Multiple sequence alignment - TraesCS3D01G222300

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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 TraesCS3D01G222300 chr3D 100.000 2304 0 0 1 2304 303396665 303398968 0.000000e+00 4255.0
1 TraesCS3D01G222300 chr3A 93.546 1379 62 14 329 1692 431129000 431127634 0.000000e+00 2028.0
2 TraesCS3D01G222300 chr3A 87.559 426 40 8 1691 2115 431127602 431127189 4.450000e-132 481.0
3 TraesCS3D01G222300 chr3A 85.960 349 23 15 10 333 431129448 431129101 1.310000e-92 350.0
4 TraesCS3D01G222300 chr3A 78.212 179 34 5 111 287 400769656 400769831 2.420000e-20 110.0
5 TraesCS3D01G222300 chr3B 91.552 1231 56 18 484 1692 418065505 418064301 0.000000e+00 1653.0
6 TraesCS3D01G222300 chr3B 88.889 378 23 11 10 387 418066296 418065938 4.520000e-122 448.0
7 TraesCS3D01G222300 chr7A 80.282 284 41 9 17 299 683092742 683092473 1.400000e-47 200.0
8 TraesCS3D01G222300 chr7A 95.349 43 2 0 412 454 43512047 43512089 4.110000e-08 69.4
9 TraesCS3D01G222300 chr2A 82.564 195 28 5 2113 2304 626927814 626927623 1.420000e-37 167.0
10 TraesCS3D01G222300 chr2A 97.500 40 1 0 414 453 729564129 729564090 4.110000e-08 69.4
11 TraesCS3D01G222300 chr4A 81.633 196 30 5 2112 2304 179855473 179855665 8.520000e-35 158.0
12 TraesCS3D01G222300 chr4A 97.500 40 1 0 414 453 705614062 705614101 4.110000e-08 69.4
13 TraesCS3D01G222300 chr6A 82.123 179 28 3 2125 2301 407375279 407375103 1.430000e-32 150.0
14 TraesCS3D01G222300 chr6A 78.889 180 28 8 2125 2301 162354123 162354295 1.870000e-21 113.0
15 TraesCS3D01G222300 chr6D 92.857 56 3 1 392 446 298214018 298214073 1.900000e-11 80.5
16 TraesCS3D01G222300 chr1D 86.486 74 8 2 381 454 74410541 74410470 1.900000e-11 80.5
17 TraesCS3D01G222300 chr1D 82.192 73 8 4 383 454 207266142 207266210 8.890000e-05 58.4
18 TraesCS3D01G222300 chr1B 86.567 67 8 1 381 446 324340646 324340712 3.180000e-09 73.1
19 TraesCS3D01G222300 chr5B 88.136 59 5 1 395 453 300381264 300381208 4.110000e-08 69.4


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 TraesCS3D01G222300 chr3D 303396665 303398968 2303 False 4255.0 4255 100.000000 1 2304 1 chr3D.!!$F1 2303
1 TraesCS3D01G222300 chr3A 431127189 431129448 2259 True 953.0 2028 89.021667 10 2115 3 chr3A.!!$R1 2105
2 TraesCS3D01G222300 chr3B 418064301 418066296 1995 True 1050.5 1653 90.220500 10 1692 2 chr3B.!!$R1 1682

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
237 266 0.252761 TGGCTCATTTCTCCGCATGA 59.747 50.0 0.0 0.0 0.0 3.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1590 2053 0.108992 TGACACGGCGGAGATGTTAC 60.109 55.0 13.24 0.0 0.0 2.5 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
97 98 7.930865 GGAGCTTATTTGACAGTGATTAGAGAT 59.069 37.037 0.00 0.00 0.00 2.75
98 99 9.323985 GAGCTTATTTGACAGTGATTAGAGATT 57.676 33.333 0.00 0.00 0.00 2.40
207 236 2.108952 ACTCCCTTTTGCTTGATCAGGT 59.891 45.455 6.70 0.00 0.00 4.00
237 266 0.252761 TGGCTCATTTCTCCGCATGA 59.747 50.000 0.00 0.00 0.00 3.07
240 269 1.303309 CTCATTTCTCCGCATGACCC 58.697 55.000 0.00 0.00 0.00 4.46
242 271 1.019673 CATTTCTCCGCATGACCCAG 58.980 55.000 0.00 0.00 0.00 4.45
261 290 2.802816 CAGTACGCATCCCTCTTAATGC 59.197 50.000 0.00 0.00 43.81 3.56
287 316 3.557577 TGAATCAATCAAGTGTTGGCG 57.442 42.857 0.00 0.00 34.30 5.69
409 609 5.977725 CCACGATCTCATAACATAAGACGTT 59.022 40.000 0.00 0.00 30.24 3.99
446 646 5.687166 AAGTCTTACATTATGGGACGGAA 57.313 39.130 0.00 0.00 32.86 4.30
447 647 5.687166 AGTCTTACATTATGGGACGGAAA 57.313 39.130 0.00 0.00 32.86 3.13
463 663 2.662156 CGGAAAGAGTACGAAACAGAGC 59.338 50.000 0.00 0.00 0.00 4.09
468 668 4.054780 AGAGTACGAAACAGAGCACAAA 57.945 40.909 0.00 0.00 0.00 2.83
653 1104 7.648142 CAGCAAACCTTCTTGTACAAGATTTA 58.352 34.615 33.02 20.35 45.78 1.40
654 1105 8.299570 CAGCAAACCTTCTTGTACAAGATTTAT 58.700 33.333 33.02 20.13 45.78 1.40
681 1132 1.340991 GGAAGCTTCCTGGTGCCATTA 60.341 52.381 33.98 0.00 44.11 1.90
959 1410 3.989104 AGCACACGACAGCTTAAGT 57.011 47.368 4.02 0.00 38.01 2.24
1038 1489 0.534203 TGAAGCCAACCGGACTTGAC 60.534 55.000 9.46 0.00 31.38 3.18
1080 1531 0.770557 AGGTTAGTGCCACCAAGGGA 60.771 55.000 0.00 0.00 36.67 4.20
1194 1645 2.154462 GTACAACCTGCAGCTGATGTT 58.846 47.619 20.43 13.67 0.00 2.71
