Multiple sequence alignment - TraesCS7B01G389800

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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 TraesCS7B01G389800 chr7B 100.000 3014 0 0 1 3014 656418867 656421880 0.000000e+00 5566.0
1 TraesCS7B01G389800 chr7B 85.505 1642 138 52 528 2129 656286347 656287928 0.000000e+00 1622.0
2 TraesCS7B01G389800 chr7B 96.724 580 18 1 2435 3014 104245008 104245586 0.000000e+00 965.0
3 TraesCS7B01G389800 chr7B 77.079 541 56 39 528 1048 656274561 656275053 1.790000e-62 250.0
4 TraesCS7B01G389800 chr7B 84.737 190 14 9 862 1048 656245148 656245325 3.090000e-40 176.0
5 TraesCS7B01G389800 chr7D 87.523 1635 113 49 528 2129 585666482 585668058 0.000000e+00 1805.0
6 TraesCS7B01G389800 chr7D 90.215 1022 83 9 994 2014 586029356 586030361 0.000000e+00 1317.0
7 TraesCS7B01G389800 chr7D 91.493 670 27 19 187 838 586028613 586029270 0.000000e+00 894.0
8 TraesCS7B01G389800 chr7D 86.947 452 42 7 1683 2129 585657006 585657445 2.700000e-135 492.0
9 TraesCS7B01G389800 chr7D 90.270 185 13 3 2 184 586028179 586028360 1.400000e-58 237.0
10 TraesCS7B01G389800 chr7D 83.871 93 8 6 860 948 586029267 586029356 6.930000e-12 82.4
11 TraesCS7B01G389800 chr7A 87.537 1356 88 40 185 1511 677387152 677388455 0.000000e+00 1493.0
12 TraesCS7B01G389800 chr7A 84.329 1640 119 55 528 2129 676361061 676359522 0.000000e+00 1478.0
13 TraesCS7B01G389800 chr7A 86.535 1010 95 20 1130 2129 676517623 676518601 0.000000e+00 1074.0
14 TraesCS7B01G389800 chr7A 84.934 1135 80 45 538 1644 682176244 682175173 0.000000e+00 1064.0
15 TraesCS7B01G389800 chr7A 84.455 1010 116 19 1130 2129 676539464 676540442 0.000000e+00 957.0
16 TraesCS7B01G389800 chr7A 87.912 455 36 7 1682 2129 682175177 682174735 4.450000e-143 518.0
17 TraesCS7B01G389800 chr7A 90.057 352 28 5 1505 1851 677433468 677433817 1.650000e-122 449.0
18 TraesCS7B01G389800 chr7A 82.773 476 25 28 437 906 676514739 676515163 3.670000e-99 372.0
19 TraesCS7B01G389800 chr7A 86.971 307 14 8 2125 2431 677434454 677434734 3.750000e-84 322.0
20 TraesCS7B01G389800 chr7A 76.967 521 66 33 528 1042 676305670 676306142 6.450000e-62 248.0
21 TraesCS7B01G389800 chr7A 88.442 199 18 4 10 203 677280376 677280574 5.020000e-58 235.0
22 TraesCS7B01G389800 chr7A 94.245 139 6 2 1013 1150 676516549 676516686 8.470000e-51 211.0
23 TraesCS7B01G389800 chr5B 95.230 587 24 2 2432 3014 458926326 458926912 0.000000e+00 926.0
24 TraesCS7B01G389800 chr5B 91.223 376 31 2 2433 2806 419524426 419524801 7.450000e-141 510.0
25 TraesCS7B01G389800 chr3B 95.189 582 19 2 2433 3014 44292358 44291786 0.000000e+00 911.0
26 TraesCS7B01G389800 chr2B 94.845 582 27 3 2434 3014 699045676 699046255 0.000000e+00 905.0
27 TraesCS7B01G389800 chr1B 92.808 584 30 7 2434 3014 668439980 668439406 0.000000e+00 835.0
28 TraesCS7B01G389800 chr4B 89.347 582 33 9 2434 3014 7048373 7048926 0.000000e+00 704.0
29 TraesCS7B01G389800 chr4D 93.333 390 21 3 2437 2821 305964607 305964218 3.370000e-159 571.0
30 TraesCS7B01G389800 chr3A 89.260 419 30 11 2434 2847 711471100 711471508 7.450000e-141 510.0
31 TraesCS7B01G389800 chr1D 81.556 450 52 21 861 1303 487948935 487949360 2.880000e-90 342.0
32 TraesCS7B01G389800 chr1D 81.481 351 46 13 986 1319 487910434 487910782 1.380000e-68 270.0
33 TraesCS7B01G389800 chr1D 95.327 107 2 2 2911 3014 302691562 302691668 1.860000e-37 167.0
34 TraesCS7B01G389800 chr1A 82.466 365 45 13 972 1319 586937562 586937924 4.880000e-78 302.0
35 TraesCS7B01G389800 chr1A 96.154 104 4 0 2911 3014 377208473 377208576 1.440000e-38 171.0
36 TraesCS7B01G389800 chr2D 93.269 104 7 0 2911 3014 92835232 92835129 1.450000e-33 154.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7B01G389800 chr7B 656418867 656421880 3013 False 5566.000000 5566 100.00000 1 3014 1 chr7B.!!$F5 3013
1 TraesCS7B01G389800 chr7B 656286347 656287928 1581 False 1622.000000 1622 85.50500 528 2129 1 chr7B.!!$F4 1601
2 TraesCS7B01G389800 chr7B 104245008 104245586 578 False 965.000000 965 96.72400 2435 3014 1 chr7B.!!$F1 579
3 TraesCS7B01G389800 chr7D 585666482 585668058 1576 False 1805.000000 1805 87.52300 528 2129 1 chr7D.!!$F2 1601
4 TraesCS7B01G389800 chr7D 586028179 586030361 2182 False 632.600000 1317 88.96225 2 2014 4 chr7D.!!$F3 2012
5 TraesCS7B01G389800 chr7A 677387152 677388455 1303 False 1493.000000 1493 87.53700 185 1511 1 chr7A.!!$F4 1326
6 TraesCS7B01G389800 chr7A 676359522 676361061 1539 True 1478.000000 1478 84.32900 528 2129 1 chr7A.!!$R1 1601
7 TraesCS7B01G389800 chr7A 676539464 676540442 978 False 957.000000 957 84.45500 1130 2129 1 chr7A.!!$F2 999
8 TraesCS7B01G389800 chr7A 682174735 682176244 1509 True 791.000000 1064 86.42300 538 2129 2 chr7A.!!$R2 1591
9 TraesCS7B01G389800 chr7A 676514739 676518601 3862 False 552.333333 1074 87.85100 437 2129 3 chr7A.!!$F5 1692
10 TraesCS7B01G389800 chr7A 677433468 677434734 1266 False 385.500000 449 88.51400 1505 2431 2 chr7A.!!$F6 926
