Multiple sequence alignment - TraesCS6A01G203800

Loading Multiple Alignment...

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 TraesCS6A01G203800 chr6A 100.000 6091 0 0 570 6660 351833506 351827416 0.000000e+00 11249.0
1 TraesCS6A01G203800 chr6A 100.000 163 0 0 1 163 351834075 351833913 1.090000e-77 302.0
2 TraesCS6A01G203800 chr6A 97.561 41 1 0 6274 6314 7099656 7099616 3.330000e-08 71.3
3 TraesCS6A01G203800 chr6D 96.589 2932 62 22 3401 6320 258040084 258037179 0.000000e+00 4826.0
4 TraesCS6A01G203800 chr6D 94.675 2197 45 10 1220 3376 258042469 258040305 0.000000e+00 3343.0
5 TraesCS6A01G203800 chr6D 97.280 625 15 2 570 1193 258043091 258042468 0.000000e+00 1059.0
6 TraesCS6A01G203800 chr6D 100.000 154 0 0 10 163 258043693 258043540 1.090000e-72 285.0
7 TraesCS6A01G203800 chr6D 97.183 71 2 0 6336 6406 258037193 258037123 3.260000e-23 121.0
8 TraesCS6A01G203800 chr6B 96.234 2815 77 12 3423 6232 336248310 336251100 0.000000e+00 4584.0
9 TraesCS6A01G203800 chr6B 94.924 2778 65 30 570 3332 336245478 336248194 0.000000e+00 4279.0
10 TraesCS6A01G203800 chr6B 99.275 138 1 0 10 147 336245002 336245139 3.990000e-62 250.0
11 TraesCS6A01G203800 chr6B 100.000 54 0 0 6353 6406 336251245 336251298 4.250000e-17 100.0
12 TraesCS6A01G203800 chr3D 92.035 113 6 2 4359 4470 100390402 100390512 8.940000e-34 156.0
13 TraesCS6A01G203800 chr3D 88.288 111 8 3 6210 6315 397136564 397136454 1.950000e-25 128.0
14 TraesCS6A01G203800 chr3D 89.394 66 5 1 6210 6273 482835837 482835772 1.540000e-11 82.4
15 TraesCS6A01G203800 chr3D 88.060 67 5 2 6209 6272 584333629 584333695 7.160000e-10 76.8
16 TraesCS6A01G203800 chr3D 84.810 79 6 5 6210 6283 532868861 532868784 2.580000e-09 75.0
17 TraesCS6A01G203800 chr3B 92.035 113 4 3 4359 4470 150850833 150850941 3.220000e-33 154.0
18 TraesCS6A01G203800 chr3B 85.185 81 11 1 6464 6544 259857811 259857890 1.540000e-11 82.4
19 TraesCS6A01G203800 chr7D 86.792 106 10 3 6212 6314 618216522 618216418 1.520000e-21 115.0
20 TraesCS6A01G203800 chr5B 82.759 116 9 3 6210 6315 386569574 386569460 7.110000e-15 93.5
21 TraesCS6A01G203800 chr2B 83.516 91 15 0 3096 3186 478105295 478105385 1.190000e-12 86.1
22 TraesCS6A01G203800 chr3A 85.185 81 11 1 6464 6544 227409153 227409074 1.540000e-11 82.4
23 TraesCS6A01G203800 chr3A 84.146 82 12 1 6464 6545 728013500 728013580 1.990000e-10 78.7
24 TraesCS6A01G203800 chr3A 84.146 82 12 1 6464 6545 728028593 728028673 1.990000e-10 78.7
25 TraesCS6A01G203800 chr3A 84.146 82 12 1 6464 6545 729680679 729680599 1.990000e-10 78.7
26 TraesCS6A01G203800 chrUn 84.146 82 12 1 6464 6545 351473765 351473685 1.990000e-10 78.7
27 TraesCS6A01G203800 chr2A 86.301 73 7 2 6204 6273 607842626 607842554 7.160000e-10 76.8
28 TraesCS6A01G203800 chr7B 97.561 41 1 0 6274 6314 91124898 91124858 3.330000e-08 71.3
29 TraesCS6A01G203800 chr5A 97.561 41 1 0 6274 6314 677160891 677160851 3.330000e-08 71.3
30 TraesCS6A01G203800 chr4B 86.364 66 6 2 6211 6273 2431980 2431915 1.200000e-07 69.4
31 TraesCS6A01G203800 chr5D 95.238 42 2 0 6274 6315 494220364 494220323 4.310000e-07 67.6
32 TraesCS6A01G203800 chr1D 95.238 42 2 0 6274 6315 96069629 96069670 4.310000e-07 67.6


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 TraesCS6A01G203800 chr6A 351827416 351834075 6659 True 5775.50 11249 100.00000 1 6660 2 chr6A.!!$R2 6659
1 TraesCS6A01G203800 chr6D 258037123 258043693 6570 True 1926.80 4826 97.14540 10 6406 5 chr6D.!!$R1 6396
2 TraesCS6A01G203800 chr6B 336245002 336251298 6296 False 2303.25 4584 97.60825 10 6406 4 chr6B.!!$F1 6396

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
622 665 0.326522 GGATTGGGGGCCCTTCAATT 60.327 55.000 30.51 20.38 36.94 2.32 F
1649 1693 0.036952 CTGGAAGGCTCGTGACACAT 60.037 55.000 6.37 0.00 0.00 3.21 F
1650 1694 0.396435 TGGAAGGCTCGTGACACATT 59.604 50.000 6.37 0.00 0.00 2.71 F
2389 2474 1.120530 ACAACCGTGACCAGAGTTCT 58.879 50.000 0.00 0.00 0.00 3.01 F
2848 2933 3.366396 CTGGACTTCCAAGCTAGTAGGA 58.634 50.000 0.00 0.00 46.97 2.94 F
3843 4159 2.839975 GGGCTACTGTCCTGAATTAGC 58.160 52.381 0.00 0.00 34.49 3.09 F
4583 4900 1.743252 GTTCGAGCTCCAGCCAAGG 60.743 63.158 8.47 0.00 43.38 3.61 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2012 2088 0.034186 CCAATGCCTCCTTAGCACCA 60.034 55.000 0.00 0.00 44.40 4.17 R
2848 2933 2.038659 GGCTCACTTGATAGAGGAGCT 58.961 52.381 11.20 0.00 44.33 4.09 R
3421 3737 2.171027 TCCAACACCAAGAGTTAACCGT 59.829 45.455 0.88 0.00 0.00 4.83 R
3766 4082 1.802960 AGAGTGAAACATGAAGCGCAG 59.197 47.619 11.47 0.00 41.43 5.18 R
3896 4212 4.385310 GGCATCCTTCCACAGTATTTACCT 60.385 45.833 0.00 0.00 0.00 3.08 R
5131 5448 0.399949 AGCCGGATACCTGGAATCCA 60.400 55.000 5.05 0.48 42.69 3.41 R
6563 6910 0.106149 GGGGTAAGCTACGGTGATGG 59.894 60.000 0.00 0.00 0.00 3.51 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
622 665 0.326522 GGATTGGGGGCCCTTCAATT 60.327 55.000 30.51 20.38 36.94 2.32
