 ACTAAAGTTTAGTCCCACATTGCTA 58.224 36.000 20.34 0.00 0.00 3.49
7 8 5.631119 ACTAAAGTTTAGTCCCACATTGCT 58.369 37.500 20.34 0.00 0.00 3.91
8 9 5.959618 ACTAAAGTTTAGTCCCACATTGC 57.040 39.130 20.34 0.00 0.00 3.56
9 10 6.488683 TGGAACTAAAGTTTAGTCCCACATTG 59.511 38.462 25.17 0.51 38.56 2.82
10 11 6.489022 GTGGAACTAAAGTTTAGTCCCACATT 59.511 38.462 38.84 20.81 42.58 2.71
11 12 6.002082 GTGGAACTAAAGTTTAGTCCCACAT 58.998 40.000 38.84 21.39 42.58 3.21
12 13 5.370679 GTGGAACTAAAGTTTAGTCCCACA 58.629 41.667 38.84 25.98 42.58 4.17
13 14 4.758674 GGTGGAACTAAAGTTTAGTCCCAC 59.241 45.833 37.49 37.49 42.44 4.61
14 15 4.661709 AGGTGGAACTAAAGTTTAGTCCCA 59.338 41.667 25.17 25.17 38.56 4.37
15 16 5.012871 AGAGGTGGAACTAAAGTTTAGTCCC 59.987 44.000 24.84 22.90 38.56 4.46
16 17 6.111669 AGAGGTGGAACTAAAGTTTAGTCC 57.888 41.667 24.84 24.10 38.56 3.85
17 18 6.073167 GCAAGAGGTGGAACTAAAGTTTAGTC 60.073 42.308 24.84 18.02 38.56 2.59
18 19 5.763698 GCAAGAGGTGGAACTAAAGTTTAGT 59.236 40.000 20.34 20.34 38.56 2.24
19 20 5.181433 GGCAAGAGGTGGAACTAAAGTTTAG 59.819 44.000 19.07 19.07 38.56 1.85
20 21 5.067954 GGCAAGAGGTGGAACTAAAGTTTA 58.932 41.667 0.00 0.00 38.56 2.01
21 22 3.889538 GGCAAGAGGTGGAACTAAAGTTT 59.110 43.478 0.00 0.00 38.56 2.66
22 23 3.138468 AGGCAAGAGGTGGAACTAAAGTT 59.862 43.478 0.00 0.00 41.64 2.66
23 24 2.711547 AGGCAAGAGGTGGAACTAAAGT 59.288 45.455 0.00 0.00 36.74 2.66
24 25 3.425162 AGGCAAGAGGTGGAACTAAAG 57.575 47.619 0.00 0.00 36.74 1.85
25 26 3.486383 CAAGGCAAGAGGTGGAACTAAA 58.514 45.455 0.00 0.00 36.74 1.85
26 27 2.814097 GCAAGGCAAGAGGTGGAACTAA 60.814 50.000 0.00 0.00 36.74 2.24
27 28 1.271379 GCAAGGCAAGAGGTGGAACTA 60.271 52.381 0.00 0.00 36.74 2.24
28 29 0.538287 GCAAGGCAAGAGGTGGAACT 60.538 55.000 0.00 0.00 36.74 3.01
29 30 0.823356 TGCAAGGCAAGAGGTGGAAC 60.823 55.000 0.00 0.00 34.76 3.62
30 31 0.823356 GTGCAAGGCAAGAGGTGGAA 60.823 55.000 0.00 0.00 41.47 3.53
31 32 1.228245 GTGCAAGGCAAGAGGTGGA 60.228 57.895 0.00 0.00 41.47 4.02
32 33 1.108727 TTGTGCAAGGCAAGAGGTGG 61.109 55.000 0.00 0.00 41.47 4.61
33 34 0.746063 TTTGTGCAAGGCAAGAGGTG 59.254 50.000 0.00 0.00 41.47 4.00
34 35 1.342174 CATTTGTGCAAGGCAAGAGGT 59.658 47.619 0.00 0.00 41.47 3.85
35 36 1.337447 CCATTTGTGCAAGGCAAGAGG 60.337 52.381 0.00 0.00 41.47 3.69
36 37 1.337447 CCCATTTGTGCAAGGCAAGAG 60.337 52.381 0.00 0.00 41.47 2.85
37 38 0.680618 CCCATTTGTGCAAGGCAAGA 59.319 50.000 0.00 0.00 41.47 3.02
38 39 0.952010 GCCCATTTGTGCAAGGCAAG 60.952 55.000 8.27 0.00 41.47 4.01
39 40 1.071128 GCCCATTTGTGCAAGGCAA 59.929 52.632 8.27 0.00 41.47 4.52
40 41 1.837947 AGCCCATTTGTGCAAGGCA 60.838 52.632 13.63 0.00 46.35 4.75
