Multiple sequence alignment - TraesCS4B01G267800

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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 TraesCS4B01G267800 chr4B 100.000 2716 0 0 1 2716 541451794 541449079 0.000000e+00 5016.0
1 TraesCS4B01G267800 chr4B 100.000 1882 0 0 3132 5013 541448663 541446782 0.000000e+00 3476.0
2 TraesCS4B01G267800 chr4B 87.687 804 72 9 4154 4931 656165481 656166283 0.000000e+00 911.0
3 TraesCS4B01G267800 chr4B 88.477 512 44 10 14 520 559535453 559534952 5.550000e-169 604.0
4 TraesCS4B01G267800 chr4B 85.859 198 20 8 2454 2647 541449148 541449341 2.370000e-48 204.0
5 TraesCS4B01G267800 chr4B 95.588 68 2 1 2650 2716 94178837 94178770 1.910000e-19 108.0
6 TraesCS4B01G267800 chr4B 100.000 43 0 0 2482 2524 541449266 541449224 4.160000e-11 80.5
7 TraesCS4B01G267800 chr4B 100.000 43 0 0 2529 2571 541449313 541449271 4.160000e-11 80.5
8 TraesCS4B01G267800 chr4A 92.062 1033 64 11 3132 4153 30137040 30138065 0.000000e+00 1437.0
9 TraesCS4B01G267800 chr4A 90.503 895 63 15 3276 4153 27164695 27163806 0.000000e+00 1162.0
10 TraesCS4B01G267800 chr4A 92.818 724 44 5 1737 2455 30136293 30137013 0.000000e+00 1042.0
11 TraesCS4B01G267800 chr4A 92.215 578 35 6 1737 2311 27172323 27171753 0.000000e+00 809.0
12 TraesCS4B01G267800 chr4A 88.245 604 44 7 832 1421 27173364 27172774 0.000000e+00 697.0
13 TraesCS4B01G267800 chr4A 85.915 213 19 4 1084 1295 30133859 30134061 3.040000e-52 217.0
14 TraesCS4B01G267800 chr4A 93.333 90 4 1 746 833 27178071 27177982 1.130000e-26 132.0
15 TraesCS4B01G267800 chr4A 82.258 124 13 3 1298 1421 30134091 30134205 1.150000e-16 99.0
16 TraesCS4B01G267800 chr4D 91.803 976 40 20 3132 4088 437959142 437958188 0.000000e+00 1323.0
17 TraesCS4B01G267800 chr4D 87.316 883 76 15 4154 5013 414227309 414226440 0.000000e+00 977.0
18 TraesCS4B01G267800 chr4D 95.455 528 21 2 1453 1979 437960371 437959846 0.000000e+00 839.0
19 TraesCS4B01G267800 chr4D 89.703 573 44 6 893 1462 437960969 437960409 0.000000e+00 717.0
20 TraesCS4B01G267800 chr4D 91.496 341 23 5 1969 2306 437959657 437959320 9.830000e-127 464.0
21 TraesCS4B01G267800 chr4D 89.941 169 5 4 730 888 437961193 437961027 1.830000e-49 207.0
22 TraesCS4B01G267800 chr4D 96.721 122 4 0 2334 2455 437959332 437959211 2.370000e-48 204.0
23 TraesCS4B01G267800 chr4D 95.946 74 3 0 2448 2521 437959134 437959207 2.450000e-23 121.0
24 TraesCS4B01G267800 chr4D 97.101 69 2 0 2580 2648 437959207 437959139 3.170000e-22 117.0
25 TraesCS4B01G267800 chr4D 92.754 69 5 0 4085 4153 437958108 437958040 3.190000e-17 100.0
26 TraesCS4B01G267800 chr2B 90.363 882 54 5 4154 5011 456034101 456033227 0.000000e+00 1129.0
27 TraesCS4B01G267800 chr2B 90.263 760 49 8 4278 5013 777367643 777366885 0.000000e+00 970.0
28 TraesCS4B01G267800 chr2B 88.451 736 52 19 1 728 51189696 51190406 0.000000e+00 857.0
29 TraesCS4B01G267800 chr2B 86.939 735 51 29 6 730 129207129 129207828 0.000000e+00 784.0
30 TraesCS4B01G267800 chr2B 86.567 67 9 0 2650 2716 774163977 774163911 1.940000e-09 75.0
31 TraesCS4B01G267800 chr1D 87.741 881 82 12 4150 5013 451191826 451192697 0.000000e+00 1005.0
32 TraesCS4B01G267800 chr5A 87.316 883 81 15 4154 5012 404055915 404056790 0.000000e+00 981.0
33 TraesCS4B01G267800 chr3B 86.947 881 84 14 4150 5011 804612048 804611180 0.000000e+00 961.0
34 TraesCS4B01G267800 chr3B 88.259 741 62 18 1 732 800016340 800017064 0.000000e+00 863.0
35 TraesCS4B01G267800 chr3B 89.924 526 38 12 1 520 154447301 154446785 0.000000e+00 664.0
36 TraesCS4B01G267800 chr3B 88.571 525 48 10 1 520 655621857 655621340 1.180000e-175 627.0
37 TraesCS4B01G267800 chr5B 86.780 885 85 10 4150 5010 103527962 103528838 0.000000e+00 957.0
38 TraesCS4B01G267800 chr5B 85.843 890 68 21 4150 5011 680627197 680628056 0.000000e+00 893.0
39 TraesCS4B01G267800 chr5B 88.128 657 58 14 1 646 418539204 418539851 0.000000e+00 763.0
40 TraesCS4B01G267800 chr5B 89.168 517 46 10 1 513 706465520 706465010 1.970000e-178 636.0
41 TraesCS4B01G267800 chr7A 86.712 888 70 19 4154 5013 141651232 141652099 0.000000e+00 942.0
42 TraesCS4B01G267800 chr7A 86.261 888 69 19 4154 5013 140767267 140768129 0.000000e+00 915.0
43 TraesCS4B01G267800 chr7A 88.889 765 52 10 4275 5013 141056809 141057566 0.000000e+00 911.0
44 TraesCS4B01G267800 chr7A 80.871 758 82 32 1 730 733084190 733084912 5.710000e-149 538.0
45 TraesCS4B01G267800 chr3D 86.614 889 70 12 4154 5012 449748348 449747479 0.000000e+00 937.0
46 TraesCS4B01G267800 chr3D 84.831 890 92 19 4154 5011 448614046 448613168 0.000000e+00 856.0
47 TraesCS4B01G267800 chrUn 86.374 888 76 14 4151 5011 32168902 32169771 0.000000e+00 928.0
48 TraesCS4B01G267800 chrUn 82.058 758 74 31 19 730 22439729 22438988 1.550000e-164 590.0
49 TraesCS4B01G267800 chr3A 85.923 888 85 14 4154 5010 418763940 418764818 0.000000e+00 911.0
50 TraesCS4B01G267800 chr6B 87.016 801 75 8 4157 4932 690432555 690431759 0.000000e+00 876.0
51 TraesCS4B01G267800 chr6B 89.544 526 43 11 1 520 8096956 8096437 0.000000e+00 656.0
52 TraesCS4B01G267800 chr6B 85.561 374 32 17 375 733 159954408 159954042 6.130000e-99 372.0