1047 1090 1.755395 GCAATGGCTGATGCAGGGA 60.755 57.895 0.00 0.00 42.12 4.20
1239 1283 0.451783 GTGGTGAAACGGGATGCATC 59.548 55.000 18.81 18.81 38.12 3.91
1366 1410 9.428097 GATTTTGCTTTGAAAATAGAGATTGGT 57.572 29.630 0.00 0.00 36.00 3.67
1367 1411 9.783081 ATTTTGCTTTGAAAATAGAGATTGGTT 57.217 25.926 0.00 0.00 34.46 3.67
1368 1412 9.612066 TTTTGCTTTGAAAATAGAGATTGGTTT 57.388 25.926 0.00 0.00 0.00 3.27
1369 1413 8.592105 TTGCTTTGAAAATAGAGATTGGTTTG 57.408 30.769 0.00 0.00 0.00 2.93
1370 1414 6.646240 TGCTTTGAAAATAGAGATTGGTTTGC 59.354 34.615 0.00 0.00 0.00 3.68
1371 1415 6.870439 GCTTTGAAAATAGAGATTGGTTTGCT 59.130 34.615 0.00 0.00 0.00 3.91
1372 1416 7.386025 GCTTTGAAAATAGAGATTGGTTTGCTT 59.614 33.333 0.00 0.00 0.00 3.91
1373 1417 9.264719 CTTTGAAAATAGAGATTGGTTTGCTTT 57.735 29.630 0.00 0.00 0.00 3.51
1374 1418 8.592105 TTGAAAATAGAGATTGGTTTGCTTTG 57.408 30.769 0.00 0.00 0.00 2.77
1375 1419 7.950512 TGAAAATAGAGATTGGTTTGCTTTGA 58.049 30.769 0.00 0.00 0.00 2.69
1376 1420 8.420222 TGAAAATAGAGATTGGTTTGCTTTGAA 58.580 29.630 0.00 0.00 0.00 2.69
1377 1421 9.260002 GAAAATAGAGATTGGTTTGCTTTGAAA 57.740 29.630 0.00 0.00 0.00 2.69
1378 1422 9.612066 AAAATAGAGATTGGTTTGCTTTGAAAA 57.388 25.926 0.00 0.00 0.00 2.29
1379 1423 9.783081 AAATAGAGATTGGTTTGCTTTGAAAAT 57.217 25.926 0.00 0.00 0.00 1.82
1382 1426 8.181904 AGAGATTGGTTTGCTTTGAAAATAGA 57.818 30.769 0.00 0.00 0.00 1.98
1383 1427 8.302438 AGAGATTGGTTTGCTTTGAAAATAGAG 58.698 33.333 0.00 0.00 0.00 2.43
1384 1428 8.181904 AGATTGGTTTGCTTTGAAAATAGAGA 57.818 30.769 0.00 0.00 0.00 3.10
1385 1429 8.810041 AGATTGGTTTGCTTTGAAAATAGAGAT 58.190 29.630 0.00 0.00 0.00 2.75
1386 1430 9.428097 GATTGGTTTGCTTTGAAAATAGAGATT 57.572 29.630 0.00 0.00 0.00 2.40
1387 1431 8.592105 TTGGTTTGCTTTGAAAATAGAGATTG 57.408 30.769 0.00 0.00 0.00 2.67
1388 1432 7.153985 TGGTTTGCTTTGAAAATAGAGATTGG 58.846 34.615 0.00 0.00 0.00 3.16
1395 1439 9.428097 GCTTTGAAAATAGAGATTGGTGAATTT 57.572 29.630 0.00 0.00 0.00 1.82
1507 1551 5.678955 AGTATCAAGGGTTCCTGTAGTTC 57.321 43.478 0.00 0.00 32.13 3.01
1523 1567 6.074088 CCTGTAGTTCGAAATGATGCTCATAC 60.074 42.308 8.63 0.00 35.76 2.39
1648 1692 1.112916 TCTGGAAGGCTCGTGACACA 61.113 55.000 6.37 0.00 0.00 3.72
1649 1693 0.036952 CTGGAAGGCTCGTGACACAT 60.037 55.000 6.37 0.00 0.00 3.21
1650 1694 0.396435 TGGAAGGCTCGTGACACATT 59.604 50.000 6.37 0.00 0.00 2.71
1926 2002 4.307443 AGGAAGCAGCACTTTTTGTTAC 57.693 40.909 0.00 0.00 39.29 2.50
2066 2142 5.559148 TTGGCAACCATCCTAAAATTGTT 57.441 34.783 0.00 0.00 31.53 2.83
2130 2215 6.303839 ACCCTGCTACTTCTTTTCAATTACA 58.696 36.000 0.00 0.00 0.00 2.41
2389 2474 1.120530 ACAACCGTGACCAGAGTTCT 58.879 50.000 0.00 0.00 0.00 3.01
2848 2933 3.366396 CTGGACTTCCAAGCTAGTAGGA 58.634 50.000 0.00 0.00 46.97 2.94
3087 3172 5.547465 TGGATTCATGTTCACGTACTCTTT 58.453 37.500 0.00 0.00 0.00 2.52
3166 3252 6.767524 ACACTCTAAGACCTATGACTTCTG 57.232 41.667 0.00 0.00 0.00 3.02
3424 3740 9.959749 TGTATGTATGCATGTATGTATATACGG 57.040 33.333 10.16 1.93 41.68 4.02
3601 3917 7.974501 CGAACATTACTCAACTAATGGTACTCT 59.025 37.037 0.00 0.00 34.72 3.24
3621 3937 7.141758 ACTCTGGGAGATGCTTTATATTTCA 57.858 36.000 1.31 0.00 33.32 2.69
3706 4022 8.519526 CACCCTTGCTATTTTGTATGTTAAGAA 58.480 33.333 0.00 0.00 0.00 2.52
3766 4082 6.699575 ATTTGCATGTGATACCTACTTTCC 57.300 37.500 0.00 0.00 0.00 3.13
3843 4159 2.839975 GGGCTACTGTCCTGAATTAGC 58.160 52.381 0.00 0.00 34.49 3.09
3896 4212 4.882427 TGAACTTTGACGGTTTGACCAATA 59.118 37.500 0.00 0.00 38.47 1.90
4018 4334 5.268118 TCGTTCATCTTATGCAGAGATGT 57.732 39.130 28.21 6.50 46.69 3.06
4310 4627 2.989909 AGCAAGCAAAAGTTTTGCCTT 58.010 38.095 37.40 28.91 46.26 4.35
4318 4635 5.882000 AGCAAAAGTTTTGCCTTGAAAAGAT 59.118 32.000 37.40 19.80 45.77 2.40
4583 4900 1.743252 GTTCGAGCTCCAGCCAAGG 60.743 63.158 8.47 0.00 43.38 3.61
4790 5107 3.840666 TCCTCTAGTGCAAGGTTCATCTT 59.159 43.478 2.14 0.00 34.12 2.40
4993 5310 1.950216 GCAAATTCTTCCGAGGGATCC 59.050 52.381 1.92 1.92 0.00 3.36
5131 5448 2.570752 ACTTGCTGACACAGGAGATGAT 59.429 45.455 0.00 0.00 32.58 2.45
5203 5520 4.196971 CACTTGCAGATTCAGATGATGGA 58.803 43.478 0.00 0.00 0.00 3.41
5233 5550 1.002430 TCACAGTCTGGCAATGAGGAC 59.998 52.381 4.53 0.00 0.00 3.85
5426 5743 7.672983 TCTTAATTTCTGATGTCCTTCACAC 57.327 36.000 0.00 0.00 38.04 3.82
5486 5803 6.459161 GGCCCGTAATGTTTGGACTTAATTAG 60.459 42.308 0.00 0.00 0.00 1.73
5689 6006 4.017808 GTTGAAGGAGCCTAGAGTACAGA 58.982 47.826 0.00 0.00 0.00 3.41
5716 6033 3.072211 GACGCTTTAAAAGGCAGGTACT 58.928 45.455 1.64 0.00 43.88 2.73
5764 6081 3.855689 AAATGCAATGGCTAGTCACAC 57.144 42.857 0.00 0.00 41.91 3.82
5965 6285 3.113043 AGGAGTACCAAATGTAGGTCCC 58.887 50.000 0.00 0.00 40.54 4.46
6154 6475 6.233434 AGATTGATTCGCTATTTGATGGCTA 58.767 36.000 0.00 0.00 34.23 3.93
6186 6507 6.931281 TCTTGTCGATTGACTCTGAAGAAAAT 59.069 34.615 14.27 0.00 45.70 1.82
6310 6641 8.000709 TCACTCTTATATTAGTTTACGGAGGGA 58.999 37.037 0.00 0.00 0.00 4.20
6311 6642 8.636213 CACTCTTATATTAGTTTACGGAGGGAA 58.364 37.037 0.00 0.00 0.00 3.97