41 42 1.375013 CAGCCCATTTGTGCAAGGC 60.375 57.895 5.78 5.78 44.20 4.35
42 43 1.375013 GCAGCCCATTTGTGCAAGG 60.375 57.895 0.00 0.00 37.16 3.61
43 44 1.735198 CGCAGCCCATTTGTGCAAG 60.735 57.895 0.00 0.00 37.01 4.01
44 45 2.339348 CGCAGCCCATTTGTGCAA 59.661 55.556 0.00 0.00 37.01 4.08
45 46 2.911509 ACGCAGCCCATTTGTGCA 60.912 55.556 0.00 0.00 37.01 4.57
46 47 2.431260 CACGCAGCCCATTTGTGC 60.431 61.111 0.00 0.00 0.00 4.57
47 48 2.259204 CCACGCAGCCCATTTGTG 59.741 61.111 0.00 0.00 0.00 3.33
48 49 2.990967 CCCACGCAGCCCATTTGT 60.991 61.111 0.00 0.00 0.00 2.83
49 50 4.440127 GCCCACGCAGCCCATTTG 62.440 66.667 0.00 0.00 34.03 2.32
56 57 4.537433 CCTAGAGGCCCACGCAGC 62.537 72.222 0.00 0.00 36.38 5.25
57 58 1.690219 AATCCTAGAGGCCCACGCAG 61.690 60.000 0.00 0.00 36.38 5.18
58 59 1.271840 AAATCCTAGAGGCCCACGCA 61.272 55.000 0.00 0.00 36.38 5.24
59 60 0.756903 TAAATCCTAGAGGCCCACGC 59.243 55.000 0.00 0.00 34.44 5.34
60 61 2.040178 AGTAAATCCTAGAGGCCCACG 58.960 52.381 0.00 0.00 34.44 4.94
61 62 3.579151 CCTAGTAAATCCTAGAGGCCCAC 59.421 52.174 0.00 0.00 37.24 4.61
62 63 3.469771 TCCTAGTAAATCCTAGAGGCCCA 59.530 47.826 0.00 0.00 37.24 5.36
63 64 4.129317 TCCTAGTAAATCCTAGAGGCCC 57.871 50.000 0.00 0.00 37.24 5.80
64 65 6.689663 AATTCCTAGTAAATCCTAGAGGCC 57.310 41.667 0.00 0.00 37.24 5.19
65 66 7.875554 CAGAAATTCCTAGTAAATCCTAGAGGC 59.124 40.741 0.00 0.00 37.24 4.70
66 67 9.148879 TCAGAAATTCCTAGTAAATCCTAGAGG 57.851 37.037 0.00 0.00 37.24 3.69
71 72 9.454859 CAGTTTCAGAAATTCCTAGTAAATCCT 57.545 33.333 0.00 0.00 0.00 3.24
72 73 8.184848 GCAGTTTCAGAAATTCCTAGTAAATCC 58.815 37.037 0.00 0.00 0.00 3.01
73 74 8.951243 AGCAGTTTCAGAAATTCCTAGTAAATC 58.049 33.333 0.00 0.00 0.00 2.17
74 75 8.870075 AGCAGTTTCAGAAATTCCTAGTAAAT 57.130 30.769 0.00 0.00 0.00 1.40
75 76 9.216117 GTAGCAGTTTCAGAAATTCCTAGTAAA 57.784 33.333 0.00 0.00 0.00 2.01
76 77 8.594550 AGTAGCAGTTTCAGAAATTCCTAGTAA 58.405 33.333 0.00 0.00 0.00 2.24
77 78 8.035394 CAGTAGCAGTTTCAGAAATTCCTAGTA 58.965 37.037 0.00 0.00 0.00 1.82
78 79 6.876257 CAGTAGCAGTTTCAGAAATTCCTAGT 59.124 38.462 0.00 0.00 0.00 2.57
79 80 6.314896 CCAGTAGCAGTTTCAGAAATTCCTAG 59.685 42.308 0.00 0.00 0.00 3.02
80 81 6.173339 CCAGTAGCAGTTTCAGAAATTCCTA 58.827 40.000 0.00 0.00 0.00 2.94
81 82 5.006386 CCAGTAGCAGTTTCAGAAATTCCT 58.994 41.667 0.00 0.00 0.00 3.36
82 83 4.156739 CCCAGTAGCAGTTTCAGAAATTCC 59.843 45.833 0.00 0.00 0.00 3.01
83 84 4.379918 GCCCAGTAGCAGTTTCAGAAATTC 60.380 45.833 0.00 0.00 0.00 2.17
84 85 3.507622 GCCCAGTAGCAGTTTCAGAAATT 59.492 43.478 0.00 0.00 0.00 1.82