53 TraesCS4B01G267800 chr6B 97.059 68 1 1 2650 2716 41615992 41616059 4.100000e-21 113.0
54 TraesCS4B01G267800 chr6B 95.522 67 2 1 2650 2716 694911269 694911334 6.860000e-19 106.0
55 TraesCS4B01G267800 chr7D 85.511 842 85 20 4144 4953 432738815 432739651 0.000000e+00 845.0
56 TraesCS4B01G267800 chr6A 84.436 771 67 29 1 730 590046846 590046088 0.000000e+00 710.0
57 TraesCS4B01G267800 chr6A 82.292 768 72 29 1 731 26825648 26826388 1.540000e-169 606.0
58 TraesCS4B01G267800 chr6A 98.507 67 1 0 2650 2716 143074974 143074908 8.820000e-23 119.0
59 TraesCS4B01G267800 chr6A 91.549 71 2 1 2650 2716 555841332 555841262 1.490000e-15 95.3
60 TraesCS4B01G267800 chr7B 89.564 527 43 11 1 520 648225337 648225858 0.000000e+00 658.0
61 TraesCS4B01G267800 chr7B 88.031 518 51 9 1 513 42164198 42164709 2.000000e-168 603.0
62 TraesCS4B01G267800 chr5D 88.247 519 49 10 1 513 53685458 53685970 1.190000e-170 610.0
63 TraesCS4B01G267800 chr2A 97.059 68 1 1 2650 2716 641940801 641940734 4.100000e-21 113.0


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 TraesCS4B01G267800 chr4B 541446782 541451794 5012 True 2163.250 5016 100.00000 1 5013 4 chr4B.!!$R3 5012
1 TraesCS4B01G267800 chr4B 656165481 656166283 802 False 911.000 911 87.68700 4154 4931 1 chr4B.!!$F2 777
2 TraesCS4B01G267800 chr4B 559534952 559535453 501 True 604.000 604 88.47700 14 520 1 chr4B.!!$R2 506
3 TraesCS4B01G267800 chr4A 27163806 27164695 889 True 1162.000 1162 90.50300 3276 4153 1 chr4A.!!$R1 877
4 TraesCS4B01G267800 chr4A 27171753 27173364 1611 True 753.000 809 90.23000 832 2311 2 chr4A.!!$R3 1479
5 TraesCS4B01G267800 chr4A 30133859 30138065 4206 False 698.750 1437 88.26325 1084 4153 4 chr4A.!!$F1 3069
6 TraesCS4B01G267800 chr4D 414226440 414227309 869 True 977.000 977 87.31600 4154 5013 1 chr4D.!!$R1 859
7 TraesCS4B01G267800 chr4D 437958040 437961193 3153 True 496.375 1323 93.12175 730 4153 8 chr4D.!!$R2 3423
8 TraesCS4B01G267800 chr2B 456033227 456034101 874 True 1129.000 1129 90.36300 4154 5011 1 chr2B.!!$R1 857
9 TraesCS4B01G267800 chr2B 777366885 777367643 758 True 970.000 970 90.26300 4278 5013 1 chr2B.!!$R3 735
10 TraesCS4B01G267800 chr2B 51189696 51190406 710 False 857.000 857 88.45100 1 728 1 chr2B.!!$F1 727
11 TraesCS4B01G267800 chr2B 129207129 129207828 699 False 784.000 784 86.93900 6 730 1 chr2B.!!$F2 724
12 TraesCS4B01G267800 chr1D 451191826 451192697 871 False 1005.000 1005 87.74100 4150 5013 1 chr1D.!!$F1 863
13 TraesCS4B01G267800 chr5A 404055915 404056790 875 False 981.000 981 87.31600 4154 5012 1 chr5A.!!$F1 858
14 TraesCS4B01G267800 chr3B 804611180 804612048 868 True 961.000 961 86.94700 4150 5011 1 chr3B.!!$R3 861
15 TraesCS4B01G267800 chr3B 800016340 800017064 724 False 863.000 863 88.25900 1 732 1 chr3B.!!$F1 731
16 TraesCS4B01G267800 chr3B 154446785 154447301 516 True 664.000 664 89.92400 1 520 1 chr3B.!!$R1 519
17 TraesCS4B01G267800 chr3B 655621340 655621857 517 True 627.000 627 88.57100 1 520 1 chr3B.!!$R2 519
18 TraesCS4B01G267800 chr5B 103527962 103528838 876 False 957.000 957 86.78000 4150 5010 1 chr5B.!!$F1 860
19 TraesCS4B01G267800 chr5B 680627197 680628056 859 False 893.000 893 85.84300 4150 5011 1 chr5B.!!$F3 861
20 TraesCS4B01G267800 chr5B 418539204 418539851 647 False 763.000 763 88.12800 1 646 1 chr5B.!!$F2 645
21 TraesCS4B01G267800 chr5B 706465010 706465520 510 True 636.000 636 89.16800 1 513 1 chr5B.!!$R1 512
22 TraesCS4B01G267800 chr7A 141651232 141652099 867 False 942.000 942 86.71200 4154 5013 1 chr7A.!!$F3 859
23 TraesCS4B01G267800 chr7A 140767267 140768129 862 False 915.000 915 86.26100 4154 5013 1 chr7A.!!$F1 859
24 TraesCS4B01G267800 chr7A 141056809 141057566 757 False 911.000 911 88.88900 4275 5013 1 chr7A.!!$F2 738
25 TraesCS4B01G267800 chr7A 733084190 733084912 722 False 538.000 538 80.87100 1 730 1 chr7A.!!$F4 729
26 TraesCS4B01G267800 chr3D 449747479 449748348 869 True 937.000 937 86.61400 4154 5012 1 chr3D.!!$R2 858
27 TraesCS4B01G267800 chr3D 448613168 448614046 878 True 856.000 856 84.83100 4154 5011 1 chr3D.!!$R1 857
28 TraesCS4B01G267800 chrUn 32168902 32169771 869 False 928.000 928 86.37400 4151 5011 1 chrUn.!!$F1 860
29 TraesCS4B01G267800 chrUn 22438988 22439729 741 True 590.000 590 82.05800 19 730 1 chrUn.!!$R1 711
30 TraesCS4B01G267800 chr3A 418763940 418764818 878 False 911.000 911 85.92300 4154 5010 1 chr3A.!!$F1 856
31 TraesCS4B01G267800 chr6B 690431759 690432555 796 True 876.000 876 87.01600 4157 4932 1 chr6B.!!$R3 775
32 TraesCS4B01G267800 chr6B 8096437 8096956 519 True 656.000 656 89.54400 1 520 1 chr6B.!!$R1 519
33 TraesCS4B01G267800 chr7D 432738815 432739651 836 False 845.000 845 85.51100 4144 4953 1 chr7D.!!$F1 809
34 TraesCS4B01G267800 chr6A 590046088 590046846 758 True 710.000 710 84.43600 1 730 1 chr6A.!!$R3 729
35 TraesCS4B01G267800 chr6A 26825648 26826388 740 False 606.000 606 82.29200 1 731 1 chr6A.!!$F1 730
36 TraesCS4B01G267800 chr7B 648225337 648225858 521 False 658.000 658 89.56400 1 520 1 chr7B.!!$F2 519
