Multiple sequence alignment - TraesCS1A01G209300

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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 TraesCS1A01G209300 chr1A 100.000 2165 0 0 1 2165 371942316 371940152 0.000000e+00 3999.0
1 TraesCS1A01G209300 chr5A 94.384 1460 46 10 1 1434 482021826 482023275 0.000000e+00 2209.0
2 TraesCS1A01G209300 chr5A 96.220 291 10 1 1848 2137 482023265 482023555 1.940000e-130 475.0
3 TraesCS1A01G209300 chr3D 93.996 1449 62 13 1 1434 589250387 589248949 0.000000e+00 2170.0
4 TraesCS1A01G209300 chr3D 93.638 896 34 11 551 1434 158938604 158937720 0.000000e+00 1317.0
5 TraesCS1A01G209300 chr3D 93.358 813 28 5 1 797 158939417 158938615 0.000000e+00 1179.0
6 TraesCS1A01G209300 chr3D 97.241 290 8 0 1848 2137 158931616 158931327 1.930000e-135 492.0
7 TraesCS1A01G209300 chr3D 97.241 290 8 0 1848 2137 589248959 589248670 1.930000e-135 492.0
8 TraesCS1A01G209300 chr3D 95.876 291 9 2 1848 2137 158937730 158937442 3.250000e-128 468.0
9 TraesCS1A01G209300 chr3D 94.059 101 5 1 1335 1434 318513277 318513177 3.720000e-33 152.0
10 TraesCS1A01G209300 chr3D 100.000 46 0 0 1292 1337 69535734 69535779 3.830000e-13 86.1
11 TraesCS1A01G209300 chr3D 93.103 58 4 0 1347 1404 158931637 158931694 3.830000e-13 86.1
12 TraesCS1A01G209300 chr3D 97.917 48 0 1 1388 1434 535094111 535094064 4.950000e-12 82.4
13 TraesCS1A01G209300 chr1D 94.036 1442 58 13 1 1433 200553077 200551655 0.000000e+00 2161.0
14 TraesCS1A01G209300 chr2D 93.814 1374 52 12 1 1365 591995487 591996836 0.000000e+00 2036.0
15 TraesCS1A01G209300 chr2D 93.237 414 21 7 1437 1848 525514795 525515203 8.550000e-169 603.0
16 TraesCS1A01G209300 chr6D 92.113 1306 74 18 1 1299 431006344 431005061 0.000000e+00 1814.0
17 TraesCS1A01G209300 chr6D 87.755 49 5 1 2117 2165 295208329 295208282 3.000000e-04 56.5
18 TraesCS1A01G209300 chr5B 94.624 1116 43 9 324 1434 429065121 429064018 0.000000e+00 1712.0
19 TraesCS1A01G209300 chr5B 93.558 652 27 4 1 637 429065785 429065134 0.000000e+00 957.0
20 TraesCS1A01G209300 chr5B 95.000 40 0 1 2126 2165 550066105 550066142 6.450000e-06 62.1
21 TraesCS1A01G209300 chr5B 94.872 39 1 1 2127 2165 213089642 213089605 2.320000e-05 60.2
22 TraesCS1A01G209300 chr7B 93.930 972 43 12 467 1434 105212551 105211592 0.000000e+00 1454.0
23 TraesCS1A01G209300 chr7B 92.584 418 25 4 1435 1848 589393051 589393466 1.430000e-166 595.0
24 TraesCS1A01G209300 chr7B 91.438 292 13 1 1 280 622428142 622427851 7.250000e-105 390.0
25 TraesCS1A01G209300 chr4A 92.921 1003 40 12 438 1434 219302936 219303913 0.000000e+00 1430.0
26 TraesCS1A01G209300 chr4A 100.000 34 0 0 2131 2164 11850982 11851015 1.790000e-06 63.9
27 TraesCS1A01G209300 chrUn 91.462 1019 39 7 1 991 341019022 341020020 0.000000e+00 1356.0
28 TraesCS1A01G209300 chrUn 92.602 811 31 5 1 797 355920250 355921045 0.000000e+00 1138.0
29 TraesCS1A01G209300 chrUn 94.963 675 28 2 1 673 362350696 362351366 0.000000e+00 1053.0
30 TraesCS1A01G209300 chrUn 93.029 416 22 7 1435 1848 108880340 108879930 3.070000e-168 601.0
31 TraesCS1A01G209300 chrUn 97.586 290 7 0 1848 2137 371791161 371790872 4.150000e-137 497.0
32 TraesCS1A01G209300 chr3B 95.012 862 28 7 578 1434 201553833 201554684 0.000000e+00 1339.0
33 TraesCS1A01G209300 chr3B 92.548 416 29 2 1435 1849 828254409 828254823 1.430000e-166 595.0
34 TraesCS1A01G209300 chr3B 96.233 292 9 2 1848 2137 201554674 201554965 5.410000e-131 477.0
35 TraesCS1A01G209300 chr5D 93.395 863 36 11 582 1434 523037748 523036897 0.000000e+00 1258.0
36 TraesCS1A01G209300 chr5D 93.399 409 25 2 1435 1843 383074414 383074820 2.380000e-169 604.0
37 TraesCS1A01G209300 chr5D 97.586 290 7 0 1848 2137 196431650 196431361 4.150000e-137 497.0
38 TraesCS1A01G209300 chr5D 96.564 291 9 1 1848 2137 432406305 432406595 4.180000e-132 481.0
39 TraesCS1A01G209300 chr5D 96.564 291 9 1 1848 2137 503253528 503253238 4.180000e-132 481.0
40 TraesCS1A01G209300 chr5D 94.872 39 1 1 2128 2165 305892448 305892410 2.320000e-05 60.2
41 TraesCS1A01G209300 chr1B 93.525 417 25 2 1434 1849 30443006 30442591 8.490000e-174 619.0
42 TraesCS1A01G209300 chr3A 92.788 416 25 5 1434 1848 382368023 382368434 3.980000e-167 597.0
43 TraesCS1A01G209300 chr3A 92.857 42 2 1 2124 2165 455501680 455501640 2.320000e-05 60.2
44 TraesCS1A01G209300 chr2B 92.548 416 27 4 1435 1848 67303035 67302622 5.150000e-166 593.0
45 TraesCS1A01G209300 chr6B 92.326 417 26 6 1435 1849 718320478 718320066 2.390000e-164 588.0
46 TraesCS1A01G209300 chr6B 92.683 41 2 1 2126 2165 484324805 484324765 8.350000e-05 58.4
47 TraesCS1A01G209300 chr2A 94.872 39 0 1 2127 2165 565755905 565755941 2.320000e-05 60.2
