Multiple sequence alignment - TraesCS2B01G486200

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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 TraesCS2B01G486200 chr2B 100.000 7375 0 0 1 7375 683052644 683060018 0.000000e+00 13620.0
1 TraesCS2B01G486200 chr2B 93.827 2932 167 7 1631 4556 683128386 683131309 0.000000e+00 4399.0
2 TraesCS2B01G486200 chr2B 89.679 2897 262 21 1670 4557 794694173 794691305 0.000000e+00 3659.0
3 TraesCS2B01G486200 chr2B 89.679 2897 262 21 1670 4557 794803074 794800206 0.000000e+00 3659.0
4 TraesCS2B01G486200 chr2B 84.946 2305 322 17 1128 3420 683042653 683044944 0.000000e+00 2311.0
5 TraesCS2B01G486200 chr2B 86.673 2041 237 22 4979 6999 683132069 683134094 0.000000e+00 2230.0
6 TraesCS2B01G486200 chr2B 84.367 1951 257 27 4928 6866 683071173 683073087 0.000000e+00 1869.0
7 TraesCS2B01G486200 chr2B 84.941 1793 268 2 1648 3439 683159759 683161550 0.000000e+00 1814.0
8 TraesCS2B01G486200 chr2B 87.843 1456 166 8 3485 4933 683044973 683046424 0.000000e+00 1698.0
9 TraesCS2B01G486200 chr2B 83.305 1749 253 26 4928 6660 683046452 683048177 0.000000e+00 1576.0
10 TraesCS2B01G486200 chr2B 95.274 402 14 3 6978 7375 683134113 683134513 3.750000e-177 632.0
11 TraesCS2B01G486200 chr2B 88.698 407 45 1 1128 1534 683127817 683128222 5.140000e-136 496.0
12 TraesCS2B01G486200 chr2B 76.522 805 117 29 285 1051 683157928 683158698 2.510000e-99 374.0
13 TraesCS2B01G486200 chr2B 84.350 377 57 2 4558 4933 683162660 683163035 1.170000e-97 368.0
14 TraesCS2B01G486200 chr2B 82.228 377 65 2 4558 4933 683131338 683131713 2.570000e-84 324.0
15 TraesCS2B01G486200 chr2B 84.880 291 28 11 7091 7375 683074300 683074580 5.630000e-71 279.0
16 TraesCS2B01G486200 chr2A 91.069 5386 446 16 1631 6999 710188134 710193501 0.000000e+00 7249.0
17 TraesCS2B01G486200 chr2A 89.322 3287 292 26 151 3420 710034928 710038172 0.000000e+00 4071.0
18 TraesCS2B01G486200 chr2A 87.435 3263 363 22 1631 4861 710206308 710209555 0.000000e+00 3711.0
19 TraesCS2B01G486200 chr2A 84.772 2305 320 16 1128 3420 710092740 710095025 0.000000e+00 2283.0
20 TraesCS2B01G486200 chr2A 84.542 1792 261 10 1631 3420 709850449 709852226 0.000000e+00 1760.0
21 TraesCS2B01G486200 chr2A 85.257 1594 221 13 4928 6514 710039697 710041283 0.000000e+00 1629.0
22 TraesCS2B01G486200 chr2A 84.833 1556 213 20 4928 6471 710096546 710098090 0.000000e+00 1544.0
23 TraesCS2B01G486200 chr2A 84.753 1561 210 20 5162 6709 710246191 710247736 0.000000e+00 1539.0
24 TraesCS2B01G486200 chr2A 82.769 1741 268 21 4928 6660 709859298 709861014 0.000000e+00 1524.0
25 TraesCS2B01G486200 chr2A 84.289 1483 184 24 3485 4933 710095051 710096518 0.000000e+00 1402.0
26 TraesCS2B01G486200 chr2A 87.547 1068 128 3 3490 4555 710038203 710039267 0.000000e+00 1230.0
27 TraesCS2B01G486200 chr2A 84.677 868 93 20 4098 4933 709858411 709859270 0.000000e+00 830.0
28 TraesCS2B01G486200 chr2A 94.975 398 16 3 6978 7375 710193520 710193913 8.130000e-174 621.0
29 TraesCS2B01G486200 chr2A 87.302 441 51 4 1128 1565 709849979 709850417 3.970000e-137 499.0
30 TraesCS2B01G486200 chr2A 77.184 973 107 58 6429 7359 710044275 710045174 1.870000e-125 460.0
31 TraesCS2B01G486200 chr2A 88.112 143 7 3 15 157 709867144 709867276 2.130000e-35 161.0
32 TraesCS2B01G486200 chr2D 88.476 3176 268 23 201 3353 571207797 571210897 0.000000e+00 3747.0
33 TraesCS2B01G486200 chr2D 81.733 2469 326 71 4928 7348 571212483 571214874 0.000000e+00 1945.0
34 TraesCS2B01G486200 chr2D 85.778 1793 253 2 1648 3439 571443443 571445234 0.000000e+00 1897.0
35 TraesCS2B01G486200 chr2D 88.187 1456 160 9 3485 4933 571197184 571198634 0.000000e+00 1725.0
36 TraesCS2B01G486200 chr2D 82.889 1800 261 32 4928 6709 571530557 571532327 0.000000e+00 1574.0
37 TraesCS2B01G486200 chr2D 82.998 1741 266 20 4928 6660 571198662 571200380 0.000000e+00 1548.0
38 TraesCS2B01G486200 chr2D 87.745 408 49 1 1128 1534 571194788 571195195 6.700000e-130 475.0
39 TraesCS2B01G486200 chr2D 85.990 414 49 7 1135 1547 571526626 571527031 1.140000e-117 435.0
