Multiple sequence alignment - TraesCS7D01G326500

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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 TraesCS7D01G326500 chr7D 100.000 6939 0 0 1538 8476 416960909 416967847 0.000000e+00 12815.0
1 TraesCS7D01G326500 chr7D 100.000 1130 0 0 1 1130 416959372 416960501 0.000000e+00 2087.0
2 TraesCS7D01G326500 chr7D 94.268 157 9 0 2575 2731 416961868 416962024 3.060000e-59 241.0
3 TraesCS7D01G326500 chr7D 94.268 157 9 0 2497 2653 416961946 416962102 3.060000e-59 241.0
4 TraesCS7D01G326500 chr7D 82.212 208 35 2 8270 8476 416970275 416970481 2.430000e-40 178.0
5 TraesCS7D01G326500 chr7D 94.872 78 4 0 2655 2732 416961870 416961947 1.160000e-23 122.0
6 TraesCS7D01G326500 chr7D 94.872 78 4 0 2499 2576 416962026 416962103 1.160000e-23 122.0
7 TraesCS7D01G326500 chr7D 92.941 85 5 1 8387 8470 416969755 416969839 1.160000e-23 122.0
8 TraesCS7D01G326500 chr7A 96.717 4539 88 19 1538 6036 481582732 481587249 0.000000e+00 7500.0
9 TraesCS7D01G326500 chr7A 93.471 1792 49 32 6029 7812 481587356 481589087 0.000000e+00 2599.0
10 TraesCS7D01G326500 chr7A 94.838 1143 26 14 1 1130 481581553 481582675 0.000000e+00 1753.0
11 TraesCS7D01G326500 chr7A 96.835 158 5 0 2575 2732 481583687 481583844 1.810000e-66 265.0
12 TraesCS7D01G326500 chr7A 95.625 160 6 1 2497 2655 481583765 481583924 1.090000e-63 255.0
13 TraesCS7D01G326500 chr7A 81.643 207 22 7 8270 8476 481589431 481589621 3.170000e-34 158.0
14 TraesCS7D01G326500 chr7A 96.154 78 3 0 2655 2732 481583689 481583766 2.480000e-25 128.0
15 TraesCS7D01G326500 chr7A 79.293 198 29 7 8286 8471 481592305 481592502 2.480000e-25 128.0
16 TraesCS7D01G326500 chr7A 96.104 77 3 0 2497 2573 481583843 481583919 8.930000e-25 126.0
17 TraesCS7D01G326500 chr7B 96.407 2755 63 17 3234 5978 432918146 432920874 0.000000e+00 4506.0
18 TraesCS7D01G326500 chr7B 93.587 1996 70 27 5940 7900 432920875 432922847 0.000000e+00 2924.0
19 TraesCS7D01G326500 chr7B 95.121 1701 61 8 1538 3226 432916416 432918106 0.000000e+00 2662.0
20 TraesCS7D01G326500 chr7B 94.895 901 17 12 236 1130 432915486 432916363 0.000000e+00 1382.0
21 TraesCS7D01G326500 chr7B 82.522 452 43 13 8046 8476 432922856 432923292 1.740000e-96 364.0
22 TraesCS7D01G326500 chr7B 95.133 226 6 1 1 221 432915277 432915502 1.350000e-92 351.0
23 TraesCS7D01G326500 chr7B 95.570 158 7 0 2575 2732 432917377 432917534 3.930000e-63 254.0
24 TraesCS7D01G326500 chr7B 94.268 157 9 0 2497 2653 432917455 432917611 3.060000e-59 241.0
25 TraesCS7D01G326500 chr7B 97.436 78 2 0 2655 2732 432917379 432917456 5.340000e-27 134.0
26 TraesCS7D01G326500 chr7B 95.000 80 4 0 2497 2576 432917533 432917612 8.930000e-25 126.0
27 TraesCS7D01G326500 chr2B 88.889 99 5 4 7908 8006 182965635 182965727 5.380000e-22 117.0
28 TraesCS7D01G326500 chr2D 85.294 102 9 4 7905 8006 503439582 503439677 5.410000e-17 100.0
29 TraesCS7D01G326500 chr5A 85.417 96 11 3 7911 8006 462838098 462838190 7.000000e-16 97.1
30 TraesCS7D01G326500 chr5A 83.000 100 11 4 7912 8011 7735433 7735340 1.520000e-12 86.1
31 TraesCS7D01G326500 chrUn 82.353 102 12 4 7910 8011 179845552 179845457 5.450000e-12 84.2
32 TraesCS7D01G326500 chrUn 82.178 101 12 4 7911 8011 144768878 144768784 1.960000e-11 82.4
33 TraesCS7D01G326500 chrUn 82.178 101 12 4 7911 8011 144838125 144838031 1.960000e-11 82.4
34 TraesCS7D01G326500 chrUn 82.178 101 12 4 7911 8011 144881837 144881743 1.960000e-11 82.4
35 TraesCS7D01G326500 chrUn 82.178 101 12 4 7911 8011 144920421 144920327 1.960000e-11 82.4


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 TraesCS7D01G326500 chr7D 416959372 416967847 8475 False 7451.000000 12815 100.000000 1 8476 2 chr7D.!!$F1 8475
1 TraesCS7D01G326500 chr7A 481581553 481592502 10949 False 1434.666667 7500 92.297778 1 8476 9 chr7A.!!$F1 8475
2 TraesCS7D01G326500 chr7B 432915277 432923292 8015 False 1294.400000 4506 93.993900 1 8476 10 chr7B.!!$F1 8475

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
41 42 0.606604 GGATGTGTGGAGGTGTACGT 59.393 55.000 0.00 0.0 0.00 3.57 F
314 364 1.103398 CATTCAGGATTCGGGTGGGC 61.103 60.000 0.00 0.0 0.00 5.36 F
1847 1931 1.280710 TGCTCCGGCTTCTTAATTCCA 59.719 47.619 0.00 0.0 39.59 3.53 F
2148 2232 0.179062 CCTTCATCCTCTGGGAAGCG 60.179 60.000 0.00 0.0 45.78 4.68 F
2327 2411 0.380378 GTGCCGTTTGTTCTGCTTCA 59.620 50.000 0.00 0.0 0.00 3.02 F
2329 2413 0.380378 GCCGTTTGTTCTGCTTCACA 59.620 50.000 0.00 0.0 0.00 3.58 F
4237 4357 0.028505 CATCTGCTGTTACGCATGGC 59.971 55.000 0.00 0.0 39.52 4.40 F
4903 5029 4.569966 CAGACTGACTTAGTGATTGGATGC 59.430 45.833 0.00 0.0 40.53 3.91 F
5677 5804 1.366319 ATCCTGAAGTTCCTGGTGCT 58.634 50.000 0.00 0.0 0.00 4.40 F