11 TraesCS7B01G389800 chr5B 458926326 458926912 586 False 926.000000 926 95.23000 2432 3014 1 chr5B.!!$F2 582
12 TraesCS7B01G389800 chr3B 44291786 44292358 572 True 911.000000 911 95.18900 2433 3014 1 chr3B.!!$R1 581
13 TraesCS7B01G389800 chr2B 699045676 699046255 579 False 905.000000 905 94.84500 2434 3014 1 chr2B.!!$F1 580
14 TraesCS7B01G389800 chr1B 668439406 668439980 574 True 835.000000 835 92.80800 2434 3014 1 chr1B.!!$R1 580
15 TraesCS7B01G389800 chr4B 7048373 7048926 553 False 704.000000 704 89.34700 2434 3014 1 chr4B.!!$F1 580

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
20 21 0.179225 GCTCACGCGTGTATGTTTGG 60.179 55.0 35.74 17.71 0.0 3.28 F
1128 2823 0.178915 TCGAGGGGTTCAAGAAGGGA 60.179 55.0 0.00 0.00 0.0 4.20 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1576 4237 0.106769 TGCTCTTCCTTGTGGTTGCA 60.107 50.0 0.0 0.0 34.23 4.08 R
2262 5424 0.025513 GCTCACACAGAAATAGCGCG 59.974 55.0 0.0 0.0 0.00 6.86 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
19 20 3.274196 GCTCACGCGTGTATGTTTG 57.726 52.632 35.74 18.98 0.00 2.93
20 21 0.179225 GCTCACGCGTGTATGTTTGG 60.179 55.000 35.74 17.71 0.00 3.28
21 22 1.144969 CTCACGCGTGTATGTTTGGT 58.855 50.000 35.74 0.00 0.00 3.67
23 24 1.527736 TCACGCGTGTATGTTTGGTTC 59.472 47.619 35.74 0.00 0.00 3.62
24 25 0.509499 ACGCGTGTATGTTTGGTTCG 59.491 50.000 12.93 0.00 0.00 3.95
25 26 0.787908 CGCGTGTATGTTTGGTTCGC 60.788 55.000 0.00 0.00 39.03 4.70
26 27 0.515564 GCGTGTATGTTTGGTTCGCT 59.484 50.000 0.00 0.00 39.26 4.93
27 28 1.724654 GCGTGTATGTTTGGTTCGCTG 60.725 52.381 0.00 0.00 39.26 5.18
45 46 1.670811 CTGGAAGAAACGTGTGTGCTT 59.329 47.619 0.00 0.00 34.07 3.91
96 99 0.391130 GTACGACAGATGCAAGCCCA 60.391 55.000 0.00 0.00 0.00 5.36
101 104 0.675633 ACAGATGCAAGCCCACAAAC 59.324 50.000 0.00 0.00 0.00 2.93
112 115 2.094234 AGCCCACAAACAAACAGACAAC 60.094 45.455 0.00 0.00 0.00 3.32
120 123 4.637483 AACAAACAGACAACTCCACATG 57.363 40.909 0.00 0.00 0.00 3.21
173 176 1.645710 CATAGGGGATCCGGCTAGTT 58.354 55.000 5.45 0.00 38.33 2.24
175 178 2.185663 TAGGGGATCCGGCTAGTTTT 57.814 50.000 5.45 0.00 38.33 2.43
306 561 2.358898 AGGCTGACACAACAAACATGTC 59.641 45.455 0.00 0.00 42.54 3.06
335 590 8.618677 GTGTCATCTGATGTCACATAAATGAAT 58.381 33.333 29.95 0.00 44.81 2.57
470 732 4.241590 TGTGCCATTTTTCACAAGCTAG 57.758 40.909 0.00 0.00 39.91 3.42
471 733 2.989166 GTGCCATTTTTCACAAGCTAGC 59.011 45.455 6.62 6.62 33.63 3.42
513 775 6.043411 AGTGAGATAAAAGTAAGATGGCGAC 58.957 40.000 0.00 0.00 0.00 5.19
611 879 1.183030 ACCATGCACAGCACAGCAAT 61.183 50.000 0.00 0.00 44.88 3.56
634 908 5.308825 TCATTCTTTCTTCCTTTCTTCGCT 58.691 37.500 0.00 0.00 0.00 4.93
635 909 5.765182 TCATTCTTTCTTCCTTTCTTCGCTT 59.235 36.000 0.00 0.00 0.00 4.68
637 911 4.065789 TCTTTCTTCCTTTCTTCGCTTCC 58.934 43.478 0.00 0.00 0.00 3.46
638 912 2.474410 TCTTCCTTTCTTCGCTTCCC 57.526 50.000 0.00 0.00 0.00 3.97
649 927 2.203126 GCTTCCCCTCGCTCCATG 60.203 66.667 0.00 0.00 0.00 3.66
666 944 0.842635 ATGGCTAGCTTCCCTCCAAG 59.157 55.000 15.72 0.00 0.00 3.61
742 1023 2.729467 CGAGTATGCTATGGCTACGCTC 60.729 54.545 1.68 4.33 39.59 5.03
748 1035 1.336424 GCTATGGCTACGCTCCTTCTC 60.336 57.143 0.00 0.00 35.22 2.87
858 1187 1.139989 CAGCACGACCTACACAAGTG 58.860 55.000 0.00 0.00 36.05 3.16
888 1217 0.809636 CGACGCATCATGCCAACCTA 60.810 55.000 3.38 0.00 41.12 3.08
921 1263 6.266330 TCATCTCACCTCTCGATCACAATAAT 59.734 38.462 0.00 0.00 0.00 1.28
925 1267 6.042777 TCACCTCTCGATCACAATAATTCAC 58.957 40.000 0.00 0.00 0.00 3.18
926 1268 5.812127 CACCTCTCGATCACAATAATTCACA 59.188 40.000 0.00 0.00 0.00 3.58
927 1269 6.313658 CACCTCTCGATCACAATAATTCACAA 59.686 38.462 0.00 0.00 0.00 3.33
928 1270 6.313905 ACCTCTCGATCACAATAATTCACAAC 59.686 38.462 0.00 0.00 0.00 3.32
946 1292 0.827507 ACCACCATCAACCAGCCAAC 60.828 55.000 0.00 0.00 0.00 3.77
987 1333 1.677552 GTCCACCACGATTCCCTGT 59.322 57.895 0.00 0.00 0.00 4.00
1128 2823 0.178915 TCGAGGGGTTCAAGAAGGGA 60.179 55.000 0.00 0.00 0.00 4.20
1224 3876 0.183492 TGCACAAGGTCTTCCAGCTT 59.817 50.000 0.00 0.00 44.02 3.74
1436 4088 1.200839 CAACCAAAGACGTCGACGC 59.799 57.895 35.92 27.05 44.43 5.19
1481 4142 2.591429 CGACAGCACCACCAAGCA 60.591 61.111 0.00 0.00 0.00 3.91
1599 4260 0.250640 ACCACAAGGAAGAGCAGCAG 60.251 55.000 0.00 0.00 38.69 4.24
1726 4390 0.673644 CACCGGCGAGAAGGACAAAT 60.674 55.000 9.30 0.00 0.00 2.32
1729 4393 0.736325 CGGCGAGAAGGACAAATCGT 60.736 55.000 0.00 0.00 37.49 3.73
1735 4399 3.120649 CGAGAAGGACAAATCGTTGGTTC 60.121 47.826 0.00 0.00 39.22 3.62
1738 4402 1.871039 AGGACAAATCGTTGGTTCACG 59.129 47.619 0.00 0.00 39.22 4.35
1773 4437 2.031163 GGAGTTGGACAGCGCAGT 59.969 61.111 11.47 8.04 0.00 4.40
1953 5094 1.227823 CAACAAGGAGGTGGTCGCA 60.228 57.895 0.00 0.00 0.00 5.10
2021 5162 2.574006 TTCAGGAAGTGAGCAGCAAT 57.426 45.000 0.00 0.00 36.21 3.56
2022 5163 1.817357 TCAGGAAGTGAGCAGCAATG 58.183 50.000 0.00 0.00 0.00 2.82
2035 5188 1.464219 CAGCAATGCATGTCACGTACA 59.536 47.619 8.35 0.00 43.86 2.90