1243 1697 2.553172 GCATGCTCTTTCCCTGATGATC 59.447 50.000 11.37 0.00 0.00 2.92
1244 1698 3.748027 GCATGCTCTTTCCCTGATGATCT 60.748 47.826 11.37 0.00 0.00 2.75
1245 1699 3.555527 TGCTCTTTCCCTGATGATCTG 57.444 47.619 0.00 0.00 0.00 2.90
1247 1701 2.172293 GCTCTTTCCCTGATGATCTGGT 59.828 50.000 15.87 0.00 34.10 4.00
1248 1702 3.806380 CTCTTTCCCTGATGATCTGGTG 58.194 50.000 15.87 8.54 34.10 4.17
1249 1703 3.184628 TCTTTCCCTGATGATCTGGTGT 58.815 45.455 15.87 0.00 34.10 4.16
1277 1731 0.689055 ATGACAGCAGGTGAAGAGCA 59.311 50.000 6.61 0.00 0.00 4.26
1316 1770 1.447317 AAACTGACAACGGCAGCAGG 61.447 55.000 0.00 0.00 36.86 4.85
1332 1786 0.731417 CAGGAGAAATGGAGCTTGCG 59.269 55.000 0.00 0.00 0.00 4.85
1334 1788 1.555075 AGGAGAAATGGAGCTTGCGTA 59.445 47.619 0.00 0.00 0.00 4.42
1356 1810 3.260380 AGCTATCTCCATGGTGCTATGAC 59.740 47.826 12.58 0.00 0.00 3.06
1372 1826 8.486210 GGTGCTATGACTTATATATGAATCCCA 58.514 37.037 2.80 0.00 0.00 4.37
1408 1862 2.101415 TGTCTCCCATGATGTCGATCAC 59.899 50.000 0.00 0.00 41.52 3.06
1413 1867 1.000274 CCATGATGTCGATCACGCCTA 60.000 52.381 0.00 0.00 41.52 3.93
1420 1874 1.101635 TCGATCACGCCTAGACAGGG 61.102 60.000 0.00 0.00 42.88 4.45
1421 1875 1.384989 CGATCACGCCTAGACAGGGT 61.385 60.000 0.00 0.00 42.88 4.34
1422 1876 0.103208 GATCACGCCTAGACAGGGTG 59.897 60.000 7.94 7.94 42.88 4.61
1424 1878 0.038599 TCACGCCTAGACAGGGTGTA 59.961 55.000 12.25 1.04 44.55 2.90
1425 1879 0.172803 CACGCCTAGACAGGGTGTAC 59.827 60.000 6.53 0.00 44.55 2.90
1426 1880 0.039326 ACGCCTAGACAGGGTGTACT 59.961 55.000 0.00 0.00 44.52 2.73
1427 1881 0.739561 CGCCTAGACAGGGTGTACTC 59.260 60.000 0.00 0.00 42.88 2.59
1428 1882 1.848652 GCCTAGACAGGGTGTACTCA 58.151 55.000 0.00 0.00 42.88 3.41
1508 1971 1.610038 CCTGCTTGATGTTTCACTGCA 59.390 47.619 0.00 0.00 38.47 4.41
1509 1972 2.606308 CCTGCTTGATGTTTCACTGCAC 60.606 50.000 0.00 0.00 36.95 4.57
1526 1989 1.130561 GCACTCTCCCATTTTACGTGC 59.869 52.381 0.00 0.00 39.31 5.34
1534 1997 2.722116 CCCATTTTACGTGCGTTTGTTC 59.278 45.455 1.66 0.00 0.00 3.18
1542 2005 2.250190 GCGTTTGTTCGGGTTCGG 59.750 61.111 0.00 0.00 36.95 4.30
1561 2024 5.906113 TCGGTTGGCAAATACAATAACAT 57.094 34.783 0.00 0.00 0.00 2.71
1562 2025 5.645624 TCGGTTGGCAAATACAATAACATG 58.354 37.500 0.00 0.00 0.00 3.21
1570 2033 6.531240 GGCAAATACAATAACATGAACACCAG 59.469 38.462 0.00 0.00 0.00 4.00
1575 2038 2.535012 TAACATGAACACCAGTCGCA 57.465 45.000 0.00 0.00 0.00 5.10
1581 2044 0.388649 GAACACCAGTCGCACGAGAT 60.389 55.000 0.00 0.00 0.00 2.75
1590 2053 2.356382 AGTCGCACGAGATCCTAAGAAG 59.644 50.000 0.00 0.00 0.00 2.85
1591 2054 2.097791 GTCGCACGAGATCCTAAGAAGT 59.902 50.000 0.00 0.00 0.00 3.01
1593 2056 3.943381 TCGCACGAGATCCTAAGAAGTAA 59.057 43.478 0.00 0.00 0.00 2.24
1603 2066 3.383825 TCCTAAGAAGTAACATCTCCGCC 59.616 47.826 0.00 0.00 0.00 6.13
1609 2072 0.108992 GTAACATCTCCGCCGTGTCA 60.109 55.000 0.00 0.00 0.00 3.58
1689 2156 5.607939 TTATCATGATCCTACACAACCGT 57.392 39.130 12.53 0.00 0.00 4.83
1702 2202 5.473796 ACACAACCGTAACTGTTACAAAG 57.526 39.130 25.39 17.10 35.89 2.77
1708 2208 5.177326 ACCGTAACTGTTACAAAGTCACAA 58.823 37.500 25.39 0.00 35.89 3.33
1720 2220 3.708563 AAGTCACAAAACCAATCACCG 57.291 42.857 0.00 0.00 0.00 4.94
1727 2227 3.626670 ACAAAACCAATCACCGTAAACGA 59.373 39.130 3.65 0.00 43.02 3.85
1746 2246 9.869844 GTAAACGATGATGATATCTCAAAAAGG 57.130 33.333 3.98 0.00 34.37 3.11
1755 2255 9.383519 GATGATATCTCAAAAAGGAACACTACA 57.616 33.333 3.98 0.00 34.37 2.74
1774 2274 1.741706 CATGAATGACCAGCCACACTC 59.258 52.381 0.00 0.00 0.00 3.51
1807 2307 7.730364 ATTAGAAGAACACACACTTGGTAAG 57.270 36.000 0.00 0.00 0.00 2.34
1812 2312 8.426489 AGAAGAACACACACTTGGTAAGTTATA 58.574 33.333 0.00 0.00 40.46 0.98
1815 2315 9.398538 AGAACACACACTTGGTAAGTTATAAAA 57.601 29.630 0.00 0.00 40.46 1.52
1840 2340 1.692411 AGTCAAAGGTTGGCACTTCC 58.308 50.000 0.00 0.00 37.85 3.46
1842 2342 1.007387 CAAAGGTTGGCACTTCCGC 60.007 57.895 0.00 0.00 37.80 5.54
1848 2348 1.402325 GGTTGGCACTTCCGCAATTAC 60.402 52.381 0.00 0.00 37.80 1.89
1853 2353 1.948611 GCACTTCCGCAATTACCCTGA 60.949 52.381 0.00 0.00 0.00 3.86
1854 2354 2.643551 CACTTCCGCAATTACCCTGAT 58.356 47.619 0.00 0.00 0.00 2.90
1872 2372 5.865552 CCCTGATGCATTTAGAAACAACAAG 59.134 40.000 0.00 0.00 0.00 3.16