6312 6643 9.377238 ACTCTTATATTAGTTTACGGAGGGAAT 57.623 33.333 0.00 0.00 0.00 3.01
6315 6646 9.866798 CTTATATTAGTTTACGGAGGGAATACC 57.133 37.037 0.00 0.00 40.67 2.73
6406 6753 5.711698 TCACTGAAAAGGTTATTTCCCCTT 58.288 37.500 0.00 0.00 42.88 3.95
6407 6754 5.538433 TCACTGAAAAGGTTATTTCCCCTTG 59.462 40.000 0.00 0.00 40.17 3.61
6408 6755 4.838423 ACTGAAAAGGTTATTTCCCCTTGG 59.162 41.667 0.00 0.00 40.17 3.61
6409 6756 5.081315 TGAAAAGGTTATTTCCCCTTGGA 57.919 39.130 0.00 0.00 40.17 3.53
6410 6757 5.660533 TGAAAAGGTTATTTCCCCTTGGAT 58.339 37.500 0.00 0.00 40.17 3.41
6411 6758 5.483583 TGAAAAGGTTATTTCCCCTTGGATG 59.516 40.000 0.00 0.00 40.17 3.51
6412 6759 3.688049 AGGTTATTTCCCCTTGGATGG 57.312 47.619 0.00 0.00 41.40 3.51
6413 6760 2.933139 AGGTTATTTCCCCTTGGATGGT 59.067 45.455 0.00 0.00 41.40 3.55
6414 6761 4.123745 AGGTTATTTCCCCTTGGATGGTA 58.876 43.478 0.00 0.00 41.40 3.25
6415 6762 4.079385 AGGTTATTTCCCCTTGGATGGTAC 60.079 45.833 0.00 0.00 41.40 3.34
6416 6763 7.964663 AAGGTTATTTCCCCTTGGATGGTACA 61.965 42.308 0.00 0.00 41.40 2.90
6417 6764 9.879432 AAGGTTATTTCCCCTTGGATGGTACAC 62.879 44.444 0.00 0.00 39.81 2.90
6427 6774 3.342627 TGGTACACTGCGCGTTGC 61.343 61.111 8.43 0.00 46.70 4.17
6428 6775 3.041940 GGTACACTGCGCGTTGCT 61.042 61.111 8.43 0.00 46.63 3.91
6429 6776 2.170985 GTACACTGCGCGTTGCTG 59.829 61.111 8.43 0.49 46.63 4.41
6430 6777 3.711842 TACACTGCGCGTTGCTGC 61.712 61.111 8.43 0.00 45.63 5.25
6432 6779 4.394078 CACTGCGCGTTGCTGCAT 62.394 61.111 8.43 0.00 45.63 3.96
6433 6780 3.663176 ACTGCGCGTTGCTGCATT 61.663 55.556 8.43 2.00 45.63 3.56
6434 6781 2.324330 ACTGCGCGTTGCTGCATTA 61.324 52.632 8.43 0.00 45.63 1.90
6435 6782 1.154244 CTGCGCGTTGCTGCATTAA 60.154 52.632 8.43 0.00 46.63 1.40
6436 6783 0.523968 CTGCGCGTTGCTGCATTAAT 60.524 50.000 8.43 0.00 46.63 1.40
6437 6784 0.109365 TGCGCGTTGCTGCATTAATT 60.109 45.000 8.43 0.00 46.63 1.40
6438 6785 0.991344 GCGCGTTGCTGCATTAATTT 59.009 45.000 8.43 0.00 41.73 1.82
6439 6786 1.389784 GCGCGTTGCTGCATTAATTTT 59.610 42.857 8.43 0.00 41.73 1.82
6440 6787 2.780636 GCGCGTTGCTGCATTAATTTTG 60.781 45.455 8.43 0.00 41.73 2.44
6441 6788 2.408032 CGCGTTGCTGCATTAATTTTGT 59.592 40.909 1.84 0.00 34.15 2.83
6442 6789 3.480185 CGCGTTGCTGCATTAATTTTGTC 60.480 43.478 1.84 0.00 34.15 3.18
6443 6790 3.428198 GCGTTGCTGCATTAATTTTGTCA 59.572 39.130 1.84 0.00 34.15 3.58
6444 6791 4.084641 GCGTTGCTGCATTAATTTTGTCAA 60.085 37.500 1.84 0.00 34.15 3.18
6445 6792 5.557893 GCGTTGCTGCATTAATTTTGTCAAA 60.558 36.000 1.84 0.00 34.15 2.69
6446 6793 6.417327 CGTTGCTGCATTAATTTTGTCAAAA 58.583 32.000 12.97 12.97 34.41 2.44
6447 6794 6.904011 CGTTGCTGCATTAATTTTGTCAAAAA 59.096 30.769 14.47 0.00 39.53 1.94
6502 6849 9.905713 AAAAAGTACACACATACATATGGATCT 57.094 29.630 7.80 0.00 38.00 2.75
6504 6851 9.982651 AAAGTACACACATACATATGGATCTAC 57.017 33.333 7.80 0.00 38.00 2.59
6505 6852 8.706322 AGTACACACATACATATGGATCTACA 57.294 34.615 7.80 0.00 38.00 2.74
6506 6853 8.577296 AGTACACACATACATATGGATCTACAC 58.423 37.037 7.80 0.00 38.00 2.90
6507 6854 7.360113 ACACACATACATATGGATCTACACA 57.640 36.000 7.80 0.00 38.00 3.72
6508 6855 7.436933 ACACACATACATATGGATCTACACAG 58.563 38.462 7.80 0.00 38.00 3.66
6509 6856 6.367149 CACACATACATATGGATCTACACAGC 59.633 42.308 7.80 0.00 38.00 4.40
6510 6857 6.268617 ACACATACATATGGATCTACACAGCT 59.731 38.462 7.80 0.00 38.00 4.24
6511 6858 7.157347 CACATACATATGGATCTACACAGCTT 58.843 38.462 7.80 0.00 38.00 3.74
6512 6859 7.117379 CACATACATATGGATCTACACAGCTTG 59.883 40.741 7.80 0.00 38.00 4.01
6513 6860 5.620738 ACATATGGATCTACACAGCTTGT 57.379 39.130 7.80 6.74 42.84 3.16
6514 6861 5.994250 ACATATGGATCTACACAGCTTGTT 58.006 37.500 7.80 0.00 39.91 2.83
6515 6862 6.418101 ACATATGGATCTACACAGCTTGTTT 58.582 36.000 7.80 0.00 39.91 2.83
6516 6863 6.317140 ACATATGGATCTACACAGCTTGTTTG 59.683 38.462 7.80 2.64 39.91 2.93
6517 6864 2.813754 TGGATCTACACAGCTTGTTTGC 59.186 45.455 6.82 0.00 39.91 3.68
6518 6865 2.813754 GGATCTACACAGCTTGTTTGCA 59.186 45.455 6.82 0.00 39.91 4.08
6519 6866 3.253188 GGATCTACACAGCTTGTTTGCAA 59.747 43.478 0.00 0.00 39.91 4.08
6520 6867 4.261572 GGATCTACACAGCTTGTTTGCAAA 60.262 41.667 8.05 8.05 39.91 3.68
6521 6868 4.291540 TCTACACAGCTTGTTTGCAAAG 57.708 40.909 13.26 1.64 39.91 2.77
6522 6869 3.694072 TCTACACAGCTTGTTTGCAAAGT 59.306 39.130 13.26 6.89 39.91 2.66
6523 6870 3.317603 ACACAGCTTGTTTGCAAAGTT 57.682 38.095 13.26 0.00 33.09 2.66
6524 6871 3.663025 ACACAGCTTGTTTGCAAAGTTT 58.337 36.364 13.26 0.00 33.09 2.66
6525 6872 3.679502 ACACAGCTTGTTTGCAAAGTTTC 59.320 39.130 13.26 0.91 33.09 2.78
6526 6873 3.679025 CACAGCTTGTTTGCAAAGTTTCA 59.321 39.130 13.26 3.94 33.73 2.69
6527 6874 4.330620 CACAGCTTGTTTGCAAAGTTTCAT 59.669 37.500 13.26 0.00 33.73 2.57
6528 6875 4.330620 ACAGCTTGTTTGCAAAGTTTCATG 59.669 37.500 13.26 10.09 33.73 3.07
6529 6876 3.872771 AGCTTGTTTGCAAAGTTTCATGG 59.127 39.130 13.26 4.72 33.73 3.66