48 TraesCS1A01G209300 chr7A 92.683 41 2 1 2125 2165 93006640 93006679 8.350000e-05 58.4


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 TraesCS1A01G209300 chr1A 371940152 371942316 2164 True 3999.0 3999 100.000000 1 2165 1 chr1A.!!$R1 2164
1 TraesCS1A01G209300 chr5A 482021826 482023555 1729 False 1342.0 2209 95.302000 1 2137 2 chr5A.!!$F1 2136
2 TraesCS1A01G209300 chr3D 589248670 589250387 1717 True 1331.0 2170 95.618500 1 2137 2 chr3D.!!$R5 2136
3 TraesCS1A01G209300 chr3D 158937442 158939417 1975 True 988.0 1317 94.290667 1 2137 3 chr3D.!!$R4 2136
4 TraesCS1A01G209300 chr1D 200551655 200553077 1422 True 2161.0 2161 94.036000 1 1433 1 chr1D.!!$R1 1432
5 TraesCS1A01G209300 chr2D 591995487 591996836 1349 False 2036.0 2036 93.814000 1 1365 1 chr2D.!!$F2 1364
6 TraesCS1A01G209300 chr6D 431005061 431006344 1283 True 1814.0 1814 92.113000 1 1299 1 chr6D.!!$R2 1298
7 TraesCS1A01G209300 chr5B 429064018 429065785 1767 True 1334.5 1712 94.091000 1 1434 2 chr5B.!!$R2 1433
8 TraesCS1A01G209300 chr7B 105211592 105212551 959 True 1454.0 1454 93.930000 467 1434 1 chr7B.!!$R1 967
9 TraesCS1A01G209300 chr4A 219302936 219303913 977 False 1430.0 1430 92.921000 438 1434 1 chr4A.!!$F2 996
10 TraesCS1A01G209300 chrUn 341019022 341020020 998 False 1356.0 1356 91.462000 1 991 1 chrUn.!!$F1 990
11 TraesCS1A01G209300 chrUn 355920250 355921045 795 False 1138.0 1138 92.602000 1 797 1 chrUn.!!$F2 796
12 TraesCS1A01G209300 chrUn 362350696 362351366 670 False 1053.0 1053 94.963000 1 673 1 chrUn.!!$F3 672
13 TraesCS1A01G209300 chr3B 201553833 201554965 1132 False 908.0 1339 95.622500 578 2137 2 chr3B.!!$F2 1559
14 TraesCS1A01G209300 chr5D 523036897 523037748 851 True 1258.0 1258 93.395000 582 1434 1 chr5D.!!$R4 852

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
40 41 2.389715 AGTGGGAGAAGAGGGATTACG 58.61 52.381 0.0 0.0 0.0 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1439 2087 0.033011 ACCCGAGAGCTCCTGTGTAT 60.033 55.0 10.93 0.0 0.0 2.29 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
40 41 2.389715 AGTGGGAGAAGAGGGATTACG 58.610 52.381 0.00 0.00 0.00 3.18
134 162 7.353414 TGTTTCTGATTCACCAAACCAATTA 57.647 32.000 11.41 0.00 0.00 1.40
261 291 9.907229 TGGGTTTAGTTGGTTAAATTCAATTTT 57.093 25.926 0.00 0.00 33.82 1.82
436 479 7.600065 ACTGATTGAGTGAATTCCAATGAAAG 58.400 34.615 11.64 9.24 30.93 2.62
633 1004 6.570680 TCATTTTCCCTTCTTTTTATCCCCT 58.429 36.000 0.00 0.00 0.00 4.79
829 1459 8.752766 AAATTCTTGTTGTCTTATCTGCATTG 57.247 30.769 0.00 0.00 0.00 2.82
948 1578 8.121086 CAGCAATAGATGTCTTTCACATACAAG 58.879 37.037 0.00 0.00 46.53 3.16
979 1609 9.676195 AAAAATTAATTTCCTTTTTGAATGGCG 57.324 25.926 13.68 0.00 32.46 5.69
1101 1733 2.368439 TCAAGATCATTTTGGAGCGGG 58.632 47.619 0.00 0.00 0.00 6.13
1435 2083 8.712285 TTCTTACAATAGGATTACAACTTCGG 57.288 34.615 0.00 0.00 0.00 4.30
1436 2084 8.070034 TCTTACAATAGGATTACAACTTCGGA 57.930 34.615 0.00 0.00 0.00 4.55
1437 2085 8.533657 TCTTACAATAGGATTACAACTTCGGAA 58.466 33.333 0.00 0.00 0.00 4.30
1438 2086 9.158233 CTTACAATAGGATTACAACTTCGGAAA 57.842 33.333 0.00 0.00 0.00 3.13
1439 2087 7.989416 ACAATAGGATTACAACTTCGGAAAA 57.011 32.000 0.00 0.00 0.00 2.29
1440 2088 8.575649 ACAATAGGATTACAACTTCGGAAAAT 57.424 30.769 0.00 0.00 0.00 1.82
1441 2089 9.675464 ACAATAGGATTACAACTTCGGAAAATA 57.325 29.630 0.00 0.00 0.00 1.40
1442 2090 9.931210 CAATAGGATTACAACTTCGGAAAATAC 57.069 33.333 0.00 0.00 0.00 1.89
1443 2091 9.675464 AATAGGATTACAACTTCGGAAAATACA 57.325 29.630 0.00 0.00 0.00 2.29
1444 2092 7.373778 AGGATTACAACTTCGGAAAATACAC 57.626 36.000 0.00 0.00 0.00 2.90
1445 2093 6.938030 AGGATTACAACTTCGGAAAATACACA 59.062 34.615 0.00 0.00 0.00 3.72
1446 2094 7.119262 AGGATTACAACTTCGGAAAATACACAG 59.881 37.037 0.00 0.00 0.00 3.66
1447 2095 6.548441 TTACAACTTCGGAAAATACACAGG 57.452 37.500 0.00 0.00 0.00 4.00
1448 2096 4.710324 ACAACTTCGGAAAATACACAGGA 58.290 39.130 0.00 0.00 0.00 3.86
1449 2097 4.755123 ACAACTTCGGAAAATACACAGGAG 59.245 41.667 0.00 0.00 0.00 3.69
1450 2098 3.335579 ACTTCGGAAAATACACAGGAGC 58.664 45.455 0.00 0.00 0.00 4.70
1451 2099 3.008049 ACTTCGGAAAATACACAGGAGCT 59.992 43.478 0.00 0.00 0.00 4.09
1452 2100 3.247006 TCGGAAAATACACAGGAGCTC 57.753 47.619 4.71 4.71 0.00 4.09
1453 2101 2.832129 TCGGAAAATACACAGGAGCTCT 59.168 45.455 14.64 0.00 0.00 4.09
1454 2102 3.119101 TCGGAAAATACACAGGAGCTCTC 60.119 47.826 14.64 3.76 0.00 3.20
1455 2103 3.190874 GGAAAATACACAGGAGCTCTCG 58.809 50.000 14.64 7.53 0.00 4.04
1456 2104 2.969628 AAATACACAGGAGCTCTCGG 57.030 50.000 14.64 7.21 0.00 4.63
1457 2105 1.115467 AATACACAGGAGCTCTCGGG 58.885 55.000 14.64 8.66 0.00 5.14
1458 2106 0.033011 ATACACAGGAGCTCTCGGGT 60.033 55.000 14.64 14.26 0.00 5.28
1459 2107 0.965866 TACACAGGAGCTCTCGGGTG 60.966 60.000 14.64 17.38 39.01 4.61