6607 6889 1.899534 GTTTGCCCGGCTGTTGGTA 60.900 57.895 11.61 0.0 0.00 3.25 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1700 1775 0.179100 ATCGCACTCATCGAAGGTGG 60.179 55.000 14.44 7.47 39.54 4.61 R
1895 1979 0.250727 CCGGAAGTGGAGAAGGCAAA 60.251 55.000 0.00 0.00 0.00 3.68 R
3582 3699 2.025605 TCAGATCCATCAGCTGGCTTTT 60.026 45.455 15.13 0.00 45.52 2.27 R
4123 4243 2.156917 TGAAAATCACTGCCTCTGCTG 58.843 47.619 0.00 0.00 41.75 4.41 R
4237 4357 5.288804 CGGCCAGTATATTTTTCATTTGGG 58.711 41.667 2.24 0.00 0.00 4.12 R
4413 4533 4.067896 GTGACTTGCTCCTGATTCAAAGA 58.932 43.478 2.80 0.00 0.00 2.52 R
5491 5617 1.078285 TCCATGAGCATGCGCAGAA 60.078 52.632 27.78 13.65 42.27 3.02 R
6745 7029 0.396974 ACAAACTTTGGCCAGGCAGA 60.397 50.000 15.19 0.00 34.12 4.26 R
6817 7101 1.429930 TGGACCTTGCTGTTAGACCA 58.570 50.000 0.00 0.00 0.00 4.02 R
8380 8743 0.107508 CGGGGAAGACAGTGATGCAT 60.108 55.000 0.00 0.00 0.00 3.96 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
39 40 1.676014 GCAGGATGTGTGGAGGTGTAC 60.676 57.143 0.00 0.00 39.31 2.90
40 41 0.895530 AGGATGTGTGGAGGTGTACG 59.104 55.000 0.00 0.00 0.00 3.67
41 42 0.606604 GGATGTGTGGAGGTGTACGT 59.393 55.000 0.00 0.00 0.00 3.57
42 43 1.820519 GGATGTGTGGAGGTGTACGTA 59.179 52.381 0.00 0.00 0.00 3.57
220 237 6.276832 ACGTAGTAGAATTAGTGCTTTCCA 57.723 37.500 0.00 0.00 41.94 3.53
221 238 6.875076 ACGTAGTAGAATTAGTGCTTTCCAT 58.125 36.000 0.00 0.00 41.94 3.41
222 239 7.328737 ACGTAGTAGAATTAGTGCTTTCCATT 58.671 34.615 0.00 0.00 41.94 3.16
223 240 7.822822 ACGTAGTAGAATTAGTGCTTTCCATTT 59.177 33.333 0.00 0.00 41.94 2.32
224 241 8.665685 CGTAGTAGAATTAGTGCTTTCCATTTT 58.334 33.333 0.00 0.00 0.00 1.82
314 364 1.103398 CATTCAGGATTCGGGTGGGC 61.103 60.000 0.00 0.00 0.00 5.36
385 435 1.524355 CGCAGATATCACAAAGCCGAG 59.476 52.381 5.32 0.00 0.00 4.63
392 442 2.436646 ACAAAGCCGAGCCATCCG 60.437 61.111 0.00 0.00 0.00 4.18
450 500 5.016173 AGATACCATTAACAAGCAAGGCAA 58.984 37.500 0.00 0.00 0.00 4.52
616 667 2.246067 ACCAGGAGGCAAGAGATAGAGA 59.754 50.000 0.00 0.00 39.06 3.10
617 668 3.116784 ACCAGGAGGCAAGAGATAGAGAT 60.117 47.826 0.00 0.00 39.06 2.75
618 669 4.107149 ACCAGGAGGCAAGAGATAGAGATA 59.893 45.833 0.00 0.00 39.06 1.98
619 670 4.706476 CCAGGAGGCAAGAGATAGAGATAG 59.294 50.000 0.00 0.00 0.00 2.08
620 671 5.516415 CCAGGAGGCAAGAGATAGAGATAGA 60.516 48.000 0.00 0.00 0.00 1.98
621 672 5.649395 CAGGAGGCAAGAGATAGAGATAGAG 59.351 48.000 0.00 0.00 0.00 2.43
1004 1065 2.872001 CGAGACGCACGCAGAGAC 60.872 66.667 0.00 0.00 0.00 3.36
1005 1066 2.872001 GAGACGCACGCAGAGACG 60.872 66.667 0.00 0.00 39.50 4.18
1006 1067 4.406173 AGACGCACGCAGAGACGG 62.406 66.667 0.00 0.00 37.37 4.79
1007 1068 4.400109 GACGCACGCAGAGACGGA 62.400 66.667 0.00 0.00 37.37 4.69
1008 1069 4.702081 ACGCACGCAGAGACGGAC 62.702 66.667 0.00 0.00 37.37 4.79
1013 1074 4.813526 CGCAGAGACGGACGGACG 62.814 72.222 0.00 0.00 40.31 4.79
1017 1078 4.157958 GAGACGGACGGACGGACG 62.158 72.222 6.00 8.35 38.39 4.79
1077 1138 2.262303 GGCCTCCGTCGATCGATCT 61.262 63.158 22.50 0.00 42.86 2.75
1570 1631 2.478335 ATTTTCCGCCTGCTTCGGGA 62.478 55.000 10.90 1.05 46.43 5.14
1761 1836 2.358247 CCTTGTTAGGCACGCCGT 60.358 61.111 1.61 0.00 41.95 5.68
1827 1911 3.470888 CCCGTCCTGGATCGCCTT 61.471 66.667 0.00 0.00 42.00 4.35
1833 1917 2.587194 CTGGATCGCCTTGCTCCG 60.587 66.667 0.00 0.00 34.31 4.63
1847 1931 1.280710 TGCTCCGGCTTCTTAATTCCA 59.719 47.619 0.00 0.00 39.59 3.53
1895 1979 5.579511 CCATCTACGAATTTACTTTCCGTGT 59.420 40.000 0.00 0.00 0.00 4.49
1957 2041 4.933400 GCTTGCTTGGTTGATTGATTGATT 59.067 37.500 0.00 0.00 0.00 2.57
1958 2042 5.410439 GCTTGCTTGGTTGATTGATTGATTT 59.590 36.000 0.00 0.00 0.00 2.17
1959 2043 6.619874 GCTTGCTTGGTTGATTGATTGATTTG 60.620 38.462 0.00 0.00 0.00 2.32
1960 2044 4.691685 TGCTTGGTTGATTGATTGATTTGC 59.308 37.500 0.00 0.00 0.00 3.68
1961 2045 4.933400 GCTTGGTTGATTGATTGATTTGCT 59.067 37.500 0.00 0.00 0.00 3.91
2019 2103 3.200593 GCATCGCTGACAGGCAGG 61.201 66.667 5.10 0.00 45.03 4.85
2073 2157 4.068599 AGCTTTACTTTCTCAGCTTCACC 58.931 43.478 0.00 0.00 39.69 4.02
2076 2160 1.889545 ACTTTCTCAGCTTCACCTGC 58.110 50.000 0.00 0.00 32.87 4.85
2086 2170 2.620585 AGCTTCACCTGCAAACTTCTTC 59.379 45.455 0.00 0.00 0.00 2.87
2087 2171 2.620585 GCTTCACCTGCAAACTTCTTCT 59.379 45.455 0.00 0.00 0.00 2.85
2088 2172 3.067320 GCTTCACCTGCAAACTTCTTCTT 59.933 43.478 0.00 0.00 0.00 2.52
2141 2225 4.362470 TCCATTATGCCTTCATCCTCTG 57.638 45.455 0.00 0.00 34.22 3.35
2148 2232 0.179062 CCTTCATCCTCTGGGAAGCG 60.179 60.000 0.00 0.00 45.78 4.68
2159 2243 4.320275 CCTCTGGGAAGCGTTTTTAAAGTC 60.320 45.833 0.00 0.00 33.58 3.01
2186 2270 7.774625 CGGTTAGGGTTTTAATATTGGGAGTTA 59.225 37.037 0.00 0.00 0.00 2.24
2292 2376 2.094390 GTCAACATGCTACCGTCACCTA 60.094 50.000 0.00 0.00 0.00 3.08