2037 5190 1.786575 GCAATGCATGTCACGTACACG 60.787 52.381 0.00 0.00 42.09 4.49
2038 5191 1.724082 CAATGCATGTCACGTACACGA 59.276 47.619 9.04 0.00 42.09 4.35
2099 5256 7.346208 TCTGTGATTAAAGTGTACATTGACG 57.654 36.000 0.00 0.00 0.00 4.35
2100 5257 7.149307 TCTGTGATTAAAGTGTACATTGACGA 58.851 34.615 0.00 0.00 0.00 4.20
2103 5265 8.613482 TGTGATTAAAGTGTACATTGACGAAAA 58.387 29.630 0.00 0.00 0.00 2.29
2129 5291 8.742554 AAACATGTAAAGCTATTTGTGTAAGC 57.257 30.769 0.00 0.00 36.48 3.09
2130 5292 6.852664 ACATGTAAAGCTATTTGTGTAAGCC 58.147 36.000 0.00 0.00 36.92 4.35
2131 5293 5.539582 TGTAAAGCTATTTGTGTAAGCCG 57.460 39.130 0.00 0.00 36.92 5.52
2132 5294 3.487563 AAAGCTATTTGTGTAAGCCGC 57.512 42.857 0.00 0.00 36.92 6.53
2133 5295 2.107950 AGCTATTTGTGTAAGCCGCA 57.892 45.000 0.00 0.00 36.92 5.69
2134 5296 2.432444 AGCTATTTGTGTAAGCCGCAA 58.568 42.857 0.00 0.00 41.66 4.85
2135 5297 2.161609 AGCTATTTGTGTAAGCCGCAAC 59.838 45.455 0.00 0.00 43.00 4.17
2136 5298 2.095466 GCTATTTGTGTAAGCCGCAACA 60.095 45.455 0.00 0.00 43.00 3.33
2137 5299 2.704725 ATTTGTGTAAGCCGCAACAG 57.295 45.000 0.00 0.00 43.00 3.16
2138 5300 1.669604 TTTGTGTAAGCCGCAACAGA 58.330 45.000 0.00 0.00 43.00 3.41
2139 5301 1.890876 TTGTGTAAGCCGCAACAGAT 58.109 45.000 0.00 0.00 38.60 2.90
2140 5302 2.753055 TGTGTAAGCCGCAACAGATA 57.247 45.000 0.00 0.00 0.00 1.98
2141 5303 3.260475 TGTGTAAGCCGCAACAGATAT 57.740 42.857 0.00 0.00 0.00 1.63
2142 5304 2.935849 TGTGTAAGCCGCAACAGATATG 59.064 45.455 0.00 0.00 0.00 1.78
2143 5305 3.194861 GTGTAAGCCGCAACAGATATGA 58.805 45.455 0.00 0.00 0.00 2.15
2144 5306 3.621268 GTGTAAGCCGCAACAGATATGAA 59.379 43.478 0.00 0.00 0.00 2.57
2145 5307 3.621268 TGTAAGCCGCAACAGATATGAAC 59.379 43.478 0.00 0.00 0.00 3.18
2146 5308 2.401583 AGCCGCAACAGATATGAACA 57.598 45.000 0.00 0.00 0.00 3.18
2147 5309 2.710377 AGCCGCAACAGATATGAACAA 58.290 42.857 0.00 0.00 0.00 2.83
2148 5310 3.081061 AGCCGCAACAGATATGAACAAA 58.919 40.909 0.00 0.00 0.00 2.83
2149 5311 3.119849 AGCCGCAACAGATATGAACAAAC 60.120 43.478 0.00 0.00 0.00 2.93
2150 5312 3.365868 GCCGCAACAGATATGAACAAACA 60.366 43.478 0.00 0.00 0.00 2.83
2151 5313 4.675146 GCCGCAACAGATATGAACAAACAT 60.675 41.667 0.00 0.00 0.00 2.71
2152 5314 4.794762 CCGCAACAGATATGAACAAACATG 59.205 41.667 0.00 0.00 0.00 3.21
2153 5315 5.393124 CGCAACAGATATGAACAAACATGT 58.607 37.500 0.00 0.00 0.00 3.21
2154 5316 5.509272 CGCAACAGATATGAACAAACATGTC 59.491 40.000 0.00 0.00 38.21 3.06
2155 5317 6.380995 GCAACAGATATGAACAAACATGTCA 58.619 36.000 0.00 0.00 39.62 3.58
2156 5318 6.306356 GCAACAGATATGAACAAACATGTCAC 59.694 38.462 0.00 0.00 39.62 3.67
2157 5319 6.169419 ACAGATATGAACAAACATGTCACG 57.831 37.500 0.00 0.00 39.62 4.35
2158 5320 5.700832 ACAGATATGAACAAACATGTCACGT 59.299 36.000 0.00 0.00 39.62 4.49
2159 5321 6.871492 ACAGATATGAACAAACATGTCACGTA 59.129 34.615 0.00 0.00 39.62 3.57
2160 5322 7.148639 ACAGATATGAACAAACATGTCACGTAC 60.149 37.037 0.00 0.00 39.62 3.67
2161 5323 6.871492 AGATATGAACAAACATGTCACGTACA 59.129 34.615 0.00 0.00 43.86 2.90
2162 5324 4.523853 TGAACAAACATGTCACGTACAC 57.476 40.909 0.00 0.00 42.09 2.90
2163 5325 3.000423 TGAACAAACATGTCACGTACACG 60.000 43.478 0.00 0.00 42.09 4.49
2164 5326 2.811855 ACAAACATGTCACGTACACGA 58.188 42.857 9.04 0.00 42.09 4.35
2165 5327 3.188492 ACAAACATGTCACGTACACGAA 58.812 40.909 9.04 0.00 42.09 3.85
2166 5328 3.000523 ACAAACATGTCACGTACACGAAC 59.999 43.478 9.04 6.90 42.09 3.95
2167 5329 2.495409 ACATGTCACGTACACGAACA 57.505 45.000 9.04 12.03 42.09 3.18
2168 5330 2.811855 ACATGTCACGTACACGAACAA 58.188 42.857 9.04 0.00 42.09 2.83
2169 5331 3.386486 ACATGTCACGTACACGAACAAT 58.614 40.909 9.04 3.35 42.09 2.71
2170 5332 3.183574 ACATGTCACGTACACGAACAATG 59.816 43.478 9.04 12.82 42.09 2.82
2171 5333 2.128821 TGTCACGTACACGAACAATGG 58.871 47.619 9.04 0.00 43.02 3.16
2172 5334 1.458064 GTCACGTACACGAACAATGGG 59.542 52.381 9.04 0.00 43.02 4.00
2173 5335 1.068895 TCACGTACACGAACAATGGGT 59.931 47.619 9.04 0.00 43.02 4.51
2174 5336 2.295629 TCACGTACACGAACAATGGGTA 59.704 45.455 9.04 0.00 43.02 3.69
2175 5337 3.058450 CACGTACACGAACAATGGGTAA 58.942 45.455 9.04 0.00 43.02 2.85
2176 5338 3.493877 CACGTACACGAACAATGGGTAAA 59.506 43.478 9.04 0.00 43.02 2.01
2177 5339 4.152759 CACGTACACGAACAATGGGTAAAT 59.847 41.667 9.04 0.00 43.02 1.40
2178 5340 4.152759 ACGTACACGAACAATGGGTAAATG 59.847 41.667 9.04 0.00 43.02 2.32
2179 5341 4.152759 CGTACACGAACAATGGGTAAATGT 59.847 41.667 0.00 0.00 43.02 2.71
2180 5342 4.497473 ACACGAACAATGGGTAAATGTG 57.503 40.909 0.00 0.00 0.00 3.21
2181 5343 3.886505 ACACGAACAATGGGTAAATGTGT 59.113 39.130 0.00 0.00 33.57 3.72
2182 5344 5.064558 ACACGAACAATGGGTAAATGTGTA 58.935 37.500 0.00 0.00 36.38 2.90
2183 5345 5.180492 ACACGAACAATGGGTAAATGTGTAG 59.820 40.000 0.00 0.00 36.38 2.74
2184 5346 5.180492 CACGAACAATGGGTAAATGTGTAGT 59.820 40.000 0.00 0.00 0.00 2.73
2185 5347 5.180492 ACGAACAATGGGTAAATGTGTAGTG 59.820 40.000 0.00 0.00 0.00 2.74