1460 2108 3.386237 ACAGGAGCTCTCGGGTGC 61.386 66.667 14.64 0.00 0.00 5.01
1461 2109 3.073735 CAGGAGCTCTCGGGTGCT 61.074 66.667 12.49 12.49 44.69 4.40
1475 2123 3.546009 TGCTCCGCACCCCTATAC 58.454 61.111 0.00 0.00 31.71 1.47
1476 2124 2.338984 GCTCCGCACCCCTATACG 59.661 66.667 0.00 0.00 0.00 3.06
1477 2125 2.198287 GCTCCGCACCCCTATACGA 61.198 63.158 0.00 0.00 0.00 3.43
1478 2126 1.741327 GCTCCGCACCCCTATACGAA 61.741 60.000 0.00 0.00 0.00 3.85
1479 2127 0.748450 CTCCGCACCCCTATACGAAA 59.252 55.000 0.00 0.00 0.00 3.46
1480 2128 1.137479 CTCCGCACCCCTATACGAAAA 59.863 52.381 0.00 0.00 0.00 2.29
1481 2129 1.554160 TCCGCACCCCTATACGAAAAA 59.446 47.619 0.00 0.00 0.00 1.94
1482 2130 2.171027 TCCGCACCCCTATACGAAAAAT 59.829 45.455 0.00 0.00 0.00 1.82
1483 2131 3.387374 TCCGCACCCCTATACGAAAAATA 59.613 43.478 0.00 0.00 0.00 1.40
1484 2132 4.040706 TCCGCACCCCTATACGAAAAATAT 59.959 41.667 0.00 0.00 0.00 1.28
1485 2133 4.758165 CCGCACCCCTATACGAAAAATATT 59.242 41.667 0.00 0.00 0.00 1.28
1486 2134 5.106830 CCGCACCCCTATACGAAAAATATTC 60.107 44.000 0.00 0.00 0.00 1.75
1487 2135 5.389098 CGCACCCCTATACGAAAAATATTCG 60.389 44.000 8.86 8.86 46.36 3.34
1539 2187 9.573133 AATATCAAATTTTCGAGATGTCAAACC 57.427 29.630 0.00 0.00 0.00 3.27
1540 2188 6.633500 TCAAATTTTCGAGATGTCAAACCT 57.367 33.333 0.00 0.00 0.00 3.50
1541 2189 6.437928 TCAAATTTTCGAGATGTCAAACCTG 58.562 36.000 0.00 0.00 0.00 4.00
1542 2190 5.376854 AATTTTCGAGATGTCAAACCTGG 57.623 39.130 0.00 0.00 0.00 4.45
1543 2191 3.485463 TTTCGAGATGTCAAACCTGGT 57.515 42.857 0.00 0.00 0.00 4.00
1544 2192 3.485463 TTCGAGATGTCAAACCTGGTT 57.515 42.857 6.18 6.18 0.00 3.67
1545 2193 3.485463 TCGAGATGTCAAACCTGGTTT 57.515 42.857 18.84 18.84 36.05 3.27
1546 2194 3.399330 TCGAGATGTCAAACCTGGTTTC 58.601 45.455 21.49 12.27 33.10 2.78
1547 2195 2.484264 CGAGATGTCAAACCTGGTTTCC 59.516 50.000 21.49 15.05 33.10 3.13
1548 2196 2.820197 GAGATGTCAAACCTGGTTTCCC 59.180 50.000 21.49 14.72 33.10 3.97
1549 2197 2.176798 AGATGTCAAACCTGGTTTCCCA 59.823 45.455 21.49 19.32 38.87 4.37
1550 2198 2.534042 TGTCAAACCTGGTTTCCCAA 57.466 45.000 21.49 5.73 41.27 4.12
1551 2199 3.039252 TGTCAAACCTGGTTTCCCAAT 57.961 42.857 21.49 0.00 41.27 3.16
1552 2200 2.962421 TGTCAAACCTGGTTTCCCAATC 59.038 45.455 21.49 9.17 41.27 2.67
1553 2201 3.230976 GTCAAACCTGGTTTCCCAATCT 58.769 45.455 21.49 0.00 41.27 2.40
1554 2202 4.141135 TGTCAAACCTGGTTTCCCAATCTA 60.141 41.667 21.49 1.02 41.27 1.98
1555 2203 4.217767 GTCAAACCTGGTTTCCCAATCTAC 59.782 45.833 21.49 6.78 41.27 2.59
1556 2204 4.105697 TCAAACCTGGTTTCCCAATCTACT 59.894 41.667 21.49 0.00 41.27 2.57
1557 2205 4.741928 AACCTGGTTTCCCAATCTACTT 57.258 40.909 6.18 0.00 41.27 2.24
1558 2206 4.302559 ACCTGGTTTCCCAATCTACTTC 57.697 45.455 0.00 0.00 41.27 3.01
1559 2207 3.010250 ACCTGGTTTCCCAATCTACTTCC 59.990 47.826 0.00 0.00 41.27 3.46
1560 2208 3.270877 CTGGTTTCCCAATCTACTTCCG 58.729 50.000 0.00 0.00 41.27 4.30
1561 2209 2.640826 TGGTTTCCCAATCTACTTCCGT 59.359 45.455 0.00 0.00 37.98 4.69
1562 2210 3.007635 GGTTTCCCAATCTACTTCCGTG 58.992 50.000 0.00 0.00 0.00 4.94
1563 2211 3.558533 GGTTTCCCAATCTACTTCCGTGT 60.559 47.826 0.00 0.00 0.00 4.49
1564 2212 3.328382 TTCCCAATCTACTTCCGTGTG 57.672 47.619 0.00 0.00 0.00 3.82
1565 2213 2.531771 TCCCAATCTACTTCCGTGTGA 58.468 47.619 0.00 0.00 0.00 3.58
1566 2214 2.901192 TCCCAATCTACTTCCGTGTGAA 59.099 45.455 0.00 0.00 0.00 3.18
1567 2215 3.325425 TCCCAATCTACTTCCGTGTGAAA 59.675 43.478 0.00 0.00 31.06 2.69
1568 2216 4.019681 TCCCAATCTACTTCCGTGTGAAAT 60.020 41.667 0.00 0.00 31.06 2.17
1569 2217 4.700213 CCCAATCTACTTCCGTGTGAAATT 59.300 41.667 0.00 0.00 31.06 1.82
1570 2218 5.183140 CCCAATCTACTTCCGTGTGAAATTT 59.817 40.000 0.00 0.00 31.06 1.82
1571 2219 6.314784 CCAATCTACTTCCGTGTGAAATTTC 58.685 40.000 11.41 11.41 31.06 2.17
1572 2220 5.779806 ATCTACTTCCGTGTGAAATTTCG 57.220 39.130 13.34 2.06 31.06 3.46
1573 2221 4.624015 TCTACTTCCGTGTGAAATTTCGT 58.376 39.130 13.34 5.23 31.06 3.85
1574 2222 3.602390 ACTTCCGTGTGAAATTTCGTG 57.398 42.857 13.34 3.26 31.06 4.35
1575 2223 3.199677 ACTTCCGTGTGAAATTTCGTGA 58.800 40.909 13.34 2.89 31.06 4.35
1576 2224 3.623960 ACTTCCGTGTGAAATTTCGTGAA 59.376 39.130 13.34 9.63 31.06 3.18
1577 2225 4.095185 ACTTCCGTGTGAAATTTCGTGAAA 59.905 37.500 13.34 0.00 31.06 2.69
1578 2226 4.617808 TCCGTGTGAAATTTCGTGAAAA 57.382 36.364 13.34 0.00 33.56 2.29
1579 2227 4.982999 TCCGTGTGAAATTTCGTGAAAAA 58.017 34.783 13.34 0.00 33.56 1.94
1601 2249 5.845391 AATACCCAAAAACATATCCGTGG 57.155 39.130 0.00 0.00 0.00 4.94
1602 2250 1.822371 ACCCAAAAACATATCCGTGGC 59.178 47.619 0.00 0.00 0.00 5.01
1603 2251 1.202245 CCCAAAAACATATCCGTGGCG 60.202 52.381 0.00 0.00 0.00 5.69