2327 2411 0.380378 GTGCCGTTTGTTCTGCTTCA 59.620 50.000 0.00 0.00 0.00 3.02
2329 2413 0.380378 GCCGTTTGTTCTGCTTCACA 59.620 50.000 0.00 0.00 0.00 3.58
2395 2479 2.941720 CTGCATTGCCTTCTCTTCTACC 59.058 50.000 6.12 0.00 0.00 3.18
2467 2551 2.158559 TGGTTTGACACATTAGCGCAT 58.841 42.857 11.47 0.00 0.00 4.73
2653 2737 8.860088 ACTTATTTATGGCTGGATGGTATTTTC 58.140 33.333 0.00 0.00 0.00 2.29
2717 2801 5.945784 ACATGCTGTTTGACTTATGTATGGT 59.054 36.000 0.00 0.00 0.00 3.55
2735 2819 3.768878 TGGTTGGATGGTATTTTTCGGT 58.231 40.909 0.00 0.00 0.00 4.69
2807 2891 4.593206 AGGTTCTGATGTGTTTCTCCTACA 59.407 41.667 0.00 0.00 0.00 2.74
3204 3288 3.222173 AGTTCAATTACAGTGGCACCA 57.778 42.857 15.27 0.00 0.00 4.17
3247 3363 5.450965 CCTTCTGAACTGAATGTTGCTTGTT 60.451 40.000 0.00 0.00 39.30 2.83
3814 3931 4.458989 TGTTCAGTTGCTTCTGTTTCAAGT 59.541 37.500 8.15 0.00 36.85 3.16
3961 4078 5.926663 TCATCTCAAGAGCTTCATTATGCT 58.073 37.500 0.00 0.00 42.82 3.79
3995 4112 5.360591 GGAACTGTAGTGATATGACCAAGG 58.639 45.833 0.00 0.00 0.00 3.61
4123 4243 5.532557 AGTAGCTTTTGTTCTGAAAATGGC 58.467 37.500 0.00 0.00 0.00 4.40
4168 4288 6.797454 TCTAGTAATTTCGAGAAAGAGAGCC 58.203 40.000 4.54 0.00 33.32 4.70
4237 4357 0.028505 CATCTGCTGTTACGCATGGC 59.971 55.000 0.00 0.00 39.52 4.40
4903 5029 4.569966 CAGACTGACTTAGTGATTGGATGC 59.430 45.833 0.00 0.00 40.53 3.91
5491 5617 7.173722 ACACATCCTTTTCAGAATCATCTTCT 58.826 34.615 0.00 0.00 32.03 2.85
5601 5727 4.328983 TGTCTTGAGTCTTTCGTTGTGTTC 59.671 41.667 0.00 0.00 0.00 3.18
5677 5804 1.366319 ATCCTGAAGTTCCTGGTGCT 58.634 50.000 0.00 0.00 0.00 4.40
5729 5856 3.580022 TCAATCTGTCCTGTGTGTCTCAT 59.420 43.478 0.00 0.00 0.00 2.90
5797 5924 2.695359 TCGGTAGAAACAGGCAATGAC 58.305 47.619 0.00 0.00 0.00 3.06
5827 5954 9.639601 TGACAGTTCTTATTATGAACAGTGTAG 57.360 33.333 18.78 8.27 41.76 2.74
5969 6135 6.423302 TGTGAAATATGGTTGACATGTTTTGC 59.577 34.615 0.00 0.00 46.66 3.68
6330 6612 7.298122 AGCTACAAAATGTGAAATTACGTGAG 58.702 34.615 0.00 0.00 0.00 3.51
6407 6689 5.513141 GTGCTTTCTGAACTTCTGTTTGTTC 59.487 40.000 0.00 0.00 41.87 3.18
6413 6695 7.303634 TCTGAACTTCTGTTTGTTCTGTTAC 57.696 36.000 0.00 0.00 41.99 2.50
6607 6889 1.899534 GTTTGCCCGGCTGTTGGTA 60.900 57.895 11.61 0.00 0.00 3.25
6817 7101 3.458044 TCAGTACATGACAGACTCCCT 57.542 47.619 0.00 0.00 31.12 4.20
6893 7178 1.208293 GAGATTCCTCGAAGCCCAGTT 59.792 52.381 0.00 0.00 0.00 3.16
7042 7327 2.518825 CGGTCTACCTAGGCGGCT 60.519 66.667 18.33 18.33 35.61 5.52
7220 7511 4.212502 AGGGAAGGGAGGGGATACTATAT 58.787 47.826 0.00 0.00 0.00 0.86
7221 7512 5.386541 AGGGAAGGGAGGGGATACTATATA 58.613 45.833 0.00 0.00 0.00 0.86
7446 7743 6.271488 TGCTACTCAATCTTTTTCCAATGG 57.729 37.500 0.00 0.00 0.00 3.16
7503 7800 7.068716 ACCTGGCTTTTCCTTGATTAATCATAC 59.931 37.037 18.61 3.26 36.56 2.39
7512 7821 6.547141 TCCTTGATTAATCATACCCAAGCAAG 59.453 38.462 18.61 8.83 41.62 4.01
7513 7822 6.713762 TTGATTAATCATACCCAAGCAAGG 57.286 37.500 18.61 0.00 36.56 3.61
7514 7823 4.584325 TGATTAATCATACCCAAGCAAGGC 59.416 41.667 14.23 0.00 0.00 4.35
7515 7824 2.530460 AATCATACCCAAGCAAGGCA 57.470 45.000 0.00 0.00 0.00 4.75
7516 7825 2.761786 ATCATACCCAAGCAAGGCAT 57.238 45.000 0.00 0.00 0.00 4.40
7517 7826 2.057137 TCATACCCAAGCAAGGCATC 57.943 50.000 0.00 0.00 0.00 3.91
7518 7827 0.664761 CATACCCAAGCAAGGCATCG 59.335 55.000 0.00 0.00 0.00 3.84
7519 7828 1.103398 ATACCCAAGCAAGGCATCGC 61.103 55.000 0.00 0.00 0.00 4.58
7520 7829 2.196997 TACCCAAGCAAGGCATCGCT 62.197 55.000 0.00 0.00 41.20 4.93
7521 7830 1.451927 CCCAAGCAAGGCATCGCTA 60.452 57.895 0.00 0.00 37.54 4.26
7522 7831 1.442526 CCCAAGCAAGGCATCGCTAG 61.443 60.000 0.00 0.00 37.54 3.42
7523 7832 0.462581 CCAAGCAAGGCATCGCTAGA 60.463 55.000 0.00 0.00 37.54 2.43
7576 7885 0.673333 TGTGTTGCTGCTACGGATGG 60.673 55.000 9.51 0.00 0.00 3.51
7609 7918 5.248380 ACCTCTTATGTTTGCCTCTCTTT 57.752 39.130 0.00 0.00 0.00 2.52
7611 7920 5.474876 ACCTCTTATGTTTGCCTCTCTTTTG 59.525 40.000 0.00 0.00 0.00 2.44
7660 7974 6.789262 AGAGTCACAAGATCACAAGTTTTTG 58.211 36.000 0.00 0.00 40.24 2.44
7662 7976 6.924111 AGTCACAAGATCACAAGTTTTTGTT 58.076 32.000 0.00 0.00 45.01 2.83
7663 7977 7.378181 AGTCACAAGATCACAAGTTTTTGTTT 58.622 30.769 0.00 0.00 45.01 2.83
7664 7978 7.542130 AGTCACAAGATCACAAGTTTTTGTTTC 59.458 33.333 0.00 0.00 45.01 2.78
7665 7979 6.526325 TCACAAGATCACAAGTTTTTGTTTCG 59.474 34.615 0.00 0.00 45.01 3.46
7670 7984 7.728895 AGATCACAAGTTTTTGTTTCGTTTTG 58.271 30.769 0.00 0.00 45.01 2.44
7678 7995 7.949186 AGTTTTTGTTTCGTTTTGAGAATGTC 58.051 30.769 0.00 0.00 0.00 3.06
7707 8025 4.436242 TTTTTGTTGTTGCCAGAACGTA 57.564 36.364 0.00 0.00 0.00 3.57
7716 8034 4.142359 TGTTGCCAGAACGTATTGTTTTGT 60.142 37.500 0.00 0.00 42.09 2.83
7766 8084 0.033090 AGGTTGTTCGAAGGTCGTCC 59.967 55.000 0.00 0.00 41.35 4.79