1886 2386 7.986562 AGAAACAACAAGAAAACTTCCTAGAC 58.013 34.615 0.00 0.00 0.00 2.59
1893 2393 6.542735 ACAAGAAAACTTCCTAGACCAACTTC 59.457 38.462 0.00 0.00 0.00 3.01
1925 2425 7.612677 ACCTATACAGTGACTTCCTAGTTTTG 58.387 38.462 0.00 0.00 33.84 2.44
1933 2433 4.807304 TGACTTCCTAGTTTTGTGTTCGAC 59.193 41.667 0.00 0.00 33.84 4.20
1953 2453 5.238432 TCGACACAAATTAGAACATTGCAGT 59.762 36.000 0.00 0.00 0.00 4.40
1954 2454 5.565259 CGACACAAATTAGAACATTGCAGTC 59.435 40.000 0.00 0.00 33.08 3.51
1955 2455 6.566564 CGACACAAATTAGAACATTGCAGTCT 60.567 38.462 0.00 0.00 33.69 3.24
1956 2456 6.441274 ACACAAATTAGAACATTGCAGTCTG 58.559 36.000 0.00 0.00 0.00 3.51
1957 2457 5.344128 CACAAATTAGAACATTGCAGTCTGC 59.656 40.000 18.32 18.32 45.29 4.26
1978 2478 5.009631 TGCAGAACACATTATTACAAGCCT 58.990 37.500 0.00 0.00 0.00 4.58
1994 2494 6.992063 ACAAGCCTTTGTGAGTGATATAAG 57.008 37.500 0.00 0.00 45.54 1.73
2016 2516 4.158025 AGGTACACCTCATCTACAACTTCG 59.842 45.833 0.00 0.00 44.77 3.79
2029 2530 2.429250 ACAACTTCGAAAACAAAGGGGG 59.571 45.455 0.00 0.00 0.00 5.40
2033 2534 3.964688 ACTTCGAAAACAAAGGGGGAAAT 59.035 39.130 0.00 0.00 0.00 2.17
2037 2538 4.055360 CGAAAACAAAGGGGGAAATGAAC 58.945 43.478 0.00 0.00 0.00 3.18
2040 2541 0.965439 CAAAGGGGGAAATGAACGCA 59.035 50.000 0.00 0.00 0.00 5.24
2042 2543 2.757868 CAAAGGGGGAAATGAACGCATA 59.242 45.455 0.00 0.00 33.44 3.14
2063 2564 6.565234 CATAGTTTCGACTCATGTAGGTTCT 58.435 40.000 0.00 0.00 0.00 3.01
2067 2568 3.427573 TCGACTCATGTAGGTTCTTCCA 58.572 45.455 0.00 0.00 39.02 3.53
2068 2569 3.192844 TCGACTCATGTAGGTTCTTCCAC 59.807 47.826 0.00 0.00 39.02 4.02
2069 2570 3.676324 CGACTCATGTAGGTTCTTCCACC 60.676 52.174 0.00 0.00 39.02 4.61
2093 2594 6.603201 CCTGAAATGGATAGCAGGTAAAGAAA 59.397 38.462 0.00 0.00 42.26 2.52
2102 2603 5.242795 AGCAGGTAAAGAAATGTACAGGT 57.757 39.130 0.33 0.00 0.00 4.00
2104 2605 4.092968 GCAGGTAAAGAAATGTACAGGTCG 59.907 45.833 0.33 0.00 0.00 4.79
2108 2609 5.119743 GGTAAAGAAATGTACAGGTCGACAC 59.880 44.000 18.91 7.37 0.00 3.67
2115 2616 3.991051 CAGGTCGACACGCCAGGT 61.991 66.667 18.91 0.00 0.00 4.00
2116 2617 2.282674 AGGTCGACACGCCAGGTA 60.283 61.111 18.91 0.00 0.00 3.08
2117 2618 2.181021 GGTCGACACGCCAGGTAG 59.819 66.667 18.91 0.00 0.00 3.18
2118 2619 2.506438 GTCGACACGCCAGGTAGC 60.506 66.667 11.55 0.00 0.00 3.58
2126 2627 2.436115 GCCAGGTAGCGGTGAACC 60.436 66.667 0.00 0.00 35.91 3.62
2127 2628 3.065306 CCAGGTAGCGGTGAACCA 58.935 61.111 9.13 0.00 38.30 3.67
2128 2629 1.373435 CCAGGTAGCGGTGAACCAA 59.627 57.895 9.13 0.00 38.30 3.67
2129 2630 0.250553 CCAGGTAGCGGTGAACCAAA 60.251 55.000 9.13 0.00 38.30 3.28
2130 2631 1.600023 CAGGTAGCGGTGAACCAAAA 58.400 50.000 9.13 0.00 38.30 2.44
2131 2632 1.535462 CAGGTAGCGGTGAACCAAAAG 59.465 52.381 9.13 0.00 38.30 2.27
2132 2633 0.240145 GGTAGCGGTGAACCAAAAGC 59.760 55.000 0.00 0.00 35.73 3.51
2133 2634 1.235724 GTAGCGGTGAACCAAAAGCT 58.764 50.000 0.00 2.82 38.57 3.74
2134 2635 1.197036 GTAGCGGTGAACCAAAAGCTC 59.803 52.381 0.00 0.00 36.30 4.09
2135 2636 0.465460 AGCGGTGAACCAAAAGCTCA 60.465 50.000 0.00 0.00 35.14 4.26
2136 2637 0.317854 GCGGTGAACCAAAAGCTCAC 60.318 55.000 0.00 0.00 40.27 3.51
2137 2638 1.021202 CGGTGAACCAAAAGCTCACA 58.979 50.000 0.00 0.00 42.35 3.58
2138 2639 1.608590 CGGTGAACCAAAAGCTCACAT 59.391 47.619 0.00 0.00 42.35 3.21
2139 2640 2.811431 CGGTGAACCAAAAGCTCACATA 59.189 45.455 0.00 0.00 42.35 2.29
2140 2641 3.120199 CGGTGAACCAAAAGCTCACATAG 60.120 47.826 0.00 0.00 42.35 2.23
2141 2642 3.366374 GGTGAACCAAAAGCTCACATAGC 60.366 47.826 4.05 0.00 42.35 2.97
2160 2661 2.703190 CTCACGAGCTTAATGAACGC 57.297 50.000 0.00 0.00 0.00 4.84
2161 2662 2.263077 CTCACGAGCTTAATGAACGCT 58.737 47.619 0.00 0.00 36.57 5.07
2162 2663 2.259618 TCACGAGCTTAATGAACGCTC 58.740 47.619 4.07 4.07 44.98 5.03
2165 2666 1.641577 GAGCTTAATGAACGCTCGGT 58.358 50.000 0.00 0.00 40.48 4.69
2166 2667 2.000447 GAGCTTAATGAACGCTCGGTT 59.000 47.619 0.00 0.00 40.48 4.44
2167 2668 3.184541 GAGCTTAATGAACGCTCGGTTA 58.815 45.455 0.00 0.00 40.48 2.85
2168 2669 2.928116 AGCTTAATGAACGCTCGGTTAC 59.072 45.455 0.00 0.00 39.50 2.50
2169 2670 2.928116 GCTTAATGAACGCTCGGTTACT 59.072 45.455 0.00 0.00 39.50 2.24
2170 2671 3.370061 GCTTAATGAACGCTCGGTTACTT 59.630 43.478 0.00 0.00 39.50 2.24