40 TraesCS2B01G486200 chr2D 77.681 802 111 30 283 1051 571441592 571442358 1.900000e-115 427.0
41 TraesCS2B01G486200 chr2D 84.881 377 55 2 4558 4933 571446349 571446724 5.400000e-101 379.0
42 TraesCS2B01G486200 chr2D 82.879 257 11 5 201 457 571206180 571206403 4.510000e-47 200.0
43 TraesCS2B01G486200 chr6A 86.853 1643 196 12 2923 4557 617078172 617079802 0.000000e+00 1820.0
44 TraesCS2B01G486200 chrUn 85.995 407 51 4 1128 1534 332504421 332504821 1.470000e-116 431.0
45 TraesCS2B01G486200 chr4D 90.789 76 6 1 14 89 22952570 22952496 4.710000e-17 100.0
46 TraesCS2B01G486200 chr6D 79.310 145 18 6 15 159 386222281 386222149 2.830000e-14 91.6
47 TraesCS2B01G486200 chr6B 79.310 145 18 6 15 159 576852267 576852135 2.830000e-14 91.6
48 TraesCS2B01G486200 chr6B 86.486 74 6 4 15 87 119833255 119833325 2.210000e-10 78.7
49 TraesCS2B01G486200 chr7B 89.189 74 5 2 14 87 297400479 297400549 1.020000e-13 89.8
50 TraesCS2B01G486200 chr7B 87.838 74 6 3 15 87 156706586 156706657 4.740000e-12 84.2
51 TraesCS2B01G486200 chr7A 87.838 74 6 3 15 87 202747159 202747230 4.740000e-12 84.2
52 TraesCS2B01G486200 chr7A 87.838 74 6 2 14 87 391906750 391906680 4.740000e-12 84.2


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 TraesCS2B01G486200 chr2B 683052644 683060018 7374 False 13620.000000 13620 100.000000 1 7375 1 chr2B.!!$F1 7374
1 TraesCS2B01G486200 chr2B 794691305 794694173 2868 True 3659.000000 3659 89.679000 1670 4557 1 chr2B.!!$R1 2887
2 TraesCS2B01G486200 chr2B 794800206 794803074 2868 True 3659.000000 3659 89.679000 1670 4557 1 chr2B.!!$R2 2887
3 TraesCS2B01G486200 chr2B 683042653 683048177 5524 False 1861.666667 2311 85.364667 1128 6660 3 chr2B.!!$F2 5532
4 TraesCS2B01G486200 chr2B 683127817 683134513 6696 False 1616.200000 4399 89.340000 1128 7375 5 chr2B.!!$F4 6247
5 TraesCS2B01G486200 chr2B 683071173 683074580 3407 False 1074.000000 1869 84.623500 4928 7375 2 chr2B.!!$F3 2447
6 TraesCS2B01G486200 chr2B 683157928 683163035 5107 False 852.000000 1814 81.937667 285 4933 3 chr2B.!!$F5 4648
7 TraesCS2B01G486200 chr2A 710188134 710193913 5779 False 3935.000000 7249 93.022000 1631 7375 2 chr2A.!!$F8 5744
8 TraesCS2B01G486200 chr2A 710206308 710209555 3247 False 3711.000000 3711 87.435000 1631 4861 1 chr2A.!!$F2 3230
9 TraesCS2B01G486200 chr2A 710034928 710045174 10246 False 1847.500000 4071 84.827500 151 7359 4 chr2A.!!$F6 7208
10 TraesCS2B01G486200 chr2A 710092740 710098090 5350 False 1743.000000 2283 84.631333 1128 6471 3 chr2A.!!$F7 5343
11 TraesCS2B01G486200 chr2A 710246191 710247736 1545 False 1539.000000 1539 84.753000 5162 6709 1 chr2A.!!$F3 1547
12 TraesCS2B01G486200 chr2A 709858411 709861014 2603 False 1177.000000 1524 83.723000 4098 6660 2 chr2A.!!$F5 2562
13 TraesCS2B01G486200 chr2A 709849979 709852226 2247 False 1129.500000 1760 85.922000 1128 3420 2 chr2A.!!$F4 2292
14 TraesCS2B01G486200 chr2D 571206180 571214874 8694 False 1964.000000 3747 84.362667 201 7348 3 chr2D.!!$F2 7147
15 TraesCS2B01G486200 chr2D 571194788 571200380 5592 False 1249.333333 1725 86.310000 1128 6660 3 chr2D.!!$F1 5532
16 TraesCS2B01G486200 chr2D 571526626 571532327 5701 False 1004.500000 1574 84.439500 1135 6709 2 chr2D.!!$F4 5574
17 TraesCS2B01G486200 chr2D 571441592 571446724 5132 False 901.000000 1897 82.780000 283 4933 3 chr2D.!!$F3 4650
18 TraesCS2B01G486200 chr6A 617078172 617079802 1630 False 1820.000000 1820 86.853000 2923 4557 1 chr6A.!!$F1 1634

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
189 190 1.129251 CAATGTACTTCAGGCGTGCTG 59.871 52.381 0.35 0.0 0.00 4.41 F
737 2387 2.158957 ACAACTGAATGTGTCGTCTGGT 60.159 45.455 0.00 0.0 30.82 4.00 F
1469 3579 2.159282 ACTATTACCGACTCCAGCAACG 60.159 50.000 0.00 0.0 0.00 4.10 F
2778 5069 0.321653 GCATTGGAGGACAGTTCGGT 60.322 55.000 0.00 0.0 0.00 4.69 F
3377 5674 0.681733 ATGTGACAGAGGCTGACGTT 59.318 50.000 0.00 0.0 35.18 3.99 F
4025 6331 0.899720 AGTGCAGGGAATGGCAAATG 59.100 50.000 0.00 0.0 42.45 2.32 F