7767 8085 0.249573 GGTTGTTCGAAGGTCGTCCA 60.250 55.000 0.00 0.00 41.35 4.02
7776 8094 0.472352 AAGGTCGTCCACCCACCTTA 60.472 55.000 0.51 0.00 46.69 2.69
7777 8095 1.595357 GGTCGTCCACCCACCTTAG 59.405 63.158 0.00 0.00 39.69 2.18
7780 8098 1.214589 CGTCCACCCACCTTAGTCG 59.785 63.158 0.00 0.00 0.00 4.18
7785 8103 1.471119 CACCCACCTTAGTCGCTCTA 58.529 55.000 0.00 0.00 0.00 2.43
7797 8115 0.822532 TCGCTCTATTCCGGTCTCCC 60.823 60.000 0.00 0.00 0.00 4.30
7819 8157 3.488047 CGACATACACGTCCTTTCGGTAT 60.488 47.826 0.00 0.00 31.91 2.73
7834 8172 2.159612 TCGGTATCGTCGACTGTCAAAG 60.160 50.000 14.70 0.00 37.69 2.77
7848 8186 5.523369 ACTGTCAAAGCAGTTTAAATGAGC 58.477 37.500 0.00 0.00 46.45 4.26
7851 8189 3.057596 TCAAAGCAGTTTAAATGAGCCCG 60.058 43.478 0.00 0.00 0.00 6.13
7858 8196 1.091537 TTAAATGAGCCCGGAAAGCG 58.908 50.000 0.73 0.00 34.64 4.68
7859 8197 1.373590 TAAATGAGCCCGGAAAGCGC 61.374 55.000 0.73 0.00 34.64 5.92
7871 8209 1.562575 GAAAGCGCCGAAAAGGACGA 61.563 55.000 2.29 0.00 45.00 4.20
7873 8211 3.785499 GCGCCGAAAAGGACGACC 61.785 66.667 0.00 0.00 45.00 4.79
7888 8226 1.688197 ACGACCTGAGAAAAACGGGTA 59.312 47.619 0.00 0.00 45.63 3.69
7911 8253 4.316025 TCGGAAGAGATCCCCAATTTTT 57.684 40.909 0.00 0.00 46.39 1.94
7942 8284 5.816919 TCAAACGGAGACAAAAGATTTGAC 58.183 37.500 9.62 3.81 31.51 3.18
7943 8285 5.588648 TCAAACGGAGACAAAAGATTTGACT 59.411 36.000 9.62 8.43 31.51 3.41
7944 8286 5.674933 AACGGAGACAAAAGATTTGACTC 57.325 39.130 19.75 19.75 39.36 3.36
7945 8287 4.703897 ACGGAGACAAAAGATTTGACTCA 58.296 39.130 25.16 0.00 40.95 3.41
7946 8288 5.308825 ACGGAGACAAAAGATTTGACTCAT 58.691 37.500 25.16 15.76 40.95 2.90
7947 8289 5.409826 ACGGAGACAAAAGATTTGACTCATC 59.590 40.000 25.16 14.46 40.95 2.92
7948 8290 5.409520 CGGAGACAAAAGATTTGACTCATCA 59.590 40.000 25.16 0.00 40.95 3.07
7949 8291 6.073058 CGGAGACAAAAGATTTGACTCATCAA 60.073 38.462 25.16 0.00 43.28 2.57
7950 8292 7.361542 CGGAGACAAAAGATTTGACTCATCAAT 60.362 37.037 25.16 1.17 44.36 2.57
7951 8293 8.302438 GGAGACAAAAGATTTGACTCATCAATT 58.698 33.333 25.16 0.62 44.36 2.32
7978 8320 8.814038 ATTAAGCATAAGAGAATTTGTCCAGT 57.186 30.769 0.00 0.00 0.00 4.00
7979 8321 8.635765 TTAAGCATAAGAGAATTTGTCCAGTT 57.364 30.769 0.00 0.00 0.00 3.16
7980 8322 9.733556 TTAAGCATAAGAGAATTTGTCCAGTTA 57.266 29.630 0.00 0.00 0.00 2.24
7981 8323 8.635765 AAGCATAAGAGAATTTGTCCAGTTAA 57.364 30.769 0.00 0.00 0.00 2.01
7982 8324 8.814038 AGCATAAGAGAATTTGTCCAGTTAAT 57.186 30.769 0.00 0.00 0.00 1.40
7983 8325 9.247861 AGCATAAGAGAATTTGTCCAGTTAATT 57.752 29.630 0.00 0.00 0.00 1.40
7984 8326 9.860898 GCATAAGAGAATTTGTCCAGTTAATTT 57.139 29.630 0.00 0.00 0.00 1.82
7995 8337 8.804688 TTGTCCAGTTAATTTATGAAAAACCG 57.195 30.769 0.00 0.00 0.00 4.44
7996 8338 7.371936 TGTCCAGTTAATTTATGAAAAACCGG 58.628 34.615 0.00 0.00 0.00 5.28
7997 8339 7.230913 TGTCCAGTTAATTTATGAAAAACCGGA 59.769 33.333 9.46 1.74 0.00 5.14
7998 8340 7.539710 GTCCAGTTAATTTATGAAAAACCGGAC 59.460 37.037 9.46 13.67 36.36 4.79
7999 8341 6.525280 CCAGTTAATTTATGAAAAACCGGACG 59.475 38.462 9.46 0.00 0.00 4.79
8000 8342 7.299586 CAGTTAATTTATGAAAAACCGGACGA 58.700 34.615 9.46 0.00 0.00 4.20
8001 8343 7.804129 CAGTTAATTTATGAAAAACCGGACGAA 59.196 33.333 9.46 0.00 0.00 3.85
8002 8344 8.351461 AGTTAATTTATGAAAAACCGGACGAAA 58.649 29.630 9.46 0.00 0.00 3.46
8003 8345 8.966194 GTTAATTTATGAAAAACCGGACGAAAA 58.034 29.630 9.46 0.00 0.00 2.29
8004 8346 6.996562 ATTTATGAAAAACCGGACGAAAAC 57.003 33.333 9.46 0.00 0.00 2.43
8005 8347 2.847959 TGAAAAACCGGACGAAAACC 57.152 45.000 9.46 0.00 0.00 3.27
8014 8356 2.624316 GGACGAAAACCGAAAATCCC 57.376 50.000 0.00 0.00 41.76 3.85
8015 8357 1.200716 GGACGAAAACCGAAAATCCCC 59.799 52.381 0.00 0.00 41.76 4.81
8016 8358 1.881324 GACGAAAACCGAAAATCCCCA 59.119 47.619 0.00 0.00 41.76 4.96
8017 8359 1.610038 ACGAAAACCGAAAATCCCCAC 59.390 47.619 0.00 0.00 41.76 4.61
8018 8360 1.883926 CGAAAACCGAAAATCCCCACT 59.116 47.619 0.00 0.00 41.76 4.00
8019 8361 2.295070 CGAAAACCGAAAATCCCCACTT 59.705 45.455 0.00 0.00 41.76 3.16
8041 8383 3.685139 TGACCTCTCAAATGTGGTCTC 57.315 47.619 14.18 0.00 46.50 3.36
8043 8385 4.416516 TGACCTCTCAAATGTGGTCTCTA 58.583 43.478 14.18 0.00 46.50 2.43
8154 8498 5.657474 ACATACACTTACCCTATGAACACG 58.343 41.667 0.00 0.00 0.00 4.49
8163 8507 2.076100 CCTATGAACACGCACACACAT 58.924 47.619 0.00 0.00 0.00 3.21
8183 8527 5.877012 CACATCCTACCCATATTATGAGCAC 59.123 44.000 5.21 0.00 0.00 4.40
8186 8530 5.162637 TCCTACCCATATTATGAGCACCTT 58.837 41.667 5.21 0.00 0.00 3.50
8217 8561 0.510359 CGTGCACTGTCTTGAGCTTC 59.490 55.000 16.19 0.00 0.00 3.86
8220 8564 0.250467 GCACTGTCTTGAGCTTCCCA 60.250 55.000 0.00 0.00 0.00 4.37
8230 8574 3.758172 GCTTCCCAGCGGTGAAAA 58.242 55.556 17.83 8.72 35.91 2.29