85 86 3.084786 GCCCAGTAGCAGTTTCAGAAAT 58.915 45.455 0.00 0.00 0.00 2.17
86 87 2.106511 AGCCCAGTAGCAGTTTCAGAAA 59.893 45.455 0.00 0.00 34.23 2.52
87 88 1.699634 AGCCCAGTAGCAGTTTCAGAA 59.300 47.619 0.00 0.00 34.23 3.02
88 89 1.352083 AGCCCAGTAGCAGTTTCAGA 58.648 50.000 0.00 0.00 34.23 3.27
89 90 2.419297 CCTAGCCCAGTAGCAGTTTCAG 60.419 54.545 0.00 0.00 34.23 3.02
90 91 1.555075 CCTAGCCCAGTAGCAGTTTCA 59.445 52.381 0.00 0.00 34.23 2.69
91 92 1.744114 GCCTAGCCCAGTAGCAGTTTC 60.744 57.143 0.00 0.00 34.23 2.78
92 93 0.253327 GCCTAGCCCAGTAGCAGTTT 59.747 55.000 0.00 0.00 34.23 2.66
93 94 1.627297 GGCCTAGCCCAGTAGCAGTT 61.627 60.000 0.00 0.00 44.06 3.16
94 95 2.066999 GGCCTAGCCCAGTAGCAGT 61.067 63.158 0.00 0.00 44.06 4.40
95 96 2.825264 GGCCTAGCCCAGTAGCAG 59.175 66.667 0.00 0.00 44.06 4.24
104 105 1.635817 TGTCCATCTTGGGCCTAGCC 61.636 60.000 10.34 0.00 42.76 3.93
105 106 0.255890 TTGTCCATCTTGGGCCTAGC 59.744 55.000 10.34 0.00 42.76 3.42
106 107 2.806945 TTTGTCCATCTTGGGCCTAG 57.193 50.000 8.84 8.84 42.76 3.02
107 108 3.756082 ATTTTGTCCATCTTGGGCCTA 57.244 42.857 4.53 0.00 42.76 3.93
108 109 2.629017 ATTTTGTCCATCTTGGGCCT 57.371 45.000 4.53 0.00 42.76 5.19
109 110 2.093500 GGAATTTTGTCCATCTTGGGCC 60.093 50.000 0.00 0.00 42.76 5.80
110 111 2.566724 TGGAATTTTGTCCATCTTGGGC 59.433 45.455 0.00 0.00 42.97 5.36
111 112 3.368739 GCTGGAATTTTGTCCATCTTGGG 60.369 47.826 0.00 0.00 46.66 4.12
112 113 3.258872 TGCTGGAATTTTGTCCATCTTGG 59.741 43.478 0.00 0.00 46.66 3.61
113 114 4.021719 ACTGCTGGAATTTTGTCCATCTTG 60.022 41.667 0.00 0.00 46.66 3.02
114 115 4.154942 ACTGCTGGAATTTTGTCCATCTT 58.845 39.130 0.00 0.00 46.66 2.40
115 116 3.771216 ACTGCTGGAATTTTGTCCATCT 58.229 40.909 0.00 0.00 46.66 2.90
116 117 5.643379 TTACTGCTGGAATTTTGTCCATC 57.357 39.130 0.00 0.00 46.66 3.51
117 118 5.954150 AGATTACTGCTGGAATTTTGTCCAT 59.046 36.000 2.17 0.00 46.66 3.41
118 119 5.324409 AGATTACTGCTGGAATTTTGTCCA 58.676 37.500 2.17 0.00 45.72 4.02
119 120 5.649831 AGAGATTACTGCTGGAATTTTGTCC 59.350 40.000 2.17 0.00 38.27 4.02
120 121 6.372659 TCAGAGATTACTGCTGGAATTTTGTC 59.627 38.462 2.17 0.00 37.75 3.18
121 122 6.240894 TCAGAGATTACTGCTGGAATTTTGT 58.759 36.000 2.17 0.00 37.75 2.83
122 123 6.748333 TCAGAGATTACTGCTGGAATTTTG 57.252 37.500 2.17 2.78 37.75 2.44
123 124 7.951347 ATTCAGAGATTACTGCTGGAATTTT 57.049 32.000 2.17 0.00 37.75 1.82
124 125 7.951347 AATTCAGAGATTACTGCTGGAATTT 57.049 32.000 2.17 0.00 37.75 1.82
125 126 7.613022 TCAAATTCAGAGATTACTGCTGGAATT 59.387 33.333 2.17 0.00 37.75 2.17
126 127 7.114754 TCAAATTCAGAGATTACTGCTGGAAT 58.885 34.615 0.00 0.00 37.75 3.01