5300 7959 0.687354 AGCTGGTCTCATCGTTGGTT 59.313 50.000 0.00 0.0 0.00 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1386 3496 1.637338 TGAGATCAGCCAGTGACTGT 58.363 50.000 12.15 0.0 38.28 3.55 R
1742 4015 3.622630 AGTACCAGTAGGAGCAGTACAG 58.377 50.000 0.00 0.0 36.58 2.74 R
3326 5623 2.611225 TCCGCAAACATTTTGCCTTT 57.389 40.000 16.02 0.0 42.10 3.11 R
4025 6331 2.165998 AGCATTTCAGGAGTTGGAAGC 58.834 47.619 0.00 0.0 0.00 3.86 R
5272 7931 1.000396 GAGACCAGCTTGGGGCAAT 60.000 57.895 0.00 0.0 43.37 3.56 R
5891 8556 0.043334 AGGAAGCTAGGCCAGAGGAA 59.957 55.000 5.01 0.0 0.00 3.36 R
6677 12462 1.028868 GCCAGCCAGCAACTAGAAGG 61.029 60.000 0.00 0.0 0.00 3.46 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
44 45 8.622948 ATTTGAACTTCTAGGTTTGTCCTAAG 57.377 34.615 0.00 0.00 46.81 2.18
45 46 6.742559 TGAACTTCTAGGTTTGTCCTAAGT 57.257 37.500 0.00 0.00 46.81 2.24
46 47 6.756221 TGAACTTCTAGGTTTGTCCTAAGTC 58.244 40.000 3.52 0.53 46.81 3.01
47 48 6.325545 TGAACTTCTAGGTTTGTCCTAAGTCA 59.674 38.462 3.52 2.37 46.81 3.41
48 49 6.742559 ACTTCTAGGTTTGTCCTAAGTCAA 57.257 37.500 0.00 0.00 46.81 3.18
49 50 7.133133 ACTTCTAGGTTTGTCCTAAGTCAAA 57.867 36.000 0.00 0.00 46.81 2.69
50 51 6.990939 ACTTCTAGGTTTGTCCTAAGTCAAAC 59.009 38.462 10.90 10.90 46.81 2.93
51 52 6.742559 TCTAGGTTTGTCCTAAGTCAAACT 57.257 37.500 16.44 8.40 46.81 2.66
52 53 7.133133 TCTAGGTTTGTCCTAAGTCAAACTT 57.867 36.000 16.44 13.02 46.81 2.66
53 54 7.215085 TCTAGGTTTGTCCTAAGTCAAACTTC 58.785 38.462 16.44 5.35 46.81 3.01
54 55 6.002653 AGGTTTGTCCTAAGTCAAACTTCT 57.997 37.500 16.44 7.04 45.51 2.85
55 56 6.424032 AGGTTTGTCCTAAGTCAAACTTCTT 58.576 36.000 16.44 0.00 45.51 2.52
56 57 6.890268 AGGTTTGTCCTAAGTCAAACTTCTTT 59.110 34.615 16.44 1.24 45.51 2.52
57 58 7.396339 AGGTTTGTCCTAAGTCAAACTTCTTTT 59.604 33.333 16.44 0.00 45.51 2.27
58 59 8.680001 GGTTTGTCCTAAGTCAAACTTCTTTTA 58.320 33.333 16.44 0.00 45.51 1.52
61 62 9.457436 TTGTCCTAAGTCAAACTTCTTTTAAGT 57.543 29.630 0.00 0.00 39.51 2.24
62 63 9.457436 TGTCCTAAGTCAAACTTCTTTTAAGTT 57.543 29.630 0.00 0.00 39.51 2.66
73 74 9.647797 AAACTTCTTTTAAGTTTGACCGAATTT 57.352 25.926 13.47 0.00 45.58 1.82
74 75 8.628882 ACTTCTTTTAAGTTTGACCGAATTTG 57.371 30.769 0.00 0.00 0.00 2.32
75 76 8.248253 ACTTCTTTTAAGTTTGACCGAATTTGT 58.752 29.630 0.00 0.00 0.00 2.83
76 77 9.724839 CTTCTTTTAAGTTTGACCGAATTTGTA 57.275 29.630 0.00 0.00 0.00 2.41
77 78 9.724839 TTCTTTTAAGTTTGACCGAATTTGTAG 57.275 29.630 0.00 0.00 0.00 2.74
78 79 9.111613 TCTTTTAAGTTTGACCGAATTTGTAGA 57.888 29.630 0.00 0.00 0.00 2.59
79 80 9.724839 CTTTTAAGTTTGACCGAATTTGTAGAA 57.275 29.630 0.00 0.00 0.00 2.10
90 91 9.931210 GACCGAATTTGTAGAAAAATATACAGG 57.069 33.333 0.00 0.00 33.66 4.00
91 92 9.457436 ACCGAATTTGTAGAAAAATATACAGGT 57.543 29.630 0.00 0.00 33.66 4.00
104 105 9.656040 AAAAATATACAGGTATGTACAACGACA 57.344 29.630 0.00 0.00 44.51 4.35
105 106 9.656040 AAAATATACAGGTATGTACAACGACAA 57.344 29.630 0.00 0.00 44.51 3.18
106 107 8.638685 AATATACAGGTATGTACAACGACAAC 57.361 34.615 0.00 0.00 44.51 3.32
107 108 4.325028 ACAGGTATGTACAACGACAACA 57.675 40.909 0.00 0.00 38.09 3.33
108 109 4.053295 ACAGGTATGTACAACGACAACAC 58.947 43.478 0.00 0.00 38.09 3.32
109 110 3.430895 CAGGTATGTACAACGACAACACC 59.569 47.826 0.00 0.00 31.83 4.16
110 111 3.069872 AGGTATGTACAACGACAACACCA 59.930 43.478 0.00 0.00 31.83 4.17
111 112 3.808726 GGTATGTACAACGACAACACCAA 59.191 43.478 0.00 0.00 31.83 3.67
112 113 4.272991 GGTATGTACAACGACAACACCAAA 59.727 41.667 0.00 0.00 31.83 3.28
113 114 5.049267 GGTATGTACAACGACAACACCAAAT 60.049 40.000 0.00 0.00 31.83 2.32
114 115 4.966965 TGTACAACGACAACACCAAATT 57.033 36.364 0.00 0.00 0.00 1.82
115 116 6.621316 ATGTACAACGACAACACCAAATTA 57.379 33.333 0.00 0.00 31.83 1.40
116 117 6.050454 TGTACAACGACAACACCAAATTAG 57.950 37.500 0.00 0.00 0.00 1.73
117 118 3.959943 ACAACGACAACACCAAATTAGC 58.040 40.909 0.00 0.00 0.00 3.09
118 119 3.630312 ACAACGACAACACCAAATTAGCT 59.370 39.130 0.00 0.00 0.00 3.32
119 120 4.097286 ACAACGACAACACCAAATTAGCTT 59.903 37.500 0.00 0.00 0.00 3.74
120 121 4.483476 ACGACAACACCAAATTAGCTTC 57.517 40.909 0.00 0.00 0.00 3.86