8248 8592 9.579768 CGGTGAAAATAATTAATGATGAACCAA 57.420 29.630 0.00 0.00 0.00 3.67
8252 8596 8.647143 AAAATAATTAATGATGAACCAAGCCG 57.353 30.769 0.00 0.00 0.00 5.52
8266 8610 1.562672 AAGCCGGGTTAGACCAGCAT 61.563 55.000 19.23 0.00 41.02 3.79
8319 8682 3.814005 AAACTAGGCCAGGTATACACG 57.186 47.619 5.01 0.00 0.00 4.49
8334 8697 5.068198 GGTATACACGTTCACCTCCATCTTA 59.932 44.000 5.01 0.00 0.00 2.10
8340 8703 3.446161 CGTTCACCTCCATCTTACTGGTA 59.554 47.826 0.00 0.00 37.57 3.25
8373 8736 2.185004 AACGATGAACCAGACAAGGG 57.815 50.000 0.00 0.00 0.00 3.95
8380 8743 1.932156 AACCAGACAAGGGGTGCACA 61.932 55.000 20.43 0.00 37.50 4.57
8427 9438 6.310764 TCCCGGTGTTGGAAGTAATTAATA 57.689 37.500 0.00 0.00 0.00 0.98
8442 9453 8.980481 AGTAATTAATAATGAACCAGGTCAGG 57.020 34.615 0.00 0.00 0.00 3.86
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
39 40 6.706055 ACAACACACTTCACTGAATATACG 57.294 37.500 0.00 0.00 0.00 3.06
40 41 7.861630 ACAACAACACACTTCACTGAATATAC 58.138 34.615 0.00 0.00 0.00 1.47
41 42 8.341903 CAACAACAACACACTTCACTGAATATA 58.658 33.333 0.00 0.00 0.00 0.86
42 43 6.942532 ACAACAACACACTTCACTGAATAT 57.057 33.333 0.00 0.00 0.00 1.28
223 240 4.458989 AGCACTAATTCTCATCCGCAAAAA 59.541 37.500 0.00 0.00 0.00 1.94
224 241 4.009675 AGCACTAATTCTCATCCGCAAAA 58.990 39.130 0.00 0.00 0.00 2.44
225 242 3.609853 AGCACTAATTCTCATCCGCAAA 58.390 40.909 0.00 0.00 0.00 3.68
226 243 3.266510 AGCACTAATTCTCATCCGCAA 57.733 42.857 0.00 0.00 0.00 4.85
227 244 2.988010 AGCACTAATTCTCATCCGCA 57.012 45.000 0.00 0.00 0.00 5.69
228 245 3.002759 GGAAAGCACTAATTCTCATCCGC 59.997 47.826 0.00 0.00 0.00 5.54
229 246 4.191544 TGGAAAGCACTAATTCTCATCCG 58.808 43.478 0.00 0.00 0.00 4.18
230 247 5.067023 CCTTGGAAAGCACTAATTCTCATCC 59.933 44.000 0.00 0.00 44.44 3.51
231 248 5.649831 ACCTTGGAAAGCACTAATTCTCATC 59.350 40.000 0.00 0.00 44.44 2.92
232 249 5.574188 ACCTTGGAAAGCACTAATTCTCAT 58.426 37.500 0.00 0.00 44.44 2.90
233 250 4.985538 ACCTTGGAAAGCACTAATTCTCA 58.014 39.130 0.00 0.00 44.44 3.27
234 251 7.554476 AGATTACCTTGGAAAGCACTAATTCTC 59.446 37.037 0.00 0.00 44.44 2.87
235 252 7.406104 AGATTACCTTGGAAAGCACTAATTCT 58.594 34.615 0.00 0.00 44.44 2.40
236 253 7.631717 AGATTACCTTGGAAAGCACTAATTC 57.368 36.000 0.00 0.00 44.44 2.17
237 254 7.830739 CAAGATTACCTTGGAAAGCACTAATT 58.169 34.615 0.00 0.00 46.54 1.40
238 255 7.396540 CAAGATTACCTTGGAAAGCACTAAT 57.603 36.000 0.00 0.00 46.54 1.73
239 256 6.817765 CAAGATTACCTTGGAAAGCACTAA 57.182 37.500 0.00 0.00 46.54 2.24
335 385 2.045926 AACACGCCTGCCTGATCC 60.046 61.111 0.00 0.00 0.00 3.36
385 435 2.154462 CTAATCATTGGGACGGATGGC 58.846 52.381 0.00 0.00 0.00 4.40
450 500 2.526304 AATGTGTATAGGCGTGCGAT 57.474 45.000 0.00 0.00 0.00 4.58
616 667 7.875041 GGTGTGCTTGTTGATATCATACTCTAT 59.125 37.037 6.17 0.00 0.00 1.98
617 668 7.069950 AGGTGTGCTTGTTGATATCATACTCTA 59.930 37.037 6.17 0.00 0.00 2.43
618 669 6.051717 GGTGTGCTTGTTGATATCATACTCT 58.948 40.000 6.17 0.00 0.00 3.24
619 670 6.051717 AGGTGTGCTTGTTGATATCATACTC 58.948 40.000 6.17 0.00 0.00 2.59
620 671 5.994250 AGGTGTGCTTGTTGATATCATACT 58.006 37.500 6.17 0.00 0.00 2.12
621 672 6.683974 AAGGTGTGCTTGTTGATATCATAC 57.316 37.500 6.17 8.40 0.00 2.39
766 817 2.937799 CTGCTGCTGATTTTCTCCTCTC 59.062 50.000 0.00 0.00 0.00 3.20
997 1058 4.477975 CCGTCCGTCCGTCTCTGC 62.478 72.222 0.00 0.00 0.00 4.26
1005 1066 4.112341 CTGTCCGTCCGTCCGTCC 62.112 72.222 0.00 0.00 0.00 4.79
1006 1067 3.052082 TCTGTCCGTCCGTCCGTC 61.052 66.667 0.00 0.00 0.00 4.79
1007 1068 3.360340 GTCTGTCCGTCCGTCCGT 61.360 66.667 0.00 0.00 0.00 4.69
1008 1069 3.324099 CTGTCTGTCCGTCCGTCCG 62.324 68.421 0.00 0.00 0.00 4.79
1009 1070 1.970114 TCTGTCTGTCCGTCCGTCC 60.970 63.158 0.00 0.00 0.00 4.79
1013 1074 0.523966 CTCTGTCTGTCTGTCCGTCC 59.476 60.000 0.00 0.00 0.00 4.79
1017 1078 2.091541 CCTCTCTCTGTCTGTCTGTCC 58.908 57.143 0.00 0.00 0.00 4.02
1077 1138 2.125326 CACTCTCGGCGGATGGGTA 61.125 63.158 7.21 0.00 0.00 3.69
1699 1774 1.079819 CGCACTCATCGAAGGTGGT 60.080 57.895 14.44 0.00 0.00 4.16
1700 1775 0.179100 ATCGCACTCATCGAAGGTGG 60.179 55.000 14.44 7.47 39.54 4.61
1827 1911 1.280710 TGGAATTAAGAAGCCGGAGCA 59.719 47.619 5.05 0.00 43.56 4.26
1833 1917 7.259290 TCAATAACGATGGAATTAAGAAGCC 57.741 36.000 0.00 0.00 0.00 4.35
1847 1931 4.821805 CAGCCCTAACCAATCAATAACGAT 59.178 41.667 0.00 0.00 0.00 3.73
1895 1979 0.250727 CCGGAAGTGGAGAAGGCAAA 60.251 55.000 0.00 0.00 0.00 3.68
1957 2041 2.224079 GTGAATCACGAGAAGCAAGCAA 59.776 45.455 0.00 0.00 0.00 3.91
1958 2042 1.800586 GTGAATCACGAGAAGCAAGCA 59.199 47.619 0.00 0.00 0.00 3.91
1959 2043 2.517321 GTGAATCACGAGAAGCAAGC 57.483 50.000 0.00 0.00 0.00 4.01
2002 2086 3.200593 CCTGCCTGTCAGCGATGC 61.201 66.667 0.00 0.00 41.50 3.91
2010 2094 1.001641 AATCCAGCACCTGCCTGTC 60.002 57.895 0.00 0.00 43.38 3.51