6530 6877 3.546616 GCTTGTTTGCAAAGTTTCATGGC 60.547 43.478 13.26 10.33 33.73 4.40
6531 6878 2.200067 TGTTTGCAAAGTTTCATGGCG 58.800 42.857 13.26 0.00 0.00 5.69
6532 6879 2.159184 TGTTTGCAAAGTTTCATGGCGA 60.159 40.909 13.26 0.00 0.00 5.54
6533 6880 2.863137 GTTTGCAAAGTTTCATGGCGAA 59.137 40.909 13.26 0.00 0.00 4.70
6534 6881 2.879002 TGCAAAGTTTCATGGCGAAA 57.121 40.000 0.00 0.00 41.40 3.46
6535 6882 3.383620 TGCAAAGTTTCATGGCGAAAT 57.616 38.095 0.00 0.00 45.21 2.17
6536 6883 4.511617 TGCAAAGTTTCATGGCGAAATA 57.488 36.364 0.00 0.00 45.21 1.40
6537 6884 4.233789 TGCAAAGTTTCATGGCGAAATAC 58.766 39.130 0.00 0.00 45.21 1.89
6538 6885 4.022416 TGCAAAGTTTCATGGCGAAATACT 60.022 37.500 0.00 0.00 45.21 2.12
6539 6886 4.923281 GCAAAGTTTCATGGCGAAATACTT 59.077 37.500 0.00 0.00 45.21 2.24
6540 6887 5.405269 GCAAAGTTTCATGGCGAAATACTTT 59.595 36.000 0.00 0.00 45.21 2.66
6541 6888 6.073819 GCAAAGTTTCATGGCGAAATACTTTT 60.074 34.615 0.00 0.00 45.21 2.27
6542 6889 7.518211 GCAAAGTTTCATGGCGAAATACTTTTT 60.518 33.333 0.00 0.00 45.21 1.94
6560 6907 2.024176 TTTAGGTGAGCCATCTTCGC 57.976 50.000 0.00 0.00 37.19 4.70
6561 6908 0.178068 TTAGGTGAGCCATCTTCGCC 59.822 55.000 0.00 0.00 37.19 5.54
6562 6909 0.975556 TAGGTGAGCCATCTTCGCCA 60.976 55.000 7.49 0.00 36.56 5.69
6563 6910 2.109126 GGTGAGCCATCTTCGCCAC 61.109 63.158 0.24 0.00 34.44 5.01
6564 6911 2.109126 GTGAGCCATCTTCGCCACC 61.109 63.158 0.00 0.00 0.00 4.61
6565 6912 2.268920 GAGCCATCTTCGCCACCA 59.731 61.111 0.00 0.00 0.00 4.17
6566 6913 1.153086 GAGCCATCTTCGCCACCAT 60.153 57.895 0.00 0.00 0.00 3.55
6567 6914 1.153086 AGCCATCTTCGCCACCATC 60.153 57.895 0.00 0.00 0.00 3.51
6568 6915 1.451927 GCCATCTTCGCCACCATCA 60.452 57.895 0.00 0.00 0.00 3.07
6569 6916 1.718757 GCCATCTTCGCCACCATCAC 61.719 60.000 0.00 0.00 0.00 3.06
6570 6917 1.097547 CCATCTTCGCCACCATCACC 61.098 60.000 0.00 0.00 0.00 4.02
6571 6918 1.153369 ATCTTCGCCACCATCACCG 60.153 57.895 0.00 0.00 0.00 4.94
6572 6919 1.899437 ATCTTCGCCACCATCACCGT 61.899 55.000 0.00 0.00 0.00 4.83
6573 6920 1.216977 CTTCGCCACCATCACCGTA 59.783 57.895 0.00 0.00 0.00 4.02
6574 6921 0.806102 CTTCGCCACCATCACCGTAG 60.806 60.000 0.00 0.00 0.00 3.51
6575 6922 2.845752 TTCGCCACCATCACCGTAGC 62.846 60.000 0.00 0.00 0.00 3.58
6576 6923 2.584608 GCCACCATCACCGTAGCT 59.415 61.111 0.00 0.00 0.00 3.32
6577 6924 1.078426 GCCACCATCACCGTAGCTT 60.078 57.895 0.00 0.00 0.00 3.74
6578 6925 0.177141 GCCACCATCACCGTAGCTTA 59.823 55.000 0.00 0.00 0.00 3.09
6579 6926 1.935933 CCACCATCACCGTAGCTTAC 58.064 55.000 0.00 0.00 0.00 2.34
6580 6927 1.472728 CCACCATCACCGTAGCTTACC 60.473 57.143 0.00 0.00 0.00 2.85
6581 6928 0.828677 ACCATCACCGTAGCTTACCC 59.171 55.000 0.00 0.00 0.00 3.69
6582 6929 0.106149 CCATCACCGTAGCTTACCCC 59.894 60.000 0.00 0.00 0.00 4.95
6583 6930 0.249322 CATCACCGTAGCTTACCCCG 60.249 60.000 0.00 0.00 0.00 5.73
6584 6931 1.397390 ATCACCGTAGCTTACCCCGG 61.397 60.000 0.00 0.00 45.72 5.73
6586 6933 2.810403 CCGTAGCTTACCCCGGTC 59.190 66.667 0.00 0.00 35.78 4.79
6587 6934 2.053865 CCGTAGCTTACCCCGGTCA 61.054 63.158 0.00 0.00 35.78 4.02
6588 6935 1.397390 CCGTAGCTTACCCCGGTCAT 61.397 60.000 0.00 0.00 35.78 3.06
6589 6936 1.321474 CGTAGCTTACCCCGGTCATA 58.679 55.000 0.00 0.00 0.00 2.15
6590 6937 1.682854 CGTAGCTTACCCCGGTCATAA 59.317 52.381 0.00 0.00 0.00 1.90
6591 6938 2.101249 CGTAGCTTACCCCGGTCATAAA 59.899 50.000 0.00 0.00 0.00 1.40
6592 6939 3.430651 CGTAGCTTACCCCGGTCATAAAA 60.431 47.826 0.00 0.00 0.00 1.52
6593 6940 3.724732 AGCTTACCCCGGTCATAAAAA 57.275 42.857 0.00 0.00 0.00 1.94
6594 6941 3.349927 AGCTTACCCCGGTCATAAAAAC 58.650 45.455 0.00 0.00 0.00 2.43
6595 6942 2.424601 GCTTACCCCGGTCATAAAAACC 59.575 50.000 0.00 0.00 0.00 3.27
6603 6950 3.734776 GGTCATAAAAACCGAAGACCG 57.265 47.619 0.00 0.00 36.55 4.79
6604 6951 3.328505 GGTCATAAAAACCGAAGACCGA 58.671 45.455 0.00 0.00 41.76 4.69
6605 6952 3.747529 GGTCATAAAAACCGAAGACCGAA 59.252 43.478 0.00 0.00 41.76 4.30
6606 6953 4.213906 GGTCATAAAAACCGAAGACCGAAA 59.786 41.667 0.00 0.00 41.76 3.46
6607 6954 5.277925 GGTCATAAAAACCGAAGACCGAAAA 60.278 40.000 0.00 0.00 41.76 2.29
6608 6955 5.622448 GTCATAAAAACCGAAGACCGAAAAC 59.378 40.000 0.00 0.00 41.76 2.43
6609 6956 3.425577 AAAAACCGAAGACCGAAAACC 57.574 42.857 0.00 0.00 41.76 3.27
6610 6957 2.041251 AAACCGAAGACCGAAAACCA 57.959 45.000 0.00 0.00 41.76 3.67
6611 6958 2.041251 AACCGAAGACCGAAAACCAA 57.959 45.000 0.00 0.00 41.76 3.67
6612 6959 1.589803 ACCGAAGACCGAAAACCAAG 58.410 50.000 0.00 0.00 41.76 3.61
6613 6960 0.237498 CCGAAGACCGAAAACCAAGC 59.763 55.000 0.00 0.00 41.76 4.01
6614 6961 1.226746 CGAAGACCGAAAACCAAGCT 58.773 50.000 0.00 0.00 41.76 3.74
6615 6962 1.194772 CGAAGACCGAAAACCAAGCTC 59.805 52.381 0.00 0.00 41.76 4.09
6616 6963 1.194772 GAAGACCGAAAACCAAGCTCG 59.805 52.381 0.00 0.00 0.00 5.03
6617 6964 0.391597 AGACCGAAAACCAAGCTCGA 59.608 50.000 0.00 0.00 34.52 4.04
6618 6965 1.202604 AGACCGAAAACCAAGCTCGAA 60.203 47.619 0.00 0.00 34.52 3.71
6619 6966 1.600485 GACCGAAAACCAAGCTCGAAA 59.400 47.619 0.00 0.00 34.52 3.46