37 TraesCS4B01G267800 chr7B 42164198 42164709 511 False 603.000 603 88.03100 1 513 1 chr7B.!!$F1 512
38 TraesCS4B01G267800 chr5D 53685458 53685970 512 False 610.000 610 88.24700 1 513 1 chr5D.!!$F1 512

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
693 806 0.247460 CTCTGTGCGATCCCTGAACA 59.753 55.0 0.00 0.0 0.0 3.18 F
1895 3948 0.107654 CGCTGGAGTAAAGAAGGGGG 60.108 60.0 0.00 0.0 0.0 5.40 F
2517 4773 0.030101 GCAACAACAAGTAAGCGGCA 59.970 50.0 1.45 0.0 0.0 5.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2498 4754 0.030101 TGCCGCTTACTTGTTGTTGC 59.970 50.0 0.0 0.0 0.00 4.17 R
3745 6020 1.002366 CCTCAAATCCGAGAAGCACG 58.998 55.0 0.0 0.0 34.79 5.34 R
4031 6306 0.822811 TTCCAGCAAAGCAAAGCACA 59.177 45.0 0.0 0.0 0.00 4.57 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
71 73 7.531716 ACAACTTTTCACGTGAACATTTTCTA 58.468 30.769 29.74 10.62 33.13 2.10
80 82 6.970043 CACGTGAACATTTTCTAAAACTCCAA 59.030 34.615 10.90 0.00 32.36 3.53
343 385 5.043248 AGCTGGAACACTTTTTGAAATTCG 58.957 37.500 0.00 0.00 0.00 3.34
501 574 8.956426 ACACATCAAGAAAAGAAACAGAAACTA 58.044 29.630 0.00 0.00 0.00 2.24
656 769 2.913117 TAAGTGGGCCGGCCATGTT 61.913 57.895 44.46 32.98 37.98 2.71
690 803 1.670949 GCTCTCTGTGCGATCCCTGA 61.671 60.000 0.00 0.00 0.00 3.86
691 804 0.820226 CTCTCTGTGCGATCCCTGAA 59.180 55.000 0.00 0.00 0.00 3.02
692 805 0.532573 TCTCTGTGCGATCCCTGAAC 59.467 55.000 0.00 0.00 0.00 3.18
693 806 0.247460 CTCTGTGCGATCCCTGAACA 59.753 55.000 0.00 0.00 0.00 3.18
834 948 1.407979 TCGATCTAGGGTTTCCTTCGC 59.592 52.381 0.00 0.00 41.56 4.70
953 1134 2.287915 CACCAACGAAACAGGTTCTCAG 59.712 50.000 0.00 0.00 33.70 3.35
959 1140 3.637229 ACGAAACAGGTTCTCAGAGAGAA 59.363 43.478 5.41 5.41 45.01 2.87
976 1157 5.360714 AGAGAGAAAGAGGCTGTCAGAATAG 59.639 44.000 3.32 0.00 0.00 1.73
977 1158 5.022787 AGAGAAAGAGGCTGTCAGAATAGT 58.977 41.667 3.32 0.00 0.00 2.12
1018 1202 0.700564 AATGGAGCAAGCCAAGGAGA 59.299 50.000 0.00 0.00 42.16 3.71
1036 1220 3.055094 GGAGACAGAGGCTATTGTGGAAA 60.055 47.826 8.67 0.00 0.00 3.13
1037 1221 3.935828 GAGACAGAGGCTATTGTGGAAAC 59.064 47.826 8.67 0.00 0.00 2.78
1062 1246 2.456119 GCACGAGGAACATGCTCCG 61.456 63.158 9.49 1.68 40.75 4.63
1151 1335 0.521735 CGCAAGGGTAAGAACAAGGC 59.478 55.000 0.00 0.00 0.00 4.35
1274 1458 4.833390 ACCACAAGTAAGCAGTCTTATCC 58.167 43.478 0.00 0.00 37.16 2.59
1275 1459 4.192317 CCACAAGTAAGCAGTCTTATCCC 58.808 47.826 0.00 0.00 37.16 3.85
1276 1460 4.080863 CCACAAGTAAGCAGTCTTATCCCT 60.081 45.833 0.00 0.00 37.16 4.20
1295 1506 4.016444 CCCTCTTGCATGGCTAAACTTTA 58.984 43.478 0.00 0.00 0.00 1.85
1314 1525 7.653767 ACTTTAGTTTGTATTGAACTCCTCG 57.346 36.000 0.00 0.00 38.28 4.63
1344 1555 6.960992 GCATTTTGTTCTTTGAGTTTTGGTTC 59.039 34.615 0.00 0.00 0.00 3.62
1351 1562 4.881850 TCTTTGAGTTTTGGTTCTCTCCAC 59.118 41.667 0.00 0.00 37.20 4.02
1358 1569 7.086685 AGTTTTGGTTCTCTCCACCTATTTA 57.913 36.000 0.00 0.00 37.20 1.40
1361 1572 8.803235 GTTTTGGTTCTCTCCACCTATTTATTT 58.197 33.333 0.00 0.00 37.20 1.40
1362 1573 8.950007 TTTGGTTCTCTCCACCTATTTATTTT 57.050 30.769 0.00 0.00 37.20 1.82
1363 1574 8.950007 TTGGTTCTCTCCACCTATTTATTTTT 57.050 30.769 0.00 0.00 37.20 1.94
1441 2015 4.016444 TGAATTTGTATCAACAGGCCTCC 58.984 43.478 0.00 0.00 36.83 4.30
1534 2207 7.701539 ATTATACAGTTTTGACTTGCCATCA 57.298 32.000 0.00 0.00 0.00 3.07
1618 2387 6.183360 GCATTATTTTGTATCCACCACGTGTA 60.183 38.462 15.65 0.00 0.00 2.90
1659 2428 4.623932 ACTCACTTATTTGTCCTCTGCA 57.376 40.909 0.00 0.00 0.00 4.41
1663 2432 5.748402 TCACTTATTTGTCCTCTGCATGAT 58.252 37.500 0.00 0.00 0.00 2.45
1664 2433 6.182627 TCACTTATTTGTCCTCTGCATGATT 58.817 36.000 0.00 0.00 0.00 2.57
1798 3851 1.783711 GTCGACGATGCAGCTTCTATG 59.216 52.381 6.89 0.00 0.00 2.23
1847 3900 3.959991 GACCTCGCTGCCCCACTTC 62.960 68.421 0.00 0.00 0.00 3.01
1895 3948 0.107654 CGCTGGAGTAAAGAAGGGGG 60.108 60.000 0.00 0.00 0.00 5.40
1990 4242 4.142609 TGATTGTGAGAGGGATAACTGC 57.857 45.455 0.00 0.00 0.00 4.40
2027 4279 7.774157 ACGAGGATGTACGTATATATTCTCCAT 59.226 37.037 4.66 0.00 40.92 3.41
2090 4344 3.933155 AGTATTCTCGAAAAGCATGCG 57.067 42.857 13.01 0.00 0.00 4.73
2213 4469 3.119388 TGGCATCTAAGCAACAATTCTGC 60.119 43.478 1.46 1.46 40.24 4.26
2301 4557 8.225603 TCTCCTGCCTGTATTTTGATTAAATC 57.774 34.615 0.00 0.00 37.60 2.17
2324 4580 7.709269 TCTCATAATGTAAGGTCAATAACGC 57.291 36.000 0.00 0.00 0.00 4.84
2399 4655 9.981114 ATAGTCAATTTTTAAACTTTCCACCTG 57.019 29.630 0.00 0.00 0.00 4.00
2455 4711 5.192327 AGGTTTTGAAATGTCAGCTCTTG 57.808 39.130 0.00 0.00 34.49 3.02
2456 4712 4.889409 AGGTTTTGAAATGTCAGCTCTTGA 59.111 37.500 0.00 0.00 34.49 3.02
2458 4714 6.042143 GGTTTTGAAATGTCAGCTCTTGAAA 58.958 36.000 0.00 0.00 37.61 2.69
2459 4715 6.019559 GGTTTTGAAATGTCAGCTCTTGAAAC 60.020 38.462 0.00 0.34 37.61 2.78
2460 4716 4.836125 TGAAATGTCAGCTCTTGAAACC 57.164 40.909 0.00 0.00 37.61 3.27
2461 4717 4.206375 TGAAATGTCAGCTCTTGAAACCA 58.794 39.130 0.00 0.00 37.61 3.67
2462 4718 4.036734 TGAAATGTCAGCTCTTGAAACCAC 59.963 41.667 0.00 0.00 37.61 4.16
2463 4719 1.967319 TGTCAGCTCTTGAAACCACC 58.033 50.000 0.00 0.00 37.61 4.61