121 122 3.880490 ACGACAACACCAAATTAGCTTCA 59.120 39.130 0.00 0.00 0.00 3.02
122 123 4.518970 ACGACAACACCAAATTAGCTTCAT 59.481 37.500 0.00 0.00 0.00 2.57
123 124 5.088739 CGACAACACCAAATTAGCTTCATC 58.911 41.667 0.00 0.00 0.00 2.92
124 125 5.391312 ACAACACCAAATTAGCTTCATCC 57.609 39.130 0.00 0.00 0.00 3.51
125 126 5.079643 ACAACACCAAATTAGCTTCATCCT 58.920 37.500 0.00 0.00 0.00 3.24
126 127 6.245408 ACAACACCAAATTAGCTTCATCCTA 58.755 36.000 0.00 0.00 0.00 2.94
127 128 6.375455 ACAACACCAAATTAGCTTCATCCTAG 59.625 38.462 0.00 0.00 0.00 3.02
128 129 6.067217 ACACCAAATTAGCTTCATCCTAGT 57.933 37.500 0.00 0.00 0.00 2.57
129 130 7.195374 ACACCAAATTAGCTTCATCCTAGTA 57.805 36.000 0.00 0.00 0.00 1.82
130 131 7.275920 ACACCAAATTAGCTTCATCCTAGTAG 58.724 38.462 0.00 0.00 0.00 2.57
131 132 6.708054 CACCAAATTAGCTTCATCCTAGTAGG 59.292 42.308 10.24 10.24 36.46 3.18
189 190 1.129251 CAATGTACTTCAGGCGTGCTG 59.871 52.381 0.35 0.00 0.00 4.41
279 280 3.843422 CCCTCAGAGTCAGATGGATACT 58.157 50.000 1.17 0.00 37.61 2.12
737 2387 2.158957 ACAACTGAATGTGTCGTCTGGT 60.159 45.455 0.00 0.00 30.82 4.00
738 2388 2.872245 CAACTGAATGTGTCGTCTGGTT 59.128 45.455 0.00 0.00 0.00 3.67
739 2389 4.055360 CAACTGAATGTGTCGTCTGGTTA 58.945 43.478 0.00 0.00 0.00 2.85
740 2390 4.330944 ACTGAATGTGTCGTCTGGTTAA 57.669 40.909 0.00 0.00 0.00 2.01
745 2395 7.606456 ACTGAATGTGTCGTCTGGTTAATTATT 59.394 33.333 0.00 0.00 0.00 1.40
775 2425 5.447624 ACTACGTTGGGAATTTGGAAAAG 57.552 39.130 0.00 0.00 0.00 2.27
802 2452 4.330074 CCTACACAGCATAGCACTTTGTAC 59.670 45.833 0.00 0.00 0.00 2.90
856 2523 9.764363 GTCTTAGATTGGAGGAATTTTTGTTTT 57.236 29.630 0.00 0.00 0.00 2.43
896 2564 5.584649 TGGGAGATTTTACATAGTTTCAGCG 59.415 40.000 0.00 0.00 0.00 5.18
900 2568 4.939509 TTTTACATAGTTTCAGCGGCTC 57.060 40.909 0.00 0.00 0.00 4.70
916 2584 3.610114 GCGGCTCTACATATGCCAAAATG 60.610 47.826 1.58 0.00 46.39 2.32
1003 2671 6.296026 AGTTTAAGCCTGGCGATATAAATGA 58.704 36.000 13.96 0.00 0.00 2.57
1004 2672 6.942576 AGTTTAAGCCTGGCGATATAAATGAT 59.057 34.615 13.96 6.10 0.00 2.45
1109 2782 3.633525 GTCCAATGCATATTCAAGCCTGA 59.366 43.478 0.00 0.00 0.00 3.86
1469 3579 2.159282 ACTATTACCGACTCCAGCAACG 60.159 50.000 0.00 0.00 0.00 4.10
1601 3829 5.848921 ACCCCTCAGATTATCTCTTGCTTAT 59.151 40.000 0.00 0.00 29.16 1.73
1742 4015 2.685388 GTTCTCTTATGCAGGGAAAGGC 59.315 50.000 0.00 0.00 44.17 4.35
1918 4197 4.039004 TCATTGCAACATACTGCCTTTTGT 59.961 37.500 0.00 0.00 41.90 2.83
2413 4702 9.971922 CCTTTTGAAGTACATCAGAAAGAAAAT 57.028 29.630 22.79 0.00 33.79 1.82
2778 5069 0.321653 GCATTGGAGGACAGTTCGGT 60.322 55.000 0.00 0.00 0.00 4.69
2779 5070 1.882352 GCATTGGAGGACAGTTCGGTT 60.882 52.381 0.00 0.00 0.00 4.44
2801 5092 6.093357 GGTTCAAATGGAGATCTCTTCAAGAC 59.907 42.308 21.81 12.22 34.65 3.01
2807 5101 3.380142 GAGATCTCTTCAAGACGATGCC 58.620 50.000 15.80 0.00 36.65 4.40
2967 5261 1.454201 TTTTGTGCGGTGTGAAGACA 58.546 45.000 0.00 0.00 0.00 3.41
3326 5623 6.727394 AGGGTCCTTACATACTTTATGCAAA 58.273 36.000 0.00 0.00 39.79 3.68
3345 5642 2.611225 AAAGGCAAAATGTTTGCGGA 57.389 40.000 16.97 0.00 45.78 5.54
3368 5665 7.383572 CGGATCCTAAGAATTTATGTGACAGAG 59.616 40.741 10.75 0.00 0.00 3.35
3375 5672 2.654749 TTATGTGACAGAGGCTGACG 57.345 50.000 0.00 0.00 35.18 4.35
3377 5674 0.681733 ATGTGACAGAGGCTGACGTT 59.318 50.000 0.00 0.00 35.18 3.99
3389 5686 3.566322 AGGCTGACGTTAGCTCTATACAG 59.434 47.826 28.53 10.32 43.22 2.74
3483 5780 6.650427 ATAGAGTCTACAACAACACTGTCA 57.350 37.500 0.85 0.00 33.45 3.58
3691 5997 9.883142 AAATTTCAAGGTTCAAAATGTCAGTAA 57.117 25.926 0.00 0.00 0.00 2.24
3731 6037 3.922910 TCAGTCTCTGAATGAGCTTGTG 58.077 45.455 0.00 0.00 42.38 3.33
3763 6069 7.484641 TGAAATTTCTCAACTTGAAAACGTGAG 59.515 33.333 18.64 0.00 37.05 3.51
3973 6279 5.780958 ACCTGGCTTTCTAATACTTCCTT 57.219 39.130 0.00 0.00 0.00 3.36
4025 6331 0.899720 AGTGCAGGGAATGGCAAATG 59.100 50.000 0.00 0.00 42.45 2.32
4104 6410 8.410141 TGTTGAATTTAACGGAAATCTCAGTTT 58.590 29.630 8.40 0.00 40.06 2.66
4181 6487 5.356751 CGGTTCTTATGGAATGGAATTGACA 59.643 40.000 0.00 0.00 36.07 3.58