6620 6967 2.018515 ACCGAAAACCAAGCTCGAAAA 58.981 42.857 0.00 0.00 34.52 2.29
6621 6968 2.032924 ACCGAAAACCAAGCTCGAAAAG 59.967 45.455 0.00 0.00 34.52 2.27
6622 6969 2.289547 CCGAAAACCAAGCTCGAAAAGA 59.710 45.455 0.00 0.00 34.52 2.52
6623 6970 3.289076 CGAAAACCAAGCTCGAAAAGAC 58.711 45.455 0.00 0.00 34.52 3.01
6624 6971 3.629058 GAAAACCAAGCTCGAAAAGACC 58.371 45.455 0.00 0.00 0.00 3.85
6625 6972 2.341846 AACCAAGCTCGAAAAGACCA 57.658 45.000 0.00 0.00 0.00 4.02
6626 6973 1.884235 ACCAAGCTCGAAAAGACCAG 58.116 50.000 0.00 0.00 0.00 4.00
6627 6974 1.160137 CCAAGCTCGAAAAGACCAGG 58.840 55.000 0.00 0.00 0.00 4.45
6628 6975 1.270839 CCAAGCTCGAAAAGACCAGGA 60.271 52.381 0.00 0.00 0.00 3.86
6629 6976 1.801178 CAAGCTCGAAAAGACCAGGAC 59.199 52.381 0.00 0.00 0.00 3.85
6630 6977 0.321996 AGCTCGAAAAGACCAGGACC 59.678 55.000 0.00 0.00 0.00 4.46
6631 6978 1.014564 GCTCGAAAAGACCAGGACCG 61.015 60.000 0.00 0.00 0.00 4.79
6632 6979 0.601558 CTCGAAAAGACCAGGACCGA 59.398 55.000 0.00 0.00 0.00 4.69
6633 6980 1.204941 CTCGAAAAGACCAGGACCGAT 59.795 52.381 0.00 0.00 0.00 4.18
6634 6981 2.426024 CTCGAAAAGACCAGGACCGATA 59.574 50.000 0.00 0.00 0.00 2.92
6635 6982 2.426024 TCGAAAAGACCAGGACCGATAG 59.574 50.000 0.00 0.00 0.00 2.08
6636 6983 2.426024 CGAAAAGACCAGGACCGATAGA 59.574 50.000 0.00 0.00 39.76 1.98
6637 6984 3.119245 CGAAAAGACCAGGACCGATAGAA 60.119 47.826 0.00 0.00 39.76 2.10
6638 6985 4.619863 CGAAAAGACCAGGACCGATAGAAA 60.620 45.833 0.00 0.00 39.76 2.52
6639 6986 4.903045 AAAGACCAGGACCGATAGAAAA 57.097 40.909 0.00 0.00 39.76 2.29
6640 6987 4.473477 AAGACCAGGACCGATAGAAAAG 57.527 45.455 0.00 0.00 39.76 2.27
6641 6988 3.709587 AGACCAGGACCGATAGAAAAGA 58.290 45.455 0.00 0.00 39.76 2.52
6642 6989 3.447944 AGACCAGGACCGATAGAAAAGAC 59.552 47.826 0.00 0.00 39.76 3.01
6643 6990 2.500504 ACCAGGACCGATAGAAAAGACC 59.499 50.000 0.00 0.00 39.76 3.85
6644 6991 2.500098 CCAGGACCGATAGAAAAGACCA 59.500 50.000 0.00 0.00 39.76 4.02
6645 6992 3.055385 CCAGGACCGATAGAAAAGACCAA 60.055 47.826 0.00 0.00 39.76 3.67
6646 6993 4.564821 CCAGGACCGATAGAAAAGACCAAA 60.565 45.833 0.00 0.00 39.76 3.28
6647 6994 5.186198 CAGGACCGATAGAAAAGACCAAAT 58.814 41.667 0.00 0.00 39.76 2.32
6648 6995 6.346096 CAGGACCGATAGAAAAGACCAAATA 58.654 40.000 0.00 0.00 39.76 1.40
6649 6996 6.821665 CAGGACCGATAGAAAAGACCAAATAA 59.178 38.462 0.00 0.00 39.76 1.40
6650 6997 7.335924 CAGGACCGATAGAAAAGACCAAATAAA 59.664 37.037 0.00 0.00 39.76 1.40
6651 6998 7.886446 AGGACCGATAGAAAAGACCAAATAAAA 59.114 33.333 0.00 0.00 39.76 1.52
6652 6999 8.517056 GGACCGATAGAAAAGACCAAATAAAAA 58.483 33.333 0.00 0.00 39.76 1.94
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.569404 AGGTGAACTTTAGCCTCCTCTG 59.431 50.000 0.00 0.00 0.00 3.35
1 2 2.909217 AGGTGAACTTTAGCCTCCTCT 58.091 47.619 0.00 0.00 0.00 3.69
2 3 4.820894 TTAGGTGAACTTTAGCCTCCTC 57.179 45.455 0.00 0.00 32.90 3.71
3 4 6.672657 TCTTATTAGGTGAACTTTAGCCTCCT 59.327 38.462 0.00 0.00 32.90 3.69
4 5 6.885922 TCTTATTAGGTGAACTTTAGCCTCC 58.114 40.000 0.00 0.00 32.90 4.30
5 6 6.480651 GCTCTTATTAGGTGAACTTTAGCCTC 59.519 42.308 0.00 0.00 32.90 4.70
6 7 6.070194 TGCTCTTATTAGGTGAACTTTAGCCT 60.070 38.462 0.00 0.00 35.28 4.58
7 8 6.113411 TGCTCTTATTAGGTGAACTTTAGCC 58.887 40.000 0.00 0.00 0.00 3.93
8 9 7.611213 TTGCTCTTATTAGGTGAACTTTAGC 57.389 36.000 0.00 0.00 0.00 3.09
573 616 0.184451 AGTCGGCGAGATAGGGGTAA 59.816 55.000 11.20 0.00 0.00 2.85
580 623 2.486918 TCGTAATCAGTCGGCGAGATA 58.513 47.619 11.20 0.00 0.00 1.98
959 1002 2.676121 CCACCAATGGCTGCGGAA 60.676 61.111 0.00 0.00 39.82 4.30
1047 1090 3.941188 CCAGTGGCCGTGACCTGT 61.941 66.667 6.49 0.00 0.00 4.00
1239 1283 3.785486 TGTATCTCCAGCGTGAATCAAG 58.215 45.455 0.00 0.00 0.00 3.02
1366 1410 7.950512 TCACCAATCTCTATTTTCAAAGCAAA 58.049 30.769 0.00 0.00 0.00 3.68
1367 1411 7.523293 TCACCAATCTCTATTTTCAAAGCAA 57.477 32.000 0.00 0.00 0.00 3.91
1368 1412 7.523293 TTCACCAATCTCTATTTTCAAAGCA 57.477 32.000 0.00 0.00 0.00 3.91
1369 1413 8.992835 AATTCACCAATCTCTATTTTCAAAGC 57.007 30.769 0.00 0.00 0.00 3.51
1377 1421 9.865321 CAACATTCAAATTCACCAATCTCTATT 57.135 29.630 0.00 0.00 0.00 1.73
1378 1422 9.028284 ACAACATTCAAATTCACCAATCTCTAT 57.972 29.630 0.00 0.00 0.00 1.98
1379 1423 8.408043 ACAACATTCAAATTCACCAATCTCTA 57.592 30.769 0.00 0.00 0.00 2.43
1380 1424 7.294017 ACAACATTCAAATTCACCAATCTCT 57.706 32.000 0.00 0.00 0.00 3.10
1381 1425 7.951530 AACAACATTCAAATTCACCAATCTC 57.048 32.000 0.00 0.00 0.00 2.75
1382 1426 8.206189 AGAAACAACATTCAAATTCACCAATCT 58.794 29.630 0.00 0.00 0.00 2.40
1383 1427 8.369218 AGAAACAACATTCAAATTCACCAATC 57.631 30.769 0.00 0.00 0.00 2.67
1384 1428 8.614346 CAAGAAACAACATTCAAATTCACCAAT 58.386 29.630 0.00 0.00 0.00 3.16
1385 1429 7.065563 CCAAGAAACAACATTCAAATTCACCAA 59.934 33.333 0.00 0.00 0.00 3.67
1386 1430 6.538021 CCAAGAAACAACATTCAAATTCACCA 59.462 34.615 0.00 0.00 0.00 4.17
1387 1431 6.760770 TCCAAGAAACAACATTCAAATTCACC 59.239 34.615 0.00 0.00 0.00 4.02
