Multiple sequence alignment - TraesCS7A01G437600

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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 TraesCS7A01G437600 chr7A 100.000 2793 0 0 1 2793 632264995 632267787 0.000000e+00 5158.0
1 TraesCS7A01G437600 chr7A 86.599 1679 118 48 574 2209 631652660 631651046 0.000000e+00 1755.0
2 TraesCS7A01G437600 chr7A 85.925 1627 115 49 574 2124 630671411 630672999 0.000000e+00 1631.0
3 TraesCS7A01G437600 chr7A 87.184 1225 87 28 598 1764 632187837 632189049 0.000000e+00 1328.0
4 TraesCS7A01G437600 chr7A 86.593 1268 83 32 574 1813 617552129 617550921 0.000000e+00 1319.0
5 TraesCS7A01G437600 chr7A 92.339 731 43 3 856 1573 631872453 631871723 0.000000e+00 1027.0
6 TraesCS7A01G437600 chr7A 81.788 593 61 24 1567 2124 631849533 631848953 1.180000e-123 453.0
7 TraesCS7A01G437600 chr7A 83.162 487 46 14 1569 2032 663750116 663749643 2.000000e-111 412.0
8 TraesCS7A01G437600 chr7A 91.946 149 12 0 331 479 625641868 625642016 2.820000e-50 209.0
9 TraesCS7A01G437600 chr7A 83.607 244 10 16 83 326 617552562 617552349 4.720000e-48 202.0
10 TraesCS7A01G437600 chr7A 91.275 149 12 1 331 479 631653025 631652878 4.720000e-48 202.0
11 TraesCS7A01G437600 chr7A 84.236 203 6 9 124 310 631878491 631878299 1.030000e-39 174.0
12 TraesCS7A01G437600 chr7A 89.600 125 13 0 574 698 625675033 625675157 2.880000e-35 159.0
13 TraesCS7A01G437600 chr7A 90.164 122 6 3 181 302 630669070 630669185 1.340000e-33 154.0
14 TraesCS7A01G437600 chr7A 86.992 123 16 0 574 696 625642251 625642373 3.750000e-29 139.0
15 TraesCS7A01G437600 chr7A 91.954 87 7 0 2219 2305 538102528 538102614 3.780000e-24 122.0
16 TraesCS7A01G437600 chr7A 94.286 70 4 0 44 113 630638586 630638655 1.060000e-19 108.0
17 TraesCS7A01G437600 chr7A 95.556 45 2 0 496 540 630671267 630671311 3.860000e-09 73.1
18 TraesCS7A01G437600 chr7A 79.592 98 19 1 2116 2213 631848914 631848818 4.990000e-08 69.4
19 TraesCS7A01G437600 chr7A 86.667 60 6 2 519 576 617552234 617552175 6.460000e-07 65.8
20 TraesCS7A01G437600 chrUn 90.145 1522 97 31 750 2254 337590886 337589401 0.000000e+00 1930.0
21 TraesCS7A01G437600 chrUn 85.694 1377 124 43 537 1893 355335556 355334233 0.000000e+00 1384.0
22 TraesCS7A01G437600 chrUn 88.415 164 16 3 2508 2669 86708907 86708745 7.890000e-46 195.0
23 TraesCS7A01G437600 chrUn 82.278 158 10 2 2315 2456 86709263 86709108 1.360000e-23 121.0
24 TraesCS7A01G437600 chr7D 90.957 1150 69 13 653 1769 548560595 548561742 0.000000e+00 1515.0
25 TraesCS7A01G437600 chr7D 87.060 1391 105 26 768 2111 548324917 548326279 0.000000e+00 1502.0
26 TraesCS7A01G437600 chr7D 87.703 1293 86 22 750 2011 548066914 548065664 0.000000e+00 1439.0
27 TraesCS7A01G437600 chr7D 84.491 1109 91 29 741 1793 573969078 573970161 0.000000e+00 1020.0
28 TraesCS7A01G437600 chr7D 85.419 775 53 24 1809 2561 548561744 548562480 0.000000e+00 750.0
29 TraesCS7A01G437600 chr7D 84.836 244 20 9 93 335 548351048 548351275 2.160000e-56 230.0
30 TraesCS7A01G437600 chr7D 91.946 149 12 0 331 479 543731101 543731249 2.820000e-50 209.0
31 TraesCS7A01G437600 chr7D 77.364 349 39 17 1898 2215 573970199 573970538 1.330000e-38 171.0
32 TraesCS7A01G437600 chr7D 85.393 178 8 8 155 331 530433867 530433707 4.780000e-38 169.0
33 TraesCS7A01G437600 chr7D 87.805 123 15 0 574 696 543731490 543731612 8.060000e-31 145.0
34 TraesCS7A01G437600 chr7D 89.320 103 7 3 237 337 548068276 548068176 2.920000e-25 126.0
35 TraesCS7A01G437600 chr7D 88.679 106 3 1 143 239 548068732 548068627 1.360000e-23 121.0
36 TraesCS7A01G437600 chr7D 92.045 88 3 3 252 337 548323911 548323996 1.360000e-23 121.0
37 TraesCS7A01G437600 chr7D 88.542 96 8 3 2217 2311 83801911 83802004 2.270000e-21 113.0
38 TraesCS7A01G437600 chr7D 100.000 46 0 0 495 540 548067069 548067024 4.960000e-13 86.1
39 TraesCS7A01G437600 chr7D 100.000 43 0 0 498 540 548324625 548324667 2.310000e-11 80.5
40 TraesCS7A01G437600 chr7B 89.504 1210 80 28 750 1946 591684290 591685465 0.000000e+00 1487.0