2186 5348 5.410132 CGAACAATGGGTAAATGTGTAGTGA 59.590 40.000 0.00 0.00 0.00 3.41
2187 5349 6.072948 CGAACAATGGGTAAATGTGTAGTGAA 60.073 38.462 0.00 0.00 0.00 3.18
2188 5350 6.817765 ACAATGGGTAAATGTGTAGTGAAG 57.182 37.500 0.00 0.00 0.00 3.02
2189 5351 6.303839 ACAATGGGTAAATGTGTAGTGAAGT 58.696 36.000 0.00 0.00 0.00 3.01
2190 5352 7.455058 ACAATGGGTAAATGTGTAGTGAAGTA 58.545 34.615 0.00 0.00 0.00 2.24
2191 5353 7.940137 ACAATGGGTAAATGTGTAGTGAAGTAA 59.060 33.333 0.00 0.00 0.00 2.24
2192 5354 8.788806 CAATGGGTAAATGTGTAGTGAAGTAAA 58.211 33.333 0.00 0.00 0.00 2.01
2193 5355 7.972832 TGGGTAAATGTGTAGTGAAGTAAAG 57.027 36.000 0.00 0.00 0.00 1.85
2194 5356 7.737869 TGGGTAAATGTGTAGTGAAGTAAAGA 58.262 34.615 0.00 0.00 0.00 2.52
2195 5357 8.380099 TGGGTAAATGTGTAGTGAAGTAAAGAT 58.620 33.333 0.00 0.00 0.00 2.40
2196 5358 8.665685 GGGTAAATGTGTAGTGAAGTAAAGATG 58.334 37.037 0.00 0.00 0.00 2.90
2197 5359 8.665685 GGTAAATGTGTAGTGAAGTAAAGATGG 58.334 37.037 0.00 0.00 0.00 3.51
2198 5360 9.216117 GTAAATGTGTAGTGAAGTAAAGATGGT 57.784 33.333 0.00 0.00 0.00 3.55
2199 5361 8.691661 AAATGTGTAGTGAAGTAAAGATGGTT 57.308 30.769 0.00 0.00 0.00 3.67
2200 5362 7.672983 ATGTGTAGTGAAGTAAAGATGGTTG 57.327 36.000 0.00 0.00 0.00 3.77
2201 5363 6.588204 TGTGTAGTGAAGTAAAGATGGTTGT 58.412 36.000 0.00 0.00 0.00 3.32
2202 5364 6.481976 TGTGTAGTGAAGTAAAGATGGTTGTG 59.518 38.462 0.00 0.00 0.00 3.33
2203 5365 6.482308 GTGTAGTGAAGTAAAGATGGTTGTGT 59.518 38.462 0.00 0.00 0.00 3.72
2204 5366 6.481976 TGTAGTGAAGTAAAGATGGTTGTGTG 59.518 38.462 0.00 0.00 0.00 3.82
2205 5367 5.680619 AGTGAAGTAAAGATGGTTGTGTGA 58.319 37.500 0.00 0.00 0.00 3.58
2206 5368 6.299141 AGTGAAGTAAAGATGGTTGTGTGAT 58.701 36.000 0.00 0.00 0.00 3.06
2207 5369 6.772716 AGTGAAGTAAAGATGGTTGTGTGATT 59.227 34.615 0.00 0.00 0.00 2.57
2208 5370 6.857964 GTGAAGTAAAGATGGTTGTGTGATTG 59.142 38.462 0.00 0.00 0.00 2.67
2209 5371 6.770303 TGAAGTAAAGATGGTTGTGTGATTGA 59.230 34.615 0.00 0.00 0.00 2.57
2210 5372 7.284261 TGAAGTAAAGATGGTTGTGTGATTGAA 59.716 33.333 0.00 0.00 0.00 2.69
2211 5373 7.765695 AGTAAAGATGGTTGTGTGATTGAAT 57.234 32.000 0.00 0.00 0.00 2.57
2212 5374 8.181904 AGTAAAGATGGTTGTGTGATTGAATT 57.818 30.769 0.00 0.00 0.00 2.17
2213 5375 8.084073 AGTAAAGATGGTTGTGTGATTGAATTG 58.916 33.333 0.00 0.00 0.00 2.32
2214 5376 6.409524 AAGATGGTTGTGTGATTGAATTGT 57.590 33.333 0.00 0.00 0.00 2.71
2215 5377 7.523293 AAGATGGTTGTGTGATTGAATTGTA 57.477 32.000 0.00 0.00 0.00 2.41
2216 5378 6.913170 AGATGGTTGTGTGATTGAATTGTAC 58.087 36.000 0.00 0.00 0.00 2.90
2217 5379 6.489700 AGATGGTTGTGTGATTGAATTGTACA 59.510 34.615 0.00 0.00 0.00 2.90
2218 5380 6.647334 TGGTTGTGTGATTGAATTGTACAT 57.353 33.333 0.00 0.00 0.00 2.29
2219 5381 7.048629 TGGTTGTGTGATTGAATTGTACATT 57.951 32.000 0.00 0.00 0.00 2.71
2220 5382 6.922407 TGGTTGTGTGATTGAATTGTACATTG 59.078 34.615 0.00 0.00 0.00 2.82
2221 5383 7.144661 GGTTGTGTGATTGAATTGTACATTGA 58.855 34.615 0.00 0.00 0.00 2.57
2222 5384 7.114811 GGTTGTGTGATTGAATTGTACATTGAC 59.885 37.037 0.00 0.00 0.00 3.18
2223 5385 7.269477 TGTGTGATTGAATTGTACATTGACA 57.731 32.000 0.00 0.00 0.00 3.58
2224 5386 7.138081 TGTGTGATTGAATTGTACATTGACAC 58.862 34.615 0.00 0.00 36.80 3.67
2225 5387 6.582295 GTGTGATTGAATTGTACATTGACACC 59.418 38.462 0.00 0.00 33.36 4.16
2226 5388 5.794945 GTGATTGAATTGTACATTGACACCG 59.205 40.000 0.00 0.00 0.00 4.94
2227 5389 3.822594 TGAATTGTACATTGACACCGC 57.177 42.857 0.00 0.00 0.00 5.68
2228 5390 2.486203 TGAATTGTACATTGACACCGCC 59.514 45.455 0.00 0.00 0.00 6.13
2229 5391 2.192664 ATTGTACATTGACACCGCCA 57.807 45.000 0.00 0.00 0.00 5.69
2230 5392 1.968704 TTGTACATTGACACCGCCAA 58.031 45.000 0.00 0.00 0.00 4.52
2231 5393 1.968704 TGTACATTGACACCGCCAAA 58.031 45.000 0.00 0.00 0.00 3.28
2232 5394 2.298610 TGTACATTGACACCGCCAAAA 58.701 42.857 0.00 0.00 0.00 2.44
2233 5395 2.292016 TGTACATTGACACCGCCAAAAG 59.708 45.455 0.00 0.00 0.00 2.27
2234 5396 0.031994 ACATTGACACCGCCAAAAGC 59.968 50.000 0.00 0.00 38.52 3.51
2235 5397 0.667184 CATTGACACCGCCAAAAGCC 60.667 55.000 0.00 0.00 38.78 4.35
2236 5398 1.815817 ATTGACACCGCCAAAAGCCC 61.816 55.000 0.00 0.00 38.78 5.19
2237 5399 2.597510 GACACCGCCAAAAGCCCT 60.598 61.111 0.00 0.00 38.78 5.19
2238 5400 2.597510 ACACCGCCAAAAGCCCTC 60.598 61.111 0.00 0.00 38.78 4.30
2239 5401 2.597217 CACCGCCAAAAGCCCTCA 60.597 61.111 0.00 0.00 38.78 3.86
2240 5402 2.597510 ACCGCCAAAAGCCCTCAC 60.598 61.111 0.00 0.00 38.78 3.51
2241 5403 2.597217 CCGCCAAAAGCCCTCACA 60.597 61.111 0.00 0.00 38.78 3.58
2242 5404 1.978617 CCGCCAAAAGCCCTCACAT 60.979 57.895 0.00 0.00 38.78 3.21
2243 5405 1.535204 CCGCCAAAAGCCCTCACATT 61.535 55.000 0.00 0.00 38.78 2.71
2244 5406 0.388907 CGCCAAAAGCCCTCACATTG 60.389 55.000 0.00 0.00 38.78 2.82
2245 5407 0.968405 GCCAAAAGCCCTCACATTGA 59.032 50.000 0.00 0.00 34.35 2.57
2246 5408 1.337167 GCCAAAAGCCCTCACATTGAC 60.337 52.381 0.00 0.00 34.35 3.18
2247 5409 1.962807 CCAAAAGCCCTCACATTGACA 59.037 47.619 0.00 0.00 0.00 3.58