2171 2672 4.724036 GCTTAATGAACGCTCGGTTACTTG 60.724 45.833 0.00 0.00 39.50 3.16
2172 2673 1.722011 ATGAACGCTCGGTTACTTGG 58.278 50.000 0.00 0.00 39.50 3.61
2173 2674 0.947180 TGAACGCTCGGTTACTTGGC 60.947 55.000 0.00 0.00 39.50 4.52
2174 2675 0.669625 GAACGCTCGGTTACTTGGCT 60.670 55.000 0.00 0.00 39.50 4.75
2175 2676 0.669625 AACGCTCGGTTACTTGGCTC 60.670 55.000 0.00 0.00 37.00 4.70
2176 2677 1.215647 CGCTCGGTTACTTGGCTCT 59.784 57.895 0.00 0.00 0.00 4.09
2177 2678 0.389948 CGCTCGGTTACTTGGCTCTT 60.390 55.000 0.00 0.00 0.00 2.85
2178 2679 1.135199 CGCTCGGTTACTTGGCTCTTA 60.135 52.381 0.00 0.00 0.00 2.10
2179 2680 2.673043 CGCTCGGTTACTTGGCTCTTAA 60.673 50.000 0.00 0.00 0.00 1.85
2180 2681 2.930682 GCTCGGTTACTTGGCTCTTAAG 59.069 50.000 0.00 0.00 0.00 1.85
2197 2698 3.261933 GCTTGCAGCTCGCTTCTT 58.738 55.556 9.12 0.00 43.06 2.52
2198 2699 2.460330 GCTTGCAGCTCGCTTCTTA 58.540 52.632 9.12 0.00 43.06 2.10
2199 2700 0.798776 GCTTGCAGCTCGCTTCTTAA 59.201 50.000 9.12 0.00 43.06 1.85
2200 2701 1.399791 GCTTGCAGCTCGCTTCTTAAT 59.600 47.619 9.12 0.00 43.06 1.40
2201 2702 2.790468 GCTTGCAGCTCGCTTCTTAATG 60.790 50.000 9.12 0.00 43.06 1.90
2202 2703 2.385013 TGCAGCTCGCTTCTTAATGA 57.615 45.000 9.12 0.00 43.06 2.57
2203 2704 2.698803 TGCAGCTCGCTTCTTAATGAA 58.301 42.857 9.12 0.00 43.06 2.57
2216 2717 6.992063 TTCTTAATGAAGAGAGCCAATCAC 57.008 37.500 0.00 0.00 42.66 3.06
2217 2718 6.305272 TCTTAATGAAGAGAGCCAATCACT 57.695 37.500 0.00 0.00 36.75 3.41
2218 2719 6.715280 TCTTAATGAAGAGAGCCAATCACTT 58.285 36.000 0.00 0.00 40.98 3.16
2219 2720 7.851228 TCTTAATGAAGAGAGCCAATCACTTA 58.149 34.615 0.00 0.00 38.74 2.24
2220 2721 8.489489 TCTTAATGAAGAGAGCCAATCACTTAT 58.511 33.333 0.00 0.00 38.74 1.73
2221 2722 9.118300 CTTAATGAAGAGAGCCAATCACTTATT 57.882 33.333 0.00 0.00 38.74 1.40
2222 2723 7.951347 AATGAAGAGAGCCAATCACTTATTT 57.049 32.000 0.00 0.00 38.74 1.40
2223 2724 6.992063 TGAAGAGAGCCAATCACTTATTTC 57.008 37.500 0.00 0.00 38.74 2.17
2224 2725 6.475504 TGAAGAGAGCCAATCACTTATTTCA 58.524 36.000 0.00 0.00 38.74 2.69
2225 2726 6.596888 TGAAGAGAGCCAATCACTTATTTCAG 59.403 38.462 0.00 0.00 38.74 3.02
2226 2727 4.880696 AGAGAGCCAATCACTTATTTCAGC 59.119 41.667 0.00 0.00 0.00 4.26
2227 2728 4.853007 AGAGCCAATCACTTATTTCAGCT 58.147 39.130 0.00 0.00 31.64 4.24
2228 2729 5.259632 AGAGCCAATCACTTATTTCAGCTT 58.740 37.500 0.00 0.00 30.00 3.74
2229 2730 5.125097 AGAGCCAATCACTTATTTCAGCTTG 59.875 40.000 0.00 0.00 30.00 4.01
2230 2731 4.768968 AGCCAATCACTTATTTCAGCTTGT 59.231 37.500 0.00 0.00 0.00 3.16
2231 2732 5.244626 AGCCAATCACTTATTTCAGCTTGTT 59.755 36.000 0.00 0.00 0.00 2.83
2232 2733 6.434028 AGCCAATCACTTATTTCAGCTTGTTA 59.566 34.615 0.00 0.00 0.00 2.41
2233 2734 7.039784 AGCCAATCACTTATTTCAGCTTGTTAA 60.040 33.333 0.00 0.00 0.00 2.01
2234 2735 7.598493 GCCAATCACTTATTTCAGCTTGTTAAA 59.402 33.333 0.00 0.00 0.00 1.52
2235 2736 8.915654 CCAATCACTTATTTCAGCTTGTTAAAC 58.084 33.333 0.00 0.00 0.00 2.01
2236 2737 9.683069 CAATCACTTATTTCAGCTTGTTAAACT 57.317 29.630 0.00 0.00 0.00 2.66
2241 2742 9.659830 ACTTATTTCAGCTTGTTAAACTTAACG 57.340 29.630 7.62 0.00 44.52 3.18
2242 2743 9.872757 CTTATTTCAGCTTGTTAAACTTAACGA 57.127 29.630 7.62 5.30 44.52 3.85
2244 2745 8.728088 ATTTCAGCTTGTTAAACTTAACGATG 57.272 30.769 7.62 4.29 44.52 3.84
2245 2746 6.854496 TCAGCTTGTTAAACTTAACGATGT 57.146 33.333 7.62 0.00 44.52 3.06
2246 2747 7.254227 TCAGCTTGTTAAACTTAACGATGTT 57.746 32.000 7.62 0.00 44.52 2.71
2247 2748 8.367943 TCAGCTTGTTAAACTTAACGATGTTA 57.632 30.769 7.62 0.00 44.52 2.41
2248 2749 8.828644 TCAGCTTGTTAAACTTAACGATGTTAA 58.171 29.630 7.62 2.52 44.52 2.01
2249 2750 9.607285 CAGCTTGTTAAACTTAACGATGTTAAT 57.393 29.630 7.62 0.00 44.52 1.40
2250 2751 9.607285 AGCTTGTTAAACTTAACGATGTTAATG 57.393 29.630 7.62 1.51 44.52 1.90
2251 2752 9.601971 GCTTGTTAAACTTAACGATGTTAATGA 57.398 29.630 7.62 0.00 44.52 2.57
2253 2754 9.601971 TTGTTAAACTTAACGATGTTAATGAGC 57.398 29.630 7.62 0.00 44.52 4.26
2254 2755 7.953173 TGTTAAACTTAACGATGTTAATGAGCG 59.047 33.333 7.62 0.00 44.52 5.03
2255 2756 6.715344 AAACTTAACGATGTTAATGAGCGA 57.285 33.333 2.89 0.00 0.00 4.93
2256 2757 5.950965 ACTTAACGATGTTAATGAGCGAG 57.049 39.130 2.89 0.00 0.00 5.03
2257 2758 4.267928 ACTTAACGATGTTAATGAGCGAGC 59.732 41.667 2.89 0.00 0.00 5.03