2464 4720 1.211703 TGTCAGCTCTTGAAACCACCA 59.788 47.619 0.00 0.00 37.61 4.17
2465 4721 1.604278 GTCAGCTCTTGAAACCACCAC 59.396 52.381 0.00 0.00 37.61 4.16
2466 4722 1.211703 TCAGCTCTTGAAACCACCACA 59.788 47.619 0.00 0.00 31.34 4.17
2467 4723 1.605710 CAGCTCTTGAAACCACCACAG 59.394 52.381 0.00 0.00 0.00 3.66
2468 4724 0.954452 GCTCTTGAAACCACCACAGG 59.046 55.000 0.00 0.00 0.00 4.00
2469 4725 0.954452 CTCTTGAAACCACCACAGGC 59.046 55.000 0.00 0.00 0.00 4.85
2470 4726 0.257328 TCTTGAAACCACCACAGGCA 59.743 50.000 0.00 0.00 0.00 4.75
2471 4727 1.110442 CTTGAAACCACCACAGGCAA 58.890 50.000 0.00 0.00 0.00 4.52
2472 4728 0.820871 TTGAAACCACCACAGGCAAC 59.179 50.000 0.00 0.00 0.00 4.17
2488 4744 4.119442 GGCAACTAACTCCGAATACAGA 57.881 45.455 0.00 0.00 0.00 3.41
2489 4745 4.694339 GGCAACTAACTCCGAATACAGAT 58.306 43.478 0.00 0.00 0.00 2.90
2490 4746 4.745620 GGCAACTAACTCCGAATACAGATC 59.254 45.833 0.00 0.00 0.00 2.75
2491 4747 4.441415 GCAACTAACTCCGAATACAGATCG 59.559 45.833 0.00 0.00 39.92 3.69
2492 4748 5.579718 CAACTAACTCCGAATACAGATCGT 58.420 41.667 0.00 0.00 38.60 3.73
2493 4749 5.831702 ACTAACTCCGAATACAGATCGTT 57.168 39.130 0.00 0.00 38.60 3.85
2494 4750 6.932356 ACTAACTCCGAATACAGATCGTTA 57.068 37.500 0.00 0.00 38.60 3.18
2495 4751 6.723282 ACTAACTCCGAATACAGATCGTTAC 58.277 40.000 0.00 0.00 38.60 2.50
2496 4752 4.206698 ACTCCGAATACAGATCGTTACG 57.793 45.455 0.00 0.00 38.60 3.18
2497 4753 3.873361 ACTCCGAATACAGATCGTTACGA 59.127 43.478 10.62 10.62 41.13 3.43
2498 4754 4.025061 ACTCCGAATACAGATCGTTACGAG 60.025 45.833 14.09 2.12 39.91 4.18
2499 4755 2.971915 CCGAATACAGATCGTTACGAGC 59.028 50.000 15.47 15.47 42.87 5.03
2500 4756 3.547413 CCGAATACAGATCGTTACGAGCA 60.547 47.826 24.43 4.86 45.07 4.26
2501 4757 4.033019 CGAATACAGATCGTTACGAGCAA 58.967 43.478 24.43 10.14 45.07 3.91
2502 4758 4.086227 CGAATACAGATCGTTACGAGCAAC 60.086 45.833 24.43 10.21 45.07 4.17
2503 4759 2.717580 ACAGATCGTTACGAGCAACA 57.282 45.000 24.43 0.00 45.07 3.33
2504 4760 3.021269 ACAGATCGTTACGAGCAACAA 57.979 42.857 24.43 0.00 45.07 2.83
2505 4761 2.729882 ACAGATCGTTACGAGCAACAAC 59.270 45.455 24.43 4.74 45.07 3.32
2506 4762 2.729360 CAGATCGTTACGAGCAACAACA 59.271 45.455 24.43 0.00 45.07 3.33
2507 4763 3.183574 CAGATCGTTACGAGCAACAACAA 59.816 43.478 24.43 0.00 45.07 2.83
2508 4764 3.428870 AGATCGTTACGAGCAACAACAAG 59.571 43.478 24.43 0.00 45.07 3.16
2509 4765 2.542597 TCGTTACGAGCAACAACAAGT 58.457 42.857 2.33 0.00 0.00 3.16
2510 4766 3.704512 TCGTTACGAGCAACAACAAGTA 58.295 40.909 2.33 0.00 0.00 2.24
2511 4767 4.111198 TCGTTACGAGCAACAACAAGTAA 58.889 39.130 2.33 0.00 0.00 2.24
2512 4768 4.207635 TCGTTACGAGCAACAACAAGTAAG 59.792 41.667 2.33 0.00 0.00 2.34
2513 4769 4.209112 GTTACGAGCAACAACAAGTAAGC 58.791 43.478 0.00 0.00 0.00 3.09
2514 4770 1.260561 ACGAGCAACAACAAGTAAGCG 59.739 47.619 0.00 0.00 36.73 4.68
2515 4771 1.398451 CGAGCAACAACAAGTAAGCGG 60.398 52.381 0.00 0.00 36.73 5.52
2516 4772 0.310854 AGCAACAACAAGTAAGCGGC 59.689 50.000 0.00 0.00 36.73 6.53
2517 4773 0.030101 GCAACAACAAGTAAGCGGCA 59.970 50.000 1.45 0.00 0.00 5.69
2518 4774 1.753956 CAACAACAAGTAAGCGGCAC 58.246 50.000 1.45 0.00 0.00 5.01
2519 4775 1.333619 CAACAACAAGTAAGCGGCACT 59.666 47.619 1.45 0.00 0.00 4.40
2520 4776 2.536761 ACAACAAGTAAGCGGCACTA 57.463 45.000 1.45 0.00 0.00 2.74
2521 4777 2.140717 ACAACAAGTAAGCGGCACTAC 58.859 47.619 1.45 3.39 0.00 2.73
2522 4778 2.224209 ACAACAAGTAAGCGGCACTACT 60.224 45.455 1.45 5.85 0.00 2.57
2523 4779 2.806244 CAACAAGTAAGCGGCACTACTT 59.194 45.455 17.02 17.02 33.52 2.24
2524 4780 3.121738 ACAAGTAAGCGGCACTACTTT 57.878 42.857 19.06 11.41 31.15 2.66
2525 4781 3.473625 ACAAGTAAGCGGCACTACTTTT 58.526 40.909 19.06 13.28 31.15 2.27
2526 4782 3.881089 ACAAGTAAGCGGCACTACTTTTT 59.119 39.130 19.06 10.44 31.15 1.94
2547 4803 7.815398 TTTTTAATACAGATCGTTACGAGCA 57.185 32.000 24.43 4.86 45.07 4.26
2548 4804 7.815398 TTTTAATACAGATCGTTACGAGCAA 57.185 32.000 24.43 10.14 45.07 3.91
2549 4805 6.801367 TTAATACAGATCGTTACGAGCAAC 57.199 37.500 24.43 10.21 45.07 4.17
2550 4806 2.717580 ACAGATCGTTACGAGCAACA 57.282 45.000 24.43 0.00 45.07 3.33
2551 4807 3.021269 ACAGATCGTTACGAGCAACAA 57.979 42.857 24.43 0.00 45.07 2.83
2552 4808 2.729882 ACAGATCGTTACGAGCAACAAC 59.270 45.455 24.43 4.74 45.07 3.32
2553 4809 2.729360 CAGATCGTTACGAGCAACAACA 59.271 45.455 24.43 0.00 45.07 3.33
2554 4810 3.183574 CAGATCGTTACGAGCAACAACAA 59.816 43.478 24.43 0.00 45.07 2.83
2555 4811 3.428870 AGATCGTTACGAGCAACAACAAG 59.571 43.478 24.43 0.00 45.07 3.16
2556 4812 2.542597 TCGTTACGAGCAACAACAAGT 58.457 42.857 2.33 0.00 0.00 3.16
2557 4813 3.704512 TCGTTACGAGCAACAACAAGTA 58.295 40.909 2.33 0.00 0.00 2.24
2558 4814 4.111198 TCGTTACGAGCAACAACAAGTAA 58.889 39.130 2.33 0.00 0.00 2.24
2559 4815 4.207635 TCGTTACGAGCAACAACAAGTAAG 59.792 41.667 2.33 0.00 0.00 2.34
2560 4816 4.209112 GTTACGAGCAACAACAAGTAAGC 58.791 43.478 0.00 0.00 0.00 3.09
2561 4817 1.260561 ACGAGCAACAACAAGTAAGCG 59.739 47.619 0.00 0.00 36.73 4.68
2562 4818 1.398451 CGAGCAACAACAAGTAAGCGG 60.398 52.381 0.00 0.00 36.73 5.52
2563 4819 0.310854 AGCAACAACAAGTAAGCGGC 59.689 50.000 0.00 0.00 36.73 6.53