1388 1432 7.769272 TCCAAGAAACAACATTCAAATTCAC 57.231 32.000 0.00 0.00 0.00 3.18
1416 1460 9.638176 GCCAATATTCCCATCATCTAATCTAAT 57.362 33.333 0.00 0.00 0.00 1.73
1417 1461 8.613923 TGCCAATATTCCCATCATCTAATCTAA 58.386 33.333 0.00 0.00 0.00 2.10
1418 1462 8.049117 GTGCCAATATTCCCATCATCTAATCTA 58.951 37.037 0.00 0.00 0.00 1.98
1419 1463 6.888632 GTGCCAATATTCCCATCATCTAATCT 59.111 38.462 0.00 0.00 0.00 2.40
1420 1464 6.660521 TGTGCCAATATTCCCATCATCTAATC 59.339 38.462 0.00 0.00 0.00 1.75
1447 1491 7.234782 ACATGAATTCTTCAATGATGCCCATAT 59.765 33.333 7.05 0.00 43.95 1.78
1477 1521 8.568617 ACAGGAACCCTTGATACTAGATAAAT 57.431 34.615 0.00 0.00 0.00 1.40
1523 1567 2.477825 CAGCTGATACCACCTGAATCG 58.522 52.381 8.42 0.00 29.49 3.34
1926 2002 3.356529 AGGTCAAACAGCCTTCCATAG 57.643 47.619 0.00 0.00 0.00 2.23
2012 2088 0.034186 CCAATGCCTCCTTAGCACCA 60.034 55.000 0.00 0.00 44.40 4.17
2066 2142 1.264749 ACTCGCCTGCCACCAAGATA 61.265 55.000 0.00 0.00 0.00 1.98
2130 2215 5.297547 TCGTAAGAGCACAGAAAAATCACT 58.702 37.500 0.00 0.00 45.01 3.41
2389 2474 1.215382 CCGTGATGAAGACTGCCGA 59.785 57.895 0.00 0.00 0.00 5.54
2848 2933 2.038659 GGCTCACTTGATAGAGGAGCT 58.961 52.381 11.20 0.00 44.33 4.09
3087 3172 5.591472 AGCATCAATTGATAGCTACAAGCAA 59.409 36.000 28.59 0.00 36.75 3.91
3166 3252 3.968649 TCACAGAAGATTTGCTTGTTGC 58.031 40.909 0.00 0.00 36.83 4.17
3410 3726 9.135189 ACCAAGAGTTAACCGTATATACATACA 57.865 33.333 13.22 0.00 37.47 2.29
3411 3727 9.403110 CACCAAGAGTTAACCGTATATACATAC 57.597 37.037 13.22 3.44 34.75 2.39
3412 3728 9.135189 ACACCAAGAGTTAACCGTATATACATA 57.865 33.333 13.22 0.61 0.00 2.29
3413 3729 8.015185 ACACCAAGAGTTAACCGTATATACAT 57.985 34.615 13.22 1.51 0.00 2.29
3414 3730 7.408756 ACACCAAGAGTTAACCGTATATACA 57.591 36.000 13.22 0.00 0.00 2.29
3415 3731 7.223387 CCAACACCAAGAGTTAACCGTATATAC 59.777 40.741 0.88 2.53 0.00 1.47
3416 3732 7.123997 TCCAACACCAAGAGTTAACCGTATATA 59.876 37.037 0.88 0.00 0.00 0.86
3417 3733 6.070653 TCCAACACCAAGAGTTAACCGTATAT 60.071 38.462 0.88 0.00 0.00 0.86
3418 3734 5.245751 TCCAACACCAAGAGTTAACCGTATA 59.754 40.000 0.88 0.00 0.00 1.47
3419 3735 4.040706 TCCAACACCAAGAGTTAACCGTAT 59.959 41.667 0.88 0.00 0.00 3.06
3420 3736 3.387374 TCCAACACCAAGAGTTAACCGTA 59.613 43.478 0.88 0.00 0.00 4.02
3421 3737 2.171027 TCCAACACCAAGAGTTAACCGT 59.829 45.455 0.88 0.00 0.00 4.83
3422 3738 2.546789 GTCCAACACCAAGAGTTAACCG 59.453 50.000 0.88 0.00 0.00 4.44
3423 3739 3.816994 AGTCCAACACCAAGAGTTAACC 58.183 45.455 0.88 0.00 0.00 2.85
3424 3740 5.695363 GTCTAGTCCAACACCAAGAGTTAAC 59.305 44.000 0.00 0.00 0.00 2.01
3496 3812 6.349115 GCATATATCAGAGGCAAATGAAGTGG 60.349 42.308 0.00 0.00 0.00 4.00
3601 3917 6.064060 CCAGTGAAATATAAAGCATCTCCCA 58.936 40.000 0.00 0.00 0.00 4.37
3706 4022 3.186345 CAGTCATTCTGCCCATGCT 57.814 52.632 0.00 0.00 37.36 3.79
3766 4082 1.802960 AGAGTGAAACATGAAGCGCAG 59.197 47.619 11.47 0.00 41.43 5.18
3807 4123 5.598830 CAGTAGCCCTTAGGAATACTTCAGA 59.401 44.000 11.10 0.00 35.89 3.27
3843 4159 6.183360 ACACACAAGGAAAACAACCTATCAAG 60.183 38.462 0.00 0.00 36.67 3.02
3896 4212 4.385310 GGCATCCTTCCACAGTATTTACCT 60.385 45.833 0.00 0.00 0.00 3.08
4017 4333 8.859156 CAATATTTTGTTATTAGGCACACACAC 58.141 33.333 0.00 0.00 0.00 3.82
4018 4334 8.797438 TCAATATTTTGTTATTAGGCACACACA 58.203 29.630 0.00 0.00 34.32 3.72
4095 4411 6.596621 GGAGATTAGTTTCCCTGCTAGATTT 58.403 40.000 0.00 0.00 0.00 2.17
4123 4439 8.051535 CAGCAATCAAATCCATAGGTATAGGAT 58.948 37.037 0.00 0.00 43.77 3.24
4318 4635 7.338710 AGCATCAGTTTTATGAGTAAGCCTTA 58.661 34.615 0.00 0.00 31.44 2.69
4325 4642 9.297586 CGTTTACTAGCATCAGTTTTATGAGTA 57.702 33.333 0.00 0.00 31.44 2.59
4790 5107 7.517614 TTAATCTTGATTTGCTAACACCACA 57.482 32.000 0.95 0.00 0.00 4.17
4993 5310 2.046023 TCTGAATGGTGCCGCTGG 60.046 61.111 0.00 0.00 0.00 4.85
5026 5343 2.481952 GTCAACAGACTGCAAGGATGAC 59.518 50.000 1.25 4.67 39.30 3.06
5107 5424 1.143305 CTCCTGTGTCAGCAAGTTCG 58.857 55.000 0.00 0.00 0.00 3.95
5131 5448 0.399949 AGCCGGATACCTGGAATCCA 60.400 55.000 5.05 0.48 42.69 3.41
5203 5520 3.324846 TGCCAGACTGTGAGTTCTTGTAT 59.675 43.478 0.93 0.00 0.00 2.29
5233 5550 1.862008 GCCTCTGACGATGAACTAGCG 60.862 57.143 0.00 0.00 45.27 4.26
5426 5743 5.468072 GTGAATTGGGCATATGTCACTAGAG 59.532 44.000 9.98 0.00 34.05 2.43
5486 5803 5.535333 TGTGAACAAGTAACTACAGGCTAC 58.465 41.667 0.00 0.00 0.00 3.58
5689 6006 4.359706 CTGCCTTTTAAAGCGTCTGTTTT 58.640 39.130 0.00 0.00 32.89 2.43
5716 6033 2.771943 CTGTGGCTTCCATAGTCCCTAA 59.228 50.000 1.97 0.00 37.85 2.69
5764 6081 5.220815 GCTATCAGTTCTCAGCATCAAAAGG 60.221 44.000 0.00 0.00 34.13 3.11
5965 6285 1.172180 TTTCAAAGGGCAGCAGGACG 61.172 55.000 0.00 0.00 0.00 4.79
6154 6475 4.282195 AGAGTCAATCGACAAGAGAAAGGT 59.718 41.667 0.00 0.00 45.23 3.50
6186 6507 6.204688 ACTTTTCTGCAGTCAATCACGAAATA 59.795 34.615 14.67 0.00 0.00 1.40
6286 6617 8.773033 TTCCCTCCGTAAACTAATATAAGAGT 57.227 34.615 0.00 0.00 0.00 3.24
6406 6753 2.125713 CGCGCAGTGTACCATCCA 60.126 61.111 8.75 0.00 0.00 3.41