2019 2103 1.738030 GCAGCAAATCCAATCCAGCAC 60.738 52.381 0.00 0.00 0.00 4.40
2117 2201 5.415077 CAGAGGATGAAGGCATAATGGATTC 59.585 44.000 0.00 0.00 34.11 2.52
2141 2225 2.351060 CCGGACTTTAAAAACGCTTCCC 60.351 50.000 0.00 0.00 0.00 3.97
2148 2232 5.772825 AACCCTAACCGGACTTTAAAAAC 57.227 39.130 9.46 0.00 33.16 2.43
2159 2243 5.447757 TCCCAATATTAAAACCCTAACCGG 58.552 41.667 0.00 0.00 0.00 5.28
2186 2270 3.840666 TCAAGGAGTGCTAGTTTGATCCT 59.159 43.478 0.00 0.00 38.82 3.24
2292 2376 4.523083 ACGGCACCACATATTGTAATTCT 58.477 39.130 0.00 0.00 0.00 2.40
2327 2411 2.555325 CAGGCATGATTTCACACAGTGT 59.445 45.455 0.00 0.00 34.79 3.55
2329 2413 3.144657 TCAGGCATGATTTCACACAGT 57.855 42.857 0.00 0.00 0.00 3.55
2368 2452 1.396301 GAGAAGGCAATGCAGAAGACG 59.604 52.381 7.79 0.00 0.00 4.18
2395 2479 2.817258 TGTTTTGATAGGGACGGCAAAG 59.183 45.455 0.00 0.00 32.55 2.77
2467 2551 1.174078 TGACCCGACGACTACAAGCA 61.174 55.000 0.00 0.00 0.00 3.91
2553 2637 6.265577 GCAAAAATACCATCCAGACATACAC 58.734 40.000 0.00 0.00 0.00 2.90
2555 2639 5.505654 CGGCAAAAATACCATCCAGACATAC 60.506 44.000 0.00 0.00 0.00 2.39
2633 2717 3.568007 GCGAAAATACCATCCAGCCATAA 59.432 43.478 0.00 0.00 0.00 1.90
2653 2737 2.456989 ACATACATAGTCGAAACGGCG 58.543 47.619 4.80 4.80 36.23 6.46
2735 2819 6.243148 AGAGAAAAGGCCCTCGTTTTTATAA 58.757 36.000 0.00 0.00 39.51 0.98
2807 2891 3.920231 TTTGCATCAGTCCTGCTAGAT 57.080 42.857 0.00 0.00 40.34 1.98
3033 3117 3.372206 CGCTCCTGAAAATGTGTAGGAAG 59.628 47.826 0.00 0.00 38.75 3.46
3204 3288 7.769970 TCAGAAGGACAAAATTCTTGCAAAAAT 59.230 29.630 0.00 0.00 33.51 1.82
3247 3363 6.293955 GCCTGACAAAGCAGTAAAGAATTACA 60.294 38.462 2.01 0.00 43.20 2.41
3582 3699 2.025605 TCAGATCCATCAGCTGGCTTTT 60.026 45.455 15.13 0.00 45.52 2.27
3814 3931 3.081804 TGTCTCATCAGAGTAAGACGCA 58.918 45.455 0.00 0.00 42.66 5.24
3961 4078 2.225293 ACTACAGTTCCCACTCCTGCTA 60.225 50.000 0.00 0.00 0.00 3.49
3995 4112 4.863491 ACACAATCATTTCTGAACAGTGC 58.137 39.130 1.73 0.00 36.10 4.40
4123 4243 2.156917 TGAAAATCACTGCCTCTGCTG 58.843 47.619 0.00 0.00 41.75 4.41
4168 4288 7.594015 CACATTGACATTTTCCTCTCTTTTCTG 59.406 37.037 0.00 0.00 0.00 3.02
4237 4357 5.288804 CGGCCAGTATATTTTTCATTTGGG 58.711 41.667 2.24 0.00 0.00 4.12
4409 4529 4.518211 ACTTGCTCCTGATTCAAAGAACTG 59.482 41.667 2.80 0.00 0.00 3.16
4412 4532 4.516698 GTGACTTGCTCCTGATTCAAAGAA 59.483 41.667 2.80 0.00 0.00 2.52
4413 4533 4.067896 GTGACTTGCTCCTGATTCAAAGA 58.932 43.478 2.80 0.00 0.00 2.52
4903 5029 4.844267 CTTCAACAAAAGGAGTTACACCG 58.156 43.478 0.00 0.00 0.00 4.94
5491 5617 1.078285 TCCATGAGCATGCGCAGAA 60.078 52.632 27.78 13.65 42.27 3.02
5601 5727 5.303165 TCAATAGCCATGCTTAGATCAGTG 58.697 41.667 0.00 0.00 40.44 3.66
5677 5804 8.902540 ACATGAATACTTTACAAGAACTGACA 57.097 30.769 0.00 0.00 0.00 3.58
5729 5856 9.219603 GCACTCATAAAACCATATAAGCATCTA 57.780 33.333 0.00 0.00 0.00 1.98
5797 5924 8.865753 CTGTTCATAATAAGAACTGTCAAACG 57.134 34.615 9.37 0.00 44.30 3.60
5827 5954 1.241315 TTAAGCTTCCTTGCCCGCAC 61.241 55.000 0.00 0.00 32.47 5.34
5969 6135 7.756395 ATCATCCCTTAACTATTTGCATCAG 57.244 36.000 0.00 0.00 0.00 2.90
6330 6612 2.768492 CCAAGAAGCCGGATGCAGC 61.768 63.158 5.05 0.00 44.83 5.25
6407 6689 4.150627 CGATCAACAAGTGTCCAGTAACAG 59.849 45.833 0.00 0.00 0.00 3.16
6413 6695 1.800586 CCACGATCAACAAGTGTCCAG 59.199 52.381 0.00 0.00 34.34 3.86
6607 6889 4.655963 ACCTTGTCATTGTAACTCTGCAT 58.344 39.130 0.00 0.00 0.00 3.96
6745 7029 0.396974 ACAAACTTTGGCCAGGCAGA 60.397 50.000 15.19 0.00 34.12 4.26
6817 7101 1.429930 TGGACCTTGCTGTTAGACCA 58.570 50.000 0.00 0.00 0.00 4.02
6818 7102 2.789409 ATGGACCTTGCTGTTAGACC 57.211 50.000 0.00 0.00 0.00 3.85
6893 7178 1.597854 CCTCCACAACTTCAGCGCA 60.598 57.895 11.47 0.00 0.00 6.09
7042 7327 4.809193 AGTCTTCTCCAGGATGTAGCATA 58.191 43.478 0.00 0.00 0.00 3.14
7220 7511 8.954350 GTGTCTAGTAGGTTAGAATGTCACTTA 58.046 37.037 0.00 0.00 31.80 2.24
7221 7512 7.093858 GGTGTCTAGTAGGTTAGAATGTCACTT 60.094 40.741 0.00 0.00 31.80 3.16
7446 7743 1.933853 ACTAGTTCCGCATTTCATCGC 59.066 47.619 0.00 0.00 0.00 4.58
7503 7800 1.442526 CTAGCGATGCCTTGCTTGGG 61.443 60.000 9.18 0.00 42.38 4.12
7512 7821 2.408050 CTACCAATGTCTAGCGATGCC 58.592 52.381 0.00 0.00 0.00 4.40
7513 7822 2.408050 CCTACCAATGTCTAGCGATGC 58.592 52.381 0.00 0.00 0.00 3.91
7514 7823 2.224042 TGCCTACCAATGTCTAGCGATG 60.224 50.000 0.00 0.00 0.00 3.84
7515 7824 2.039418 TGCCTACCAATGTCTAGCGAT 58.961 47.619 0.00 0.00 0.00 4.58
7516 7825 1.480789 TGCCTACCAATGTCTAGCGA 58.519 50.000 0.00 0.00 0.00 4.93
7517 7826 2.533266 ATGCCTACCAATGTCTAGCG 57.467 50.000 0.00 0.00 0.00 4.26
7518 7827 3.243201 GCAAATGCCTACCAATGTCTAGC 60.243 47.826 0.00 0.00 34.31 3.42
7519 7828 3.947196 TGCAAATGCCTACCAATGTCTAG 59.053 43.478 2.46 0.00 41.18 2.43