2564 4820 0.030101 GCAACAACAAGTAAGCGGCA 59.970 50.000 1.45 0.00 0.00 5.69
2565 4821 1.753956 CAACAACAAGTAAGCGGCAC 58.246 50.000 1.45 0.00 0.00 5.01
2566 4822 1.333619 CAACAACAAGTAAGCGGCACT 59.666 47.619 1.45 0.00 0.00 4.40
2567 4823 2.536761 ACAACAAGTAAGCGGCACTA 57.463 45.000 1.45 0.00 0.00 2.74
2568 4824 2.140717 ACAACAAGTAAGCGGCACTAC 58.859 47.619 1.45 3.39 0.00 2.73
2569 4825 2.224209 ACAACAAGTAAGCGGCACTACT 60.224 45.455 1.45 5.85 0.00 2.57
2570 4826 2.806244 CAACAAGTAAGCGGCACTACTT 59.194 45.455 17.02 17.02 33.52 2.24
2571 4827 3.947910 ACAAGTAAGCGGCACTACTTA 57.052 42.857 20.34 1.78 32.20 2.24
2572 4828 4.261578 ACAAGTAAGCGGCACTACTTAA 57.738 40.909 20.34 0.00 32.20 1.85
2573 4829 4.634199 ACAAGTAAGCGGCACTACTTAAA 58.366 39.130 20.34 0.00 32.20 1.52
2574 4830 5.058490 ACAAGTAAGCGGCACTACTTAAAA 58.942 37.500 20.34 0.00 32.20 1.52
2575 4831 5.528320 ACAAGTAAGCGGCACTACTTAAAAA 59.472 36.000 20.34 0.00 32.20 1.94
2621 4878 2.401063 GCTCGTAACGATCTGTATTCGC 59.599 50.000 0.00 0.00 40.19 4.70
2632 4889 3.259064 TCTGTATTCGCAGTTAGTTGCC 58.741 45.455 0.00 0.00 41.01 4.52
2644 4901 1.975660 TAGTTGCCTGTGGTGGTTTC 58.024 50.000 0.00 0.00 0.00 2.78
2645 4902 0.033601 AGTTGCCTGTGGTGGTTTCA 60.034 50.000 0.00 0.00 0.00 2.69
2646 4903 0.820871 GTTGCCTGTGGTGGTTTCAA 59.179 50.000 0.00 0.00 0.00 2.69
2647 4904 1.412343 GTTGCCTGTGGTGGTTTCAAT 59.588 47.619 0.00 0.00 0.00 2.57
2648 4905 1.786937 TGCCTGTGGTGGTTTCAATT 58.213 45.000 0.00 0.00 0.00 2.32
2649 4906 2.950781 TGCCTGTGGTGGTTTCAATTA 58.049 42.857 0.00 0.00 0.00 1.40
2650 4907 2.890311 TGCCTGTGGTGGTTTCAATTAG 59.110 45.455 0.00 0.00 0.00 1.73
2651 4908 2.890945 GCCTGTGGTGGTTTCAATTAGT 59.109 45.455 0.00 0.00 0.00 2.24
2652 4909 3.305335 GCCTGTGGTGGTTTCAATTAGTG 60.305 47.826 0.00 0.00 0.00 2.74
2653 4910 3.255642 CCTGTGGTGGTTTCAATTAGTGG 59.744 47.826 0.00 0.00 0.00 4.00
2654 4911 2.625790 TGTGGTGGTTTCAATTAGTGGC 59.374 45.455 0.00 0.00 0.00 5.01
2655 4912 1.883275 TGGTGGTTTCAATTAGTGGCG 59.117 47.619 0.00 0.00 0.00 5.69
2656 4913 1.201414 GGTGGTTTCAATTAGTGGCGG 59.799 52.381 0.00 0.00 0.00 6.13
2657 4914 2.156098 GTGGTTTCAATTAGTGGCGGA 58.844 47.619 0.00 0.00 0.00 5.54
2658 4915 2.161609 GTGGTTTCAATTAGTGGCGGAG 59.838 50.000 0.00 0.00 0.00 4.63
2672 4929 3.748863 CGGAGCTATGTGCAAGTCT 57.251 52.632 0.00 0.00 45.94 3.24
2673 4930 1.284657 CGGAGCTATGTGCAAGTCTG 58.715 55.000 0.00 0.00 45.94 3.51
2674 4931 1.661341 GGAGCTATGTGCAAGTCTGG 58.339 55.000 0.00 0.00 45.94 3.86
2675 4932 1.661341 GAGCTATGTGCAAGTCTGGG 58.339 55.000 0.00 0.00 45.94 4.45
2676 4933 0.254178 AGCTATGTGCAAGTCTGGGG 59.746 55.000 0.00 0.00 45.94 4.96
2677 4934 0.749454 GCTATGTGCAAGTCTGGGGG 60.749 60.000 0.00 0.00 42.31 5.40
2715 4972 7.979444 CAACTTTGGACCTAACTATGAAGAA 57.021 36.000 0.00 0.00 0.00 2.52
3200 5465 1.890876 TCTTTGGTGCTGCGTTATGT 58.109 45.000 0.00 0.00 0.00 2.29
3223 5489 5.587388 AATGTTCAGAATGTGGCATTAGG 57.413 39.130 0.00 0.00 37.40 2.69
3247 5513 1.942657 CGAAGTATGTCTGGCCCAATG 59.057 52.381 0.00 0.00 0.00 2.82
3274 5540 5.400066 TTCAGATAACAGGACGATGTGAA 57.600 39.130 0.00 0.00 32.31 3.18
3296 5562 6.758416 TGAATTCAGTAAGATGGTTGATCGAG 59.242 38.462 3.38 0.00 36.04 4.04
3408 5683 9.599056 TTCTCATAATGATTATTGCCCCATTAA 57.401 29.630 0.00 0.00 35.79 1.40
3514 5789 4.885413 TGAAAACTAAACGAGATTCCGGA 58.115 39.130 0.00 0.00 0.00 5.14
3583 5858 4.142816 CCTTTTAACTCCTTCGTCATGCAG 60.143 45.833 0.00 0.00 0.00 4.41
3694 5969 1.077498 CATGGGGAATGGCCATATGGA 59.923 52.381 26.47 5.69 38.95 3.41
3745 6020 0.924090 GCATCGACGACATGGAAGTC 59.076 55.000 0.00 2.55 35.19 3.01
3803 6078 2.549064 TAAGGATGATGGGCATGTCG 57.451 50.000 0.00 0.00 37.34 4.35
3810 6085 0.659957 GATGGGCATGTCGAGCTTTC 59.340 55.000 0.00 0.00 0.00 2.62
3835 6110 2.542597 TGTGTCGTTAGCGTTGAAAGT 58.457 42.857 0.00 0.00 39.49 2.66
3876 6151 2.747855 GGAAGCGAACCCTGCCAG 60.748 66.667 0.00 0.00 30.17 4.85
3944 6219 1.139853 GATCTGGTAGGAGCCACCAAG 59.860 57.143 10.57 6.71 45.27 3.61
3947 6222 0.766674 TGGTAGGAGCCACCAAGTGT 60.767 55.000 7.93 0.00 43.08 3.55
4022 6297 3.330701 GTCTTATGGATGAAGGGGCCATA 59.669 47.826 4.39 0.00 42.19 2.74
4023 6298 4.018050 GTCTTATGGATGAAGGGGCCATAT 60.018 45.833 4.39 0.00 42.46 1.78
4025 6300 1.831835 TGGATGAAGGGGCCATATGA 58.168 50.000 4.39 0.00 0.00 2.15
4026 6301 1.706866 TGGATGAAGGGGCCATATGAG 59.293 52.381 4.39 0.00 0.00 2.90
4027 6302 1.005215 GGATGAAGGGGCCATATGAGG 59.995 57.143 4.39 0.00 0.00 3.86
4029 6304 1.607225 TGAAGGGGCCATATGAGGTT 58.393 50.000 4.39 0.00 0.00 3.50
4031 6306 2.314549 TGAAGGGGCCATATGAGGTTTT 59.685 45.455 4.39 0.00 0.00 2.43
4032 6307 2.459555 AGGGGCCATATGAGGTTTTG 57.540 50.000 4.39 0.00 0.00 2.44
4033 6308 1.645919 AGGGGCCATATGAGGTTTTGT 59.354 47.619 4.39 0.00 0.00 2.83
4034 6309 1.756538 GGGGCCATATGAGGTTTTGTG 59.243 52.381 4.39 0.00 0.00 3.33
4035 6310 1.136891 GGGCCATATGAGGTTTTGTGC 59.863 52.381 4.39 0.00 0.00 4.57
4036 6311 2.102578 GGCCATATGAGGTTTTGTGCT 58.897 47.619 3.65 0.00 0.00 4.40
4092 6466 1.266989 GTGTCTGTTTGCTACTTGGGC 59.733 52.381 0.00 0.00 0.00 5.36