2258 2759 2.586258 ACGATGTTAATGAGCGAGCT 57.414 45.000 0.00 0.00 0.00 4.09
2259 2760 3.710326 ACGATGTTAATGAGCGAGCTA 57.290 42.857 0.00 0.00 0.00 3.32
2260 2761 4.041740 ACGATGTTAATGAGCGAGCTAA 57.958 40.909 0.00 0.00 0.00 3.09
2261 2762 3.797256 ACGATGTTAATGAGCGAGCTAAC 59.203 43.478 0.00 0.00 0.00 2.34
2262 2763 3.121663 CGATGTTAATGAGCGAGCTAACG 60.122 47.826 0.00 0.00 0.00 3.18
2263 2764 3.497297 TGTTAATGAGCGAGCTAACGA 57.503 42.857 0.00 0.00 35.09 3.85
2264 2765 3.435566 TGTTAATGAGCGAGCTAACGAG 58.564 45.455 0.00 0.00 35.09 4.18
2265 2766 3.119602 TGTTAATGAGCGAGCTAACGAGT 60.120 43.478 0.00 0.00 35.09 4.18
2266 2767 2.656560 AATGAGCGAGCTAACGAGTT 57.343 45.000 0.00 0.00 35.09 3.01
2267 2768 2.656560 ATGAGCGAGCTAACGAGTTT 57.343 45.000 0.00 0.00 35.09 2.66
2268 2769 1.978542 TGAGCGAGCTAACGAGTTTC 58.021 50.000 0.00 0.00 35.09 2.78
2269 2770 1.268625 TGAGCGAGCTAACGAGTTTCA 59.731 47.619 0.00 0.00 35.09 2.69
2270 2771 1.649662 GAGCGAGCTAACGAGTTTCAC 59.350 52.381 0.00 0.00 35.09 3.18
2271 2772 1.000607 AGCGAGCTAACGAGTTTCACA 60.001 47.619 0.00 0.00 35.09 3.58
2272 2773 1.790623 GCGAGCTAACGAGTTTCACAA 59.209 47.619 0.00 0.00 35.09 3.33
2273 2774 2.159960 GCGAGCTAACGAGTTTCACAAG 60.160 50.000 0.00 0.00 35.09 3.16
2274 2775 2.159960 CGAGCTAACGAGTTTCACAAGC 60.160 50.000 0.00 0.00 35.09 4.01
2275 2776 2.800544 GAGCTAACGAGTTTCACAAGCA 59.199 45.455 9.46 0.00 0.00 3.91
2276 2777 2.802816 AGCTAACGAGTTTCACAAGCAG 59.197 45.455 9.46 0.00 0.00 4.24
2277 2778 2.663063 GCTAACGAGTTTCACAAGCAGC 60.663 50.000 0.00 0.00 0.00 5.25
2278 2779 1.668419 AACGAGTTTCACAAGCAGCT 58.332 45.000 0.00 0.00 0.00 4.24
2279 2780 1.221414 ACGAGTTTCACAAGCAGCTC 58.779 50.000 0.00 0.00 0.00 4.09
2280 2781 0.162507 CGAGTTTCACAAGCAGCTCG 59.837 55.000 0.00 0.00 39.50 5.03
2281 2782 1.221414 GAGTTTCACAAGCAGCTCGT 58.779 50.000 0.00 0.00 0.00 4.18
2282 2783 1.599542 GAGTTTCACAAGCAGCTCGTT 59.400 47.619 0.00 0.00 0.00 3.85
2283 2784 2.800544 GAGTTTCACAAGCAGCTCGTTA 59.199 45.455 0.00 0.00 0.00 3.18
2284 2785 3.202906 AGTTTCACAAGCAGCTCGTTAA 58.797 40.909 0.00 0.00 0.00 2.01
2285 2786 3.248602 AGTTTCACAAGCAGCTCGTTAAG 59.751 43.478 0.00 0.00 0.00 1.85
2300 2801 6.403333 CTCGTTAAGCTTGCTAATACAACA 57.597 37.500 9.86 0.00 0.00 3.33
2301 2802 6.160664 TCGTTAAGCTTGCTAATACAACAC 57.839 37.500 9.86 0.00 0.00 3.32
2302 2803 5.697178 TCGTTAAGCTTGCTAATACAACACA 59.303 36.000 9.86 0.00 0.00 3.72
2303 2804 6.203145 TCGTTAAGCTTGCTAATACAACACAA 59.797 34.615 9.86 0.00 0.00 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 2.653448 CATCACGAGGCTCGCGAG 60.653 66.667 34.76 31.37 45.12 5.03
5 6 4.193334 CCATCACGAGGCTCGCGA 62.193 66.667 34.76 30.94 45.12 5.87
6 7 4.498520 ACCATCACGAGGCTCGCG 62.499 66.667 34.76 26.70 45.12 5.87
7 8 2.887568 CACCATCACGAGGCTCGC 60.888 66.667 34.76 0.00 45.12 5.03
8 9 1.807165 CACACCATCACGAGGCTCG 60.807 63.158 33.42 33.42 46.93 5.03
19 20 1.032014 GGTTTGCAGTCACACACCAT 58.968 50.000 0.00 0.00 39.67 3.55
56 57 4.353383 AAGCTCCTTTAGTTCCGTCTTT 57.647 40.909 0.00 0.00 0.00 2.52
62 63 6.655425 ACTGTCAAATAAGCTCCTTTAGTTCC 59.345 38.462 0.00 0.00 0.00 3.62
98 99 9.856162 ACTAAAGTTGGACCTATAAAGTGAAAA 57.144 29.630 0.00 0.00 0.00 2.29
207 236 4.401022 AGAAATGAGCCACAAGTGATGAA 58.599 39.130 0.94 0.00 0.00 2.57
237 266 0.617820 AAGAGGGATGCGTACTGGGT 60.618 55.000 0.00 0.00 0.00 4.51
240 269 2.802816 GCATTAAGAGGGATGCGTACTG 59.197 50.000 0.00 0.00 39.23 2.74
261 290 6.090358 GCCAACACTTGATTGATTCATTTGAG 59.910 38.462 0.00 0.00 33.34 3.02
287 316 2.682155 TTTTGTTGTTGTTGAGGGGC 57.318 45.000 0.00 0.00 0.00 5.80
446 646 3.728076 TGTGCTCTGTTTCGTACTCTT 57.272 42.857 0.00 0.00 0.00 2.85
447 647 3.728076 TTGTGCTCTGTTTCGTACTCT 57.272 42.857 0.00 0.00 0.00 3.24
463 663 1.956477 CCTTGAGAAGGGTGGTTTGTG 59.044 52.381 0.00 0.00 45.27 3.33
540 988 2.415893 GCGTTTGGCAAGTTGCTATGAT 60.416 45.455 26.16 0.00 44.28 2.45
681 1132 3.627395 TTCCCTGAGTCATTAACGCAT 57.373 42.857 0.00 0.00 37.05 4.73
745 1196 0.250513 CCTGGTAGGAGGTGCAACTC 59.749 60.000 24.10 24.10 37.67 3.01
959 1410 1.610624 CGGCACTGGAAGGCTTAGAAA 60.611 52.381 0.00 0.00 39.30 2.52
1080 1531 1.900498 GGCACTGAGCTTTGCAGGT 60.900 57.895 15.37 0.00 44.79 4.00