7520 7829 3.961849 TGCAAATGCCTACCAATGTCTA 58.038 40.909 2.46 0.00 41.18 2.59
7521 7830 2.806434 TGCAAATGCCTACCAATGTCT 58.194 42.857 2.46 0.00 41.18 3.41
7522 7831 3.806625 ATGCAAATGCCTACCAATGTC 57.193 42.857 2.46 0.00 41.18 3.06
7523 7832 4.255301 CAAATGCAAATGCCTACCAATGT 58.745 39.130 2.46 0.00 41.18 2.71
7576 7885 6.363473 CAAACATAAGAGGTTTCGACTTGAC 58.637 40.000 0.00 0.00 36.38 3.18
7637 7946 6.555315 ACAAAAACTTGTGATCTTGTGACTC 58.445 36.000 0.00 0.00 33.23 3.36
7639 7948 7.461416 CGAAACAAAAACTTGTGATCTTGTGAC 60.461 37.037 0.00 0.00 34.99 3.67
7640 7949 6.526325 CGAAACAAAAACTTGTGATCTTGTGA 59.474 34.615 0.00 0.00 34.99 3.58
7660 7974 6.526674 ACTTTGTGACATTCTCAAAACGAAAC 59.473 34.615 0.00 0.00 38.75 2.78
7661 7975 6.616947 ACTTTGTGACATTCTCAAAACGAAA 58.383 32.000 0.00 0.00 38.75 3.46
7662 7976 6.189677 ACTTTGTGACATTCTCAAAACGAA 57.810 33.333 0.00 0.00 38.75 3.85
7663 7977 5.811399 ACTTTGTGACATTCTCAAAACGA 57.189 34.783 0.00 0.00 38.75 3.85
7664 7978 6.869421 AAACTTTGTGACATTCTCAAAACG 57.131 33.333 5.27 0.00 38.75 3.60
7691 8008 4.356289 AAACAATACGTTCTGGCAACAAC 58.644 39.130 0.00 0.00 42.05 3.32
7693 8010 4.142359 ACAAAACAATACGTTCTGGCAACA 60.142 37.500 0.00 0.00 40.65 3.33
7694 8011 4.356289 ACAAAACAATACGTTCTGGCAAC 58.644 39.130 0.00 0.00 36.59 4.17
7696 8013 5.057819 TCTACAAAACAATACGTTCTGGCA 58.942 37.500 0.00 0.00 36.59 4.92
7697 8014 5.600908 TCTACAAAACAATACGTTCTGGC 57.399 39.130 0.00 0.00 36.59 4.85
7698 8015 6.017770 TGGTTCTACAAAACAATACGTTCTGG 60.018 38.462 0.00 0.00 36.59 3.86
7699 8016 6.849305 GTGGTTCTACAAAACAATACGTTCTG 59.151 38.462 0.00 0.00 36.59 3.02
7700 8017 6.539464 TGTGGTTCTACAAAACAATACGTTCT 59.461 34.615 0.00 0.00 36.59 3.01
7707 8025 3.630312 AGCGTGTGGTTCTACAAAACAAT 59.370 39.130 0.00 0.00 31.36 2.71
7716 8034 2.036604 TCATTGTGAGCGTGTGGTTCTA 59.963 45.455 0.00 0.00 0.00 2.10
7766 8084 1.471119 TAGAGCGACTAAGGTGGGTG 58.529 55.000 0.00 0.00 32.39 4.61
7767 8085 2.456073 ATAGAGCGACTAAGGTGGGT 57.544 50.000 0.00 0.00 34.56 4.51
7775 8093 2.492012 GAGACCGGAATAGAGCGACTA 58.508 52.381 9.46 0.00 35.42 2.59
7776 8094 1.310904 GAGACCGGAATAGAGCGACT 58.689 55.000 9.46 0.00 0.00 4.18
7777 8095 0.311477 GGAGACCGGAATAGAGCGAC 59.689 60.000 9.46 0.00 0.00 5.19
7819 8157 3.179433 CTGCTTTGACAGTCGACGA 57.821 52.632 10.46 0.00 32.78 4.20
7834 8172 1.459450 TCCGGGCTCATTTAAACTGC 58.541 50.000 0.00 0.00 0.00 4.40
7851 8189 1.209383 GTCCTTTTCGGCGCTTTCC 59.791 57.895 7.64 0.00 0.00 3.13
7858 8196 1.005394 TCAGGTCGTCCTTTTCGGC 60.005 57.895 0.00 0.00 43.07 5.54
7859 8197 0.601558 TCTCAGGTCGTCCTTTTCGG 59.398 55.000 0.00 0.00 43.07 4.30
7871 8209 2.288640 CGAGTACCCGTTTTTCTCAGGT 60.289 50.000 0.00 0.00 34.52 4.00
7873 8211 2.029649 TCCGAGTACCCGTTTTTCTCAG 60.030 50.000 0.00 0.00 0.00 3.35
7882 8220 1.677942 GATCTCTTCCGAGTACCCGT 58.322 55.000 0.00 0.00 38.45 5.28
7888 8226 2.182516 ATTGGGGATCTCTTCCGAGT 57.817 50.000 0.00 0.00 46.52 4.18
7918 8260 5.909610 GTCAAATCTTTTGTCTCCGTTTGAG 59.090 40.000 0.00 0.00 42.90 3.02
7919 8261 5.588648 AGTCAAATCTTTTGTCTCCGTTTGA 59.411 36.000 0.00 0.00 33.30 2.69
7920 8262 5.821204 AGTCAAATCTTTTGTCTCCGTTTG 58.179 37.500 0.39 0.00 0.00 2.93
7921 8263 5.588648 TGAGTCAAATCTTTTGTCTCCGTTT 59.411 36.000 18.06 0.00 34.98 3.60
7922 8264 5.123227 TGAGTCAAATCTTTTGTCTCCGTT 58.877 37.500 18.06 0.00 34.98 4.44
7923 8265 4.703897 TGAGTCAAATCTTTTGTCTCCGT 58.296 39.130 18.06 0.00 34.98 4.69
7924 8266 5.409520 TGATGAGTCAAATCTTTTGTCTCCG 59.590 40.000 18.06 0.00 34.98 4.63
7925 8267 6.808008 TGATGAGTCAAATCTTTTGTCTCC 57.192 37.500 18.06 9.14 34.98 3.71
7952 8294 9.247861 ACTGGACAAATTCTCTTATGCTTAATT 57.752 29.630 0.00 0.00 0.00 1.40
7953 8295 8.814038 ACTGGACAAATTCTCTTATGCTTAAT 57.186 30.769 0.00 0.00 0.00 1.40
7954 8296 8.635765 AACTGGACAAATTCTCTTATGCTTAA 57.364 30.769 0.00 0.00 0.00 1.85
7955 8297 9.733556 TTAACTGGACAAATTCTCTTATGCTTA 57.266 29.630 0.00 0.00 0.00 3.09
7956 8298 8.635765 TTAACTGGACAAATTCTCTTATGCTT 57.364 30.769 0.00 0.00 0.00 3.91
7957 8299 8.814038 ATTAACTGGACAAATTCTCTTATGCT 57.186 30.769 0.00 0.00 0.00 3.79
7958 8300 9.860898 AAATTAACTGGACAAATTCTCTTATGC 57.139 29.630 0.00 0.00 0.00 3.14
7969 8311 9.250624 CGGTTTTTCATAAATTAACTGGACAAA 57.749 29.630 0.00 0.00 0.00 2.83
7970 8312 7.868415 CCGGTTTTTCATAAATTAACTGGACAA 59.132 33.333 6.95 0.00 32.98 3.18
7971 8313 7.230913 TCCGGTTTTTCATAAATTAACTGGACA 59.769 33.333 10.29 0.00 34.42 4.02
7972 8314 7.539710 GTCCGGTTTTTCATAAATTAACTGGAC 59.460 37.037 21.62 21.62 43.66 4.02
7973 8315 7.573469 CGTCCGGTTTTTCATAAATTAACTGGA 60.573 37.037 10.29 10.29 35.87 3.86
7974 8316 6.525280 CGTCCGGTTTTTCATAAATTAACTGG 59.475 38.462 0.00 6.55 32.69 4.00
7975 8317 7.299586 TCGTCCGGTTTTTCATAAATTAACTG 58.700 34.615 0.00 0.00 0.00 3.16