2248 5410 2.288395 CCAAAAGCCCTCACATTGACAC 60.288 50.000 0.00 0.00 0.00 3.67
2249 5411 2.361757 CAAAAGCCCTCACATTGACACA 59.638 45.455 0.00 0.00 0.00 3.72
2250 5412 2.363306 AAGCCCTCACATTGACACAA 57.637 45.000 0.00 0.00 0.00 3.33
2251 5413 1.609208 AGCCCTCACATTGACACAAC 58.391 50.000 0.00 0.00 0.00 3.32
2252 5414 1.133823 AGCCCTCACATTGACACAACA 60.134 47.619 0.00 0.00 0.00 3.33
2253 5415 1.680735 GCCCTCACATTGACACAACAA 59.319 47.619 0.00 0.00 0.00 2.83
2254 5416 2.100584 GCCCTCACATTGACACAACAAA 59.899 45.455 0.00 0.00 33.44 2.83
2255 5417 3.705604 CCCTCACATTGACACAACAAAC 58.294 45.455 0.00 0.00 33.44 2.93
2256 5418 3.130164 CCCTCACATTGACACAACAAACA 59.870 43.478 0.00 0.00 33.44 2.83
2257 5419 4.202141 CCCTCACATTGACACAACAAACAT 60.202 41.667 0.00 0.00 33.44 2.71
2258 5420 4.741185 CCTCACATTGACACAACAAACATG 59.259 41.667 0.00 0.00 33.44 3.21
2259 5421 5.321959 TCACATTGACACAACAAACATGT 57.678 34.783 0.00 0.00 33.44 3.21
2265 5427 3.525059 ACAACAAACATGTGACGCG 57.475 47.368 3.53 3.53 0.00 6.01
2266 5428 0.591236 ACAACAAACATGTGACGCGC 60.591 50.000 5.73 0.00 0.00 6.86
2267 5429 0.316937 CAACAAACATGTGACGCGCT 60.317 50.000 5.73 0.00 0.00 5.92
2268 5430 1.070242 CAACAAACATGTGACGCGCTA 60.070 47.619 5.73 0.00 0.00 4.26
2269 5431 1.438651 ACAAACATGTGACGCGCTAT 58.561 45.000 5.73 0.00 0.00 2.97
2270 5432 1.804151 ACAAACATGTGACGCGCTATT 59.196 42.857 5.73 0.00 0.00 1.73
2271 5433 2.225491 ACAAACATGTGACGCGCTATTT 59.775 40.909 5.73 0.00 0.00 1.40
2272 5434 2.806288 AACATGTGACGCGCTATTTC 57.194 45.000 5.73 0.00 0.00 2.17
2273 5435 2.010145 ACATGTGACGCGCTATTTCT 57.990 45.000 5.73 0.00 0.00 2.52
2274 5436 1.660607 ACATGTGACGCGCTATTTCTG 59.339 47.619 5.73 0.00 0.00 3.02
2275 5437 1.660607 CATGTGACGCGCTATTTCTGT 59.339 47.619 5.73 0.00 0.00 3.41
2342 5504 5.830991 TCATAACTGGCTACAACCAAAGTTT 59.169 36.000 0.00 0.00 39.86 2.66
2364 5526 4.619973 TGCAAAAGTTAGCATTTCCACTG 58.380 39.130 0.00 0.00 35.51 3.66
2374 5536 4.922206 AGCATTTCCACTGGTGAAATCTA 58.078 39.130 1.93 0.00 0.00 1.98
2730 5896 5.104735 GGTTCATCTTATCTTCACCAGGTCT 60.105 44.000 0.00 0.00 0.00 3.85
2738 5904 0.538057 TTCACCAGGTCTACCGTCGT 60.538 55.000 0.00 0.00 42.08 4.34
2936 6130 2.713770 GCGTCATCCTCGTCGCTA 59.286 61.111 0.00 0.00 44.28 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.144969 ACCAAACATACACGCGTGAG 58.855 50.000 42.94 31.15 0.00 3.51
3 4 1.527736 GAACCAAACATACACGCGTGA 59.472 47.619 42.94 26.87 0.00 4.35
4 5 1.720233 CGAACCAAACATACACGCGTG 60.720 52.381 35.99 35.99 0.00 5.34
5 6 0.509499 CGAACCAAACATACACGCGT 59.491 50.000 5.58 5.58 0.00 6.01
7 8 0.515564 AGCGAACCAAACATACACGC 59.484 50.000 0.00 0.00 43.84 5.34
8 9 1.136085 CCAGCGAACCAAACATACACG 60.136 52.381 0.00 0.00 0.00 4.49
9 10 2.147958 TCCAGCGAACCAAACATACAC 58.852 47.619 0.00 0.00 0.00 2.90
10 11 2.552599 TCCAGCGAACCAAACATACA 57.447 45.000 0.00 0.00 0.00 2.29
11 12 3.071479 TCTTCCAGCGAACCAAACATAC 58.929 45.455 0.00 0.00 0.00 2.39
12 13 3.410631 TCTTCCAGCGAACCAAACATA 57.589 42.857 0.00 0.00 0.00 2.29
13 14 2.270352 TCTTCCAGCGAACCAAACAT 57.730 45.000 0.00 0.00 0.00 2.71
16 17 1.332375 CGTTTCTTCCAGCGAACCAAA 59.668 47.619 0.00 0.00 0.00 3.28
17 18 0.941542 CGTTTCTTCCAGCGAACCAA 59.058 50.000 0.00 0.00 0.00 3.67
19 20 0.234884 CACGTTTCTTCCAGCGAACC 59.765 55.000 0.00 0.00 0.00 3.62
20 21 0.935196 ACACGTTTCTTCCAGCGAAC 59.065 50.000 0.00 0.00 0.00 3.95
21 22 0.934496 CACACGTTTCTTCCAGCGAA 59.066 50.000 0.00 0.00 0.00 4.70
23 24 0.042188 CACACACGTTTCTTCCAGCG 60.042 55.000 0.00 0.00 0.00 5.18
24 25 0.317020 GCACACACGTTTCTTCCAGC 60.317 55.000 0.00 0.00 0.00 4.85
25 26 1.299541 AGCACACACGTTTCTTCCAG 58.700 50.000 0.00 0.00 0.00 3.86
26 27 1.400142 CAAGCACACACGTTTCTTCCA 59.600 47.619 0.00 0.00 0.00 3.53
27 28 1.268539 CCAAGCACACACGTTTCTTCC 60.269 52.381 0.00 0.00 0.00 3.46
45 46 5.022787 AGAGCAATAATAAAGTTTGCCCCA 58.977 37.500 0.00 0.00 45.27 4.96
67 68 3.665323 GCATCTGTCGTACAAAACAGCAG 60.665 47.826 12.78 9.57 42.10 4.24
96 99 3.823873 TGTGGAGTTGTCTGTTTGTTTGT 59.176 39.130 0.00 0.00 0.00 2.83
101 104 2.620115 AGCATGTGGAGTTGTCTGTTTG 59.380 45.455 0.00 0.00 0.00 2.93
112 115 0.106569 TATGGGCCAAGCATGTGGAG 60.107 55.000 11.89 0.00 41.65 3.86
120 123 1.114627 CTTTTCCCTATGGGCCAAGC 58.885 55.000 11.89 0.00 43.94 4.01
191 444 8.964420 ACATCAAACAACCGTTATATCAAAAG 57.036 30.769 0.00 0.00 33.99 2.27
335 590 9.562408 ACTCATCTAGACGAGATATAGTTTGAA 57.438 33.333 22.00 0.00 43.52 2.69
513 775 3.993736 TGTTCACATACTGTTCACATCGG 59.006 43.478 0.00 0.00 0.00 4.18
561 823 1.066605 GCCAAGCTAACTCGGTCGATA 59.933 52.381 0.00 0.00 0.00 2.92
611 879 5.308825 AGCGAAGAAAGGAAGAAAGAATGA 58.691 37.500 0.00 0.00 0.00 2.57
634 908 2.889521 TAGCCATGGAGCGAGGGGAA 62.890 60.000 18.40 0.00 38.01 3.97
635 909 3.389139 TAGCCATGGAGCGAGGGGA 62.389 63.158 18.40 0.00 38.01 4.81
637 911 2.739784 CTAGCCATGGAGCGAGGG 59.260 66.667 18.40 0.00 38.01 4.30
638 912 2.030262 GCTAGCCATGGAGCGAGG 59.970 66.667 18.40 0.00 36.16 4.63