41 TraesCS7A01G437600 chr7B 84.214 1590 157 55 537 2096 591565862 591567387 0.000000e+00 1459.0
42 TraesCS7A01G437600 chr7B 86.011 1301 93 35 750 2012 591057006 591055757 0.000000e+00 1312.0
43 TraesCS7A01G437600 chr7B 82.718 1545 153 57 742 2215 632800678 632799177 0.000000e+00 1269.0
44 TraesCS7A01G437600 chr7B 83.288 1472 137 60 575 2012 569481864 569480468 0.000000e+00 1254.0
45 TraesCS7A01G437600 chr7B 89.387 1027 67 19 753 1758 591599776 591600781 0.000000e+00 1254.0
46 TraesCS7A01G437600 chr7B 91.118 304 20 3 1882 2180 591600788 591601089 3.350000e-109 405.0
47 TraesCS7A01G437600 chr7B 81.316 471 50 14 2019 2456 591685562 591686027 5.730000e-92 348.0
48 TraesCS7A01G437600 chr7B 91.597 238 18 2 2427 2663 591601197 591601433 7.460000e-86 327.0
49 TraesCS7A01G437600 chr7B 90.604 149 14 0 331 479 569482209 569482061 6.100000e-47 198.0
50 TraesCS7A01G437600 chr7B 89.241 158 14 3 2508 2663 591686228 591686384 7.890000e-46 195.0
51 TraesCS7A01G437600 chr7B 88.136 118 14 0 579 696 587266811 587266928 1.040000e-29 141.0
52 TraesCS7A01G437600 chr7B 89.899 99 7 2 237 334 591599088 591599184 1.050000e-24 124.0
53 TraesCS7A01G437600 chr7B 84.483 116 18 0 581 696 587518760 587518875 6.320000e-22 115.0
54 TraesCS7A01G437600 chr7B 89.655 87 9 0 2219 2305 458512285 458512371 8.180000e-21 111.0
55 TraesCS7A01G437600 chr7B 88.889 90 4 2 200 289 569440871 569440788 3.800000e-19 106.0
56 TraesCS7A01G437600 chr7B 82.812 128 6 4 121 237 591598482 591598604 1.770000e-17 100.0
57 TraesCS7A01G437600 chr7B 100.000 45 0 0 496 540 591057167 591057123 1.780000e-12 84.2
58 TraesCS7A01G437600 chr4A 86.437 1246 109 27 605 1829 141908995 141907789 0.000000e+00 1310.0
59 TraesCS7A01G437600 chr4A 82.511 669 67 27 1403 2060 141903853 141903224 2.450000e-150 542.0
60 TraesCS7A01G437600 chr4A 91.216 148 12 1 333 479 41969966 41969819 1.700000e-47 200.0
61 TraesCS7A01G437600 chr3B 91.837 147 12 0 333 479 59892007 59891861 3.650000e-49 206.0
62 TraesCS7A01G437600 chr2B 91.837 147 12 0 333 479 113273320 113273174 3.650000e-49 206.0
63 TraesCS7A01G437600 chr2B 91.156 147 13 0 333 479 678387153 678387007 1.700000e-47 200.0
64 TraesCS7A01G437600 chr1D 90.604 149 14 0 331 479 110904858 110905006 6.100000e-47 198.0
65 TraesCS7A01G437600 chr3A 92.135 89 7 0 2217 2305 482063238 482063150 2.920000e-25 126.0
66 TraesCS7A01G437600 chr4B 88.119 101 12 0 2210 2310 315065364 315065464 1.360000e-23 121.0
67 TraesCS7A01G437600 chr5A 90.805 87 8 0 2219 2305 512233576 512233490 1.760000e-22 117.0
68 TraesCS7A01G437600 chr2A 88.421 95 10 1 2218 2312 757956837 757956930 2.270000e-21 113.0
69 TraesCS7A01G437600 chr2D 86.408 103 13 1 2219 2321 194731001 194731102 8.180000e-21 111.0
70 TraesCS7A01G437600 chr6A 88.636 88 9 1 2218 2305 383970060 383969974 3.800000e-19 106.0


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 TraesCS7A01G437600 chr7A 632264995 632267787 2792 False 5158.000000 5158 100.000000 1 2793 1 chr7A.!!$F5 2792
1 TraesCS7A01G437600 chr7A 632187837 632189049 1212 False 1328.000000 1328 87.184000 598 1764 1 chr7A.!!$F4 1166
2 TraesCS7A01G437600 chr7A 631871723 631872453 730 True 1027.000000 1027 92.339000 856 1573 1 chr7A.!!$R1 717
3 TraesCS7A01G437600 chr7A 631651046 631653025 1979 True 978.500000 1755 88.937000 331 2209 2 chr7A.!!$R5 1878
4 TraesCS7A01G437600 chr7A 630669070 630672999 3929 False 619.366667 1631 90.548333 181 2124 3 chr7A.!!$F7 1943
5 TraesCS7A01G437600 chr7A 617550921 617552562 1641 True 528.933333 1319 85.622333 83 1813 3 chr7A.!!$R4 1730
6 TraesCS7A01G437600 chr7A 631848818 631849533 715 True 261.200000 453 80.690000 1567 2213 2 chr7A.!!$R6 646
7 TraesCS7A01G437600 chrUn 337589401 337590886 1485 True 1930.000000 1930 90.145000 750 2254 1 chrUn.!!$R1 1504
8 TraesCS7A01G437600 chrUn 355334233 355335556 1323 True 1384.000000 1384 85.694000 537 1893 1 chrUn.!!$R2 1356
9 TraesCS7A01G437600 chr7D 548560595 548562480 1885 False 1132.500000 1515 88.188000 653 2561 2 chr7D.!!$F5 1908