1277 1731 4.591399 TGCTGCTGCTGGCTTGGT 62.591 61.111 17.00 0.00 42.39 3.67
1332 1786 4.464244 TCATAGCACCATGGAGATAGCTAC 59.536 45.833 21.47 0.00 37.40 3.58
1334 1788 3.260380 GTCATAGCACCATGGAGATAGCT 59.740 47.826 21.47 19.58 36.20 3.32
1342 1796 9.842775 ATTCATATATAAGTCATAGCACCATGG 57.157 33.333 11.19 11.19 0.00 3.66
1356 1810 7.933223 AGGGAAAGGTGGGATTCATATATAAG 58.067 38.462 0.00 0.00 0.00 1.73
1372 1826 2.261729 GAGACAGAGGAAGGGAAAGGT 58.738 52.381 0.00 0.00 0.00 3.50
1408 1862 0.739561 GAGTACACCCTGTCTAGGCG 59.260 60.000 0.00 0.00 43.16 5.52
1413 1867 2.567615 GGATTGTGAGTACACCCTGTCT 59.432 50.000 0.00 0.00 45.40 3.41
1508 1971 1.001633 ACGCACGTAAAATGGGAGAGT 59.998 47.619 0.00 0.00 34.31 3.24
1509 1972 1.722011 ACGCACGTAAAATGGGAGAG 58.278 50.000 0.00 0.00 34.31 3.20
1526 1989 0.316360 CAACCGAACCCGAACAAACG 60.316 55.000 0.00 0.00 38.22 3.60
1534 1997 0.169451 GTATTTGCCAACCGAACCCG 59.831 55.000 0.00 0.00 0.00 5.28
1542 2005 7.148656 GGTGTTCATGTTATTGTATTTGCCAAC 60.149 37.037 0.00 0.00 0.00 3.77
1561 2024 1.299850 CTCGTGCGACTGGTGTTCA 60.300 57.895 0.00 0.00 0.00 3.18
1562 2025 0.388649 ATCTCGTGCGACTGGTGTTC 60.389 55.000 0.00 0.00 0.00 3.18
1570 2033 2.097791 ACTTCTTAGGATCTCGTGCGAC 59.902 50.000 0.00 0.00 0.00 5.19
1575 2038 6.263617 GGAGATGTTACTTCTTAGGATCTCGT 59.736 42.308 2.31 0.00 34.49 4.18
1581 2044 3.383825 GGCGGAGATGTTACTTCTTAGGA 59.616 47.826 2.31 0.00 0.00 2.94
1590 2053 0.108992 TGACACGGCGGAGATGTTAC 60.109 55.000 13.24 0.00 0.00 2.50
1591 2054 0.821517 ATGACACGGCGGAGATGTTA 59.178 50.000 13.24 3.31 0.00 2.41
1593 2056 1.141881 GATGACACGGCGGAGATGT 59.858 57.895 13.24 6.15 0.00 3.06
1658 2125 7.768582 TGTGTAGGATCATGATAATCGTTTGTT 59.231 33.333 8.54 0.00 0.00 2.83
1689 2156 7.450124 TGGTTTTGTGACTTTGTAACAGTTA 57.550 32.000 0.00 0.00 27.61 2.24
1702 2202 4.555348 TTACGGTGATTGGTTTTGTGAC 57.445 40.909 0.00 0.00 0.00 3.67
1720 2220 9.869844 CCTTTTTGAGATATCATCATCGTTTAC 57.130 33.333 5.32 0.00 0.00 2.01
1735 2235 8.517878 CATTCATGTAGTGTTCCTTTTTGAGAT 58.482 33.333 0.00 0.00 0.00 2.75
1746 2246 3.375299 GGCTGGTCATTCATGTAGTGTTC 59.625 47.826 0.00 0.00 0.00 3.18
1755 2255 1.352017 TGAGTGTGGCTGGTCATTCAT 59.648 47.619 0.00 0.00 0.00 2.57
1774 2274 6.475402 GTGTGTGTTCTTCTAATTTTTGGGTG 59.525 38.462 0.00 0.00 0.00 4.61
1812 2312 5.411361 GTGCCAACCTTTGACTTTTCTTTTT 59.589 36.000 0.00 0.00 0.00 1.94
1815 2315 3.769300 AGTGCCAACCTTTGACTTTTCTT 59.231 39.130 0.00 0.00 0.00 2.52
1831 2331 0.963355 GGGTAATTGCGGAAGTGCCA 60.963 55.000 23.62 0.00 33.95 4.92
1840 2340 3.441496 AAATGCATCAGGGTAATTGCG 57.559 42.857 0.00 0.00 37.92 4.85
1842 2342 7.546358 TGTTTCTAAATGCATCAGGGTAATTG 58.454 34.615 0.00 0.00 0.00 2.32
1848 2348 5.389859 TGTTGTTTCTAAATGCATCAGGG 57.610 39.130 0.00 0.00 0.00 4.45
1853 2353 8.947055 AGTTTTCTTGTTGTTTCTAAATGCAT 57.053 26.923 0.00 0.00 0.00 3.96
1854 2354 8.770438 AAGTTTTCTTGTTGTTTCTAAATGCA 57.230 26.923 0.00 0.00 38.88 3.96
1933 2433 5.344128 GCAGACTGCAATGTTCTAATTTGTG 59.656 40.000 22.62 0.00 44.26 3.33
1953 2453 5.123820 GGCTTGTAATAATGTGTTCTGCAGA 59.876 40.000 13.74 13.74 0.00 4.26
1954 2454 5.124457 AGGCTTGTAATAATGTGTTCTGCAG 59.876 40.000 7.63 7.63 0.00 4.41
1955 2455 5.009631 AGGCTTGTAATAATGTGTTCTGCA 58.990 37.500 0.00 0.00 0.00 4.41
1956 2456 5.567138 AGGCTTGTAATAATGTGTTCTGC 57.433 39.130 0.00 0.00 0.00 4.26
1957 2457 7.326789 CACAAAGGCTTGTAATAATGTGTTCTG 59.673 37.037 14.70 1.47 44.15 3.02
1958 2458 7.230510 TCACAAAGGCTTGTAATAATGTGTTCT 59.769 33.333 19.65 0.00 44.15 3.01
1959 2459 7.367285 TCACAAAGGCTTGTAATAATGTGTTC 58.633 34.615 19.65 0.00 44.15 3.18
1963 2463 6.714810 TCACTCACAAAGGCTTGTAATAATGT 59.285 34.615 0.00 0.00 44.15 2.71
1978 2478 7.490657 AGGTGTACCTTATATCACTCACAAA 57.509 36.000 0.00 0.00 46.09 2.83
1994 2494 4.157289 TCGAAGTTGTAGATGAGGTGTACC 59.843 45.833 0.00 0.00 0.00 3.34
2012 2512 4.038642 TCATTTCCCCCTTTGTTTTCGAAG 59.961 41.667 0.00 0.00 40.14 3.79
2016 2516 4.055360 CGTTCATTTCCCCCTTTGTTTTC 58.945 43.478 0.00 0.00 0.00 2.29
2029 2530 5.163992 TGAGTCGAAACTATGCGTTCATTTC 60.164 40.000 0.00 0.00 35.28 2.17
2033 2534 3.291809 TGAGTCGAAACTATGCGTTCA 57.708 42.857 0.00 0.00 35.28 3.18
2037 2538 3.731216 CCTACATGAGTCGAAACTATGCG 59.269 47.826 0.00 0.00 35.28 4.73