649 927 0.179234 GACTTGGAGGGAAGCTAGCC 59.821 60.000 12.13 0.00 0.00 3.93
666 944 1.660167 GTGCGGTAGGGTAAATGGAC 58.340 55.000 0.00 0.00 0.00 4.02
742 1023 4.256110 TGCATTCATGTACTGTGAGAAGG 58.744 43.478 0.00 0.00 0.00 3.46
782 1079 4.393990 AGGAAATCGTTGGACGGAATTAAC 59.606 41.667 0.27 0.00 42.81 2.01
858 1187 4.548916 GCATGATGCGTCGTGTATATATGC 60.549 45.833 25.24 16.26 42.25 3.14
888 1217 2.569404 GAGAGGTGAGATGAGTTTGGGT 59.431 50.000 0.00 0.00 0.00 4.51
921 1263 2.305928 CTGGTTGATGGTGGTTGTGAA 58.694 47.619 0.00 0.00 0.00 3.18
925 1267 0.827089 TGGCTGGTTGATGGTGGTTG 60.827 55.000 0.00 0.00 0.00 3.77
926 1268 0.105760 TTGGCTGGTTGATGGTGGTT 60.106 50.000 0.00 0.00 0.00 3.67
927 1269 0.827507 GTTGGCTGGTTGATGGTGGT 60.828 55.000 0.00 0.00 0.00 4.16
928 1270 1.535204 GGTTGGCTGGTTGATGGTGG 61.535 60.000 0.00 0.00 0.00 4.61
946 1292 1.556451 TGCGATGGATAGATGGATGGG 59.444 52.381 0.00 0.00 0.00 4.00
987 1333 1.437573 CGCCATGAGGAAGCGTAGA 59.562 57.895 5.29 0.00 44.65 2.59
1128 2823 1.757306 CACCTGCACCCTGAAGTCT 59.243 57.895 0.00 0.00 0.00 3.24
1336 3988 4.865365 CCTCTTAATCTCCTCGACAACAAC 59.135 45.833 0.00 0.00 0.00 3.32
1337 3989 4.081642 CCCTCTTAATCTCCTCGACAACAA 60.082 45.833 0.00 0.00 0.00 2.83
1341 3993 3.664551 TCCCTCTTAATCTCCTCGACA 57.335 47.619 0.00 0.00 0.00 4.35
1436 4088 2.510238 CCGCCTTCTTCTCGCTGG 60.510 66.667 0.00 0.00 0.00 4.85
1481 4142 3.309296 TCCTTGGCGATCTCTTCCTTAT 58.691 45.455 0.00 0.00 0.00 1.73
1576 4237 0.106769 TGCTCTTCCTTGTGGTTGCA 60.107 50.000 0.00 0.00 34.23 4.08
1599 4260 3.330267 CTCTGGTTCTGGTGTTAGCTTC 58.670 50.000 0.00 0.00 0.00 3.86
1606 4267 1.407656 TTCGCCTCTGGTTCTGGTGT 61.408 55.000 0.00 0.00 33.50 4.16
1671 4335 2.985847 GCCAGCTTTTCGGGTGCT 60.986 61.111 0.00 0.00 37.56 4.40
1709 4373 1.421410 CGATTTGTCCTTCTCGCCGG 61.421 60.000 0.00 0.00 0.00 6.13
1729 4393 0.832135 AGGCTCTCCTCGTGAACCAA 60.832 55.000 0.00 0.00 38.72 3.67
1735 4399 4.504916 CGCCAGGCTCTCCTCGTG 62.505 72.222 10.54 0.00 41.93 4.35
1755 4419 2.031012 CTGCGCTGTCCAACTCCA 59.969 61.111 9.73 0.00 0.00 3.86
1761 4425 2.440385 CTTCCTCACTGCGCTGTCCA 62.440 60.000 17.75 6.21 0.00 4.02
1762 4426 1.739562 CTTCCTCACTGCGCTGTCC 60.740 63.158 17.75 0.00 0.00 4.02
1773 4437 1.271597 GCCTTGGCTTTCTCTTCCTCA 60.272 52.381 4.11 0.00 0.00 3.86
1878 5019 3.385384 TCCGTCAGCTGCTCCAGG 61.385 66.667 9.47 7.58 31.21 4.45
1953 5094 0.745845 AGAAAGCAGCGATGGCGATT 60.746 50.000 1.46 0.00 46.35 3.34
2021 5162 0.594110 TCTCGTGTACGTGACATGCA 59.406 50.000 0.00 0.00 43.72 3.96
2022 5163 1.385743 GTTCTCGTGTACGTGACATGC 59.614 52.381 8.47 0.00 43.72 4.06
2035 5188 4.843728 ACATATTCACCCATTGTTCTCGT 58.156 39.130 0.00 0.00 0.00 4.18
2037 5190 7.047891 TCAGTACATATTCACCCATTGTTCTC 58.952 38.462 0.00 0.00 0.00 2.87
2038 5191 6.957631 TCAGTACATATTCACCCATTGTTCT 58.042 36.000 0.00 0.00 0.00 3.01
2076 5233 7.346208 TCGTCAATGTACACTTTAATCACAG 57.654 36.000 0.00 0.00 0.00 3.66
2103 5265 9.191995 GCTTACACAAATAGCTTTACATGTTTT 57.808 29.630 2.30 0.00 32.26 2.43
2129 5291 4.418013 TGTTTGTTCATATCTGTTGCGG 57.582 40.909 0.00 0.00 0.00 5.69
2130 5292 5.393124 ACATGTTTGTTCATATCTGTTGCG 58.607 37.500 0.00 0.00 29.55 4.85
2131 5293 6.306356 GTGACATGTTTGTTCATATCTGTTGC 59.694 38.462 0.00 0.00 35.79 4.17
2132 5294 6.520790 CGTGACATGTTTGTTCATATCTGTTG 59.479 38.462 0.00 0.00 35.79 3.33
2133 5295 6.204688 ACGTGACATGTTTGTTCATATCTGTT 59.795 34.615 0.00 0.00 35.79 3.16
2134 5296 5.700832 ACGTGACATGTTTGTTCATATCTGT 59.299 36.000 0.00 0.00 35.79 3.41
2135 5297 6.169419 ACGTGACATGTTTGTTCATATCTG 57.831 37.500 0.00 0.00 35.79 2.90
2136 5298 6.871492 TGTACGTGACATGTTTGTTCATATCT 59.129 34.615 5.45 0.00 35.79 1.98
2137 5299 6.953743 GTGTACGTGACATGTTTGTTCATATC 59.046 38.462 5.45 0.00 41.14 1.63
2138 5300 6.400621 CGTGTACGTGACATGTTTGTTCATAT 60.401 38.462 5.45 0.00 41.14 1.78
2139 5301 5.107798 CGTGTACGTGACATGTTTGTTCATA 60.108 40.000 5.45 0.00 41.14 2.15
2140 5302 4.318475 CGTGTACGTGACATGTTTGTTCAT 60.318 41.667 5.45 0.00 41.14 2.57
2141 5303 3.000423 CGTGTACGTGACATGTTTGTTCA 60.000 43.478 5.45 0.69 41.14 3.18
2142 5304 3.243410 TCGTGTACGTGACATGTTTGTTC 59.757 43.478 5.45 0.00 44.30 3.18
2143 5305 3.188492 TCGTGTACGTGACATGTTTGTT 58.812 40.909 5.45 0.00 44.30 2.83
2144 5306 2.811855 TCGTGTACGTGACATGTTTGT 58.188 42.857 5.45 1.63 44.30 2.83
2145 5307 3.000423 TGTTCGTGTACGTGACATGTTTG 60.000 43.478 5.45 0.00 44.30 2.93
2146 5308 3.188492 TGTTCGTGTACGTGACATGTTT 58.812 40.909 5.45 0.00 44.30 2.83
2147 5309 2.811855 TGTTCGTGTACGTGACATGTT 58.188 42.857 5.45 0.00 44.30 2.71
2148 5310 2.495409 TGTTCGTGTACGTGACATGT 57.505 45.000 0.00 0.00 44.30 3.21
2149 5311 3.422993 CCATTGTTCGTGTACGTGACATG 60.423 47.826 0.00 4.75 45.18 3.21
2150 5312 2.734606 CCATTGTTCGTGTACGTGACAT 59.265 45.455 0.00 5.62 41.14 3.06
2151 5313 2.128821 CCATTGTTCGTGTACGTGACA 58.871 47.619 0.00 8.01 40.80 3.58
2152 5314 1.458064 CCCATTGTTCGTGTACGTGAC 59.542 52.381 0.00 5.70 40.80 3.67