1604 2252 1.740585 CCAAAAACATATCCGTGGCGA 59.259 47.619 0.00 0.00 0.00 5.54
1605 2253 2.162608 CCAAAAACATATCCGTGGCGAA 59.837 45.455 0.00 0.00 0.00 4.70
1606 2254 3.425404 CAAAAACATATCCGTGGCGAAG 58.575 45.455 0.00 0.00 0.00 3.79
1607 2255 1.663695 AAACATATCCGTGGCGAAGG 58.336 50.000 0.00 0.00 0.00 3.46
1608 2256 0.828022 AACATATCCGTGGCGAAGGA 59.172 50.000 5.76 5.76 41.30 3.36
1609 2257 0.828022 ACATATCCGTGGCGAAGGAA 59.172 50.000 7.56 0.00 40.32 3.36
1610 2258 1.416401 ACATATCCGTGGCGAAGGAAT 59.584 47.619 7.56 0.68 40.32 3.01
1611 2259 2.158813 ACATATCCGTGGCGAAGGAATT 60.159 45.455 7.56 0.00 40.32 2.17
1612 2260 3.070446 ACATATCCGTGGCGAAGGAATTA 59.930 43.478 7.56 0.00 40.32 1.40
1613 2261 1.949465 ATCCGTGGCGAAGGAATTAC 58.051 50.000 7.56 0.00 40.32 1.89
1614 2262 0.899720 TCCGTGGCGAAGGAATTACT 59.100 50.000 0.00 0.00 32.86 2.24
1615 2263 1.006832 CCGTGGCGAAGGAATTACTG 58.993 55.000 0.00 0.00 0.00 2.74
1616 2264 0.373716 CGTGGCGAAGGAATTACTGC 59.626 55.000 0.00 0.00 0.00 4.40
1617 2265 0.733150 GTGGCGAAGGAATTACTGCC 59.267 55.000 11.39 11.39 42.76 4.85
1618 2266 0.393808 TGGCGAAGGAATTACTGCCC 60.394 55.000 14.85 6.43 41.77 5.36
1619 2267 1.436983 GGCGAAGGAATTACTGCCCG 61.437 60.000 7.67 5.57 36.51 6.13
1620 2268 1.436983 GCGAAGGAATTACTGCCCGG 61.437 60.000 0.00 0.00 0.00 5.73
1621 2269 0.177141 CGAAGGAATTACTGCCCGGA 59.823 55.000 0.73 0.00 0.00 5.14
1622 2270 1.406341 CGAAGGAATTACTGCCCGGAA 60.406 52.381 0.73 0.00 0.00 4.30
1623 2271 2.718563 GAAGGAATTACTGCCCGGAAA 58.281 47.619 0.73 0.00 0.00 3.13
1624 2272 2.891191 AGGAATTACTGCCCGGAAAA 57.109 45.000 0.73 0.00 0.00 2.29
1625 2273 3.163616 AGGAATTACTGCCCGGAAAAA 57.836 42.857 0.73 0.00 0.00 1.94
1648 2296 3.793797 AGTACCCAAACAGTGTTTTGC 57.206 42.857 18.59 8.50 35.48 3.68
1649 2297 3.361786 AGTACCCAAACAGTGTTTTGCT 58.638 40.909 18.59 10.59 35.48 3.91
1650 2298 4.528920 AGTACCCAAACAGTGTTTTGCTA 58.471 39.130 18.59 4.79 35.48 3.49
1651 2299 5.137551 AGTACCCAAACAGTGTTTTGCTAT 58.862 37.500 18.59 6.61 35.48 2.97
1652 2300 6.300703 AGTACCCAAACAGTGTTTTGCTATA 58.699 36.000 18.59 5.74 35.48 1.31
1653 2301 5.447624 ACCCAAACAGTGTTTTGCTATAC 57.552 39.130 18.59 0.00 35.48 1.47
1654 2302 4.890581 ACCCAAACAGTGTTTTGCTATACA 59.109 37.500 18.59 0.00 35.48 2.29
1655 2303 5.538433 ACCCAAACAGTGTTTTGCTATACAT 59.462 36.000 18.59 0.00 35.48 2.29
1656 2304 6.717540 ACCCAAACAGTGTTTTGCTATACATA 59.282 34.615 18.59 0.00 35.48 2.29
1657 2305 7.094377 ACCCAAACAGTGTTTTGCTATACATAG 60.094 37.037 18.59 3.27 35.48 2.23
1658 2306 7.250569 CCAAACAGTGTTTTGCTATACATAGG 58.749 38.462 18.59 8.47 35.48 2.57
1659 2307 7.120579 CCAAACAGTGTTTTGCTATACATAGGA 59.879 37.037 18.59 0.00 35.48 2.94
1660 2308 8.511321 CAAACAGTGTTTTGCTATACATAGGAA 58.489 33.333 18.59 0.00 38.65 3.36
1661 2309 8.807948 AACAGTGTTTTGCTATACATAGGAAT 57.192 30.769 1.64 0.00 39.82 3.01
1662 2310 8.807948 ACAGTGTTTTGCTATACATAGGAATT 57.192 30.769 4.31 0.00 39.82 2.17
1663 2311 9.243105 ACAGTGTTTTGCTATACATAGGAATTT 57.757 29.630 4.31 0.00 39.82 1.82
1700 2348 5.789710 CGTGAATACGTTTCCTGGTATTT 57.210 39.130 0.00 0.00 44.99 1.40
1701 2349 6.173191 CGTGAATACGTTTCCTGGTATTTT 57.827 37.500 0.00 0.00 44.99 1.82
1702 2350 6.604930 CGTGAATACGTTTCCTGGTATTTTT 58.395 36.000 0.00 0.00 44.99 1.94
1721 2369 4.314740 TTTTCACCAAATTTCAGACGGG 57.685 40.909 0.00 0.00 0.00 5.28
1722 2370 2.940994 TCACCAAATTTCAGACGGGA 57.059 45.000 0.00 0.00 0.00 5.14
1723 2371 2.778299 TCACCAAATTTCAGACGGGAG 58.222 47.619 0.00 0.00 0.00 4.30
1734 2382 3.000819 ACGGGAGTGCATCGGGAA 61.001 61.111 0.00 0.00 44.82 3.97
1735 2383 2.511600 CGGGAGTGCATCGGGAAC 60.512 66.667 0.00 0.00 0.00 3.62
1752 2400 3.909732 GGAACCCATGTTTGATATCCCA 58.090 45.455 0.00 0.00 33.97 4.37
1753 2401 4.285863 GGAACCCATGTTTGATATCCCAA 58.714 43.478 0.00 0.00 33.97 4.12
1754 2402 4.714308 GGAACCCATGTTTGATATCCCAAA 59.286 41.667 0.00 0.00 33.97 3.28
1755 2403 5.188751 GGAACCCATGTTTGATATCCCAAAA 59.811 40.000 0.00 0.00 37.72 2.44
1756 2404 6.296145 GGAACCCATGTTTGATATCCCAAAAA 60.296 38.462 0.00 0.00 37.72 1.94
1757 2405 6.048732 ACCCATGTTTGATATCCCAAAAAC 57.951 37.500 0.00 5.01 37.72 2.43
1758 2406 5.045942 ACCCATGTTTGATATCCCAAAAACC 60.046 40.000 11.69 0.00 37.72 3.27
1759 2407 5.427378 CCATGTTTGATATCCCAAAAACCC 58.573 41.667 11.69 0.00 37.72 4.11
1760 2408 5.046014 CCATGTTTGATATCCCAAAAACCCA 60.046 40.000 11.69 0.00 37.72 4.51
1761 2409 5.736951 TGTTTGATATCCCAAAAACCCAG 57.263 39.130 11.69 0.00 37.72 4.45
1762 2410 5.398236 TGTTTGATATCCCAAAAACCCAGA 58.602 37.500 11.69 0.00 37.72 3.86
1763 2411 6.022315 TGTTTGATATCCCAAAAACCCAGAT 58.978 36.000 11.69 0.00 37.72 2.90
1764 2412 6.500049 TGTTTGATATCCCAAAAACCCAGATT 59.500 34.615 11.69 0.00 37.72 2.40
1765 2413 7.017056 TGTTTGATATCCCAAAAACCCAGATTT 59.983 33.333 11.69 0.00 37.72 2.17