10 TraesCS7A01G437600 chr7D 573969078 573970538 1460 False 595.500000 1020 80.927500 741 2215 2 chr7D.!!$F6 1474
11 TraesCS7A01G437600 chr7D 548323911 548326279 2368 False 567.833333 1502 93.035000 252 2111 3 chr7D.!!$F4 1859
12 TraesCS7A01G437600 chr7D 548065664 548068732 3068 True 443.025000 1439 91.425500 143 2011 4 chr7D.!!$R2 1868
13 TraesCS7A01G437600 chr7B 591565862 591567387 1525 False 1459.000000 1459 84.214000 537 2096 1 chr7B.!!$F4 1559
14 TraesCS7A01G437600 chr7B 632799177 632800678 1501 True 1269.000000 1269 82.718000 742 2215 1 chr7B.!!$R2 1473
15 TraesCS7A01G437600 chr7B 569480468 569482209 1741 True 726.000000 1254 86.946000 331 2012 2 chr7B.!!$R3 1681
16 TraesCS7A01G437600 chr7B 591055757 591057167 1410 True 698.100000 1312 93.005500 496 2012 2 chr7B.!!$R4 1516
17 TraesCS7A01G437600 chr7B 591684290 591686384 2094 False 676.666667 1487 86.687000 750 2663 3 chr7B.!!$F6 1913
18 TraesCS7A01G437600 chr7B 591598482 591601433 2951 False 442.000000 1254 88.962600 121 2663 5 chr7B.!!$F5 2542
19 TraesCS7A01G437600 chr4A 141903224 141908995 5771 True 926.000000 1310 84.474000 605 2060 2 chr4A.!!$R2 1455

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
487 3376 0.388134 GAGACTGCACTAAACCGCGA 60.388 55.000 8.23 0.0 0.0 5.87 F
1494 4792 1.073923 ACGAAGCAACCTCCCAAGATT 59.926 47.619 0.00 0.0 0.0 2.40 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1504 4802 0.238553 GCCTTCTTCTTGGACAACGC 59.761 55.0 0.0 0.0 0.00 4.84 R
2534 10620 0.676151 CCTGAAAGCACTCCCTCTGC 60.676 60.0 0.0 0.0 34.63 4.26 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
22 23 5.391312 GTTCACCATCCAGCTTTTTATGT 57.609 39.130 0.00 0.00 0.00 2.29
23 24 6.509418 GTTCACCATCCAGCTTTTTATGTA 57.491 37.500 0.00 0.00 0.00 2.29
24 25 6.322491 GTTCACCATCCAGCTTTTTATGTAC 58.678 40.000 0.00 0.00 0.00 2.90
25 26 5.565509 TCACCATCCAGCTTTTTATGTACA 58.434 37.500 0.00 0.00 0.00 2.90
26 27 6.186957 TCACCATCCAGCTTTTTATGTACAT 58.813 36.000 13.93 13.93 0.00 2.29
27 28 6.318648 TCACCATCCAGCTTTTTATGTACATC 59.681 38.462 12.68 0.00 0.00 3.06
28 29 6.319658 CACCATCCAGCTTTTTATGTACATCT 59.680 38.462 12.68 0.00 0.00 2.90
29 30 6.543831 ACCATCCAGCTTTTTATGTACATCTC 59.456 38.462 12.68 0.00 0.00 2.75
30 31 6.769822 CCATCCAGCTTTTTATGTACATCTCT 59.230 38.462 12.68 0.00 0.00 3.10
31 32 7.041508 CCATCCAGCTTTTTATGTACATCTCTC 60.042 40.741 12.68 0.00 0.00 3.20
32 33 7.187824 TCCAGCTTTTTATGTACATCTCTCT 57.812 36.000 12.68 0.87 0.00 3.10
33 34 7.624549 TCCAGCTTTTTATGTACATCTCTCTT 58.375 34.615 12.68 0.00 0.00 2.85
34 35 8.103305 TCCAGCTTTTTATGTACATCTCTCTTT 58.897 33.333 12.68 0.00 0.00 2.52
35 36 8.180267 CCAGCTTTTTATGTACATCTCTCTTTG 58.820 37.037 12.68 5.36 0.00 2.77
36 37 8.939929 CAGCTTTTTATGTACATCTCTCTTTGA 58.060 33.333 12.68 0.00 0.00 2.69
37 38 9.678260 AGCTTTTTATGTACATCTCTCTTTGAT 57.322 29.630 12.68 0.00 0.00 2.57
45 46 8.260270 TGTACATCTCTCTTTGATTTGATGTG 57.740 34.615 14.26 0.00 42.64 3.21
46 47 7.879677 TGTACATCTCTCTTTGATTTGATGTGT 59.120 33.333 14.26 0.00 42.64 3.72
47 48 7.375106 ACATCTCTCTTTGATTTGATGTGTC 57.625 36.000 0.00 0.00 41.63 3.67
48 49 6.938596 ACATCTCTCTTTGATTTGATGTGTCA 59.061 34.615 0.00 0.00 41.63 3.58
49 50 7.610692 ACATCTCTCTTTGATTTGATGTGTCAT 59.389 33.333 0.00 0.00 41.63 3.06
50 51 7.991084 TCTCTCTTTGATTTGATGTGTCATT 57.009 32.000 0.00 0.00 33.56 2.57
51 52 8.400184 TCTCTCTTTGATTTGATGTGTCATTT 57.600 30.769 0.00 0.00 33.56 2.32
52 53 8.853126 TCTCTCTTTGATTTGATGTGTCATTTT 58.147 29.630 0.00 0.00 33.56 1.82
53 54 9.125906 CTCTCTTTGATTTGATGTGTCATTTTC 57.874 33.333 0.00 0.00 33.56 2.29
54 55 8.853126 TCTCTTTGATTTGATGTGTCATTTTCT 58.147 29.630 0.00 0.00 33.56 2.52
56 57 9.897744 TCTTTGATTTGATGTGTCATTTTCTAC 57.102 29.630 0.00 0.00 33.56 2.59
57 58 9.903682 CTTTGATTTGATGTGTCATTTTCTACT 57.096 29.630 0.00 0.00 33.56 2.57
58 59 9.897744 TTTGATTTGATGTGTCATTTTCTACTC 57.102 29.630 0.00 0.00 33.56 2.59
59 60 7.742151 TGATTTGATGTGTCATTTTCTACTCG 58.258 34.615 0.00 0.00 33.56 4.18