2153 5315 1.068895 ACCCATTGTTCGTGTACGTGA 59.931 47.619 0.00 0.00 40.80 4.35
2154 5316 1.504359 ACCCATTGTTCGTGTACGTG 58.496 50.000 0.00 0.00 40.80 4.49
2155 5317 3.383620 TTACCCATTGTTCGTGTACGT 57.616 42.857 4.20 0.00 40.80 3.57
2156 5318 4.152759 ACATTTACCCATTGTTCGTGTACG 59.847 41.667 0.00 0.00 41.45 3.67
2157 5319 5.049267 ACACATTTACCCATTGTTCGTGTAC 60.049 40.000 0.00 0.00 33.59 2.90
2158 5320 5.064558 ACACATTTACCCATTGTTCGTGTA 58.935 37.500 0.00 0.00 33.59 2.90
2159 5321 3.886505 ACACATTTACCCATTGTTCGTGT 59.113 39.130 0.00 0.00 0.00 4.49
2160 5322 4.497473 ACACATTTACCCATTGTTCGTG 57.503 40.909 0.00 0.00 0.00 4.35
2161 5323 5.180492 CACTACACATTTACCCATTGTTCGT 59.820 40.000 0.00 0.00 0.00 3.85
2162 5324 5.410132 TCACTACACATTTACCCATTGTTCG 59.590 40.000 0.00 0.00 0.00 3.95
2163 5325 6.811253 TCACTACACATTTACCCATTGTTC 57.189 37.500 0.00 0.00 0.00 3.18
2164 5326 6.775629 ACTTCACTACACATTTACCCATTGTT 59.224 34.615 0.00 0.00 0.00 2.83
2165 5327 6.303839 ACTTCACTACACATTTACCCATTGT 58.696 36.000 0.00 0.00 0.00 2.71
2166 5328 6.817765 ACTTCACTACACATTTACCCATTG 57.182 37.500 0.00 0.00 0.00 2.82
2167 5329 8.927675 TTTACTTCACTACACATTTACCCATT 57.072 30.769 0.00 0.00 0.00 3.16
2168 5330 8.380099 TCTTTACTTCACTACACATTTACCCAT 58.620 33.333 0.00 0.00 0.00 4.00
2169 5331 7.737869 TCTTTACTTCACTACACATTTACCCA 58.262 34.615 0.00 0.00 0.00 4.51
2170 5332 8.665685 CATCTTTACTTCACTACACATTTACCC 58.334 37.037 0.00 0.00 0.00 3.69
2171 5333 8.665685 CCATCTTTACTTCACTACACATTTACC 58.334 37.037 0.00 0.00 0.00 2.85
2172 5334 9.216117 ACCATCTTTACTTCACTACACATTTAC 57.784 33.333 0.00 0.00 0.00 2.01
2173 5335 9.787435 AACCATCTTTACTTCACTACACATTTA 57.213 29.630 0.00 0.00 0.00 1.40
2174 5336 8.567948 CAACCATCTTTACTTCACTACACATTT 58.432 33.333 0.00 0.00 0.00 2.32
2175 5337 7.719633 ACAACCATCTTTACTTCACTACACATT 59.280 33.333 0.00 0.00 0.00 2.71
2176 5338 7.173218 CACAACCATCTTTACTTCACTACACAT 59.827 37.037 0.00 0.00 0.00 3.21
2177 5339 6.481976 CACAACCATCTTTACTTCACTACACA 59.518 38.462 0.00 0.00 0.00 3.72
2178 5340 6.482308 ACACAACCATCTTTACTTCACTACAC 59.518 38.462 0.00 0.00 0.00 2.90
2179 5341 6.481976 CACACAACCATCTTTACTTCACTACA 59.518 38.462 0.00 0.00 0.00 2.74
2180 5342 6.704493 TCACACAACCATCTTTACTTCACTAC 59.296 38.462 0.00 0.00 0.00 2.73
2181 5343 6.822442 TCACACAACCATCTTTACTTCACTA 58.178 36.000 0.00 0.00 0.00 2.74
2182 5344 5.680619 TCACACAACCATCTTTACTTCACT 58.319 37.500 0.00 0.00 0.00 3.41
2183 5345 6.560253 ATCACACAACCATCTTTACTTCAC 57.440 37.500 0.00 0.00 0.00 3.18
2184 5346 6.770303 TCAATCACACAACCATCTTTACTTCA 59.230 34.615 0.00 0.00 0.00 3.02
2185 5347 7.202016 TCAATCACACAACCATCTTTACTTC 57.798 36.000 0.00 0.00 0.00 3.01
2186 5348 7.581213 TTCAATCACACAACCATCTTTACTT 57.419 32.000 0.00 0.00 0.00 2.24
2187 5349 7.765695 ATTCAATCACACAACCATCTTTACT 57.234 32.000 0.00 0.00 0.00 2.24
2188 5350 7.867403 ACAATTCAATCACACAACCATCTTTAC 59.133 33.333 0.00 0.00 0.00 2.01
2189 5351 7.950512 ACAATTCAATCACACAACCATCTTTA 58.049 30.769 0.00 0.00 0.00 1.85
2190 5352 6.819284 ACAATTCAATCACACAACCATCTTT 58.181 32.000 0.00 0.00 0.00 2.52
2191 5353 6.409524 ACAATTCAATCACACAACCATCTT 57.590 33.333 0.00 0.00 0.00 2.40
2192 5354 6.489700 TGTACAATTCAATCACACAACCATCT 59.510 34.615 0.00 0.00 0.00 2.90
2193 5355 6.676950 TGTACAATTCAATCACACAACCATC 58.323 36.000 0.00 0.00 0.00 3.51
2194 5356 6.647334 TGTACAATTCAATCACACAACCAT 57.353 33.333 0.00 0.00 0.00 3.55
2195 5357 6.647334 ATGTACAATTCAATCACACAACCA 57.353 33.333 0.00 0.00 0.00 3.67
2196 5358 7.114811 GTCAATGTACAATTCAATCACACAACC 59.885 37.037 0.00 0.00 0.00 3.77
2197 5359 7.647318 TGTCAATGTACAATTCAATCACACAAC 59.353 33.333 0.00 0.00 0.00 3.32
2198 5360 7.647318 GTGTCAATGTACAATTCAATCACACAA 59.353 33.333 0.00 0.00 31.60 3.33
2199 5361 7.138081 GTGTCAATGTACAATTCAATCACACA 58.862 34.615 0.00 0.00 31.60 3.72
2200 5362 6.582295 GGTGTCAATGTACAATTCAATCACAC 59.418 38.462 0.00 4.89 0.00 3.82
2201 5363 6.567511 CGGTGTCAATGTACAATTCAATCACA 60.568 38.462 0.00 0.00 0.00 3.58
2202 5364 5.794945 CGGTGTCAATGTACAATTCAATCAC 59.205 40.000 0.00 3.82 0.00 3.06
2203 5365 5.618863 GCGGTGTCAATGTACAATTCAATCA 60.619 40.000 0.00 0.00 0.00 2.57
2204 5366 4.793216 GCGGTGTCAATGTACAATTCAATC 59.207 41.667 0.00 0.00 0.00 2.67
2205 5367 4.380444 GGCGGTGTCAATGTACAATTCAAT 60.380 41.667 0.00 0.00 0.00 2.57
2206 5368 3.057876 GGCGGTGTCAATGTACAATTCAA 60.058 43.478 0.00 0.00 0.00 2.69
2207 5369 2.486203 GGCGGTGTCAATGTACAATTCA 59.514 45.455 0.00 0.00 0.00 2.57
2208 5370 2.486203 TGGCGGTGTCAATGTACAATTC 59.514 45.455 0.00 0.00 0.00 2.17
2209 5371 2.509569 TGGCGGTGTCAATGTACAATT 58.490 42.857 0.00 0.00 0.00 2.32
2210 5372 2.192664 TGGCGGTGTCAATGTACAAT 57.807 45.000 0.00 0.00 0.00 2.71
2211 5373 1.968704 TTGGCGGTGTCAATGTACAA 58.031 45.000 0.00 0.00 0.00 2.41
2212 5374 1.968704 TTTGGCGGTGTCAATGTACA 58.031 45.000 0.00 0.00 0.00 2.90
2213 5375 2.920647 GCTTTTGGCGGTGTCAATGTAC 60.921 50.000 0.00 0.00 0.00 2.90