6415 6762 2.511627 TAATGCAGCAACGCGCAGTG 62.512 55.000 5.73 5.44 46.13 3.66
6416 6763 1.851021 TTAATGCAGCAACGCGCAGT 61.851 50.000 5.73 3.19 46.13 4.40
6417 6764 0.523968 ATTAATGCAGCAACGCGCAG 60.524 50.000 5.73 2.42 46.13 5.18
6418 6765 0.109365 AATTAATGCAGCAACGCGCA 60.109 45.000 5.73 7.67 46.13 6.09
6419 6766 0.991344 AAATTAATGCAGCAACGCGC 59.009 45.000 5.73 0.00 42.91 6.86
6420 6767 2.408032 ACAAAATTAATGCAGCAACGCG 59.592 40.909 3.53 3.53 33.35 6.01
6421 6768 3.428198 TGACAAAATTAATGCAGCAACGC 59.572 39.130 0.00 0.00 0.00 4.84
6422 6769 5.573296 TTGACAAAATTAATGCAGCAACG 57.427 34.783 0.00 0.00 0.00 4.10
6476 6823 9.905713 AGATCCATATGTATGTGTGTACTTTTT 57.094 29.630 1.24 0.00 31.82 1.94
6478 6825 9.982651 GTAGATCCATATGTATGTGTGTACTTT 57.017 33.333 1.24 0.00 31.82 2.66
6479 6826 9.143155 TGTAGATCCATATGTATGTGTGTACTT 57.857 33.333 1.24 0.00 31.82 2.24
6480 6827 8.577296 GTGTAGATCCATATGTATGTGTGTACT 58.423 37.037 1.24 0.00 31.82 2.73
6481 6828 8.357402 TGTGTAGATCCATATGTATGTGTGTAC 58.643 37.037 1.24 0.00 31.82 2.90
6482 6829 8.472007 TGTGTAGATCCATATGTATGTGTGTA 57.528 34.615 1.24 0.00 31.82 2.90
6483 6830 7.360113 TGTGTAGATCCATATGTATGTGTGT 57.640 36.000 1.24 0.00 31.82 3.72
6484 6831 6.367149 GCTGTGTAGATCCATATGTATGTGTG 59.633 42.308 1.24 0.00 31.82 3.82
6485 6832 6.268617 AGCTGTGTAGATCCATATGTATGTGT 59.731 38.462 1.24 0.00 31.82 3.72
6486 6833 6.695429 AGCTGTGTAGATCCATATGTATGTG 58.305 40.000 1.24 0.00 31.82 3.21
6487 6834 6.924913 AGCTGTGTAGATCCATATGTATGT 57.075 37.500 1.24 0.00 31.82 2.29
6488 6835 7.157347 ACAAGCTGTGTAGATCCATATGTATG 58.843 38.462 1.24 0.00 39.29 2.39
6489 6836 7.308450 ACAAGCTGTGTAGATCCATATGTAT 57.692 36.000 1.24 0.00 39.29 2.29
6490 6837 6.731292 ACAAGCTGTGTAGATCCATATGTA 57.269 37.500 1.24 0.00 39.29 2.29
6491 6838 5.620738 ACAAGCTGTGTAGATCCATATGT 57.379 39.130 1.24 0.00 39.29 2.29
6492 6839 6.722301 CAAACAAGCTGTGTAGATCCATATG 58.278 40.000 0.00 0.00 40.60 1.78
6493 6840 5.297776 GCAAACAAGCTGTGTAGATCCATAT 59.702 40.000 0.00 0.00 40.60 1.78
6494 6841 4.635765 GCAAACAAGCTGTGTAGATCCATA 59.364 41.667 0.00 0.00 40.60 2.74
6495 6842 3.441572 GCAAACAAGCTGTGTAGATCCAT 59.558 43.478 0.00 0.00 40.60 3.41
6496 6843 2.813754 GCAAACAAGCTGTGTAGATCCA 59.186 45.455 0.00 0.00 40.60 3.41
6497 6844 2.813754 TGCAAACAAGCTGTGTAGATCC 59.186 45.455 0.00 0.00 40.60 3.36
6498 6845 4.488126 TTGCAAACAAGCTGTGTAGATC 57.512 40.909 0.00 0.00 40.60 2.75
6499 6846 4.339247 ACTTTGCAAACAAGCTGTGTAGAT 59.661 37.500 8.05 0.00 40.60 1.98
6500 6847 3.694072 ACTTTGCAAACAAGCTGTGTAGA 59.306 39.130 8.05 0.00 40.60 2.59
6501 6848 4.032703 ACTTTGCAAACAAGCTGTGTAG 57.967 40.909 8.05 0.00 40.60 2.74
6502 6849 4.448537 AACTTTGCAAACAAGCTGTGTA 57.551 36.364 8.05 0.00 40.60 2.90
6503 6850 3.317603 AACTTTGCAAACAAGCTGTGT 57.682 38.095 8.05 0.00 44.64 3.72
6504 6851 3.679025 TGAAACTTTGCAAACAAGCTGTG 59.321 39.130 8.05 0.00 37.04 3.66
6505 6852 3.924144 TGAAACTTTGCAAACAAGCTGT 58.076 36.364 8.05 0.28 37.04 4.40
6506 6853 4.260456 CCATGAAACTTTGCAAACAAGCTG 60.260 41.667 8.05 0.00 37.04 4.24
6507 6854 3.872771 CCATGAAACTTTGCAAACAAGCT 59.127 39.130 8.05 0.00 37.04 3.74
6508 6855 3.546616 GCCATGAAACTTTGCAAACAAGC 60.547 43.478 8.05 8.61 37.04 4.01
6509 6856 3.302610 CGCCATGAAACTTTGCAAACAAG 60.303 43.478 8.05 0.81 37.04 3.16
6510 6857 2.606725 CGCCATGAAACTTTGCAAACAA 59.393 40.909 8.05 0.00 0.00 2.83
6511 6858 2.159184 TCGCCATGAAACTTTGCAAACA 60.159 40.909 8.05 5.16 0.00 2.83
6512 6859 2.468831 TCGCCATGAAACTTTGCAAAC 58.531 42.857 8.05 0.00 0.00 2.93
6513 6860 2.879002 TCGCCATGAAACTTTGCAAA 57.121 40.000 12.14 12.14 0.00 3.68
6514 6861 2.879002 TTCGCCATGAAACTTTGCAA 57.121 40.000 0.00 0.00 32.37 4.08
6515 6862 2.879002 TTTCGCCATGAAACTTTGCA 57.121 40.000 0.00 0.00 41.59 4.08
6539 6886 2.747446 GCGAAGATGGCTCACCTAAAAA 59.253 45.455 0.00 0.00 36.63 1.94
6540 6887 2.356135 GCGAAGATGGCTCACCTAAAA 58.644 47.619 0.00 0.00 36.63 1.52
6541 6888 1.406887 GGCGAAGATGGCTCACCTAAA 60.407 52.381 0.00 0.00 36.63 1.85
6542 6889 0.178068 GGCGAAGATGGCTCACCTAA 59.822 55.000 0.00 0.00 36.63 2.69
6543 6890 0.975556 TGGCGAAGATGGCTCACCTA 60.976 55.000 0.00 0.00 36.63 3.08
6544 6891 2.293318 TGGCGAAGATGGCTCACCT 61.293 57.895 0.00 0.00 36.63 4.00
6545 6892 2.109126 GTGGCGAAGATGGCTCACC 61.109 63.158 0.00 0.00 35.06 4.02
6546 6893 2.109126 GGTGGCGAAGATGGCTCAC 61.109 63.158 0.00 0.00 33.59 3.51
6547 6894 1.913951 ATGGTGGCGAAGATGGCTCA 61.914 55.000 0.00 0.00 35.06 4.26
6548 6895 1.153086 ATGGTGGCGAAGATGGCTC 60.153 57.895 0.00 0.00 35.06 4.70
6549 6896 1.153086 GATGGTGGCGAAGATGGCT 60.153 57.895 0.00 0.00 35.06 4.75
6550 6897 1.451927 TGATGGTGGCGAAGATGGC 60.452 57.895 0.00 0.00 0.00 4.40
6551 6898 1.097547 GGTGATGGTGGCGAAGATGG 61.098 60.000 0.00 0.00 0.00 3.51
6552 6899 1.431488 CGGTGATGGTGGCGAAGATG 61.431 60.000 0.00 0.00 0.00 2.90
6553 6900 1.153369 CGGTGATGGTGGCGAAGAT 60.153 57.895 0.00 0.00 0.00 2.40