60 61 5.530519 TTGATGTGTCATTTTCTACTCGC 57.469 39.130 0.00 0.00 33.56 5.03
61 62 3.932710 TGATGTGTCATTTTCTACTCGCC 59.067 43.478 0.00 0.00 0.00 5.54
62 63 3.394674 TGTGTCATTTTCTACTCGCCA 57.605 42.857 0.00 0.00 0.00 5.69
63 64 3.325870 TGTGTCATTTTCTACTCGCCAG 58.674 45.455 0.00 0.00 0.00 4.85
64 65 3.244078 TGTGTCATTTTCTACTCGCCAGT 60.244 43.478 0.00 0.00 36.55 4.00
65 66 4.021807 TGTGTCATTTTCTACTCGCCAGTA 60.022 41.667 0.00 0.00 33.62 2.74
66 67 5.109903 GTGTCATTTTCTACTCGCCAGTAT 58.890 41.667 0.00 0.00 34.44 2.12
67 68 5.581085 GTGTCATTTTCTACTCGCCAGTATT 59.419 40.000 0.00 0.00 34.44 1.89
68 69 5.580691 TGTCATTTTCTACTCGCCAGTATTG 59.419 40.000 0.00 0.00 34.44 1.90
69 70 5.810587 GTCATTTTCTACTCGCCAGTATTGA 59.189 40.000 0.00 0.00 34.44 2.57
70 71 6.312918 GTCATTTTCTACTCGCCAGTATTGAA 59.687 38.462 0.00 0.00 34.44 2.69
71 72 6.876789 TCATTTTCTACTCGCCAGTATTGAAA 59.123 34.615 3.00 3.00 34.44 2.69
72 73 7.552687 TCATTTTCTACTCGCCAGTATTGAAAT 59.447 33.333 6.71 4.75 32.98 2.17
73 74 7.681939 TTTTCTACTCGCCAGTATTGAAATT 57.318 32.000 6.71 0.00 32.98 1.82
74 75 6.903883 TTCTACTCGCCAGTATTGAAATTC 57.096 37.500 0.00 0.00 34.44 2.17
75 76 6.222038 TCTACTCGCCAGTATTGAAATTCT 57.778 37.500 0.00 0.00 34.44 2.40
76 77 6.042777 TCTACTCGCCAGTATTGAAATTCTG 58.957 40.000 0.00 3.42 34.44 3.02
77 78 4.832248 ACTCGCCAGTATTGAAATTCTGA 58.168 39.130 10.28 0.00 36.32 3.27
78 79 4.872691 ACTCGCCAGTATTGAAATTCTGAG 59.127 41.667 10.28 4.18 36.32 3.35
79 80 5.084818 TCGCCAGTATTGAAATTCTGAGA 57.915 39.130 10.28 7.21 36.32 3.27
80 81 5.487433 TCGCCAGTATTGAAATTCTGAGAA 58.513 37.500 10.28 0.00 36.32 2.87
81 82 5.351465 TCGCCAGTATTGAAATTCTGAGAAC 59.649 40.000 10.28 0.00 36.32 3.01
88 89 5.591643 TTGAAATTCTGAGAACGCAGTAC 57.408 39.130 0.00 0.00 45.00 2.73
148 149 6.965500 GCACAGTGATACTCTCATTTCATTTG 59.035 38.462 4.15 0.00 35.97 2.32
152 153 8.188799 CAGTGATACTCTCATTTCATTTGCAAT 58.811 33.333 0.00 0.00 35.97 3.56
264 760 4.188247 TCGTCTTTGTACATTGGAGGAG 57.812 45.455 0.00 0.00 0.00 3.69
270 766 4.715534 TTGTACATTGGAGGAGTGGAAA 57.284 40.909 0.00 0.00 0.00 3.13
271 767 4.927267 TGTACATTGGAGGAGTGGAAAT 57.073 40.909 0.00 0.00 0.00 2.17
298 794 3.515901 ACTCCCAAGTGATGAGGTAGAAC 59.484 47.826 0.00 0.00 33.32 3.01
480 3369 0.888619 CCAGGACGAGACTGCACTAA 59.111 55.000 0.00 0.00 34.65 2.24
481 3370 1.272490 CCAGGACGAGACTGCACTAAA 59.728 52.381 0.00 0.00 34.65 1.85
483 3372 1.272769 AGGACGAGACTGCACTAAACC 59.727 52.381 0.00 0.00 0.00 3.27
485 3374 0.666577 ACGAGACTGCACTAAACCGC 60.667 55.000 0.00 0.00 0.00 5.68
487 3376 0.388134 GAGACTGCACTAAACCGCGA 60.388 55.000 8.23 0.00 0.00 5.87
586 3698 2.506438 GGTGGCGTCAGCTCGTAC 60.506 66.667 12.81 0.00 44.37 3.67
898 4115 4.424711 GCATTGGGGGCCTCGTGA 62.425 66.667 12.33 0.00 0.00 4.35
1403 4683 3.370315 CCCATGAAGAAGAAGGTGGAGAG 60.370 52.174 0.00 0.00 0.00 3.20
1481 4773 1.729484 CTGACGCGAAGACGAAGCA 60.729 57.895 15.93 0.00 42.66 3.91
1494 4792 1.073923 ACGAAGCAACCTCCCAAGATT 59.926 47.619 0.00 0.00 0.00 2.40
1504 4802 1.815421 CCCAAGATTGTCGGCGAGG 60.815 63.158 11.20 5.90 0.00 4.63
1520 4818 1.872237 CGAGGCGTTGTCCAAGAAGAA 60.872 52.381 0.00 0.00 0.00 2.52
1538 4836 4.708726 AGAAGGCGGAAATCATCAAAAG 57.291 40.909 0.00 0.00 0.00 2.27
1612 4910 1.207791 GGAGGAGAAGATGGAAGCCA 58.792 55.000 0.00 0.00 38.19 4.75
1654 4952 1.623811 GTTACCAGGAAGCAGAGGACA 59.376 52.381 0.00 0.00 0.00 4.02
1740 9411 0.807496 GCAGCTCCATGGTCAAGAAC 59.193 55.000 12.58 0.00 0.00 3.01
1807 9493 5.127682 AGCCAAGAAACCAATTGATCCATAC 59.872 40.000 7.12 0.00 0.00 2.39
1895 9619 1.134367 TGCCGCTGTAACTAGCACTAG 59.866 52.381 3.10 3.10 43.87 2.57
2068 9856 9.781834 CGAATTATAATTCTGCACAAACCTAAA 57.218 29.630 27.45 0.00 41.99 1.85
2130 9995 3.572682 TGTCCACGTTCAGACTATCAGTT 59.427 43.478 10.50 0.00 34.02 3.16
2138 10003 5.119279 CGTTCAGACTATCAGTTCAAGTTGG 59.881 44.000 2.34 0.00 0.00 3.77
2154 10019 9.528018 GTTCAAGTTGGAACTTCAATTTAATCA 57.472 29.630 2.34 0.00 45.65 2.57
2192 10059 5.248640 TCTCCTCTTGCTGTTTTTGGATAG 58.751 41.667 0.00 0.00 0.00 2.08