4093 6467 1.142870 TGTCTGTTTGCTACTTGGGCT 59.857 47.619 0.00 0.00 0.00 5.19
4095 6469 0.883833 CTGTTTGCTACTTGGGCTGG 59.116 55.000 0.00 0.00 0.00 4.85
4097 6471 1.422024 TGTTTGCTACTTGGGCTGGTA 59.578 47.619 0.00 0.00 0.00 3.25
4145 6519 1.619654 TGTGCTTGCTTTGCTGGTAT 58.380 45.000 0.00 0.00 0.00 2.73
4194 6568 4.021456 TGCTATAGTACCTGCGTTGCATAT 60.021 41.667 0.84 0.00 38.13 1.78
4273 6647 2.999063 GGTTGCCTGCATGCCCTT 60.999 61.111 16.68 0.00 0.00 3.95
4287 6693 1.329913 GCCCTTTTACCTGCATGGGG 61.330 60.000 7.06 2.24 41.11 4.96
4346 6752 0.105760 TGGACAAACCCAAGGCATGT 60.106 50.000 0.00 0.00 38.00 3.21
4384 6790 1.872237 CGTCTGGTGTGTGGTAACCTG 60.872 57.143 0.00 0.00 37.36 4.00
4425 6831 1.172180 CCACCACACTTCGGCACAAT 61.172 55.000 0.00 0.00 0.00 2.71
4454 6860 2.612672 CACACATCATAAGCAGAGCAGG 59.387 50.000 0.00 0.00 0.00 4.85
4467 6873 3.118592 GCAGAGCAGGGTATAAACAGAGT 60.119 47.826 0.00 0.00 0.00 3.24
4690 7129 0.108424 CGGGAGTGAGGAGCTTGAAG 60.108 60.000 0.00 0.00 0.00 3.02
4693 7132 1.349357 GGAGTGAGGAGCTTGAAGGTT 59.651 52.381 0.00 0.00 0.00 3.50
4705 7144 3.872240 GCTTGAAGGTTACCATGTAGCCA 60.872 47.826 3.51 0.00 0.00 4.75
4810 7265 2.050144 TGTTCCTGAGCTTGAACTCCT 58.950 47.619 19.17 0.00 41.10 3.69
4816 7271 0.036858 GAGCTTGAACTCCTTCGGCT 60.037 55.000 0.00 0.00 39.35 5.52
4885 7340 1.002624 TTCGGTGCAAGGATGACCC 60.003 57.895 0.00 0.00 36.73 4.46
4895 7352 1.366319 AGGATGACCCTGCAGAAGTT 58.634 50.000 17.39 0.00 45.61 2.66
4975 7438 4.925861 GCTCCTCCATGCCCTCGC 62.926 72.222 0.00 0.00 0.00 5.03
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
33 34 6.685403 CGTGAAAAGTTGTTCGTGTTTCTAAT 59.315 34.615 0.00 0.00 0.00 1.73
36 37 4.083696 ACGTGAAAAGTTGTTCGTGTTTCT 60.084 37.500 0.00 0.00 0.00 2.52
122 132 6.912203 AAAAATGTTCCGTTTCCGATTTTT 57.088 29.167 0.00 0.00 34.57 1.94
153 165 9.959749 ATGTTCATATTTACAACTTTTGTTCGT 57.040 25.926 0.00 0.00 42.22 3.85
316 358 5.659440 TTCAAAAAGTGTTCCAGCTTTCT 57.341 34.783 0.00 0.00 34.26 2.52
619 731 5.177881 CACTTACAAATAGTGCGTGTAACCA 59.822 40.000 0.00 0.00 36.88 3.67
670 783 1.683707 AGGGATCGCACAGAGAGCA 60.684 57.895 12.83 0.00 0.00 4.26
690 803 1.498865 CTCTGCGGCGAACTGTTGTT 61.499 55.000 12.98 0.00 39.42 2.83
691 804 1.956170 CTCTGCGGCGAACTGTTGT 60.956 57.895 12.98 0.00 0.00 3.32
692 805 1.621301 CTCTCTGCGGCGAACTGTTG 61.621 60.000 12.98 0.00 0.00 3.33
693 806 1.373497 CTCTCTGCGGCGAACTGTT 60.373 57.895 12.98 0.00 0.00 3.16
778 892 6.127366 CGGGGTTCGGGCTAGTATAAATATTA 60.127 42.308 0.00 0.00 34.75 0.98
779 893 5.337813 CGGGGTTCGGGCTAGTATAAATATT 60.338 44.000 0.00 0.00 34.75 1.28
780 894 4.161001 CGGGGTTCGGGCTAGTATAAATAT 59.839 45.833 0.00 0.00 34.75 1.28
953 1134 3.951775 TTCTGACAGCCTCTTTCTCTC 57.048 47.619 0.00 0.00 0.00 3.20
959 1140 3.840666 TCCAACTATTCTGACAGCCTCTT 59.159 43.478 0.00 0.00 0.00 2.85
1018 1202 2.615493 CCGTTTCCACAATAGCCTCTGT 60.615 50.000 0.00 0.00 0.00 3.41
1036 1220 3.303135 TTCCTCGTGCTCTGCCGT 61.303 61.111 0.00 0.00 0.00 5.68
1037 1221 2.811317 GTTCCTCGTGCTCTGCCG 60.811 66.667 0.00 0.00 0.00 5.69
1062 1246 3.567397 TGTAGTAGCCTGAATCTCCTCC 58.433 50.000 0.00 0.00 0.00 4.30
1151 1335 1.135915 CAGAGAGGGATTCGTCCACAG 59.864 57.143 0.00 0.00 0.00 3.66
1274 1458 4.702131 ACTAAAGTTTAGCCATGCAAGAGG 59.298 41.667 20.31 0.00 0.00 3.69
1275 1459 5.886960 ACTAAAGTTTAGCCATGCAAGAG 57.113 39.130 20.31 0.00 0.00 2.85
1276 1460 6.040391 ACAAACTAAAGTTTAGCCATGCAAGA 59.960 34.615 20.31 0.00 45.54 3.02
1295 1506 6.480320 GCATATCGAGGAGTTCAATACAAACT 59.520 38.462 0.00 0.00 39.61 2.66
1314 1525 9.801714 CAAAACTCAAAGAACAAAATGCATATC 57.198 29.630 0.00 0.00 0.00 1.63
1362 1573 9.959749 CAAAATAGCCGCTATTCCTAAAATAAA 57.040 29.630 22.90 0.00 35.85 1.40
1363 1574 8.079809 GCAAAATAGCCGCTATTCCTAAAATAA 58.920 33.333 22.90 0.00 35.85 1.40
1365 1576 6.447162 GCAAAATAGCCGCTATTCCTAAAAT 58.553 36.000 22.90 5.87 35.85 1.82
1367 1578 4.277423 GGCAAAATAGCCGCTATTCCTAAA 59.723 41.667 22.90 0.00 46.12 1.85
1368 1579 3.818773 GGCAAAATAGCCGCTATTCCTAA 59.181 43.478 22.90 0.00 46.12 2.69
1369 1580 3.408634 GGCAAAATAGCCGCTATTCCTA 58.591 45.455 22.90 0.00 46.12 2.94
1371 1582 2.706555 GGCAAAATAGCCGCTATTCC 57.293 50.000 22.90 16.80 46.12 3.01
1618 2387 2.818130 AAGAACATGGTTGCGCAAAT 57.182 40.000 26.87 13.40 0.00 2.32
1676 2445 8.144478 CCAGATCTCGGTAAAGAATCTGATTAA 58.856 37.037 11.24 0.00 35.36 1.40
1760 3813 4.916249 GTCGACAAACAGAGTAGTTAGTGG 59.084 45.833 11.55 0.00 0.00 4.00
1798 3851 1.153086 AGTGAATCGCATGGGAGGC 60.153 57.895 18.10 12.21 0.00 4.70
1878 3931 4.299485 AGATACCCCCTTCTTTACTCCAG 58.701 47.826 0.00 0.00 0.00 3.86
1895 3948 6.451393 CATAGAGACTAAGTGGCCAAGATAC 58.549 44.000 7.24 0.00 0.00 2.24
2027 4279 9.944376 ACTGCAGACAAGAGAAAATAGTATTTA 57.056 29.630 23.35 0.00 0.00 1.40
2121 4377 2.964740 TGAGTTCTCCAGCTCAAATCG 58.035 47.619 0.00 0.00 38.61 3.34
2122 4378 3.626670 CCATGAGTTCTCCAGCTCAAATC 59.373 47.826 0.00 0.00 43.79 2.17
2213 4469 5.991328 ACAAAGAGCATGTCATATAACCG 57.009 39.130 0.00 0.00 0.00 4.44
2301 4557 6.581370 CGCGTTATTGACCTTACATTATGAG 58.419 40.000 0.00 0.00 0.00 2.90
2318 4574 0.174845 TACCAGAGCTTGCGCGTTAT 59.825 50.000 8.43 0.00 42.32 1.89