1766 2414 7.566658 TTGATATCCCAAAAACCCAGATTTT 57.433 32.000 0.00 0.00 33.13 1.82
1767 2415 7.566658 TGATATCCCAAAAACCCAGATTTTT 57.433 32.000 0.00 0.00 41.38 1.94
1813 2461 8.721019 TTTTTCTTGGTATTGTACGTATAGGG 57.279 34.615 0.00 0.00 0.00 3.53
1814 2462 6.409524 TTCTTGGTATTGTACGTATAGGGG 57.590 41.667 0.00 0.00 0.00 4.79
1815 2463 5.457686 TCTTGGTATTGTACGTATAGGGGT 58.542 41.667 0.00 0.00 0.00 4.95
1816 2464 5.302568 TCTTGGTATTGTACGTATAGGGGTG 59.697 44.000 0.00 0.00 0.00 4.61
1817 2465 3.321682 TGGTATTGTACGTATAGGGGTGC 59.678 47.826 0.00 0.00 0.00 5.01
1818 2466 2.806608 ATTGTACGTATAGGGGTGCG 57.193 50.000 0.00 0.00 0.00 5.34
1819 2467 0.746063 TTGTACGTATAGGGGTGCGG 59.254 55.000 0.00 0.00 0.00 5.69
1820 2468 0.106769 TGTACGTATAGGGGTGCGGA 60.107 55.000 0.00 0.00 0.00 5.54
1821 2469 0.595095 GTACGTATAGGGGTGCGGAG 59.405 60.000 0.00 0.00 0.00 4.63
1837 2485 4.766272 AGCACCCGAGAGCTCTAA 57.234 55.556 18.25 0.00 34.53 2.10
1838 2486 2.977578 AGCACCCGAGAGCTCTAAA 58.022 52.632 18.25 0.00 34.53 1.85
1839 2487 1.490574 AGCACCCGAGAGCTCTAAAT 58.509 50.000 18.25 0.00 34.53 1.40
1840 2488 1.410882 AGCACCCGAGAGCTCTAAATC 59.589 52.381 18.25 3.10 34.53 2.17
1841 2489 1.539280 GCACCCGAGAGCTCTAAATCC 60.539 57.143 18.25 2.35 0.00 3.01
1842 2490 2.035632 CACCCGAGAGCTCTAAATCCT 58.964 52.381 18.25 0.00 0.00 3.24
1843 2491 2.035321 CACCCGAGAGCTCTAAATCCTC 59.965 54.545 18.25 1.04 0.00 3.71
1844 2492 2.311463 CCCGAGAGCTCTAAATCCTCA 58.689 52.381 18.25 0.00 0.00 3.86
1845 2493 2.896685 CCCGAGAGCTCTAAATCCTCAT 59.103 50.000 18.25 0.00 0.00 2.90
1846 2494 3.056891 CCCGAGAGCTCTAAATCCTCATC 60.057 52.174 18.25 0.00 0.00 2.92
2122 2775 4.142600 ACTCTTTCAAGCAGTGTTTGTGTC 60.143 41.667 17.85 0.00 0.00 3.67
2132 2785 4.641396 CAGTGTTTGTGTCTCTATTGGGA 58.359 43.478 0.00 0.00 0.00 4.37
2137 2790 6.039382 GTGTTTGTGTCTCTATTGGGAAAAGT 59.961 38.462 0.00 0.00 0.00 2.66
2138 2791 6.039270 TGTTTGTGTCTCTATTGGGAAAAGTG 59.961 38.462 0.00 0.00 0.00 3.16
2139 2792 5.304686 TGTGTCTCTATTGGGAAAAGTGT 57.695 39.130 0.00 0.00 0.00 3.55
2140 2793 5.305585 TGTGTCTCTATTGGGAAAAGTGTC 58.694 41.667 0.00 0.00 0.00 3.67
2141 2794 4.389077 GTGTCTCTATTGGGAAAAGTGTCG 59.611 45.833 0.00 0.00 0.00 4.35
2142 2795 3.933332 GTCTCTATTGGGAAAAGTGTCGG 59.067 47.826 0.00 0.00 0.00 4.79
2143 2796 3.581332 TCTCTATTGGGAAAAGTGTCGGT 59.419 43.478 0.00 0.00 0.00 4.69
2144 2797 3.670625 TCTATTGGGAAAAGTGTCGGTG 58.329 45.455 0.00 0.00 0.00 4.94
2145 2798 2.358322 ATTGGGAAAAGTGTCGGTGT 57.642 45.000 0.00 0.00 0.00 4.16
2146 2799 1.670791 TTGGGAAAAGTGTCGGTGTC 58.329 50.000 0.00 0.00 0.00 3.67
2147 2800 0.542333 TGGGAAAAGTGTCGGTGTCA 59.458 50.000 0.00 0.00 0.00 3.58
2148 2801 1.065345 TGGGAAAAGTGTCGGTGTCAA 60.065 47.619 0.00 0.00 0.00 3.18
2149 2802 2.018515 GGGAAAAGTGTCGGTGTCAAA 58.981 47.619 0.00 0.00 0.00 2.69
2150 2803 2.424246 GGGAAAAGTGTCGGTGTCAAAA 59.576 45.455 0.00 0.00 0.00 2.44
2151 2804 3.431856 GGAAAAGTGTCGGTGTCAAAAC 58.568 45.455 0.00 0.00 0.00 2.43
2152 2805 3.431856 GAAAAGTGTCGGTGTCAAAACC 58.568 45.455 0.00 0.00 36.82 3.27
2158 2811 4.150994 GGTGTCAAAACCGGCAGA 57.849 55.556 0.00 0.00 0.00 4.26
2159 2812 2.641197 GGTGTCAAAACCGGCAGAT 58.359 52.632 0.00 0.00 0.00 2.90
2160 2813 0.521735 GGTGTCAAAACCGGCAGATC 59.478 55.000 0.00 0.00 0.00 2.75
2161 2814 1.523758 GTGTCAAAACCGGCAGATCT 58.476 50.000 0.00 0.00 0.00 2.75
2162 2815 1.464997 GTGTCAAAACCGGCAGATCTC 59.535 52.381 0.00 0.00 0.00 2.75
2163 2816 0.721718 GTCAAAACCGGCAGATCTCG 59.278 55.000 0.00 0.00 0.00 4.04
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 7.764331 TGGAACATACATATCAATATGCATGC 58.236 34.615 11.82 11.82 43.49 4.06
518 561 5.926542 CCGAGTCTCTTAAACAAGACATTCA 59.073 40.000 12.36 0.00 43.52 2.57
633 1004 7.067421 CCTATCCCCCATATAAGATAAGACGA 58.933 42.308 0.00 0.00 0.00 4.20
823 1453 8.674263 ATTTTTACTTCATTTTGTCCAATGCA 57.326 26.923 0.00 0.00 34.58 3.96
1094 1726 1.599240 GGATGCTCATTCCCGCTCC 60.599 63.158 0.00 0.00 0.00 4.70
1101 1733 4.248058 CCTTTGGTTTTGGATGCTCATTC 58.752 43.478 0.00 0.00 0.00 2.67
1424 2072 6.289834 TCCTGTGTATTTTCCGAAGTTGTAA 58.710 36.000 0.00 0.00 0.00 2.41
1425 2073 5.856156 TCCTGTGTATTTTCCGAAGTTGTA 58.144 37.500 0.00 0.00 0.00 2.41
1426 2074 4.710324 TCCTGTGTATTTTCCGAAGTTGT 58.290 39.130 0.00 0.00 0.00 3.32
1427 2075 4.378459 GCTCCTGTGTATTTTCCGAAGTTG 60.378 45.833 0.00 0.00 0.00 3.16
1428 2076 3.751698 GCTCCTGTGTATTTTCCGAAGTT 59.248 43.478 0.00 0.00 0.00 2.66
1429 2077 3.008049 AGCTCCTGTGTATTTTCCGAAGT 59.992 43.478 0.00 0.00 0.00 3.01
1430 2078 3.600388 AGCTCCTGTGTATTTTCCGAAG 58.400 45.455 0.00 0.00 0.00 3.79
1431 2079 3.260884 AGAGCTCCTGTGTATTTTCCGAA 59.739 43.478 10.93 0.00 0.00 4.30