2040 2541 6.777213 AGAACCTACATGAGTCGAAACTAT 57.223 37.500 0.00 0.00 35.28 2.12
2042 2543 5.470047 AAGAACCTACATGAGTCGAAACT 57.530 39.130 0.00 0.00 38.88 2.66
2069 2570 7.630242 TTTCTTTACCTGCTATCCATTTCAG 57.370 36.000 0.00 0.00 0.00 3.02
2070 2571 7.615365 ACATTTCTTTACCTGCTATCCATTTCA 59.385 33.333 0.00 0.00 0.00 2.69
2071 2572 8.000780 ACATTTCTTTACCTGCTATCCATTTC 57.999 34.615 0.00 0.00 0.00 2.17
2072 2573 7.961326 ACATTTCTTTACCTGCTATCCATTT 57.039 32.000 0.00 0.00 0.00 2.32
2073 2574 8.052748 TGTACATTTCTTTACCTGCTATCCATT 58.947 33.333 0.00 0.00 0.00 3.16
2074 2575 7.573710 TGTACATTTCTTTACCTGCTATCCAT 58.426 34.615 0.00 0.00 0.00 3.41
2075 2576 6.953101 TGTACATTTCTTTACCTGCTATCCA 58.047 36.000 0.00 0.00 0.00 3.41
2093 2594 1.214589 GGCGTGTCGACCTGTACAT 59.785 57.895 14.12 0.00 0.00 2.29
2115 2616 1.202710 TGAGCTTTTGGTTCACCGCTA 60.203 47.619 0.00 0.00 39.43 4.26
2116 2617 0.465460 TGAGCTTTTGGTTCACCGCT 60.465 50.000 0.00 0.00 39.43 5.52
2117 2618 0.317854 GTGAGCTTTTGGTTCACCGC 60.318 55.000 0.00 0.00 46.06 5.68
2118 2619 3.845625 GTGAGCTTTTGGTTCACCG 57.154 52.632 0.00 0.00 46.06 4.94
2141 2642 2.263077 AGCGTTCATTAAGCTCGTGAG 58.737 47.619 0.00 0.00 36.33 3.51
2142 2643 2.259618 GAGCGTTCATTAAGCTCGTGA 58.740 47.619 0.81 0.00 46.14 4.35
2143 2644 2.703190 GAGCGTTCATTAAGCTCGTG 57.297 50.000 0.81 0.00 46.14 4.35
2147 2648 2.094762 AACCGAGCGTTCATTAAGCT 57.905 45.000 0.00 0.00 44.80 3.74
2148 2649 2.928116 AGTAACCGAGCGTTCATTAAGC 59.072 45.455 0.00 0.00 35.79 3.09
2149 2650 4.201685 CCAAGTAACCGAGCGTTCATTAAG 60.202 45.833 0.00 0.00 35.79 1.85
2150 2651 3.680937 CCAAGTAACCGAGCGTTCATTAA 59.319 43.478 0.00 0.00 35.79 1.40
2151 2652 3.255725 CCAAGTAACCGAGCGTTCATTA 58.744 45.455 0.00 0.00 35.79 1.90
2152 2653 2.073816 CCAAGTAACCGAGCGTTCATT 58.926 47.619 0.00 0.00 35.79 2.57
2153 2654 1.722011 CCAAGTAACCGAGCGTTCAT 58.278 50.000 0.00 0.00 35.79 2.57
2154 2655 0.947180 GCCAAGTAACCGAGCGTTCA 60.947 55.000 0.00 0.00 35.79 3.18
2155 2656 0.669625 AGCCAAGTAACCGAGCGTTC 60.670 55.000 0.00 0.00 35.79 3.95
2156 2657 0.669625 GAGCCAAGTAACCGAGCGTT 60.670 55.000 0.00 0.00 38.57 4.84
2157 2658 1.080025 GAGCCAAGTAACCGAGCGT 60.080 57.895 0.00 0.00 0.00 5.07
2158 2659 0.389948 AAGAGCCAAGTAACCGAGCG 60.390 55.000 0.00 0.00 0.00 5.03
2159 2660 2.667473 TAAGAGCCAAGTAACCGAGC 57.333 50.000 0.00 0.00 0.00 5.03
2160 2661 2.930682 GCTTAAGAGCCAAGTAACCGAG 59.069 50.000 6.67 0.00 43.29 4.63
2161 2662 2.968675 GCTTAAGAGCCAAGTAACCGA 58.031 47.619 6.67 0.00 43.29 4.69
2181 2682 4.727162 CTTCATTAAGAAGCGAGCTGCAAG 60.727 45.833 5.79 0.00 46.54 4.01
2182 2683 3.125829 CTTCATTAAGAAGCGAGCTGCAA 59.874 43.478 5.79 0.00 46.54 4.08
2183 2684 2.674852 CTTCATTAAGAAGCGAGCTGCA 59.325 45.455 5.79 0.00 46.54 4.41
2184 2685 3.316253 CTTCATTAAGAAGCGAGCTGC 57.684 47.619 0.00 0.00 46.54 5.25
2193 2694 6.715280 AGTGATTGGCTCTCTTCATTAAGAA 58.285 36.000 0.00 0.00 41.19 2.52
2194 2695 6.305272 AGTGATTGGCTCTCTTCATTAAGA 57.695 37.500 0.00 0.00 39.47 2.10
2195 2696 6.998968 AAGTGATTGGCTCTCTTCATTAAG 57.001 37.500 0.00 0.00 33.48 1.85
2196 2697 9.466497 AAATAAGTGATTGGCTCTCTTCATTAA 57.534 29.630 0.00 0.00 38.37 1.40
2197 2698 9.113838 GAAATAAGTGATTGGCTCTCTTCATTA 57.886 33.333 0.00 0.00 38.37 1.90
2198 2699 7.613022 TGAAATAAGTGATTGGCTCTCTTCATT 59.387 33.333 0.00 0.00 38.37 2.57
2199 2700 7.114754 TGAAATAAGTGATTGGCTCTCTTCAT 58.885 34.615 0.00 0.00 38.37 2.57
2200 2701 6.475504 TGAAATAAGTGATTGGCTCTCTTCA 58.524 36.000 0.00 0.00 38.37 3.02
2201 2702 6.458070 GCTGAAATAAGTGATTGGCTCTCTTC 60.458 42.308 0.00 0.00 38.37 2.87
2202 2703 5.356470 GCTGAAATAAGTGATTGGCTCTCTT 59.644 40.000 0.00 0.00 40.08 2.85
2203 2704 4.880696 GCTGAAATAAGTGATTGGCTCTCT 59.119 41.667 0.00 0.00 0.00 3.10
2204 2705 4.880696 AGCTGAAATAAGTGATTGGCTCTC 59.119 41.667 0.00 0.00 28.71 3.20
2205 2706 4.853007 AGCTGAAATAAGTGATTGGCTCT 58.147 39.130 0.00 0.00 28.71 4.09
2206 2707 5.105997 ACAAGCTGAAATAAGTGATTGGCTC 60.106 40.000 0.00 0.00 31.64 4.70
2207 2708 4.768968 ACAAGCTGAAATAAGTGATTGGCT 59.231 37.500 0.00 0.00 33.15 4.75
2208 2709 5.064441 ACAAGCTGAAATAAGTGATTGGC 57.936 39.130 0.00 0.00 0.00 4.52
2209 2710 8.915654 GTTTAACAAGCTGAAATAAGTGATTGG 58.084 33.333 0.00 0.00 0.00 3.16