4221 6527 6.058553 TGATGATCAAGAACTGTCCTCAAT 57.941 37.500 0.00 0.00 0.00 2.57
4385 6693 7.859598 TCAATACATTTGCAAATTGTTGGAAC 58.140 30.769 21.95 0.00 43.80 3.62
4386 6694 7.714377 TCAATACATTTGCAAATTGTTGGAACT 59.286 29.630 21.95 0.00 43.80 3.01
4388 6696 9.553064 AATACATTTGCAAATTGTTGGAACTTA 57.447 25.926 21.95 6.91 43.80 2.24
4645 6985 3.779444 TGATAGTGTCACACCCTCTTCT 58.221 45.455 3.66 0.00 34.49 2.85
4670 7010 4.695455 CCTTCTGCTTTGATTTCCGAGTTA 59.305 41.667 0.00 0.00 0.00 2.24
4687 7027 4.202357 CGAGTTATCCATCAGGGGATTTCA 60.202 45.833 0.00 0.00 45.42 2.69
4735 7075 6.332735 CCATAGATGGTTCACTATCGAAGA 57.667 41.667 0.00 0.00 43.05 2.87
4856 7196 1.949525 TCAAGTGAAGCTTTCAGCCAC 59.050 47.619 0.00 3.56 43.77 5.01
4869 7209 1.009829 CAGCCACCTCATCGCTTTAC 58.990 55.000 0.00 0.00 0.00 2.01
4873 7213 1.066143 CCACCTCATCGCTTTACAGGT 60.066 52.381 0.00 0.00 38.02 4.00
4874 7214 2.002586 CACCTCATCGCTTTACAGGTG 58.997 52.381 2.13 2.13 46.20 4.00
4884 7224 7.919091 TCATCGCTTTACAGGTGTTAGTTATAG 59.081 37.037 0.00 0.00 0.00 1.31
4953 7329 3.506810 CTCTCATCTCTCAAACGTGTCC 58.493 50.000 0.00 0.00 0.00 4.02
4997 7373 1.840635 GGGAGGTGGCTATCTCAACTT 59.159 52.381 12.87 0.00 35.67 2.66
5042 7418 5.944007 TGAGGACTTAAAATTAAGGGACTGC 59.056 40.000 15.32 2.46 43.38 4.40
5066 7442 7.230510 TGCCCGCATATAAAGTTTCTATCAATT 59.769 33.333 0.00 0.00 0.00 2.32
5135 7517 1.144936 GACCTCGGCCCAAGATGAG 59.855 63.158 0.00 0.00 0.00 2.90
5201 7583 4.525996 TGCTATGGATTCAGCAAAGCTTA 58.474 39.130 0.00 0.00 44.49 3.09
5272 7931 2.856760 AGGGAGCTAGTCCTTGATGA 57.143 50.000 10.11 0.00 46.06 2.92
5300 7959 0.687354 AGCTGGTCTCATCGTTGGTT 59.313 50.000 0.00 0.00 0.00 3.67
5436 8095 5.048846 TCTCCACCTCAAAAAGCTAAGTT 57.951 39.130 0.00 0.00 0.00 2.66
5510 8175 2.042831 GGAGCTGCAAATCTGGCGT 61.043 57.895 0.00 0.00 0.00 5.68
5759 8424 6.425721 TCACCAAATTAGCAATACGGTATAGC 59.574 38.462 0.22 0.00 0.00 2.97
5763 8428 4.959560 TTAGCAATACGGTATAGCCCAA 57.040 40.909 0.22 0.00 0.00 4.12
5820 8485 5.279156 GCACTGAAAGAGTTGGAAATTGGAT 60.279 40.000 0.00 0.00 37.43 3.41
5823 8488 6.149474 ACTGAAAGAGTTGGAAATTGGATACG 59.851 38.462 0.00 0.00 36.82 3.06
5824 8489 4.965119 AAGAGTTGGAAATTGGATACGC 57.035 40.909 0.00 0.00 42.51 4.42
5837 8502 1.539827 GGATACGCCAACTTGCTTGTT 59.460 47.619 0.00 0.00 36.34 2.83
5891 8556 9.533831 AACCTGACATCCTTGAAAGTATTTAAT 57.466 29.630 0.00 0.00 39.27 1.40
5895 8560 9.753674 TGACATCCTTGAAAGTATTTAATTCCT 57.246 29.630 0.00 0.00 39.27 3.36
5973 8639 4.767928 TCTGGTCTAGACTGGAAACTCTTC 59.232 45.833 21.88 1.97 0.00 2.87
5978 8644 6.329496 GTCTAGACTGGAAACTCTTCAGATG 58.671 44.000 15.91 0.00 32.75 2.90
6038 8704 3.056250 AGCTCACATCTCTAACACACCTG 60.056 47.826 0.00 0.00 0.00 4.00
6045 8711 4.602340 TCTCTAACACACCTGGAGTTTC 57.398 45.455 0.00 0.00 0.00 2.78
6140 8809 0.250513 CCTCCCTCCAAGAACTTCGG 59.749 60.000 0.00 0.00 0.00 4.30
6147 8816 2.808543 CTCCAAGAACTTCGGTTTCAGG 59.191 50.000 0.00 0.00 38.41 3.86
6151 8820 3.292492 AGAACTTCGGTTTCAGGGTTT 57.708 42.857 0.00 0.00 38.41 3.27
6191 8860 2.091885 TCCTGAAAACCTTCACAGCCTT 60.092 45.455 0.00 0.00 36.62 4.35
6315 8984 1.266867 TGAGGAGCTAGGCATGCACA 61.267 55.000 21.36 5.06 0.00 4.57
6327 8996 2.094597 GGCATGCACAGCAGAATTGTAA 60.095 45.455 21.36 0.00 43.65 2.41
6407 9078 7.649306 GTGTTTACTTCTAAGGTACACTTTCGA 59.351 37.037 12.83 0.00 40.64 3.71
6421 9092 4.161333 CACTTTCGAAGCATTTTGCCTAG 58.839 43.478 0.00 0.00 46.52 3.02
6427 9098 4.572389 TCGAAGCATTTTGCCTAGAGAATC 59.428 41.667 0.00 0.00 46.52 2.52
6493 12245 4.767255 GACTGCAGCCACCCGAGG 62.767 72.222 15.27 0.00 0.00 4.63
6533 12286 1.830587 TTCTGCGCTCCTGTCACCAT 61.831 55.000 9.73 0.00 0.00 3.55
6550 12326 6.158598 GTCACCATCATATTTTGTGCAAGTT 58.841 36.000 0.00 0.00 0.00 2.66
6632 12415 3.561143 ACCATGTTGAAAGTGGCAACTA 58.439 40.909 0.00 0.00 44.43 2.24
6649 12432 6.268847 TGGCAACTATTTTTGTTTATCAGGGT 59.731 34.615 0.00 0.00 37.61 4.34
6677 12462 3.188460 TGACCTTTCGCTTATTCTTGTGC 59.812 43.478 0.00 0.00 0.00 4.57
6764 12550 7.320399 CCATGGGGTATGTTTACTTTTCTTTC 58.680 38.462 2.85 0.00 34.87 2.62