2324 4580 1.079503 GAGGTTTACCAGAGCTTGCG 58.920 55.000 1.13 0.00 38.89 4.85
2455 4711 1.975660 TAGTTGCCTGTGGTGGTTTC 58.024 50.000 0.00 0.00 0.00 2.78
2456 4712 2.028876 GTTAGTTGCCTGTGGTGGTTT 58.971 47.619 0.00 0.00 0.00 3.27
2458 4714 0.843984 AGTTAGTTGCCTGTGGTGGT 59.156 50.000 0.00 0.00 0.00 4.16
2459 4715 1.523758 GAGTTAGTTGCCTGTGGTGG 58.476 55.000 0.00 0.00 0.00 4.61
2460 4716 1.523758 GGAGTTAGTTGCCTGTGGTG 58.476 55.000 0.00 0.00 0.00 4.17
2461 4717 0.034896 CGGAGTTAGTTGCCTGTGGT 59.965 55.000 0.00 0.00 0.00 4.16
2462 4718 0.320374 TCGGAGTTAGTTGCCTGTGG 59.680 55.000 0.00 0.00 0.00 4.17
2463 4719 2.163818 TTCGGAGTTAGTTGCCTGTG 57.836 50.000 0.00 0.00 0.00 3.66
2464 4720 3.259876 TGTATTCGGAGTTAGTTGCCTGT 59.740 43.478 0.00 0.00 0.00 4.00
2465 4721 3.857052 TGTATTCGGAGTTAGTTGCCTG 58.143 45.455 0.00 0.00 0.00 4.85
2466 4722 3.767673 TCTGTATTCGGAGTTAGTTGCCT 59.232 43.478 0.00 0.00 0.00 4.75
2467 4723 4.119442 TCTGTATTCGGAGTTAGTTGCC 57.881 45.455 0.00 0.00 0.00 4.52
2468 4724 4.441415 CGATCTGTATTCGGAGTTAGTTGC 59.559 45.833 0.00 0.00 33.05 4.17
2469 4725 5.579718 ACGATCTGTATTCGGAGTTAGTTG 58.420 41.667 0.00 0.00 40.83 3.16
2470 4726 5.831702 ACGATCTGTATTCGGAGTTAGTT 57.168 39.130 0.00 0.00 40.83 2.24
2471 4727 5.831702 AACGATCTGTATTCGGAGTTAGT 57.168 39.130 0.00 0.00 40.83 2.24
2472 4728 5.844914 CGTAACGATCTGTATTCGGAGTTAG 59.155 44.000 0.00 0.00 40.83 2.34
2473 4729 5.523552 TCGTAACGATCTGTATTCGGAGTTA 59.476 40.000 0.00 0.00 40.83 2.24
2474 4730 4.333649 TCGTAACGATCTGTATTCGGAGTT 59.666 41.667 0.00 0.00 40.83 3.01
2475 4731 3.873361 TCGTAACGATCTGTATTCGGAGT 59.127 43.478 0.00 0.00 40.83 3.85
2476 4732 4.456019 CTCGTAACGATCTGTATTCGGAG 58.544 47.826 0.00 0.00 40.83 4.63
2477 4733 3.303593 GCTCGTAACGATCTGTATTCGGA 60.304 47.826 0.00 0.00 40.83 4.55
2478 4734 2.971915 GCTCGTAACGATCTGTATTCGG 59.028 50.000 0.00 0.00 40.83 4.30
2479 4735 3.614588 TGCTCGTAACGATCTGTATTCG 58.385 45.455 0.00 0.00 42.20 3.34
2480 4736 4.796830 TGTTGCTCGTAACGATCTGTATTC 59.203 41.667 0.00 0.00 34.61 1.75
2481 4737 4.740268 TGTTGCTCGTAACGATCTGTATT 58.260 39.130 0.00 0.00 34.61 1.89
2482 4738 4.365899 TGTTGCTCGTAACGATCTGTAT 57.634 40.909 0.00 0.00 34.61 2.29
2483 4739 3.835378 TGTTGCTCGTAACGATCTGTA 57.165 42.857 0.00 0.00 34.61 2.74
2484 4740 2.717580 TGTTGCTCGTAACGATCTGT 57.282 45.000 0.00 0.00 34.61 3.41
2485 4741 2.729360 TGTTGTTGCTCGTAACGATCTG 59.271 45.455 0.00 0.00 34.61 2.90
2486 4742 3.021269 TGTTGTTGCTCGTAACGATCT 57.979 42.857 0.00 0.00 34.61 2.75
2487 4743 3.183775 ACTTGTTGTTGCTCGTAACGATC 59.816 43.478 0.00 0.00 34.61 3.69
2488 4744 3.128349 ACTTGTTGTTGCTCGTAACGAT 58.872 40.909 0.00 0.00 34.61 3.73
2489 4745 2.542597 ACTTGTTGTTGCTCGTAACGA 58.457 42.857 0.00 0.00 33.28 3.85
2490 4746 4.440851 TTACTTGTTGTTGCTCGTAACG 57.559 40.909 0.00 0.00 33.28 3.18
2491 4747 4.209112 GCTTACTTGTTGTTGCTCGTAAC 58.791 43.478 0.00 0.00 0.00 2.50
2492 4748 3.060138 CGCTTACTTGTTGTTGCTCGTAA 60.060 43.478 0.00 0.00 0.00 3.18
2493 4749 2.473609 CGCTTACTTGTTGTTGCTCGTA 59.526 45.455 0.00 0.00 0.00 3.43
2494 4750 1.260561 CGCTTACTTGTTGTTGCTCGT 59.739 47.619 0.00 0.00 0.00 4.18
2495 4751 1.398451 CCGCTTACTTGTTGTTGCTCG 60.398 52.381 0.00 0.00 0.00 5.03
2496 4752 1.663161 GCCGCTTACTTGTTGTTGCTC 60.663 52.381 0.00 0.00 0.00 4.26
2497 4753 0.310854 GCCGCTTACTTGTTGTTGCT 59.689 50.000 0.00 0.00 0.00 3.91
2498 4754 0.030101 TGCCGCTTACTTGTTGTTGC 59.970 50.000 0.00 0.00 0.00 4.17
2499 4755 1.333619 AGTGCCGCTTACTTGTTGTTG 59.666 47.619 0.00 0.00 0.00 3.33
2500 4756 1.675552 AGTGCCGCTTACTTGTTGTT 58.324 45.000 0.00 0.00 0.00 2.83
2501 4757 2.140717 GTAGTGCCGCTTACTTGTTGT 58.859 47.619 0.00 0.00 0.00 3.32
2502 4758 2.413837 AGTAGTGCCGCTTACTTGTTG 58.586 47.619 0.00 0.00 0.00 3.33
2503 4759 2.833631 AGTAGTGCCGCTTACTTGTT 57.166 45.000 0.00 0.00 0.00 2.83
2504 4760 2.833631 AAGTAGTGCCGCTTACTTGT 57.166 45.000 15.57 0.00 32.23 3.16
2505 4761 4.483476 AAAAAGTAGTGCCGCTTACTTG 57.517 40.909 16.49 0.00 33.57 3.16
2523 4779 7.815398 TGCTCGTAACGATCTGTATTAAAAA 57.185 32.000 0.00 0.00 34.61 1.94
2524 4780 7.328982 TGTTGCTCGTAACGATCTGTATTAAAA 59.671 33.333 0.00 0.00 34.61 1.52
2525 4781 6.807720 TGTTGCTCGTAACGATCTGTATTAAA 59.192 34.615 0.00 0.00 34.61 1.52
2526 4782 6.324042 TGTTGCTCGTAACGATCTGTATTAA 58.676 36.000 0.00 0.00 34.61 1.40
2527 4783 5.882553 TGTTGCTCGTAACGATCTGTATTA 58.117 37.500 0.00 0.00 34.61 0.98
2528 4784 4.740268 TGTTGCTCGTAACGATCTGTATT 58.260 39.130 0.00 0.00 34.61 1.89
2529 4785 4.365899 TGTTGCTCGTAACGATCTGTAT 57.634 40.909 0.00 0.00 34.61 2.29
2530 4786 3.835378 TGTTGCTCGTAACGATCTGTA 57.165 42.857 0.00 0.00 34.61 2.74
2531 4787 2.717580 TGTTGCTCGTAACGATCTGT 57.282 45.000 0.00 0.00 34.61 3.41
2532 4788 2.729360 TGTTGTTGCTCGTAACGATCTG 59.271 45.455 0.00 0.00 34.61 2.90
2533 4789 3.021269 TGTTGTTGCTCGTAACGATCT 57.979 42.857 0.00 0.00 34.61 2.75
2534 4790 3.183775 ACTTGTTGTTGCTCGTAACGATC 59.816 43.478 0.00 0.00 34.61 3.69
2535 4791 3.128349 ACTTGTTGTTGCTCGTAACGAT 58.872 40.909 0.00 0.00 34.61 3.73
2536 4792 2.542597 ACTTGTTGTTGCTCGTAACGA 58.457 42.857 0.00 0.00 33.28 3.85