2214 5376 1.268352 GCTTTTGGCGGTGTCAATGTA 59.732 47.619 0.00 0.00 0.00 2.29
2215 5377 0.031994 GCTTTTGGCGGTGTCAATGT 59.968 50.000 0.00 0.00 0.00 2.71
2216 5378 0.667184 GGCTTTTGGCGGTGTCAATG 60.667 55.000 0.00 0.00 42.94 2.82
2217 5379 1.665442 GGCTTTTGGCGGTGTCAAT 59.335 52.632 0.00 0.00 42.94 2.57
2218 5380 3.124686 GGCTTTTGGCGGTGTCAA 58.875 55.556 0.00 0.00 42.94 3.18
2226 5388 0.968405 TCAATGTGAGGGCTTTTGGC 59.032 50.000 0.00 0.00 45.19 4.52
2227 5389 1.962807 TGTCAATGTGAGGGCTTTTGG 59.037 47.619 0.00 0.00 0.00 3.28
2228 5390 2.361757 TGTGTCAATGTGAGGGCTTTTG 59.638 45.455 0.00 0.00 0.00 2.44
2229 5391 2.665165 TGTGTCAATGTGAGGGCTTTT 58.335 42.857 0.00 0.00 0.00 2.27
2230 5392 2.362077 GTTGTGTCAATGTGAGGGCTTT 59.638 45.455 0.00 0.00 0.00 3.51
2231 5393 1.956477 GTTGTGTCAATGTGAGGGCTT 59.044 47.619 0.00 0.00 0.00 4.35
2232 5394 1.133823 TGTTGTGTCAATGTGAGGGCT 60.134 47.619 0.00 0.00 0.00 5.19
2233 5395 1.317613 TGTTGTGTCAATGTGAGGGC 58.682 50.000 0.00 0.00 0.00 5.19
2234 5396 3.130164 TGTTTGTTGTGTCAATGTGAGGG 59.870 43.478 0.00 0.00 0.00 4.30
2235 5397 4.368874 TGTTTGTTGTGTCAATGTGAGG 57.631 40.909 0.00 0.00 0.00 3.86
2236 5398 5.230516 CACATGTTTGTTGTGTCAATGTGAG 59.769 40.000 0.00 0.00 37.71 3.51
2237 5399 5.100943 CACATGTTTGTTGTGTCAATGTGA 58.899 37.500 0.00 0.00 37.71 3.58
2238 5400 5.004630 GTCACATGTTTGTTGTGTCAATGTG 59.995 40.000 0.00 6.55 43.86 3.21
2239 5401 5.101628 GTCACATGTTTGTTGTGTCAATGT 58.898 37.500 0.00 0.00 43.86 2.71
2240 5402 4.204775 CGTCACATGTTTGTTGTGTCAATG 59.795 41.667 0.00 0.00 43.86 2.82
2241 5403 4.350346 CGTCACATGTTTGTTGTGTCAAT 58.650 39.130 0.00 0.00 43.86 2.57
2242 5404 3.752731 CGTCACATGTTTGTTGTGTCAA 58.247 40.909 0.00 0.00 43.86 3.18
2243 5405 2.477021 GCGTCACATGTTTGTTGTGTCA 60.477 45.455 0.00 0.00 43.86 3.58
2244 5406 2.108700 GCGTCACATGTTTGTTGTGTC 58.891 47.619 0.00 0.00 43.86 3.67
2245 5407 1.530852 CGCGTCACATGTTTGTTGTGT 60.531 47.619 0.00 0.00 43.86 3.72
2246 5408 1.111667 CGCGTCACATGTTTGTTGTG 58.888 50.000 0.00 0.00 44.62 3.33
2247 5409 0.591236 GCGCGTCACATGTTTGTTGT 60.591 50.000 8.43 0.00 32.34 3.32
2248 5410 0.316937 AGCGCGTCACATGTTTGTTG 60.317 50.000 8.43 0.00 32.34 3.33
2249 5411 1.222300 TAGCGCGTCACATGTTTGTT 58.778 45.000 8.43 0.00 32.34 2.83
2250 5412 1.438651 ATAGCGCGTCACATGTTTGT 58.561 45.000 8.43 0.00 36.15 2.83
2251 5413 2.525750 AATAGCGCGTCACATGTTTG 57.474 45.000 8.43 0.00 0.00 2.93
2252 5414 2.742053 AGAAATAGCGCGTCACATGTTT 59.258 40.909 8.43 0.00 0.00 2.83
2253 5415 2.094258 CAGAAATAGCGCGTCACATGTT 59.906 45.455 8.43 0.00 0.00 2.71
2254 5416 1.660607 CAGAAATAGCGCGTCACATGT 59.339 47.619 8.43 0.00 0.00 3.21
2255 5417 1.660607 ACAGAAATAGCGCGTCACATG 59.339 47.619 8.43 1.05 0.00 3.21
2256 5418 1.660607 CACAGAAATAGCGCGTCACAT 59.339 47.619 8.43 0.00 0.00 3.21
2257 5419 1.067693 CACAGAAATAGCGCGTCACA 58.932 50.000 8.43 0.00 0.00 3.58
2258 5420 1.068474 ACACAGAAATAGCGCGTCAC 58.932 50.000 8.43 0.00 0.00 3.67
2259 5421 1.067693 CACACAGAAATAGCGCGTCA 58.932 50.000 8.43 0.00 0.00 4.35
2260 5422 1.321743 CTCACACAGAAATAGCGCGTC 59.678 52.381 8.43 0.00 0.00 5.19
2261 5423 1.350193 CTCACACAGAAATAGCGCGT 58.650 50.000 8.43 0.00 0.00 6.01
2262 5424 0.025513 GCTCACACAGAAATAGCGCG 59.974 55.000 0.00 0.00 0.00 6.86
2263 5425 1.078709 TGCTCACACAGAAATAGCGC 58.921 50.000 0.00 0.00 35.95 5.92
2264 5426 3.187227 ACTTTGCTCACACAGAAATAGCG 59.813 43.478 0.00 0.00 35.95 4.26
2265 5427 4.756084 ACTTTGCTCACACAGAAATAGC 57.244 40.909 0.00 0.00 0.00 2.97
2266 5428 7.369803 ACATACTTTGCTCACACAGAAATAG 57.630 36.000 0.00 0.00 0.00 1.73
2267 5429 7.875554 TGTACATACTTTGCTCACACAGAAATA 59.124 33.333 0.00 0.00 0.00 1.40
2268 5430 6.710295 TGTACATACTTTGCTCACACAGAAAT 59.290 34.615 0.00 0.00 0.00 2.17
2269 5431 6.052360 TGTACATACTTTGCTCACACAGAAA 58.948 36.000 0.00 0.00 0.00 2.52
2270 5432 5.606505 TGTACATACTTTGCTCACACAGAA 58.393 37.500 0.00 0.00 0.00 3.02
2271 5433 5.208463 TGTACATACTTTGCTCACACAGA 57.792 39.130 0.00 0.00 0.00 3.41
2272 5434 6.147656 TCAATGTACATACTTTGCTCACACAG 59.852 38.462 9.21 0.00 39.67 3.66
2273 5435 5.994668 TCAATGTACATACTTTGCTCACACA 59.005 36.000 9.21 0.00 39.67 3.72
2274 5436 6.307155 GTCAATGTACATACTTTGCTCACAC 58.693 40.000 9.21 0.00 39.67 3.82
2275 5437 5.120053 CGTCAATGTACATACTTTGCTCACA 59.880 40.000 9.21 0.00 39.67 3.58
2342 5504 4.501229 CCAGTGGAAATGCTAACTTTTGCA 60.501 41.667 1.68 0.59 42.60 4.08
2374 5536 4.204012 CCACGGGTATGATATTGTTTGGT 58.796 43.478 0.00 0.00 0.00 3.67
2405 5567 7.589587 TGAAGAAATAACAATTACACAGCAACG 59.410 33.333 0.00 0.00 0.00 4.10
2407 5569 9.409312 CATGAAGAAATAACAATTACACAGCAA 57.591 29.630 0.00 0.00 0.00 3.91
2705 5871 4.080299 ACCTGGTGAAGATAAGATGAACCC 60.080 45.833 0.00 0.00 0.00 4.11
2730 5896 1.372004 CGAGGCAACAACGACGGTA 60.372 57.895 0.00 0.00 40.14 4.02
2836 6029 4.514577 CGAGGCAACGGCGGAGAT 62.515 66.667 13.24 0.00 46.39 2.75


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

AutoCloner maintained by Alex Coulton.