1432 2080 2.832129 AGAGCTCCTGTGTATTTTCCGA 59.168 45.455 10.93 0.00 0.00 4.55
1433 2081 3.190874 GAGAGCTCCTGTGTATTTTCCG 58.809 50.000 10.93 0.00 0.00 4.30
1434 2082 3.190874 CGAGAGCTCCTGTGTATTTTCC 58.809 50.000 10.93 0.00 0.00 3.13
1435 2083 3.190874 CCGAGAGCTCCTGTGTATTTTC 58.809 50.000 10.93 0.00 0.00 2.29
1436 2084 2.093447 CCCGAGAGCTCCTGTGTATTTT 60.093 50.000 10.93 0.00 0.00 1.82
1437 2085 1.482593 CCCGAGAGCTCCTGTGTATTT 59.517 52.381 10.93 0.00 0.00 1.40
1438 2086 1.115467 CCCGAGAGCTCCTGTGTATT 58.885 55.000 10.93 0.00 0.00 1.89
1439 2087 0.033011 ACCCGAGAGCTCCTGTGTAT 60.033 55.000 10.93 0.00 0.00 2.29
1440 2088 0.965866 CACCCGAGAGCTCCTGTGTA 60.966 60.000 10.93 0.00 0.00 2.90
1441 2089 2.118513 ACCCGAGAGCTCCTGTGT 59.881 61.111 10.93 0.00 0.00 3.72
1442 2090 2.575993 CACCCGAGAGCTCCTGTG 59.424 66.667 10.93 8.97 0.00 3.66
1443 2091 3.386237 GCACCCGAGAGCTCCTGT 61.386 66.667 10.93 0.00 0.00 4.00
1444 2092 3.073735 AGCACCCGAGAGCTCCTG 61.074 66.667 10.93 2.57 34.53 3.86
1460 2108 0.748450 TTTCGTATAGGGGTGCGGAG 59.252 55.000 0.00 0.00 0.00 4.63
1461 2109 1.193323 TTTTCGTATAGGGGTGCGGA 58.807 50.000 0.00 0.00 0.00 5.54
1462 2110 2.027003 TTTTTCGTATAGGGGTGCGG 57.973 50.000 0.00 0.00 0.00 5.69
1463 2111 5.389098 CGAATATTTTTCGTATAGGGGTGCG 60.389 44.000 1.66 0.00 37.18 5.34
1464 2112 5.923665 CGAATATTTTTCGTATAGGGGTGC 58.076 41.667 1.66 0.00 37.18 5.01
1513 2161 9.573133 GGTTTGACATCTCGAAAATTTGATATT 57.427 29.630 0.00 0.00 0.00 1.28
1514 2162 8.960591 AGGTTTGACATCTCGAAAATTTGATAT 58.039 29.630 0.00 0.00 0.00 1.63
1515 2163 8.236586 CAGGTTTGACATCTCGAAAATTTGATA 58.763 33.333 0.00 0.00 0.00 2.15
1516 2164 7.086376 CAGGTTTGACATCTCGAAAATTTGAT 58.914 34.615 0.00 0.00 0.00 2.57
1517 2165 6.437928 CAGGTTTGACATCTCGAAAATTTGA 58.562 36.000 0.00 0.00 0.00 2.69
1518 2166 5.630680 CCAGGTTTGACATCTCGAAAATTTG 59.369 40.000 0.00 0.00 0.00 2.32
1519 2167 5.301805 ACCAGGTTTGACATCTCGAAAATTT 59.698 36.000 0.00 0.00 0.00 1.82
1520 2168 4.827284 ACCAGGTTTGACATCTCGAAAATT 59.173 37.500 0.00 0.00 0.00 1.82
1521 2169 4.398319 ACCAGGTTTGACATCTCGAAAAT 58.602 39.130 0.00 0.00 0.00 1.82
1522 2170 3.815809 ACCAGGTTTGACATCTCGAAAA 58.184 40.909 0.00 0.00 0.00 2.29
1523 2171 3.485463 ACCAGGTTTGACATCTCGAAA 57.515 42.857 0.00 0.00 0.00 3.46
1524 2172 3.485463 AACCAGGTTTGACATCTCGAA 57.515 42.857 0.00 0.00 0.00 3.71
1525 2173 3.399330 GAAACCAGGTTTGACATCTCGA 58.601 45.455 22.98 0.00 35.77 4.04
1526 2174 2.484264 GGAAACCAGGTTTGACATCTCG 59.516 50.000 22.98 0.00 35.77 4.04
1555 2203 3.870723 TCACGAAATTTCACACGGAAG 57.129 42.857 17.99 1.90 36.72 3.46
1556 2204 4.617808 TTTCACGAAATTTCACACGGAA 57.382 36.364 17.99 10.00 0.00 4.30
1557 2205 4.617808 TTTTCACGAAATTTCACACGGA 57.382 36.364 17.99 4.88 0.00 4.69
1576 2224 7.100409 CCACGGATATGTTTTTGGGTATTTTT 58.900 34.615 0.00 0.00 0.00 1.94
1577 2225 6.635755 CCACGGATATGTTTTTGGGTATTTT 58.364 36.000 0.00 0.00 0.00 1.82
1578 2226 5.394773 GCCACGGATATGTTTTTGGGTATTT 60.395 40.000 0.00 0.00 0.00 1.40
1579 2227 4.098807 GCCACGGATATGTTTTTGGGTATT 59.901 41.667 0.00 0.00 0.00 1.89
1580 2228 3.634910 GCCACGGATATGTTTTTGGGTAT 59.365 43.478 0.00 0.00 0.00 2.73
1581 2229 3.018149 GCCACGGATATGTTTTTGGGTA 58.982 45.455 0.00 0.00 0.00 3.69
1582 2230 1.822371 GCCACGGATATGTTTTTGGGT 59.178 47.619 0.00 0.00 0.00 4.51
1583 2231 1.202245 CGCCACGGATATGTTTTTGGG 60.202 52.381 0.00 0.00 0.00 4.12
1584 2232 1.740585 TCGCCACGGATATGTTTTTGG 59.259 47.619 0.00 0.00 0.00 3.28
1585 2233 3.425404 CTTCGCCACGGATATGTTTTTG 58.575 45.455 0.00 0.00 0.00 2.44
1586 2234 2.422127 CCTTCGCCACGGATATGTTTTT 59.578 45.455 0.00 0.00 0.00 1.94
1587 2235 2.014128 CCTTCGCCACGGATATGTTTT 58.986 47.619 0.00 0.00 0.00 2.43
1588 2236 1.208535 TCCTTCGCCACGGATATGTTT 59.791 47.619 0.00 0.00 0.00 2.83
1589 2237 0.828022 TCCTTCGCCACGGATATGTT 59.172 50.000 0.00 0.00 0.00 2.71
1590 2238 0.828022 TTCCTTCGCCACGGATATGT 59.172 50.000 0.00 0.00 0.00 2.29
1591 2239 2.169832 ATTCCTTCGCCACGGATATG 57.830 50.000 0.00 0.00 0.00 1.78
1592 2240 2.930826 AATTCCTTCGCCACGGATAT 57.069 45.000 0.00 0.00 0.00 1.63
1593 2241 2.696707 AGTAATTCCTTCGCCACGGATA 59.303 45.455 0.00 0.00 0.00 2.59
1594 2242 1.485066 AGTAATTCCTTCGCCACGGAT 59.515 47.619 0.00 0.00 0.00 4.18
1595 2243 0.899720 AGTAATTCCTTCGCCACGGA 59.100 50.000 0.00 0.00 0.00 4.69
1596 2244 1.006832 CAGTAATTCCTTCGCCACGG 58.993 55.000 0.00 0.00 0.00 4.94
1597 2245 0.373716 GCAGTAATTCCTTCGCCACG 59.626 55.000 0.00 0.00 0.00 4.94
1598 2246 0.733150 GGCAGTAATTCCTTCGCCAC 59.267 55.000 0.00 0.00 39.38 5.01
1599 2247 0.393808 GGGCAGTAATTCCTTCGCCA 60.394 55.000 0.00 0.00 41.41 5.69
1600 2248 1.436983 CGGGCAGTAATTCCTTCGCC 61.437 60.000 0.00 0.00 38.85 5.54