6767 12553 9.816787 ATGGGGTATGTTTACTTTTCTTTCTTA 57.183 29.630 0.00 0.00 0.00 2.10
6817 12610 3.384789 TCAGTGGCTCCATGATGTAGTAC 59.615 47.826 0.00 0.00 0.00 2.73
6819 12612 3.639094 AGTGGCTCCATGATGTAGTACTC 59.361 47.826 0.00 0.00 0.00 2.59
6915 12719 3.679980 CACATCTTGTCCAGTTCCGTTAG 59.320 47.826 0.00 0.00 0.00 2.34
6926 12732 0.318120 TTCCGTTAGTTCACCCCGTC 59.682 55.000 0.00 0.00 0.00 4.79
7044 12899 8.484641 TTGCTCTCAGACAGTTTATTATTCTG 57.515 34.615 0.00 0.00 35.93 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
35 36 9.457436 ACTTAAAAGAAGTTTGACTTAGGACAA 57.543 29.630 0.00 0.00 38.80 3.18
36 37 9.457436 AACTTAAAAGAAGTTTGACTTAGGACA 57.543 29.630 0.00 0.00 38.80 4.02
48 49 9.083080 CAAATTCGGTCAAACTTAAAAGAAGTT 57.917 29.630 0.00 0.00 41.82 2.66
49 50 8.248253 ACAAATTCGGTCAAACTTAAAAGAAGT 58.752 29.630 0.00 0.00 0.00 3.01
50 51 8.628882 ACAAATTCGGTCAAACTTAAAAGAAG 57.371 30.769 0.00 0.00 0.00 2.85
51 52 9.724839 CTACAAATTCGGTCAAACTTAAAAGAA 57.275 29.630 0.00 0.00 0.00 2.52
52 53 9.111613 TCTACAAATTCGGTCAAACTTAAAAGA 57.888 29.630 0.00 0.00 0.00 2.52
53 54 9.724839 TTCTACAAATTCGGTCAAACTTAAAAG 57.275 29.630 0.00 0.00 0.00 2.27
64 65 9.931210 CCTGTATATTTTTCTACAAATTCGGTC 57.069 33.333 0.00 0.00 0.00 4.79
65 66 9.457436 ACCTGTATATTTTTCTACAAATTCGGT 57.543 29.630 0.00 0.00 0.00 4.69
78 79 9.656040 TGTCGTTGTACATACCTGTATATTTTT 57.344 29.630 0.00 0.00 39.93 1.94
79 80 9.656040 TTGTCGTTGTACATACCTGTATATTTT 57.344 29.630 0.00 0.00 39.93 1.82
80 81 9.090692 GTTGTCGTTGTACATACCTGTATATTT 57.909 33.333 0.00 0.00 39.93 1.40
81 82 8.252417 TGTTGTCGTTGTACATACCTGTATATT 58.748 33.333 0.00 0.00 39.93 1.28
82 83 7.703621 GTGTTGTCGTTGTACATACCTGTATAT 59.296 37.037 0.00 0.00 39.93 0.86
83 84 7.028962 GTGTTGTCGTTGTACATACCTGTATA 58.971 38.462 0.00 0.00 39.93 1.47
84 85 5.865552 GTGTTGTCGTTGTACATACCTGTAT 59.134 40.000 0.00 0.00 39.93 2.29
85 86 5.221880 GTGTTGTCGTTGTACATACCTGTA 58.778 41.667 0.00 0.00 36.79 2.74
86 87 4.053295 GTGTTGTCGTTGTACATACCTGT 58.947 43.478 0.00 0.00 39.49 4.00
87 88 3.430895 GGTGTTGTCGTTGTACATACCTG 59.569 47.826 0.00 0.00 35.61 4.00
88 89 3.069872 TGGTGTTGTCGTTGTACATACCT 59.930 43.478 0.00 0.00 37.63 3.08
89 90 3.391965 TGGTGTTGTCGTTGTACATACC 58.608 45.455 0.00 0.00 37.43 2.73
90 91 5.406767 TTTGGTGTTGTCGTTGTACATAC 57.593 39.130 0.00 0.00 0.00 2.39
91 92 6.621316 AATTTGGTGTTGTCGTTGTACATA 57.379 33.333 0.00 0.00 0.00 2.29
92 93 5.508200 AATTTGGTGTTGTCGTTGTACAT 57.492 34.783 0.00 0.00 0.00 2.29
93 94 4.966965 AATTTGGTGTTGTCGTTGTACA 57.033 36.364 0.00 0.00 0.00 2.90
94 95 4.907582 GCTAATTTGGTGTTGTCGTTGTAC 59.092 41.667 0.00 0.00 0.00 2.90
95 96 4.817464 AGCTAATTTGGTGTTGTCGTTGTA 59.183 37.500 0.00 0.00 0.00 2.41
96 97 3.630312 AGCTAATTTGGTGTTGTCGTTGT 59.370 39.130 0.00 0.00 0.00 3.32
97 98 4.223320 AGCTAATTTGGTGTTGTCGTTG 57.777 40.909 0.00 0.00 0.00 4.10
98 99 4.336993 TGAAGCTAATTTGGTGTTGTCGTT 59.663 37.500 0.00 0.00 0.00 3.85
99 100 3.880490 TGAAGCTAATTTGGTGTTGTCGT 59.120 39.130 0.00 0.00 0.00 4.34
100 101 4.481930 TGAAGCTAATTTGGTGTTGTCG 57.518 40.909 0.00 0.00 0.00 4.35
101 102 5.183904 AGGATGAAGCTAATTTGGTGTTGTC 59.816 40.000 0.00 0.00 0.00 3.18
102 103 5.079643 AGGATGAAGCTAATTTGGTGTTGT 58.920 37.500 0.00 0.00 0.00 3.32
103 104 5.649782 AGGATGAAGCTAATTTGGTGTTG 57.350 39.130 0.00 0.00 0.00 3.33
104 105 6.485171 ACTAGGATGAAGCTAATTTGGTGTT 58.515 36.000 0.00 0.00 0.00 3.32
105 106 6.067217 ACTAGGATGAAGCTAATTTGGTGT 57.933 37.500 0.00 0.00 0.00 4.16
106 107 6.708054 CCTACTAGGATGAAGCTAATTTGGTG 59.292 42.308 0.00 0.00 37.67 4.17
107 108 6.615726 TCCTACTAGGATGAAGCTAATTTGGT 59.384 38.462 0.03 0.00 40.06 3.67
108 109 7.067496 TCCTACTAGGATGAAGCTAATTTGG 57.933 40.000 0.03 0.00 40.06 3.28
155 156 9.743057 CTGAAGTACATTGTGTTAATCCAAAAA 57.257 29.630 0.00 0.00 0.00 1.94
156 157 8.356657 CCTGAAGTACATTGTGTTAATCCAAAA 58.643 33.333 0.00 0.00 0.00 2.44
163 164 4.212425 CACGCCTGAAGTACATTGTGTTAA 59.788 41.667 0.00 0.00 0.00 2.01
175 176 2.358003 GAGCAGCACGCCTGAAGT 60.358 61.111 7.77 0.00 44.64 3.01