127 128 6.475504 TCAAATTCAGAGATTACTGCTGGAA 58.524 36.000 0.00 0.00 37.75 3.53
128 129 6.053632 TCAAATTCAGAGATTACTGCTGGA 57.946 37.500 0.00 0.00 37.75 3.86
129 130 6.939132 ATCAAATTCAGAGATTACTGCTGG 57.061 37.500 0.00 0.00 37.75 4.85
290 294 0.941542 TTCTTGTTTTGGCGTCCGAG 59.058 50.000 0.00 0.00 0.00 4.63
291 295 1.533731 GATTCTTGTTTTGGCGTCCGA 59.466 47.619 0.00 0.00 0.00 4.55
314 318 1.750778 CAATTGCTTCCACGGCCTTAT 59.249 47.619 0.00 0.00 0.00 1.73
319 329 1.734117 GTGCAATTGCTTCCACGGC 60.734 57.895 29.37 1.74 42.66 5.68
350 363 7.309316 GGAATAGCTACTCCTACAGTACCAATC 60.309 44.444 14.05 0.00 36.43 2.67
361 374 6.511017 TCTGTGTAGGAATAGCTACTCCTA 57.489 41.667 23.84 23.84 42.29 2.94
362 375 5.390087 TCTGTGTAGGAATAGCTACTCCT 57.610 43.478 25.92 25.92 44.49 3.69
583 596 1.375013 GTTCAAGAAGGCCGCCGTA 60.375 57.895 3.05 0.00 0.00 4.02
1128 1143 3.961408 TCTGGAGAATAGCCTTACCTGAC 59.039 47.826 0.00 0.00 0.00 3.51
1444 1461 0.176449 GGTACCATCGTAAGGCGGTT 59.824 55.000 7.15 0.00 41.54 4.44
2480 2497 3.903714 TCTTCTCATCTGTTTCAGACCCA 59.096 43.478 1.44 0.00 43.63 4.51
2996 3054 6.940430 TGAATCCTGGCTCATAATCATCTA 57.060 37.500 0.00 0.00 0.00 1.98
3160 3227 5.415701 TCATGTTTCATCCTAAGAGTTTGCC 59.584 40.000 0.00 0.00 0.00 4.52
3206 3273 2.094854 AGTTACAGCTACACGCCTACAC 60.095 50.000 0.00 0.00 40.39 2.90
3207 3274 2.094906 CAGTTACAGCTACACGCCTACA 60.095 50.000 0.00 0.00 40.39 2.74
3208 3275 2.163010 TCAGTTACAGCTACACGCCTAC 59.837 50.000 0.00 0.00 40.39 3.18
3209 3276 2.422479 CTCAGTTACAGCTACACGCCTA 59.578 50.000 0.00 0.00 40.39 3.93
3210 3277 1.202582 CTCAGTTACAGCTACACGCCT 59.797 52.381 0.00 0.00 40.39 5.52
3211 3278 1.201647 TCTCAGTTACAGCTACACGCC 59.798 52.381 0.00 0.00 40.39 5.68
3212 3279 2.631418 TCTCAGTTACAGCTACACGC 57.369 50.000 0.00 0.00 39.57 5.34
3213 3280 5.822278 ACATATCTCAGTTACAGCTACACG 58.178 41.667 0.00 0.00 0.00 4.49
3286 3361 7.470147 CGGTTAGTCACATATTCACAGTCCTAT 60.470 40.741 0.00 0.00 0.00 2.57
3298 3373 1.117150 ACCGCCGGTTAGTCACATAT 58.883 50.000 1.02 0.00 27.29 1.78
3376 3458 4.309950 GCCGTCGTCCCACACCTT 62.310 66.667 0.00 0.00 0.00 3.50
3465 3547 4.077300 ACACTTTGTGAGAATCTCTGCA 57.923 40.909 11.92 7.77 36.96 4.41
3616 3702 3.989056 AGGTTCCAAGGAAACCTCAAAA 58.011 40.909 13.09 0.00 42.41 2.44
3625 3711 2.113777 AGAGGGAGTAGGTTCCAAGGAA 59.886 50.000 0.00 0.00 39.09 3.36
3638 3724 8.862085 GCTCTTATATTAGTTTACAGAGGGAGT 58.138 37.037 0.00 0.00 0.00 3.85
3639 3725 8.024285 CGCTCTTATATTAGTTTACAGAGGGAG 58.976 40.741 4.76 0.00 40.49 4.30
3640 3726 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
3641 3727 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