2198 10065 6.512297 TCTTGCTGTTTTTGGATAGAAAACC 58.488 36.000 9.23 0.00 43.10 3.27
2241 10111 3.244112 ACTCCCTCCGTTCACTTTTGTAG 60.244 47.826 0.00 0.00 0.00 2.74
2243 10113 2.423577 CCTCCGTTCACTTTTGTAGGG 58.576 52.381 0.00 0.00 31.18 3.53
2244 10114 2.224450 CCTCCGTTCACTTTTGTAGGGT 60.224 50.000 0.00 0.00 31.73 4.34
2254 10124 6.416415 TCACTTTTGTAGGGTGTTTTAGACA 58.584 36.000 0.00 0.00 35.42 3.41
2255 10125 7.057894 TCACTTTTGTAGGGTGTTTTAGACAT 58.942 34.615 0.00 0.00 41.10 3.06
2257 10127 8.194769 CACTTTTGTAGGGTGTTTTAGACATTT 58.805 33.333 0.00 0.00 41.10 2.32
2259 10129 9.893305 CTTTTGTAGGGTGTTTTAGACATTTAG 57.107 33.333 0.00 0.00 41.10 1.85
2260 10130 9.629878 TTTTGTAGGGTGTTTTAGACATTTAGA 57.370 29.630 0.00 0.00 41.10 2.10
2261 10131 9.629878 TTTGTAGGGTGTTTTAGACATTTAGAA 57.370 29.630 0.00 0.00 41.10 2.10
2262 10132 8.611654 TGTAGGGTGTTTTAGACATTTAGAAC 57.388 34.615 0.00 0.00 41.10 3.01
2263 10133 8.212312 TGTAGGGTGTTTTAGACATTTAGAACA 58.788 33.333 0.00 0.00 41.10 3.18
2265 10135 8.706322 AGGGTGTTTTAGACATTTAGAACAAT 57.294 30.769 0.00 0.00 41.10 2.71
2266 10136 9.802039 AGGGTGTTTTAGACATTTAGAACAATA 57.198 29.630 0.00 0.00 41.10 1.90
2267 10137 9.836076 GGGTGTTTTAGACATTTAGAACAATAC 57.164 33.333 0.00 0.00 41.10 1.89
2289 10159 6.715347 ACCTAAAACAGTTCAATTTCAGCT 57.285 33.333 0.00 0.00 0.00 4.24
2300 10170 6.260050 AGTTCAATTTCAGCTGTCTAAAACGA 59.740 34.615 14.67 5.48 0.00 3.85
2307 10177 8.462143 TTTCAGCTGTCTAAAACGACTTATAG 57.538 34.615 14.67 0.00 35.00 1.31
2366 10282 3.685058 CAACTAAAATCTTGGCTAGCGC 58.315 45.455 9.00 0.00 0.00 5.92
2380 10316 2.096218 GCTAGCGCATTCCTAAAATCCG 60.096 50.000 11.47 0.00 35.78 4.18
2410 10346 1.055338 GTCAGAAGCAATGCGCAAAC 58.945 50.000 17.11 6.91 46.13 2.93
2509 10595 7.937942 AGATCCTGATCTTACATCAAGAAATGG 59.062 37.037 3.80 0.00 46.29 3.16
2515 10601 0.960364 ACATCAAGAAATGGCGCGGT 60.960 50.000 8.83 0.00 0.00 5.68
2564 10650 2.358898 GTGCTTTCAGGTTCTTCAAGCA 59.641 45.455 0.81 0.81 45.83 3.91
2567 10653 3.058363 GCTTTCAGGTTCTTCAAGCAGAG 60.058 47.826 0.00 0.00 39.76 3.35
2569 10655 0.795085 CAGGTTCTTCAAGCAGAGCG 59.205 55.000 0.00 0.00 31.93 5.03
2650 10737 1.048724 CAAGGGCCTGTCTATCCGGA 61.049 60.000 6.92 6.61 0.00 5.14
2652 10739 1.457831 GGGCCTGTCTATCCGGACT 60.458 63.158 6.12 0.00 37.16 3.85
2656 10743 1.614413 GCCTGTCTATCCGGACTAAGG 59.386 57.143 6.12 11.19 37.16 2.69
2663 10750 2.089600 ATCCGGACTAAGGAGGAAGG 57.910 55.000 6.12 0.00 41.66 3.46
2664 10751 0.686769 TCCGGACTAAGGAGGAAGGC 60.687 60.000 0.00 0.00 33.19 4.35
2665 10752 0.976073 CCGGACTAAGGAGGAAGGCA 60.976 60.000 0.00 0.00 0.00 4.75
2666 10753 0.902531 CGGACTAAGGAGGAAGGCAA 59.097 55.000 0.00 0.00 0.00 4.52
2667 10754 1.134670 CGGACTAAGGAGGAAGGCAAG 60.135 57.143 0.00 0.00 0.00 4.01
2668 10755 2.188817 GGACTAAGGAGGAAGGCAAGA 58.811 52.381 0.00 0.00 0.00 3.02
2669 10756 2.774809 GGACTAAGGAGGAAGGCAAGAT 59.225 50.000 0.00 0.00 0.00 2.40
2670 10757 3.201045 GGACTAAGGAGGAAGGCAAGATT 59.799 47.826 0.00 0.00 0.00 2.40
2671 10758 4.324641 GGACTAAGGAGGAAGGCAAGATTT 60.325 45.833 0.00 0.00 0.00 2.17
2672 10759 5.257262 GACTAAGGAGGAAGGCAAGATTTT 58.743 41.667 0.00 0.00 0.00 1.82
2673 10760 5.645201 ACTAAGGAGGAAGGCAAGATTTTT 58.355 37.500 0.00 0.00 0.00 1.94
2697 10784 7.553881 TTTTTGCTATTATAGGTCACTGCTC 57.446 36.000 1.12 0.00 0.00 4.26
2698 10785 5.869649 TTGCTATTATAGGTCACTGCTCA 57.130 39.130 1.12 0.00 0.00 4.26
2699 10786 5.459536 TGCTATTATAGGTCACTGCTCAG 57.540 43.478 1.12 0.00 0.00 3.35
2700 10787 4.895889 TGCTATTATAGGTCACTGCTCAGT 59.104 41.667 1.12 0.00 43.61 3.41
2713 10800 5.429957 ACTGCTCAGTGCTTTAAAAGAAG 57.570 39.130 1.15 0.00 40.75 2.85
2714 10801 4.884164 ACTGCTCAGTGCTTTAAAAGAAGT 59.116 37.500 1.15 0.00 40.75 3.01
2715 10802 5.008118 ACTGCTCAGTGCTTTAAAAGAAGTC 59.992 40.000 1.15 0.00 40.75 3.01
2716 10803 4.881273 TGCTCAGTGCTTTAAAAGAAGTCA 59.119 37.500 0.00 0.00 43.37 3.41
2717 10804 5.356751 TGCTCAGTGCTTTAAAAGAAGTCAA 59.643 36.000 0.00 0.00 43.37 3.18