189 190 2.436824 GGAGTTTCTGGCCGGAGC 60.437 66.667 15.42 11.97 38.76 4.70
737 2387 9.165035 CCCAACGTAGTAGGAAACAATAATTAA 57.835 33.333 0.00 0.00 45.00 1.40
738 2388 8.538701 TCCCAACGTAGTAGGAAACAATAATTA 58.461 33.333 0.00 0.00 45.00 1.40
739 2389 7.396418 TCCCAACGTAGTAGGAAACAATAATT 58.604 34.615 0.00 0.00 45.00 1.40
740 2390 6.949715 TCCCAACGTAGTAGGAAACAATAAT 58.050 36.000 0.00 0.00 45.00 1.28
775 2425 4.592485 AGTGCTATGCTGTGTAGGATAC 57.408 45.455 0.00 0.00 43.42 2.24
802 2452 3.134458 GAGGCGTCTATTCCAAGGAATG 58.866 50.000 21.58 12.74 43.75 2.67
856 2523 1.000019 CCACAGTAGTCGGAGGGGA 60.000 63.158 0.00 0.00 0.00 4.81
900 2568 5.733226 TCGACACATTTTGGCATATGTAG 57.267 39.130 13.36 10.95 33.42 2.74
916 2584 6.558009 TGTACAACCTTGTATCTATCGACAC 58.442 40.000 0.00 0.00 44.59 3.67
970 2638 3.495276 GCCAGGCTTAAACTAGATCCTCC 60.495 52.174 3.29 0.00 0.00 4.30
1003 2671 4.099881 ACAGGACAAAACATCACAAAGCAT 59.900 37.500 0.00 0.00 0.00 3.79
1004 2672 3.446873 ACAGGACAAAACATCACAAAGCA 59.553 39.130 0.00 0.00 0.00 3.91
1053 2721 5.049818 ACCTAAGACATAGTACGACGCATAC 60.050 44.000 0.00 0.00 0.00 2.39
1094 2767 4.006319 GGACCTATCAGGCTTGAATATGC 58.994 47.826 1.33 0.00 39.63 3.14
1109 2782 4.338879 GCAGGAATATGCATTGGACCTAT 58.661 43.478 3.54 0.00 45.77 2.57
1386 3496 1.637338 TGAGATCAGCCAGTGACTGT 58.363 50.000 12.15 0.00 38.28 3.55
1742 4015 3.622630 AGTACCAGTAGGAGCAGTACAG 58.377 50.000 0.00 0.00 36.58 2.74
2157 4436 5.106157 CCACTGGTAAAACATTCAGATCACC 60.106 44.000 0.00 0.00 0.00 4.02
2413 4702 5.912892 TGTCATCCAATACGAGCAGAAATA 58.087 37.500 0.00 0.00 0.00 1.40
2754 5044 3.310774 CGAACTGTCCTCCAATGCTTATG 59.689 47.826 0.00 0.00 0.00 1.90
2778 5069 5.871524 CGTCTTGAAGAGATCTCCATTTGAA 59.128 40.000 19.30 6.97 36.61 2.69
2779 5070 5.185828 TCGTCTTGAAGAGATCTCCATTTGA 59.814 40.000 19.30 9.72 36.61 2.69
2801 5092 4.215399 ACGGGTAAAATATCATTGGCATCG 59.785 41.667 0.00 0.00 0.00 3.84
2807 5101 6.912591 GCTTCAAGACGGGTAAAATATCATTG 59.087 38.462 0.00 0.00 0.00 2.82
2967 5261 5.640147 TGTTTCCTCCAATTTCATGGTAGT 58.360 37.500 0.00 0.00 41.46 2.73
3326 5623 2.611225 TCCGCAAACATTTTGCCTTT 57.389 40.000 16.02 0.00 42.10 3.11
3345 5642 6.995091 GCCTCTGTCACATAAATTCTTAGGAT 59.005 38.462 0.00 0.00 0.00 3.24
3368 5665 3.564644 TCTGTATAGAGCTAACGTCAGCC 59.435 47.826 7.19 0.00 42.84 4.85
3389 5686 7.169982 CGAAGATGGTATGGATTTAACAGACTC 59.830 40.741 0.00 0.00 31.17 3.36
3478 5775 2.289002 GCTTGAGGAAACACAGTGACAG 59.711 50.000 7.81 0.00 30.79 3.51
3479 5776 2.288666 GCTTGAGGAAACACAGTGACA 58.711 47.619 7.81 0.00 30.79 3.58
3480 5777 2.288666 TGCTTGAGGAAACACAGTGAC 58.711 47.619 7.81 0.00 30.79 3.67
3481 5778 2.708216 TGCTTGAGGAAACACAGTGA 57.292 45.000 7.81 0.00 30.79 3.41
3482 5779 2.096069 CGATGCTTGAGGAAACACAGTG 60.096 50.000 0.00 0.00 30.79 3.66
3483 5780 2.146342 CGATGCTTGAGGAAACACAGT 58.854 47.619 0.00 0.00 30.79 3.55
3572 5878 8.629158 AGATGGCGCAAATTAACAAGATTATAA 58.371 29.630 10.83 0.00 0.00 0.98
3691 5997 9.651913 GAGACTGAAGTTCTCTTATCTCAAAAT 57.348 33.333 4.17 0.00 37.29 1.82
3731 6037 8.856490 TTTCAAGTTGAGAAATTTCAAGTAGC 57.144 30.769 19.99 5.57 39.25 3.58
3763 6069 2.355209 CCACTGGCCTCTTCTTTAGTCC 60.355 54.545 3.32 0.00 0.00 3.85
3973 6279 7.898710 GATGAAGTATCTGCAGCAAGGTAACTA 60.899 40.741 9.47 0.00 38.37 2.24
4025 6331 2.165998 AGCATTTCAGGAGTTGGAAGC 58.834 47.619 0.00 0.00 0.00 3.86
4181 6487 9.437148 TTGATCATCAAAACCCTTAGACGGGAT 62.437 40.741 0.00 0.00 38.84 3.85
4221 6527 4.206375 TGGAAAAGAGTGCACTCATTCAA 58.794 39.130 38.25 32.89 45.21 2.69
4342 6649 5.905480 ATTGAACAGGAAAAATTTGCGAC 57.095 34.783 0.00 0.00 33.38 5.19
4345 6652 9.384682 CAAATGTATTGAACAGGAAAAATTTGC 57.615 29.630 0.00 0.00 42.70 3.68
4388 6696 8.875803 CAGTTGCTGCAACATCATTTATAAAAT 58.124 29.630 37.75 16.09 45.66 1.82
4683 7023 4.405358 ACTCATTTTTGCAAGTCCCTGAAA 59.595 37.500 0.00 0.00 0.00 2.69
4687 7027 6.599638 GTCTATACTCATTTTTGCAAGTCCCT 59.400 38.462 0.00 0.00 0.00 4.20
4734 7074 5.425577 TCTAGCACACTCGACTCATTATC 57.574 43.478 0.00 0.00 0.00 1.75