1601 2249 1.436983 CCGGGCAGTAATTCCTTCGC 61.437 60.000 0.00 0.00 0.00 4.70
1602 2250 0.177141 TCCGGGCAGTAATTCCTTCG 59.823 55.000 0.00 0.00 0.00 3.79
1603 2251 2.413310 TTCCGGGCAGTAATTCCTTC 57.587 50.000 0.00 0.00 0.00 3.46
1604 2252 2.891191 TTTCCGGGCAGTAATTCCTT 57.109 45.000 0.00 0.00 0.00 3.36
1605 2253 2.891191 TTTTCCGGGCAGTAATTCCT 57.109 45.000 0.00 0.00 0.00 3.36
1624 2272 5.410132 GCAAAACACTGTTTGGGTACTTTTT 59.590 36.000 7.93 0.00 38.64 1.94
1625 2273 4.932799 GCAAAACACTGTTTGGGTACTTTT 59.067 37.500 7.93 0.00 38.64 2.27
1626 2274 4.221924 AGCAAAACACTGTTTGGGTACTTT 59.778 37.500 11.34 0.00 38.64 2.66
1627 2275 3.767131 AGCAAAACACTGTTTGGGTACTT 59.233 39.130 11.34 0.00 38.64 2.24
1628 2276 3.361786 AGCAAAACACTGTTTGGGTACT 58.638 40.909 11.34 0.00 38.64 2.73
1629 2277 3.793797 AGCAAAACACTGTTTGGGTAC 57.206 42.857 11.34 0.00 38.64 3.34
1630 2278 6.062749 TGTATAGCAAAACACTGTTTGGGTA 58.937 36.000 18.84 18.84 38.64 3.69
1631 2279 4.890581 TGTATAGCAAAACACTGTTTGGGT 59.109 37.500 16.18 16.18 38.64 4.51
1632 2280 5.446143 TGTATAGCAAAACACTGTTTGGG 57.554 39.130 7.93 5.29 38.64 4.12
1633 2281 7.120579 TCCTATGTATAGCAAAACACTGTTTGG 59.879 37.037 7.93 6.30 38.64 3.28
1634 2282 8.039603 TCCTATGTATAGCAAAACACTGTTTG 57.960 34.615 7.93 4.30 40.72 2.93
1635 2283 8.630054 TTCCTATGTATAGCAAAACACTGTTT 57.370 30.769 1.00 1.00 0.00 2.83
1636 2284 8.807948 ATTCCTATGTATAGCAAAACACTGTT 57.192 30.769 0.00 0.00 0.00 3.16
1637 2285 8.807948 AATTCCTATGTATAGCAAAACACTGT 57.192 30.769 0.00 0.00 0.00 3.55
1699 2347 4.402793 TCCCGTCTGAAATTTGGTGAAAAA 59.597 37.500 0.00 0.00 0.00 1.94
1700 2348 3.954904 TCCCGTCTGAAATTTGGTGAAAA 59.045 39.130 0.00 0.00 0.00 2.29
1701 2349 3.556999 TCCCGTCTGAAATTTGGTGAAA 58.443 40.909 0.00 0.00 0.00 2.69
1702 2350 3.146066 CTCCCGTCTGAAATTTGGTGAA 58.854 45.455 0.00 0.00 0.00 3.18
1703 2351 2.105821 ACTCCCGTCTGAAATTTGGTGA 59.894 45.455 0.00 0.00 0.00 4.02
1704 2352 2.226437 CACTCCCGTCTGAAATTTGGTG 59.774 50.000 0.00 0.00 0.00 4.17
1705 2353 2.504367 CACTCCCGTCTGAAATTTGGT 58.496 47.619 0.00 0.00 0.00 3.67
1706 2354 1.200020 GCACTCCCGTCTGAAATTTGG 59.800 52.381 0.00 0.00 0.00 3.28
1707 2355 1.879380 TGCACTCCCGTCTGAAATTTG 59.121 47.619 0.00 0.00 0.00 2.32
1708 2356 2.270352 TGCACTCCCGTCTGAAATTT 57.730 45.000 0.00 0.00 0.00 1.82
1709 2357 2.359900 GATGCACTCCCGTCTGAAATT 58.640 47.619 0.00 0.00 0.00 1.82
1710 2358 1.740380 CGATGCACTCCCGTCTGAAAT 60.740 52.381 0.00 0.00 0.00 2.17
1711 2359 0.389817 CGATGCACTCCCGTCTGAAA 60.390 55.000 0.00 0.00 0.00 2.69
1712 2360 1.215382 CGATGCACTCCCGTCTGAA 59.785 57.895 0.00 0.00 0.00 3.02
1713 2361 2.710902 CCGATGCACTCCCGTCTGA 61.711 63.158 0.00 0.00 0.00 3.27
1714 2362 2.202797 CCGATGCACTCCCGTCTG 60.203 66.667 0.00 0.00 0.00 3.51
1715 2363 3.461773 CCCGATGCACTCCCGTCT 61.462 66.667 0.00 0.00 0.00 4.18
1716 2364 3.014085 TTCCCGATGCACTCCCGTC 62.014 63.158 0.00 0.00 0.00 4.79
1717 2365 3.000819 TTCCCGATGCACTCCCGT 61.001 61.111 0.00 0.00 0.00 5.28
1718 2366 2.511600 GTTCCCGATGCACTCCCG 60.512 66.667 0.00 0.00 0.00 5.14
1719 2367 2.124695 GGTTCCCGATGCACTCCC 60.125 66.667 0.00 0.00 0.00 4.30
1720 2368 2.124695 GGGTTCCCGATGCACTCC 60.125 66.667 0.00 0.00 0.00 3.85
1721 2369 1.097547 CATGGGTTCCCGATGCACTC 61.098 60.000 3.27 0.00 0.00 3.51
1722 2370 1.077501 CATGGGTTCCCGATGCACT 60.078 57.895 3.27 0.00 0.00 4.40
1723 2371 0.965363 AACATGGGTTCCCGATGCAC 60.965 55.000 15.18 0.00 29.00 4.57
1724 2372 0.251564 AAACATGGGTTCCCGATGCA 60.252 50.000 15.18 0.00 35.82 3.96
1725 2373 0.173255 CAAACATGGGTTCCCGATGC 59.827 55.000 15.18 0.00 35.82 3.91
1726 2374 1.832883 TCAAACATGGGTTCCCGATG 58.167 50.000 14.27 14.27 35.82 3.84
1727 2375 2.826674 ATCAAACATGGGTTCCCGAT 57.173 45.000 0.00 0.00 35.82 4.18
1728 2376 3.434453 GGATATCAAACATGGGTTCCCGA 60.434 47.826 4.83 0.00 35.82 5.14
1729 2377 2.884639 GGATATCAAACATGGGTTCCCG 59.115 50.000 4.83 0.00 35.82 5.14
1730 2378 3.230976 GGGATATCAAACATGGGTTCCC 58.769 50.000 4.83 0.12 35.82 3.97
1731 2379 3.909732 TGGGATATCAAACATGGGTTCC 58.090 45.455 4.83 0.00 35.82 3.62
1732 2380 5.930837 TTTGGGATATCAAACATGGGTTC 57.069 39.130 4.83 0.00 35.82 3.62
1733 2381 6.472016 GTTTTTGGGATATCAAACATGGGTT 58.528 36.000 4.83 0.00 36.49 4.11
1734 2382 5.045942 GGTTTTTGGGATATCAAACATGGGT 60.046 40.000 14.73 0.00 36.49 4.51
1735 2383 5.427378 GGTTTTTGGGATATCAAACATGGG 58.573 41.667 14.73 0.00 36.49 4.00
1736 2384 5.046014 TGGGTTTTTGGGATATCAAACATGG 60.046 40.000 14.73 0.00 36.49 3.66
1737 2385 6.047511 TGGGTTTTTGGGATATCAAACATG 57.952 37.500 14.73 0.00 36.49 3.21
1738 2386 6.022315 TCTGGGTTTTTGGGATATCAAACAT 58.978 36.000 14.73 0.00 36.49 2.71
1739 2387 5.398236 TCTGGGTTTTTGGGATATCAAACA 58.602 37.500 14.73 4.82 36.49 2.83
1740 2388 5.993748 TCTGGGTTTTTGGGATATCAAAC 57.006 39.130 4.83 6.46 36.49 2.93