2718 10805 5.683302 GCTCAGTGCTTTAAAAGAAGTCAAC 59.317 40.000 0.00 0.00 38.95 3.18
2719 10806 5.806286 TCAGTGCTTTAAAAGAAGTCAACG 58.194 37.500 0.00 0.00 0.00 4.10
2720 10807 4.970003 CAGTGCTTTAAAAGAAGTCAACGG 59.030 41.667 0.00 0.00 0.00 4.44
2721 10808 4.036380 AGTGCTTTAAAAGAAGTCAACGGG 59.964 41.667 0.00 0.00 0.00 5.28
2722 10809 3.316868 TGCTTTAAAAGAAGTCAACGGGG 59.683 43.478 0.00 0.00 0.00 5.73
2723 10810 3.317149 GCTTTAAAAGAAGTCAACGGGGT 59.683 43.478 0.00 0.00 0.00 4.95
2724 10811 4.202080 GCTTTAAAAGAAGTCAACGGGGTT 60.202 41.667 0.00 0.00 0.00 4.11
2725 10812 5.680408 GCTTTAAAAGAAGTCAACGGGGTTT 60.680 40.000 0.00 0.00 0.00 3.27
2726 10813 5.918426 TTAAAAGAAGTCAACGGGGTTTT 57.082 34.783 0.00 0.00 0.00 2.43
2727 10814 4.811969 AAAAGAAGTCAACGGGGTTTTT 57.188 36.364 0.00 0.00 0.00 1.94
2773 10860 9.431887 TCCTTACAAGTACAATAGAATGTCAAC 57.568 33.333 0.00 0.00 34.75 3.18
2774 10861 9.436957 CCTTACAAGTACAATAGAATGTCAACT 57.563 33.333 0.00 0.00 34.75 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.391312 ACATAAAAAGCTGGATGGTGAAC 57.609 39.130 0.00 0.00 0.00 3.18
1 2 6.007076 TGTACATAAAAAGCTGGATGGTGAA 58.993 36.000 0.00 0.00 0.00 3.18
2 3 5.565509 TGTACATAAAAAGCTGGATGGTGA 58.434 37.500 0.00 0.00 0.00 4.02
3 4 5.895636 TGTACATAAAAAGCTGGATGGTG 57.104 39.130 0.00 0.00 0.00 4.17
4 5 6.426587 AGATGTACATAAAAAGCTGGATGGT 58.573 36.000 8.71 0.00 0.00 3.55
5 6 6.769822 AGAGATGTACATAAAAAGCTGGATGG 59.230 38.462 8.71 0.00 0.00 3.51
6 7 7.714377 AGAGAGATGTACATAAAAAGCTGGATG 59.286 37.037 8.71 0.00 0.00 3.51
7 8 7.800092 AGAGAGATGTACATAAAAAGCTGGAT 58.200 34.615 8.71 0.00 0.00 3.41
8 9 7.187824 AGAGAGATGTACATAAAAAGCTGGA 57.812 36.000 8.71 0.00 0.00 3.86
9 10 7.856145 AAGAGAGATGTACATAAAAAGCTGG 57.144 36.000 8.71 0.00 0.00 4.85
10 11 8.939929 TCAAAGAGAGATGTACATAAAAAGCTG 58.060 33.333 8.71 2.79 0.00 4.24
11 12 9.678260 ATCAAAGAGAGATGTACATAAAAAGCT 57.322 29.630 8.71 0.00 0.00 3.74
19 20 8.890718 CACATCAAATCAAAGAGAGATGTACAT 58.109 33.333 8.43 8.43 42.79 2.29
20 21 7.879677 ACACATCAAATCAAAGAGAGATGTACA 59.120 33.333 0.00 0.00 42.79 2.90
21 22 8.261492 ACACATCAAATCAAAGAGAGATGTAC 57.739 34.615 0.00 0.00 42.79 2.90
22 23 8.096414 TGACACATCAAATCAAAGAGAGATGTA 58.904 33.333 0.00 0.00 42.79 2.29
23 24 6.938596 TGACACATCAAATCAAAGAGAGATGT 59.061 34.615 0.00 0.00 44.77 3.06
24 25 7.373778 TGACACATCAAATCAAAGAGAGATG 57.626 36.000 0.00 0.00 38.92 2.90
25 26 8.577048 AATGACACATCAAATCAAAGAGAGAT 57.423 30.769 0.00 0.00 38.69 2.75
26 27 7.991084 AATGACACATCAAATCAAAGAGAGA 57.009 32.000 0.00 0.00 38.69 3.10
27 28 9.125906 GAAAATGACACATCAAATCAAAGAGAG 57.874 33.333 0.00 0.00 38.69 3.20
28 29 8.853126 AGAAAATGACACATCAAATCAAAGAGA 58.147 29.630 0.00 0.00 38.69 3.10
30 31 9.897744 GTAGAAAATGACACATCAAATCAAAGA 57.102 29.630 0.00 0.00 38.69 2.52
31 32 9.903682 AGTAGAAAATGACACATCAAATCAAAG 57.096 29.630 0.00 0.00 38.69 2.77
32 33 9.897744 GAGTAGAAAATGACACATCAAATCAAA 57.102 29.630 0.00 0.00 38.69 2.69
33 34 8.229811 CGAGTAGAAAATGACACATCAAATCAA 58.770 33.333 0.00 0.00 38.69 2.57
34 35 7.624134 GCGAGTAGAAAATGACACATCAAATCA 60.624 37.037 0.00 0.00 38.69 2.57
35 36 6.684555 GCGAGTAGAAAATGACACATCAAATC 59.315 38.462 0.00 0.00 38.69 2.17
36 37 6.403636 GGCGAGTAGAAAATGACACATCAAAT 60.404 38.462 0.00 0.00 38.69 2.32
37 38 5.106712 GGCGAGTAGAAAATGACACATCAAA 60.107 40.000 0.00 0.00 38.69 2.69
38 39 4.391830 GGCGAGTAGAAAATGACACATCAA 59.608 41.667 0.00 0.00 38.69 2.57
39 40 3.932710 GGCGAGTAGAAAATGACACATCA 59.067 43.478 0.00 0.00 39.83 3.07
40 41 3.932710 TGGCGAGTAGAAAATGACACATC 59.067 43.478 0.00 0.00 0.00 3.06
41 42 3.935203 CTGGCGAGTAGAAAATGACACAT 59.065 43.478 0.00 0.00 0.00 3.21
42 43 3.244078 ACTGGCGAGTAGAAAATGACACA 60.244 43.478 0.00 0.00 0.00 3.72
43 44 3.326747 ACTGGCGAGTAGAAAATGACAC 58.673 45.455 0.00 0.00 0.00 3.67
44 45 3.678056 ACTGGCGAGTAGAAAATGACA 57.322 42.857 0.00 0.00 0.00 3.58
45 46 5.810587 TCAATACTGGCGAGTAGAAAATGAC 59.189 40.000 14.20 0.00 38.11 3.06
46 47 5.972935 TCAATACTGGCGAGTAGAAAATGA 58.027 37.500 14.20 9.85 38.11 2.57