7976 8318 7.437793 TCGTCCGGTTTTTCATAAATTAACT 57.562 32.000 0.00 0.00 0.00 2.24
7977 8319 8.504812 TTTCGTCCGGTTTTTCATAAATTAAC 57.495 30.769 0.00 0.00 0.00 2.01
7978 8320 8.966194 GTTTTCGTCCGGTTTTTCATAAATTAA 58.034 29.630 0.00 0.00 0.00 1.40
7979 8321 7.594386 GGTTTTCGTCCGGTTTTTCATAAATTA 59.406 33.333 0.00 0.00 0.00 1.40
7980 8322 6.421501 GGTTTTCGTCCGGTTTTTCATAAATT 59.578 34.615 0.00 0.00 0.00 1.82
7981 8323 5.921976 GGTTTTCGTCCGGTTTTTCATAAAT 59.078 36.000 0.00 0.00 0.00 1.40
7982 8324 5.280164 GGTTTTCGTCCGGTTTTTCATAAA 58.720 37.500 0.00 0.00 0.00 1.40
7983 8325 4.554330 CGGTTTTCGTCCGGTTTTTCATAA 60.554 41.667 0.00 0.00 43.68 1.90
7984 8326 3.059051 CGGTTTTCGTCCGGTTTTTCATA 60.059 43.478 0.00 0.00 43.68 2.15
7985 8327 2.287129 CGGTTTTCGTCCGGTTTTTCAT 60.287 45.455 0.00 0.00 43.68 2.57
7986 8328 1.063764 CGGTTTTCGTCCGGTTTTTCA 59.936 47.619 0.00 0.00 43.68 2.69
7987 8329 1.330213 TCGGTTTTCGTCCGGTTTTTC 59.670 47.619 0.00 0.00 46.82 2.29
7988 8330 1.377536 TCGGTTTTCGTCCGGTTTTT 58.622 45.000 0.00 0.00 46.82 1.94
7989 8331 1.377536 TTCGGTTTTCGTCCGGTTTT 58.622 45.000 0.00 0.00 46.82 2.43
7990 8332 1.377536 TTTCGGTTTTCGTCCGGTTT 58.622 45.000 0.00 0.00 46.82 3.27
7991 8333 1.377536 TTTTCGGTTTTCGTCCGGTT 58.622 45.000 0.00 0.00 46.82 4.44
7992 8334 1.532437 GATTTTCGGTTTTCGTCCGGT 59.468 47.619 0.00 0.00 46.82 5.28
7993 8335 1.135888 GGATTTTCGGTTTTCGTCCGG 60.136 52.381 0.00 0.00 46.82 5.14
7995 8337 1.200716 GGGGATTTTCGGTTTTCGTCC 59.799 52.381 0.00 0.00 40.32 4.79
7996 8338 1.881324 TGGGGATTTTCGGTTTTCGTC 59.119 47.619 0.00 0.00 40.32 4.20
7997 8339 1.610038 GTGGGGATTTTCGGTTTTCGT 59.390 47.619 0.00 0.00 40.32 3.85
7998 8340 1.883926 AGTGGGGATTTTCGGTTTTCG 59.116 47.619 0.00 0.00 40.90 3.46
7999 8341 4.330944 AAAGTGGGGATTTTCGGTTTTC 57.669 40.909 0.00 0.00 0.00 2.29
8000 8342 4.162509 TCAAAAGTGGGGATTTTCGGTTTT 59.837 37.500 0.00 0.00 0.00 2.43
8001 8343 3.707102 TCAAAAGTGGGGATTTTCGGTTT 59.293 39.130 0.00 0.00 0.00 3.27
8002 8344 3.069016 GTCAAAAGTGGGGATTTTCGGTT 59.931 43.478 0.00 0.00 0.00 4.44
8003 8345 2.626266 GTCAAAAGTGGGGATTTTCGGT 59.374 45.455 0.00 0.00 0.00 4.69
8004 8346 2.029380 GGTCAAAAGTGGGGATTTTCGG 60.029 50.000 0.00 0.00 0.00 4.30
8005 8347 2.890945 AGGTCAAAAGTGGGGATTTTCG 59.109 45.455 0.00 0.00 0.00 3.46
8006 8348 4.152647 AGAGGTCAAAAGTGGGGATTTTC 58.847 43.478 0.00 0.00 0.00 2.29
8007 8349 4.152647 GAGAGGTCAAAAGTGGGGATTTT 58.847 43.478 0.00 0.00 0.00 1.82
8008 8350 3.140144 TGAGAGGTCAAAAGTGGGGATTT 59.860 43.478 0.00 0.00 0.00 2.17
8009 8351 2.716424 TGAGAGGTCAAAAGTGGGGATT 59.284 45.455 0.00 0.00 0.00 3.01
8010 8352 2.348472 TGAGAGGTCAAAAGTGGGGAT 58.652 47.619 0.00 0.00 0.00 3.85
8011 8353 1.814429 TGAGAGGTCAAAAGTGGGGA 58.186 50.000 0.00 0.00 0.00 4.81
8012 8354 2.656947 TTGAGAGGTCAAAAGTGGGG 57.343 50.000 0.00 0.00 39.85 4.96
8068 8410 7.860373 TGTGTTTAAGAAAAATCAAGTCGGATG 59.140 33.333 0.00 0.00 0.00 3.51
8139 8481 2.037381 TGTGTGCGTGTTCATAGGGTAA 59.963 45.455 0.00 0.00 0.00 2.85
8140 8482 1.619332 TGTGTGCGTGTTCATAGGGTA 59.381 47.619 0.00 0.00 0.00 3.69
8150 8492 0.320421 GGTAGGATGTGTGTGCGTGT 60.320 55.000 0.00 0.00 0.00 4.49
8154 8498 3.492102 ATATGGGTAGGATGTGTGTGC 57.508 47.619 0.00 0.00 0.00 4.57
8163 8507 4.763355 AGGTGCTCATAATATGGGTAGGA 58.237 43.478 1.72 0.00 31.83 2.94
8197 8541 1.502163 AAGCTCAAGACAGTGCACGC 61.502 55.000 12.01 6.07 0.00 5.34
8217 8561 6.142818 TCATTAATTATTTTCACCGCTGGG 57.857 37.500 0.00 0.00 40.11 4.45
8220 8564 7.920682 GGTTCATCATTAATTATTTTCACCGCT 59.079 33.333 0.00 0.00 0.00 5.52
8227 8571 7.710475 CCGGCTTGGTTCATCATTAATTATTTT 59.290 33.333 0.00 0.00 0.00 1.82
8230 8574 5.243730 CCCGGCTTGGTTCATCATTAATTAT 59.756 40.000 0.00 0.00 35.15 1.28
8252 8596 2.482326 GCACATGCTGGTCTAACCC 58.518 57.895 0.00 0.00 37.50 4.11
8296 8659 5.364735 ACGTGTATACCTGGCCTAGTTTATT 59.635 40.000 3.32 0.00 0.00 1.40
8314 8677 4.082408 CAGTAAGATGGAGGTGAACGTGTA 60.082 45.833 0.00 0.00 0.00 2.90
8319 8682 3.983044 ACCAGTAAGATGGAGGTGAAC 57.017 47.619 0.00 0.00 43.57 3.18
8334 8697 7.524717 TCGTTAGTTACCTAAACTTACCAGT 57.475 36.000 0.00 0.00 46.61 4.00
8340 8703 7.444299 TGGTTCATCGTTAGTTACCTAAACTT 58.556 34.615 0.00 0.00 46.61 2.66
8356 8719 0.324943 ACCCCTTGTCTGGTTCATCG 59.675 55.000 0.00 0.00 0.00 3.84
8380 8743 0.107508 CGGGGAAGACAGTGATGCAT 60.108 55.000 0.00 0.00 0.00 3.96
8385 8748 0.832135 AAGCTCGGGGAAGACAGTGA 60.832 55.000 0.00 0.00 0.00 3.41
8412 8775 9.762381 ACCTGGTTCATTATTAATTACTTCCAA 57.238 29.630 0.00 0.00 0.00 3.53
8427 9438 2.338809 TCTGACCTGACCTGGTTCATT 58.661 47.619 0.00 0.00 41.00 2.57
8442 9453 2.432456 TGCACGTGCGGATCTGAC 60.432 61.111 33.22 6.56 45.83 3.51


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

AutoCloner maintained by Alex Coulton.