1741 2389 7.566658 AAATCTGGGTTTTTGGGATATCAAA 57.433 32.000 4.83 0.00 35.15 2.69
1742 2390 7.566658 AAAATCTGGGTTTTTGGGATATCAA 57.433 32.000 4.83 0.00 0.00 2.57
1743 2391 7.566658 AAAAATCTGGGTTTTTGGGATATCA 57.433 32.000 4.83 0.00 39.20 2.15
1788 2436 7.769970 CCCCTATACGTACAATACCAAGAAAAA 59.230 37.037 0.00 0.00 0.00 1.94
1789 2437 7.092935 ACCCCTATACGTACAATACCAAGAAAA 60.093 37.037 0.00 0.00 0.00 2.29
1790 2438 6.383726 ACCCCTATACGTACAATACCAAGAAA 59.616 38.462 0.00 0.00 0.00 2.52
1791 2439 5.898972 ACCCCTATACGTACAATACCAAGAA 59.101 40.000 0.00 0.00 0.00 2.52
1792 2440 5.302568 CACCCCTATACGTACAATACCAAGA 59.697 44.000 0.00 0.00 0.00 3.02
1793 2441 5.535333 CACCCCTATACGTACAATACCAAG 58.465 45.833 0.00 0.00 0.00 3.61
1794 2442 4.202243 GCACCCCTATACGTACAATACCAA 60.202 45.833 0.00 0.00 0.00 3.67
1795 2443 3.321682 GCACCCCTATACGTACAATACCA 59.678 47.826 0.00 0.00 0.00 3.25
1796 2444 3.612479 CGCACCCCTATACGTACAATACC 60.612 52.174 0.00 0.00 0.00 2.73
1797 2445 3.568538 CGCACCCCTATACGTACAATAC 58.431 50.000 0.00 0.00 0.00 1.89
1798 2446 2.557924 CCGCACCCCTATACGTACAATA 59.442 50.000 0.00 0.00 0.00 1.90
1799 2447 1.342174 CCGCACCCCTATACGTACAAT 59.658 52.381 0.00 0.00 0.00 2.71
1800 2448 0.746063 CCGCACCCCTATACGTACAA 59.254 55.000 0.00 0.00 0.00 2.41
1801 2449 0.106769 TCCGCACCCCTATACGTACA 60.107 55.000 0.00 0.00 0.00 2.90
1802 2450 0.595095 CTCCGCACCCCTATACGTAC 59.405 60.000 0.00 0.00 0.00 3.67
1803 2451 1.174712 GCTCCGCACCCCTATACGTA 61.175 60.000 0.00 0.00 0.00 3.57
1804 2452 2.496291 GCTCCGCACCCCTATACGT 61.496 63.158 0.00 0.00 0.00 3.57
1805 2453 2.338984 GCTCCGCACCCCTATACG 59.661 66.667 0.00 0.00 0.00 3.06
1806 2454 3.546009 TGCTCCGCACCCCTATAC 58.454 61.111 0.00 0.00 31.71 1.47
1820 2468 1.410882 GATTTAGAGCTCTCGGGTGCT 59.589 52.381 22.17 12.49 43.76 4.40
1821 2469 1.539280 GGATTTAGAGCTCTCGGGTGC 60.539 57.143 22.17 6.79 34.09 5.01
1822 2470 2.035321 GAGGATTTAGAGCTCTCGGGTG 59.965 54.545 22.17 0.00 34.09 4.61
1823 2471 2.312390 GAGGATTTAGAGCTCTCGGGT 58.688 52.381 22.17 4.94 34.09 5.28
1824 2472 2.311463 TGAGGATTTAGAGCTCTCGGG 58.689 52.381 22.17 0.00 34.09 5.14
1825 2473 3.056891 GGATGAGGATTTAGAGCTCTCGG 60.057 52.174 22.17 0.00 34.09 4.63
1826 2474 3.826157 AGGATGAGGATTTAGAGCTCTCG 59.174 47.826 22.17 0.00 34.09 4.04
1827 2475 5.806654 AAGGATGAGGATTTAGAGCTCTC 57.193 43.478 22.17 5.75 0.00 3.20
1828 2476 6.139671 TGTAAGGATGAGGATTTAGAGCTCT 58.860 40.000 22.17 22.17 0.00 4.09
1829 2477 6.412362 TGTAAGGATGAGGATTTAGAGCTC 57.588 41.667 5.27 5.27 0.00 4.09
1830 2478 6.385467 AGTTGTAAGGATGAGGATTTAGAGCT 59.615 38.462 0.00 0.00 0.00 4.09
1831 2479 6.587273 AGTTGTAAGGATGAGGATTTAGAGC 58.413 40.000 0.00 0.00 0.00 4.09
1832 2480 7.713073 GGAAGTTGTAAGGATGAGGATTTAGAG 59.287 40.741 0.00 0.00 0.00 2.43
1833 2481 7.182026 TGGAAGTTGTAAGGATGAGGATTTAGA 59.818 37.037 0.00 0.00 0.00 2.10
1834 2482 7.281100 GTGGAAGTTGTAAGGATGAGGATTTAG 59.719 40.741 0.00 0.00 0.00 1.85
1835 2483 7.110155 GTGGAAGTTGTAAGGATGAGGATTTA 58.890 38.462 0.00 0.00 0.00 1.40
1836 2484 5.946377 GTGGAAGTTGTAAGGATGAGGATTT 59.054 40.000 0.00 0.00 0.00 2.17
1837 2485 5.501156 GTGGAAGTTGTAAGGATGAGGATT 58.499 41.667 0.00 0.00 0.00 3.01
1838 2486 4.080299 GGTGGAAGTTGTAAGGATGAGGAT 60.080 45.833 0.00 0.00 0.00 3.24
1839 2487 3.263425 GGTGGAAGTTGTAAGGATGAGGA 59.737 47.826 0.00 0.00 0.00 3.71
1840 2488 3.264450 AGGTGGAAGTTGTAAGGATGAGG 59.736 47.826 0.00 0.00 0.00 3.86
1841 2489 4.559862 AGGTGGAAGTTGTAAGGATGAG 57.440 45.455 0.00 0.00 0.00 2.90
1842 2490 5.964477 AGATAGGTGGAAGTTGTAAGGATGA 59.036 40.000 0.00 0.00 0.00 2.92
1843 2491 6.240549 AGATAGGTGGAAGTTGTAAGGATG 57.759 41.667 0.00 0.00 0.00 3.51
1844 2492 6.674419 AGAAGATAGGTGGAAGTTGTAAGGAT 59.326 38.462 0.00 0.00 0.00 3.24
1845 2493 6.023603 AGAAGATAGGTGGAAGTTGTAAGGA 58.976 40.000 0.00 0.00 0.00 3.36
1846 2494 6.301169 AGAAGATAGGTGGAAGTTGTAAGG 57.699 41.667 0.00 0.00 0.00 2.69
2122 2775 3.684788 CACCGACACTTTTCCCAATAGAG 59.315 47.826 0.00 0.00 0.00 2.43
2132 2785 3.497297 GGTTTTGACACCGACACTTTT 57.503 42.857 0.00 0.00 0.00 2.27
2141 2794 0.521735 GATCTGCCGGTTTTGACACC 59.478 55.000 1.90 0.00 0.00 4.16
2142 2795 1.464997 GAGATCTGCCGGTTTTGACAC 59.535 52.381 0.00 0.00 0.00 3.67
2143 2796 1.808411 GAGATCTGCCGGTTTTGACA 58.192 50.000 0.00 0.00 0.00 3.58
2144 2797 0.721718 CGAGATCTGCCGGTTTTGAC 59.278 55.000 0.00 0.00 0.00 3.18
2145 2798 0.391130 CCGAGATCTGCCGGTTTTGA 60.391 55.000 13.39 0.00 40.78 2.69
2146 2799 2.089854 CCGAGATCTGCCGGTTTTG 58.910 57.895 13.39 0.00 40.78 2.44
2147 2800 4.617875 CCGAGATCTGCCGGTTTT 57.382 55.556 13.39 0.00 40.78 2.43


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

AutoCloner maintained by Alex Coulton.