4735 7075 5.532779 TCATCTAGCACACTCGACTCATTAT 59.467 40.000 0.00 0.00 0.00 1.28
4856 7196 2.386661 ACACCTGTAAAGCGATGAGG 57.613 50.000 0.00 0.00 0.00 3.86
4869 7209 5.035443 GCAGTCGTCTATAACTAACACCTG 58.965 45.833 0.00 0.00 0.00 4.00
4873 7213 4.275810 AGGGCAGTCGTCTATAACTAACA 58.724 43.478 0.00 0.00 0.00 2.41
4874 7214 4.915158 AGGGCAGTCGTCTATAACTAAC 57.085 45.455 0.00 0.00 0.00 2.34
4884 7224 1.751924 AGTCAGATTAGGGCAGTCGTC 59.248 52.381 0.00 0.00 0.00 4.20
4997 7373 4.136796 CAAGGGACAGTGAATGTGAAAGA 58.863 43.478 0.00 0.00 44.17 2.52
5066 7442 2.799017 TCCGTTTCTGTAGGCTGACTA 58.201 47.619 0.00 0.00 0.00 2.59
5072 7448 2.074576 GTTCCTTCCGTTTCTGTAGGC 58.925 52.381 0.00 0.00 0.00 3.93
5160 7542 7.310547 CCATAGCATCTTGAGAGAACATAGGAT 60.311 40.741 0.00 0.00 35.07 3.24
5201 7583 2.989571 ACCCCCAAAGAACTTCAGATCT 59.010 45.455 0.00 0.00 0.00 2.75
5272 7931 1.000396 GAGACCAGCTTGGGGCAAT 60.000 57.895 0.00 0.00 43.37 3.56
5300 7959 3.750371 ACCATCATCTTTCGTTTCACCA 58.250 40.909 0.00 0.00 0.00 4.17
5436 8095 6.662755 ACTTCAAACATGGGCTATCTGATAA 58.337 36.000 0.00 0.00 0.00 1.75
5510 8175 1.697432 AGTACAGCCAGCTTACCACAA 59.303 47.619 0.00 0.00 0.00 3.33
5759 8424 3.125316 GCTGTAGAGACGTCAATTTTGGG 59.875 47.826 19.50 2.00 0.00 4.12
5763 8428 3.589988 CCAGCTGTAGAGACGTCAATTT 58.410 45.455 19.50 0.00 0.00 1.82
5820 8485 1.003331 CGAAACAAGCAAGTTGGCGTA 60.003 47.619 4.75 0.00 40.90 4.42
5823 8488 2.319472 GATCGAAACAAGCAAGTTGGC 58.681 47.619 4.75 0.00 40.90 4.52
5824 8489 2.223144 TCGATCGAAACAAGCAAGTTGG 59.777 45.455 16.99 0.00 40.90 3.77
5837 8502 2.043349 TGGAGGCCCTCGATCGAA 60.043 61.111 19.92 3.18 0.00 3.71
5891 8556 0.043334 AGGAAGCTAGGCCAGAGGAA 59.957 55.000 5.01 0.00 0.00 3.36
5895 8560 1.003580 CAAACAGGAAGCTAGGCCAGA 59.996 52.381 5.01 0.00 0.00 3.86
5978 8644 1.936547 GAAAGGACAGATGCGTCATCC 59.063 52.381 17.54 17.54 41.36 3.51
6038 8704 1.000496 ACACTCCGAGAACGAAACTCC 60.000 52.381 1.33 0.00 42.66 3.85
6045 8711 1.787155 CTGTTCAACACTCCGAGAACG 59.213 52.381 1.33 0.00 42.35 3.95
6151 8820 2.233922 GGAAGTGACAAGAGATTCGGGA 59.766 50.000 0.00 0.00 0.00 5.14
6263 8932 1.220206 CTCAAGGTGCCTGAGCGAT 59.780 57.895 0.00 0.00 44.31 4.58
6315 8984 4.002906 TCTCCGTTGTTACAATTCTGCT 57.997 40.909 0.00 0.00 0.00 4.24
6327 8996 2.367567 TGACCTTTAGCTTCTCCGTTGT 59.632 45.455 0.00 0.00 0.00 3.32
6407 9078 5.259632 ACTGATTCTCTAGGCAAAATGCTT 58.740 37.500 2.00 0.00 44.28 3.91
6421 9092 4.333926 GGGTGAGCATGTAAACTGATTCTC 59.666 45.833 0.00 0.00 0.00 2.87
6427 9098 3.340814 AGAGGGTGAGCATGTAAACTG 57.659 47.619 0.00 0.00 0.00 3.16
6493 12245 7.271223 GCAGAAATATGTACAACATGTCAACAC 59.729 37.037 0.00 0.00 39.53 3.32
6494 12246 7.304735 GCAGAAATATGTACAACATGTCAACA 58.695 34.615 0.00 4.53 39.53 3.33
6495 12247 6.465781 CGCAGAAATATGTACAACATGTCAAC 59.534 38.462 0.00 0.00 39.53 3.18
6496 12248 6.541969 CGCAGAAATATGTACAACATGTCAA 58.458 36.000 0.00 0.00 39.53 3.18
6500 12252 5.160699 AGCGCAGAAATATGTACAACATG 57.839 39.130 11.47 0.00 39.53 3.21
6533 12286 7.384660 GGTGAATGAAACTTGCACAAAATATGA 59.615 33.333 0.00 0.00 0.00 2.15
6550 12326 3.007831 GGAAAGCCAAATGGGTGAATGAA 59.992 43.478 4.68 0.00 46.73 2.57
6649 12432 7.552687 ACAAGAATAAGCGAAAGGTCATAATGA 59.447 33.333 0.00 0.00 43.76 2.57
6677 12462 1.028868 GCCAGCCAGCAACTAGAAGG 61.029 60.000 0.00 0.00 0.00 3.46
6767 12553 8.870075 AAGCTAATCAGGATAAAAACAGAAGT 57.130 30.769 0.00 0.00 0.00 3.01
6773 12566 9.914131 ACTGAAAAAGCTAATCAGGATAAAAAC 57.086 29.630 20.82 0.00 43.79 2.43
6794 12587 2.840038 ACTACATCATGGAGCCACTGAA 59.160 45.455 0.00 0.00 29.04 3.02
6915 12719 2.235402 TCAGAATAAGGACGGGGTGAAC 59.765 50.000 0.00 0.00 0.00 3.18
6926 12732 7.094890 GGTTGATATGTGCTGATCAGAATAAGG 60.095 40.741 27.04 0.00 33.73 2.69
7044 12899 7.672983 TTCAATGATTAACAGAGGAAGTGAC 57.327 36.000 0.00 0.00 0.00 3.67
7197 14059 2.023888 ACCTAGTACTCACTGCCATCCT 60.024 50.000 0.00 0.00 36.14 3.24
7263 14128 3.070878 TGATCTGCTGTGTGGTTTCACTA 59.929 43.478 0.00 0.00 43.94 2.74


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

AutoCloner maintained by Alex Coulton.