2210 2711 9.683069 AGTTTAACAAGCTGAAATAAGTGATTG 57.317 29.630 0.00 0.00 0.00 2.67
2215 2716 9.659830 CGTTAAGTTTAACAAGCTGAAATAAGT 57.340 29.630 13.44 0.00 42.34 2.24
2216 2717 9.872757 TCGTTAAGTTTAACAAGCTGAAATAAG 57.127 29.630 13.44 0.00 42.34 1.73
2218 2719 9.820229 CATCGTTAAGTTTAACAAGCTGAAATA 57.180 29.630 13.44 0.00 42.34 1.40
2219 2720 8.349983 ACATCGTTAAGTTTAACAAGCTGAAAT 58.650 29.630 13.44 0.00 42.34 2.17
2220 2721 7.699566 ACATCGTTAAGTTTAACAAGCTGAAA 58.300 30.769 13.44 0.00 42.34 2.69
2221 2722 7.254227 ACATCGTTAAGTTTAACAAGCTGAA 57.746 32.000 13.44 0.00 42.34 3.02
2222 2723 6.854496 ACATCGTTAAGTTTAACAAGCTGA 57.146 33.333 13.44 4.41 42.34 4.26
2223 2724 8.996988 TTAACATCGTTAAGTTTAACAAGCTG 57.003 30.769 13.44 7.84 42.34 4.24
2224 2725 9.607285 CATTAACATCGTTAAGTTTAACAAGCT 57.393 29.630 13.44 0.00 42.34 3.74
2225 2726 9.601971 TCATTAACATCGTTAAGTTTAACAAGC 57.398 29.630 13.44 0.00 42.34 4.01
2227 2728 9.601971 GCTCATTAACATCGTTAAGTTTAACAA 57.398 29.630 13.44 0.00 42.34 2.83
2228 2729 7.953173 CGCTCATTAACATCGTTAAGTTTAACA 59.047 33.333 13.44 3.54 42.34 2.41
2229 2730 8.164153 TCGCTCATTAACATCGTTAAGTTTAAC 58.836 33.333 5.64 4.98 39.62 2.01
2230 2731 8.242085 TCGCTCATTAACATCGTTAAGTTTAA 57.758 30.769 5.64 0.00 0.00 1.52
2231 2732 7.463648 GCTCGCTCATTAACATCGTTAAGTTTA 60.464 37.037 5.64 0.00 0.00 2.01
2232 2733 6.672357 GCTCGCTCATTAACATCGTTAAGTTT 60.672 38.462 5.64 0.00 0.00 2.66
2233 2734 5.220416 GCTCGCTCATTAACATCGTTAAGTT 60.220 40.000 5.64 0.00 0.00 2.66
2234 2735 4.267928 GCTCGCTCATTAACATCGTTAAGT 59.732 41.667 5.64 0.00 0.00 2.24
2235 2736 4.504461 AGCTCGCTCATTAACATCGTTAAG 59.496 41.667 5.64 0.00 0.00 1.85
2236 2737 4.430007 AGCTCGCTCATTAACATCGTTAA 58.570 39.130 2.07 2.07 0.00 2.01
2237 2738 4.041740 AGCTCGCTCATTAACATCGTTA 57.958 40.909 0.00 0.00 0.00 3.18
2238 2739 2.893637 AGCTCGCTCATTAACATCGTT 58.106 42.857 0.00 0.00 0.00 3.85
2239 2740 2.586258 AGCTCGCTCATTAACATCGT 57.414 45.000 0.00 0.00 0.00 3.73
2240 2741 3.121663 CGTTAGCTCGCTCATTAACATCG 60.122 47.826 0.00 0.00 0.00 3.84
2241 2742 4.042398 TCGTTAGCTCGCTCATTAACATC 58.958 43.478 0.00 0.00 0.00 3.06
2242 2743 4.041740 TCGTTAGCTCGCTCATTAACAT 57.958 40.909 0.00 0.00 0.00 2.71
2243 2744 3.119602 ACTCGTTAGCTCGCTCATTAACA 60.120 43.478 0.00 0.00 0.00 2.41
2244 2745 3.436496 ACTCGTTAGCTCGCTCATTAAC 58.564 45.455 0.00 0.00 0.00 2.01
2245 2746 3.777465 ACTCGTTAGCTCGCTCATTAA 57.223 42.857 0.00 0.00 0.00 1.40
2246 2747 3.777465 AACTCGTTAGCTCGCTCATTA 57.223 42.857 0.00 0.00 0.00 1.90
2247 2748 2.656560 AACTCGTTAGCTCGCTCATT 57.343 45.000 0.00 0.00 0.00 2.57
2248 2749 2.094700 TGAAACTCGTTAGCTCGCTCAT 60.095 45.455 0.00 0.00 0.00 2.90
2249 2750 1.268625 TGAAACTCGTTAGCTCGCTCA 59.731 47.619 0.00 0.00 0.00 4.26
2250 2751 1.649662 GTGAAACTCGTTAGCTCGCTC 59.350 52.381 0.00 0.00 0.00 5.03
2251 2752 1.000607 TGTGAAACTCGTTAGCTCGCT 60.001 47.619 0.00 0.00 38.04 4.93
2252 2753 1.415374 TGTGAAACTCGTTAGCTCGC 58.585 50.000 0.00 0.00 38.04 5.03
2253 2754 2.159960 GCTTGTGAAACTCGTTAGCTCG 60.160 50.000 0.00 0.00 38.04 5.03
2254 2755 2.800544 TGCTTGTGAAACTCGTTAGCTC 59.199 45.455 0.00 0.00 38.04 4.09
2255 2756 2.802816 CTGCTTGTGAAACTCGTTAGCT 59.197 45.455 0.00 0.00 38.04 3.32
2256 2757 2.663063 GCTGCTTGTGAAACTCGTTAGC 60.663 50.000 0.00 0.00 38.04 3.09
2257 2758 2.802816 AGCTGCTTGTGAAACTCGTTAG 59.197 45.455 0.00 0.00 38.04 2.34
2258 2759 2.800544 GAGCTGCTTGTGAAACTCGTTA 59.199 45.455 2.53 0.00 38.04 3.18
2259 2760 1.599542 GAGCTGCTTGTGAAACTCGTT 59.400 47.619 2.53 0.00 38.04 3.85
2260 2761 1.221414 GAGCTGCTTGTGAAACTCGT 58.779 50.000 2.53 0.00 38.04 4.18
2261 2762 0.162507 CGAGCTGCTTGTGAAACTCG 59.837 55.000 2.53 0.00 40.70 4.18
2262 2763 1.221414 ACGAGCTGCTTGTGAAACTC 58.779 50.000 21.34 0.00 38.04 3.01
2263 2764 1.668419 AACGAGCTGCTTGTGAAACT 58.332 45.000 22.57 4.35 38.04 2.66
2264 2765 3.545633 CTTAACGAGCTGCTTGTGAAAC 58.454 45.455 22.57 0.00 37.35 2.78
2265 2766 3.878086 CTTAACGAGCTGCTTGTGAAA 57.122 42.857 22.57 17.58 0.00 2.69
2277 2778 6.128661 TGTGTTGTATTAGCAAGCTTAACGAG 60.129 38.462 0.00 0.00 0.00 4.18
2278 2779 5.697178 TGTGTTGTATTAGCAAGCTTAACGA 59.303 36.000 0.00 0.00 0.00 3.85
2279 2780 5.922546 TGTGTTGTATTAGCAAGCTTAACG 58.077 37.500 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.