47 48 6.662414 TTCAATACTGGCGAGTAGAAAATG 57.338 37.500 14.20 8.00 38.11 2.32
48 49 7.865706 ATTTCAATACTGGCGAGTAGAAAAT 57.134 32.000 19.80 17.09 38.11 1.82
49 50 7.606456 AGAATTTCAATACTGGCGAGTAGAAAA 59.394 33.333 19.80 16.04 38.11 2.29
50 51 7.064609 CAGAATTTCAATACTGGCGAGTAGAAA 59.935 37.037 18.84 18.84 38.11 2.52
51 52 6.535150 CAGAATTTCAATACTGGCGAGTAGAA 59.465 38.462 14.20 9.97 38.11 2.10
52 53 6.042777 CAGAATTTCAATACTGGCGAGTAGA 58.957 40.000 14.20 4.44 38.11 2.59
53 54 6.042777 TCAGAATTTCAATACTGGCGAGTAG 58.957 40.000 14.20 2.09 38.11 2.57
54 55 5.972935 TCAGAATTTCAATACTGGCGAGTA 58.027 37.500 11.24 11.24 39.07 2.59
55 56 4.832248 TCAGAATTTCAATACTGGCGAGT 58.168 39.130 6.61 6.61 36.07 4.18
56 57 5.111989 TCTCAGAATTTCAATACTGGCGAG 58.888 41.667 0.00 0.00 0.00 5.03
57 58 5.084818 TCTCAGAATTTCAATACTGGCGA 57.915 39.130 0.00 0.00 0.00 5.54
58 59 5.563842 GTTCTCAGAATTTCAATACTGGCG 58.436 41.667 0.00 0.00 0.00 5.69
59 60 5.563842 CGTTCTCAGAATTTCAATACTGGC 58.436 41.667 0.00 0.00 0.00 4.85
60 61 5.122239 TGCGTTCTCAGAATTTCAATACTGG 59.878 40.000 0.00 0.00 0.00 4.00
61 62 6.128445 ACTGCGTTCTCAGAATTTCAATACTG 60.128 38.462 0.00 0.00 37.51 2.74
62 63 5.934625 ACTGCGTTCTCAGAATTTCAATACT 59.065 36.000 0.00 0.00 37.51 2.12
63 64 6.170675 ACTGCGTTCTCAGAATTTCAATAC 57.829 37.500 0.00 0.00 37.51 1.89
64 65 7.063426 CAGTACTGCGTTCTCAGAATTTCAATA 59.937 37.037 10.54 0.00 37.51 1.90
65 66 5.934625 AGTACTGCGTTCTCAGAATTTCAAT 59.065 36.000 0.00 0.00 37.51 2.57
66 67 5.177511 CAGTACTGCGTTCTCAGAATTTCAA 59.822 40.000 10.54 0.00 37.51 2.69
67 68 4.686091 CAGTACTGCGTTCTCAGAATTTCA 59.314 41.667 10.54 0.00 37.51 2.69
68 69 5.196809 CAGTACTGCGTTCTCAGAATTTC 57.803 43.478 10.54 0.00 37.51 2.17
88 89 3.937079 TCACTGTGCTATCAATTCTGCAG 59.063 43.478 7.63 7.63 36.03 4.41
245 741 4.003648 CCACTCCTCCAATGTACAAAGAC 58.996 47.826 0.00 0.00 0.00 3.01
264 760 3.129287 CACTTGGGAGTGCATATTTCCAC 59.871 47.826 10.42 0.00 46.08 4.02
471 3360 1.374252 CCTCGCGGTTTAGTGCAGT 60.374 57.895 6.13 0.00 0.00 4.40
480 3369 3.771160 CCTGCCTACCTCGCGGTT 61.771 66.667 6.13 0.00 42.13 4.44
483 3372 2.722487 CTACCTGCCTACCTCGCG 59.278 66.667 0.00 0.00 0.00 5.87
485 3374 1.437986 GTGCTACCTGCCTACCTCG 59.562 63.158 0.00 0.00 42.00 4.63
487 3376 2.722201 GCGTGCTACCTGCCTACCT 61.722 63.158 0.00 0.00 42.00 3.08
493 3382 2.815647 GTGAGGCGTGCTACCTGC 60.816 66.667 0.00 0.00 37.77 4.85
779 3941 3.570638 CCGATTGAGCAGCGGCAG 61.571 66.667 12.44 0.00 44.61 4.85
1077 4315 1.546773 CGGGAAAATTGGTCTGGGTCA 60.547 52.381 0.00 0.00 0.00 4.02
1481 4773 0.322546 GCCGACAATCTTGGGAGGTT 60.323 55.000 0.00 0.00 0.00 3.50
1504 4802 0.238553 GCCTTCTTCTTGGACAACGC 59.761 55.000 0.00 0.00 0.00 4.84
1520 4818 2.102578 CCCTTTTGATGATTTCCGCCT 58.897 47.619 0.00 0.00 0.00 5.52
1582 4880 0.251832 TTCTCCTCCGAGCAGAACCT 60.252 55.000 0.00 0.00 35.94 3.50
1807 9493 0.824759 GTGACCAGGGCACTACTAGG 59.175 60.000 19.51 0.00 33.57 3.02
1878 9594 2.422479 TGGACTAGTGCTAGTTACAGCG 59.578 50.000 15.92 0.00 45.63 5.18
2097 9909 2.732412 ACGTGGACATGAGAACTCAG 57.268 50.000 10.26 5.50 43.61 3.35
2154 10019 7.989170 AGCAAGAGGAGAATTTTGTCAATTTTT 59.011 29.630 0.00 0.00 0.00 1.94
2198 10065 6.141844 GGAGTATCATTTGTCGTACATACGTG 59.858 42.308 10.97 2.58 43.60 4.49
2241 10111 9.836076 GTATTGTTCTAAATGTCTAAAACACCC 57.164 33.333 0.00 0.00 41.75 4.61
2261 10131 9.965824 CTGAAATTGAACTGTTTTAGGTATTGT 57.034 29.630 0.00 0.00 0.00 2.71
2262 10132 8.915654 GCTGAAATTGAACTGTTTTAGGTATTG 58.084 33.333 0.00 0.00 0.00 1.90
2263 10133 8.860088 AGCTGAAATTGAACTGTTTTAGGTATT 58.140 29.630 0.00 0.00 32.29 1.89
2265 10135 7.284489 ACAGCTGAAATTGAACTGTTTTAGGTA 59.716 33.333 23.35 0.00 38.38 3.08
2266 10136 6.096846 ACAGCTGAAATTGAACTGTTTTAGGT 59.903 34.615 23.35 0.00 38.38 3.08
2267 10137 6.507023 ACAGCTGAAATTGAACTGTTTTAGG 58.493 36.000 23.35 0.00 38.38 2.69
2269 10139 7.333528 AGACAGCTGAAATTGAACTGTTTTA 57.666 32.000 23.35 0.00 41.45 1.52
2270 10140 6.212888 AGACAGCTGAAATTGAACTGTTTT 57.787 33.333 23.35 0.00 41.45 2.43