3642 3728 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
3690 3776 9.994432 TTTTGAATTTTTGATTTGTACGCATTT 57.006 22.222 0.00 0.00 0.00 2.32
3691 3777 9.432077 GTTTTGAATTTTTGATTTGTACGCATT 57.568 25.926 0.00 0.00 0.00 3.56
3692 3778 8.607459 TGTTTTGAATTTTTGATTTGTACGCAT 58.393 25.926 0.00 0.00 0.00 4.73
3693 3779 7.963981 TGTTTTGAATTTTTGATTTGTACGCA 58.036 26.923 0.00 0.00 0.00 5.24
3694 3780 8.881231 CATGTTTTGAATTTTTGATTTGTACGC 58.119 29.630 0.00 0.00 0.00 4.42
3764 3850 3.526430 GGGACCCCTTACCTAAAATCTGT 59.474 47.826 0.00 0.00 0.00 3.41
3778 3864 0.421904 ACTACCAGATTGGGACCCCT 59.578 55.000 8.45 0.00 43.37 4.79
3802 3888 3.689649 CCTCGTTTCCTTTTACCATCCAG 59.310 47.826 0.00 0.00 0.00 3.86
3969 4077 4.082679 ACGTTTCTGTTGGCTACAAAAACA 60.083 37.500 23.66 8.33 38.54 2.83
4031 4139 9.423427 CGCTACGTATTATTAGCTAGATAACTG 57.577 37.037 1.84 0.00 38.90 3.16
4032 4140 8.121708 GCGCTACGTATTATTAGCTAGATAACT 58.878 37.037 1.84 0.00 38.90 2.24
4046 4154 2.352651 ACTTCGTGAGCGCTACGTATTA 59.647 45.455 26.77 13.42 41.91 0.98
4051 4159 1.868251 GGACTTCGTGAGCGCTACG 60.868 63.158 24.13 24.13 42.56 3.51
4064 4172 0.179000 GACTGGATCGCCATGGACTT 59.821 55.000 18.40 0.00 44.91 3.01
4080 4188 1.187087 CGCAGGTTCTAGGGAAGACT 58.813 55.000 0.00 0.00 32.51 3.24
4100 4208 2.683572 TTGCAGAGGAGCGGGCTA 60.684 61.111 0.00 0.00 37.31 3.93
4109 4217 1.673665 GCACCAGGTCTTGCAGAGG 60.674 63.158 0.00 0.00 38.68 3.69
4113 4221 1.303561 GATGGCACCAGGTCTTGCA 60.304 57.895 3.09 0.00 40.75 4.08
4144 4252 2.832201 GGCAAGGCAGGCAGGATC 60.832 66.667 0.00 0.00 0.00 3.36
4165 4273 2.866762 GACTATGGTTGAGTTGCGATCC 59.133 50.000 0.00 0.00 0.00 3.36
4173 4281 2.803956 TGAGTCGGACTATGGTTGAGT 58.196 47.619 11.27 0.00 0.00 3.41
4182 4290 5.507637 AGAAATCTAGGTTGAGTCGGACTA 58.492 41.667 11.27 0.00 0.00 2.59
4199 4307 0.370273 CCTGCGTGCGTGTAGAAATC 59.630 55.000 0.00 0.00 0.00 2.17
4203 4311 4.735132 GGCCTGCGTGCGTGTAGA 62.735 66.667 0.00 0.00 0.00 2.59
4220 4328 2.162208 GTGTGTGTCTGGGCATTGTATG 59.838 50.000 0.00 0.00 0.00 2.39
4229 4337 0.320334 TGCGTATGTGTGTGTCTGGG 60.320 55.000 0.00 0.00 0.00 4.45
4279 4387 4.487412 CGGGCTCGTCGGGTGTAC 62.487 72.222 0.00 0.00 0.00 2.90
4287 4395 2.202756 GATGTGGTCGGGCTCGTC 60.203 66.667 5.57 0.00 37.69 4.20
4340 4448 4.477975 GTGGTCGGGCTCGTCGAG 62.478 72.222 18.08 18.08 37.31 4.04
4362 4470 0.303796 GTGTTAGAATAAGCCGCGGC 59.696 55.000 42.34 42.34 42.33 6.53
4383 4491 4.484872 GCCGTGGCTTAGGGGGTC 62.485 72.222 2.98 0.00 38.26 4.46


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

AutoCloner maintained by Alex Coulton.