6554 6901 1.252215 TACGGTGATGGTGGCGAAGA 61.252 55.000 0.00 0.00 0.00 2.87
6555 6902 0.806102 CTACGGTGATGGTGGCGAAG 60.806 60.000 0.00 0.00 0.00 3.79
6556 6903 1.216977 CTACGGTGATGGTGGCGAA 59.783 57.895 0.00 0.00 0.00 4.70
6557 6904 2.889617 CTACGGTGATGGTGGCGA 59.110 61.111 0.00 0.00 0.00 5.54
6558 6905 2.852495 AAGCTACGGTGATGGTGGCG 62.852 60.000 0.00 0.00 45.29 5.69
6559 6906 0.177141 TAAGCTACGGTGATGGTGGC 59.823 55.000 0.00 0.00 41.58 5.01
6560 6907 1.472728 GGTAAGCTACGGTGATGGTGG 60.473 57.143 0.00 0.00 0.00 4.61
6561 6908 1.472728 GGGTAAGCTACGGTGATGGTG 60.473 57.143 0.00 0.00 0.00 4.17
6562 6909 0.828677 GGGTAAGCTACGGTGATGGT 59.171 55.000 0.00 0.00 0.00 3.55
6563 6910 0.106149 GGGGTAAGCTACGGTGATGG 59.894 60.000 0.00 0.00 0.00 3.51
6564 6911 0.249322 CGGGGTAAGCTACGGTGATG 60.249 60.000 0.00 0.00 0.00 3.07
6565 6912 1.397390 CCGGGGTAAGCTACGGTGAT 61.397 60.000 0.00 0.00 41.34 3.06
6566 6913 2.053865 CCGGGGTAAGCTACGGTGA 61.054 63.158 0.00 0.00 41.34 4.02
6567 6914 2.497770 CCGGGGTAAGCTACGGTG 59.502 66.667 0.00 0.00 41.34 4.94
6570 6917 1.321474 TATGACCGGGGTAAGCTACG 58.679 55.000 6.32 0.00 0.00 3.51
6571 6918 3.825143 TTTATGACCGGGGTAAGCTAC 57.175 47.619 6.32 0.00 0.00 3.58
6572 6919 4.516323 GTTTTTATGACCGGGGTAAGCTA 58.484 43.478 6.32 0.00 0.00 3.32
6573 6920 3.349927 GTTTTTATGACCGGGGTAAGCT 58.650 45.455 6.32 0.00 0.00 3.74
6574 6921 2.424601 GGTTTTTATGACCGGGGTAAGC 59.575 50.000 6.32 0.00 0.00 3.09
6583 6930 3.328505 TCGGTCTTCGGTTTTTATGACC 58.671 45.455 0.00 0.00 40.16 4.02
6584 6931 4.996062 TTCGGTCTTCGGTTTTTATGAC 57.004 40.909 0.00 0.00 39.77 3.06
6585 6932 5.277925 GGTTTTCGGTCTTCGGTTTTTATGA 60.278 40.000 0.00 0.00 39.77 2.15
6586 6933 4.913345 GGTTTTCGGTCTTCGGTTTTTATG 59.087 41.667 0.00 0.00 39.77 1.90
6587 6934 4.579753 TGGTTTTCGGTCTTCGGTTTTTAT 59.420 37.500 0.00 0.00 39.77 1.40
6588 6935 3.944015 TGGTTTTCGGTCTTCGGTTTTTA 59.056 39.130 0.00 0.00 39.77 1.52
6589 6936 2.754002 TGGTTTTCGGTCTTCGGTTTTT 59.246 40.909 0.00 0.00 39.77 1.94
6590 6937 2.367486 TGGTTTTCGGTCTTCGGTTTT 58.633 42.857 0.00 0.00 39.77 2.43
6591 6938 2.041251 TGGTTTTCGGTCTTCGGTTT 57.959 45.000 0.00 0.00 39.77 3.27
6592 6939 1.944709 CTTGGTTTTCGGTCTTCGGTT 59.055 47.619 0.00 0.00 39.77 4.44
6593 6940 1.589803 CTTGGTTTTCGGTCTTCGGT 58.410 50.000 0.00 0.00 39.77 4.69
6594 6941 0.237498 GCTTGGTTTTCGGTCTTCGG 59.763 55.000 0.00 0.00 39.77 4.30
6595 6942 1.194772 GAGCTTGGTTTTCGGTCTTCG 59.805 52.381 0.00 0.00 40.90 3.79
6596 6943 1.194772 CGAGCTTGGTTTTCGGTCTTC 59.805 52.381 0.00 0.00 0.00 2.87
6597 6944 1.202604 TCGAGCTTGGTTTTCGGTCTT 60.203 47.619 0.00 0.00 35.21 3.01
6598 6945 0.391597 TCGAGCTTGGTTTTCGGTCT 59.608 50.000 0.00 0.00 35.21 3.85
6599 6946 1.223187 TTCGAGCTTGGTTTTCGGTC 58.777 50.000 0.00 0.00 35.21 4.79
6600 6947 1.670791 TTTCGAGCTTGGTTTTCGGT 58.329 45.000 0.00 0.00 35.21 4.69
6601 6948 2.289547 TCTTTTCGAGCTTGGTTTTCGG 59.710 45.455 0.00 0.00 35.21 4.30
6602 6949 3.289076 GTCTTTTCGAGCTTGGTTTTCG 58.711 45.455 0.00 0.00 35.76 3.46
6603 6950 3.066203 TGGTCTTTTCGAGCTTGGTTTTC 59.934 43.478 0.00 0.00 40.75 2.29
6604 6951 3.020984 TGGTCTTTTCGAGCTTGGTTTT 58.979 40.909 0.00 0.00 40.75 2.43
6605 6952 2.618709 CTGGTCTTTTCGAGCTTGGTTT 59.381 45.455 0.00 0.00 40.75 3.27
6606 6953 2.222027 CTGGTCTTTTCGAGCTTGGTT 58.778 47.619 0.00 0.00 40.75 3.67
6607 6954 1.543429 CCTGGTCTTTTCGAGCTTGGT 60.543 52.381 0.00 0.00 40.75 3.67
6608 6955 1.160137 CCTGGTCTTTTCGAGCTTGG 58.840 55.000 0.00 0.00 40.75 3.61
6609 6956 1.801178 GTCCTGGTCTTTTCGAGCTTG 59.199 52.381 0.00 0.00 40.75 4.01
6610 6957 1.270893 GGTCCTGGTCTTTTCGAGCTT 60.271 52.381 0.00 0.00 40.75 3.74
6611 6958 0.321996 GGTCCTGGTCTTTTCGAGCT 59.678 55.000 0.00 0.00 40.75 4.09
6612 6959 1.014564 CGGTCCTGGTCTTTTCGAGC 61.015 60.000 0.00 0.00 40.53 5.03
6613 6960 0.601558 TCGGTCCTGGTCTTTTCGAG 59.398 55.000 0.00 0.00 0.00 4.04
6614 6961 1.263356 ATCGGTCCTGGTCTTTTCGA 58.737 50.000 0.00 0.00 0.00 3.71
6615 6962 2.426024 TCTATCGGTCCTGGTCTTTTCG 59.574 50.000 0.00 0.00 0.00 3.46
6616 6963 4.467198 TTCTATCGGTCCTGGTCTTTTC 57.533 45.455 0.00 0.00 0.00 2.29
6617 6964 4.903045 TTTCTATCGGTCCTGGTCTTTT 57.097 40.909 0.00 0.00 0.00 2.27
6618 6965 4.530946 TCTTTTCTATCGGTCCTGGTCTTT 59.469 41.667 0.00 0.00 0.00 2.52
6619 6966 4.081586 GTCTTTTCTATCGGTCCTGGTCTT 60.082 45.833 0.00 0.00 0.00 3.01
6620 6967 3.447944 GTCTTTTCTATCGGTCCTGGTCT 59.552 47.826 0.00 0.00 0.00 3.85
6621 6968 3.430513 GGTCTTTTCTATCGGTCCTGGTC 60.431 52.174 0.00 0.00 0.00 4.02
6622 6969 2.500504 GGTCTTTTCTATCGGTCCTGGT 59.499 50.000 0.00 0.00 0.00 4.00
6623 6970 2.500098 TGGTCTTTTCTATCGGTCCTGG 59.500 50.000 0.00 0.00 0.00 4.45
6624 6971 3.887621 TGGTCTTTTCTATCGGTCCTG 57.112 47.619 0.00 0.00 0.00 3.86
6625 6972 4.903045 TTTGGTCTTTTCTATCGGTCCT 57.097 40.909 0.00 0.00 0.00 3.85
6626 6973 7.619964 TTTATTTGGTCTTTTCTATCGGTCC 57.380 36.000 0.00 0.00 0.00 4.46


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

AutoCloner maintained by Alex Coulton.