2271 10141 5.841957 AGACAGCTGAAATTGAACTGTTT 57.158 34.783 23.35 0.00 41.45 2.83
2272 10142 6.942532 TTAGACAGCTGAAATTGAACTGTT 57.057 33.333 23.35 0.00 41.45 3.16
2273 10143 6.942532 TTTAGACAGCTGAAATTGAACTGT 57.057 33.333 23.35 0.00 43.93 3.55
2274 10144 6.358030 CGTTTTAGACAGCTGAAATTGAACTG 59.642 38.462 23.35 9.82 33.03 3.16
2275 10145 6.260050 TCGTTTTAGACAGCTGAAATTGAACT 59.740 34.615 23.35 8.36 33.03 3.01
2276 10146 6.357240 GTCGTTTTAGACAGCTGAAATTGAAC 59.643 38.462 23.35 15.30 40.65 3.18
2277 10147 6.260050 AGTCGTTTTAGACAGCTGAAATTGAA 59.740 34.615 23.35 4.96 43.24 2.69
2279 10149 5.990408 AGTCGTTTTAGACAGCTGAAATTG 58.010 37.500 23.35 7.48 43.24 2.32
2280 10150 6.619801 AAGTCGTTTTAGACAGCTGAAATT 57.380 33.333 23.35 0.00 43.24 1.82
2281 10151 7.907214 ATAAGTCGTTTTAGACAGCTGAAAT 57.093 32.000 23.35 8.03 43.24 2.17
2282 10152 8.301720 TCTATAAGTCGTTTTAGACAGCTGAAA 58.698 33.333 23.35 7.93 43.24 2.69
2283 10153 7.823665 TCTATAAGTCGTTTTAGACAGCTGAA 58.176 34.615 23.35 0.48 43.24 3.02
2284 10154 7.387119 TCTATAAGTCGTTTTAGACAGCTGA 57.613 36.000 23.35 0.00 43.24 4.26
2285 10155 8.462143 TTTCTATAAGTCGTTTTAGACAGCTG 57.538 34.615 13.48 13.48 43.24 4.24
2286 10156 9.654663 AATTTCTATAAGTCGTTTTAGACAGCT 57.345 29.630 0.00 0.00 43.24 4.24
2366 10282 2.426738 TGCAAGCCGGATTTTAGGAATG 59.573 45.455 5.05 0.00 0.00 2.67
2410 10346 2.280971 CGATCAAAGTGCTGTCGATGAG 59.719 50.000 0.00 0.00 34.46 2.90
2473 10409 2.435069 AGATCAGGATCTGCACAAGGAG 59.565 50.000 10.86 0.00 45.77 3.69
2515 10601 2.335011 CGTCGTCACAGGAGCACA 59.665 61.111 0.00 0.00 0.00 4.57
2534 10620 0.676151 CCTGAAAGCACTCCCTCTGC 60.676 60.000 0.00 0.00 34.63 4.26
2564 10650 1.668294 CACTCCACTTCCACGCTCT 59.332 57.895 0.00 0.00 0.00 4.09
2567 10653 1.668151 GACCACTCCACTTCCACGC 60.668 63.158 0.00 0.00 0.00 5.34
2569 10655 1.668151 GCGACCACTCCACTTCCAC 60.668 63.158 0.00 0.00 0.00 4.02
2612 10699 2.118294 AAAGGAACCAGCTGGGGC 59.882 61.111 35.42 25.28 42.91 5.80
2614 10701 1.114722 TTGCAAAGGAACCAGCTGGG 61.115 55.000 35.42 17.36 44.81 4.45
2639 10726 2.781757 TCCTCCTTAGTCCGGATAGACA 59.218 50.000 7.81 0.00 39.34 3.41
2650 10737 4.936685 AAATCTTGCCTTCCTCCTTAGT 57.063 40.909 0.00 0.00 0.00 2.24
2673 10760 7.109501 TGAGCAGTGACCTATAATAGCAAAAA 58.890 34.615 0.00 0.00 0.00 1.94
2674 10761 6.649155 TGAGCAGTGACCTATAATAGCAAAA 58.351 36.000 0.00 0.00 0.00 2.44
2675 10762 6.127054 ACTGAGCAGTGACCTATAATAGCAAA 60.127 38.462 1.71 0.00 40.75 3.68
2676 10763 5.363868 ACTGAGCAGTGACCTATAATAGCAA 59.636 40.000 1.71 0.00 40.75 3.91
2677 10764 4.895889 ACTGAGCAGTGACCTATAATAGCA 59.104 41.667 1.71 0.00 40.75 3.49
2678 10765 5.461032 ACTGAGCAGTGACCTATAATAGC 57.539 43.478 1.71 0.00 40.75 2.97
2694 10781 5.424121 TGACTTCTTTTAAAGCACTGAGC 57.576 39.130 0.00 0.00 46.19 4.26
2695 10782 5.904080 CGTTGACTTCTTTTAAAGCACTGAG 59.096 40.000 0.00 0.00 0.00 3.35
2696 10783 5.220777 CCGTTGACTTCTTTTAAAGCACTGA 60.221 40.000 0.00 0.00 0.00 3.41
2697 10784 4.970003 CCGTTGACTTCTTTTAAAGCACTG 59.030 41.667 0.00 0.00 0.00 3.66
2698 10785 4.036380 CCCGTTGACTTCTTTTAAAGCACT 59.964 41.667 0.00 0.00 0.00 4.40
2699 10786 4.287720 CCCGTTGACTTCTTTTAAAGCAC 58.712 43.478 0.00 0.00 0.00 4.40
2700 10787 3.316868 CCCCGTTGACTTCTTTTAAAGCA 59.683 43.478 0.00 0.00 0.00 3.91
2701 10788 3.317149 ACCCCGTTGACTTCTTTTAAAGC 59.683 43.478 0.00 0.00 0.00 3.51
2702 10789 5.509716 AACCCCGTTGACTTCTTTTAAAG 57.490 39.130 0.00 0.00 0.00 1.85
2703 10790 5.918426 AAACCCCGTTGACTTCTTTTAAA 57.082 34.783 0.00 0.00 0.00 1.52
2704 10791 5.918426 AAAACCCCGTTGACTTCTTTTAA 57.082 34.783 0.00 0.00 0.00 1.52
2705 10792 5.918426 AAAAACCCCGTTGACTTCTTTTA 57.082 34.783 0.00 0.00 0.00 1.52
2706 10793 4.811969 AAAAACCCCGTTGACTTCTTTT 57.188 36.364 0.00 0.00 0.00 2.27
2747 10834 9.431887 GTTGACATTCTATTGTACTTGTAAGGA 57.568 33.333 0.00 0.00 0.00 3.36
2748 10835 9.436957 AGTTGACATTCTATTGTACTTGTAAGG 57.563 33.333 0.00 0.00 0.00 2.69


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

AutoCloner maintained by Alex Coulton.