2537 4793 4.440851 TTACTTGTTGTTGCTCGTAACG 57.559 40.909 0.00 0.00 33.28 3.18
2538 4794 4.209112 GCTTACTTGTTGTTGCTCGTAAC 58.791 43.478 0.00 0.00 0.00 2.50
2539 4795 3.060138 CGCTTACTTGTTGTTGCTCGTAA 60.060 43.478 0.00 0.00 0.00 3.18
2540 4796 2.473609 CGCTTACTTGTTGTTGCTCGTA 59.526 45.455 0.00 0.00 0.00 3.43
2541 4797 1.260561 CGCTTACTTGTTGTTGCTCGT 59.739 47.619 0.00 0.00 0.00 4.18
2542 4798 1.398451 CCGCTTACTTGTTGTTGCTCG 60.398 52.381 0.00 0.00 0.00 5.03
2543 4799 1.663161 GCCGCTTACTTGTTGTTGCTC 60.663 52.381 0.00 0.00 0.00 4.26
2544 4800 0.310854 GCCGCTTACTTGTTGTTGCT 59.689 50.000 0.00 0.00 0.00 3.91
2545 4801 0.030101 TGCCGCTTACTTGTTGTTGC 59.970 50.000 0.00 0.00 0.00 4.17
2546 4802 1.333619 AGTGCCGCTTACTTGTTGTTG 59.666 47.619 0.00 0.00 0.00 3.33
2547 4803 1.675552 AGTGCCGCTTACTTGTTGTT 58.324 45.000 0.00 0.00 0.00 2.83
2548 4804 2.140717 GTAGTGCCGCTTACTTGTTGT 58.859 47.619 0.00 0.00 0.00 3.32
2549 4805 2.413837 AGTAGTGCCGCTTACTTGTTG 58.586 47.619 0.00 0.00 0.00 3.33
2550 4806 2.833631 AGTAGTGCCGCTTACTTGTT 57.166 45.000 0.00 0.00 0.00 2.83
2551 4807 2.833631 AAGTAGTGCCGCTTACTTGT 57.166 45.000 15.57 0.00 32.23 3.16
2552 4808 5.600908 TTTTAAGTAGTGCCGCTTACTTG 57.399 39.130 21.27 0.00 34.89 3.16
2573 4829 2.812011 CAGGTAAGCGGCACTACTTTTT 59.188 45.455 1.45 0.00 0.00 1.94
2574 4830 2.224450 ACAGGTAAGCGGCACTACTTTT 60.224 45.455 1.45 0.00 0.00 2.27
2575 4831 1.346722 ACAGGTAAGCGGCACTACTTT 59.653 47.619 1.45 0.00 0.00 2.66
2576 4832 0.974383 ACAGGTAAGCGGCACTACTT 59.026 50.000 1.45 0.00 0.00 2.24
2577 4833 0.974383 AACAGGTAAGCGGCACTACT 59.026 50.000 1.45 0.00 0.00 2.57
2578 4834 1.076332 CAACAGGTAAGCGGCACTAC 58.924 55.000 1.45 3.18 0.00 2.73
2632 4889 3.305335 GCCACTAATTGAAACCACCACAG 60.305 47.826 0.00 0.00 0.00 3.66
2644 4901 2.545526 CACATAGCTCCGCCACTAATTG 59.454 50.000 0.00 0.00 0.00 2.32
2645 4902 2.838736 CACATAGCTCCGCCACTAATT 58.161 47.619 0.00 0.00 0.00 1.40
2646 4903 1.541233 GCACATAGCTCCGCCACTAAT 60.541 52.381 0.00 0.00 41.15 1.73
2647 4904 0.179084 GCACATAGCTCCGCCACTAA 60.179 55.000 0.00 0.00 41.15 2.24
2648 4905 1.326951 TGCACATAGCTCCGCCACTA 61.327 55.000 0.00 0.00 45.94 2.74
2649 4906 2.184020 TTGCACATAGCTCCGCCACT 62.184 55.000 0.00 0.00 45.94 4.00
2650 4907 1.709147 CTTGCACATAGCTCCGCCAC 61.709 60.000 0.00 0.00 45.94 5.01
2651 4908 1.450134 CTTGCACATAGCTCCGCCA 60.450 57.895 0.00 0.00 45.94 5.69
2652 4909 1.432270 GACTTGCACATAGCTCCGCC 61.432 60.000 0.00 0.00 45.94 6.13
2653 4910 0.460987 AGACTTGCACATAGCTCCGC 60.461 55.000 0.00 0.00 45.94 5.54
2654 4911 1.284657 CAGACTTGCACATAGCTCCG 58.715 55.000 0.00 0.00 45.94 4.63
2655 4912 1.661341 CCAGACTTGCACATAGCTCC 58.339 55.000 0.00 0.00 45.94 4.70
2656 4913 1.661341 CCCAGACTTGCACATAGCTC 58.339 55.000 0.00 0.00 45.94 4.09
2657 4914 0.254178 CCCCAGACTTGCACATAGCT 59.746 55.000 0.00 0.00 45.94 3.32
2658 4915 0.749454 CCCCCAGACTTGCACATAGC 60.749 60.000 0.00 0.00 45.96 2.97
2659 4916 3.483954 CCCCCAGACTTGCACATAG 57.516 57.895 0.00 0.00 0.00 2.23
2691 4948 7.979444 TTCTTCATAGTTAGGTCCAAAGTTG 57.021 36.000 0.00 0.00 0.00 3.16
3158 5415 3.577805 ATATGGACTAAACTGGGGCAC 57.422 47.619 0.00 0.00 0.00 5.01
3200 5465 6.422333 TCCTAATGCCACATTCTGAACATTA 58.578 36.000 8.94 8.94 32.10 1.90
3223 5489 2.158957 TGGGCCAGACATACTTCGATTC 60.159 50.000 0.00 0.00 0.00 2.52
3247 5513 2.094182 TCGTCCTGTTATCTGAAGGCAC 60.094 50.000 0.00 0.00 0.00 5.01
3274 5540 6.471233 TCTCGATCAACCATCTTACTGAAT 57.529 37.500 0.00 0.00 0.00 2.57
3296 5562 7.821846 GGGAAATCAGTAGTATCCAATCTGATC 59.178 40.741 6.46 0.00 42.54 2.92
3336 5611 6.601217 TGCTAGCCACACAACATCAATATTAA 59.399 34.615 13.29 0.00 0.00 1.40
3341 5616 2.794103 TGCTAGCCACACAACATCAAT 58.206 42.857 13.29 0.00 0.00 2.57
3408 5683 5.490357 AGAGGTAAATATGGAGCCTGCATAT 59.510 40.000 12.43 12.43 42.11 1.78
3498 5773 4.569761 TCATCTCCGGAATCTCGTTTAG 57.430 45.455 5.23 0.00 0.00 1.85
3514 5789 8.922237 TCAGATAAGTAGCTGAATTCTTCATCT 58.078 33.333 7.05 0.00 44.73 2.90
3583 5858 2.827652 AGCCTGCTAGTAAAATCTCGC 58.172 47.619 0.00 0.00 0.00 5.03
3694 5969 1.614317 GCAGTAAACAGGCCTCCATGT 60.614 52.381 0.00 0.00 0.00 3.21
3745 6020 1.002366 CCTCAAATCCGAGAAGCACG 58.998 55.000 0.00 0.00 34.79 5.34
3803 6078 1.488527 ACGACACAACGAGAAAGCTC 58.511 50.000 0.00 0.00 37.81 4.09
3810 6085 1.126079 AACGCTAACGACACAACGAG 58.874 50.000 0.00 0.00 43.93 4.18
3815 6090 2.542597 ACTTTCAACGCTAACGACACA 58.457 42.857 0.00 0.00 43.93 3.72
3817 6092 4.209703 CCTTTACTTTCAACGCTAACGACA 59.790 41.667 0.00 0.00 43.93 4.35
3835 6110 3.306780 CCGAGACTTCCAGCTTTCCTTTA 60.307 47.826 0.00 0.00 0.00 1.85
3865 6140 1.372087 CTTCATCGCTGGCAGGGTTC 61.372 60.000 27.88 5.64 0.00 3.62
3876 6151 5.239744 TCTCTAACTACATCCTCTTCATCGC 59.760 44.000 0.00 0.00 0.00 4.58
3944 6219 2.024414 ACAAGAGCCAACCTTGAACAC 58.976 47.619 9.52 0.00 42.57 3.32
3947 6222 2.172505 TCTCACAAGAGCCAACCTTGAA 59.827 45.455 9.52 0.00 42.57 2.69
4022 6297 3.825143 AAGCAAAGCACAAAACCTCAT 57.175 38.095 0.00 0.00 0.00 2.90
4023 6298 3.260740 CAAAGCAAAGCACAAAACCTCA 58.739 40.909 0.00 0.00 0.00 3.86
4025 6300 2.009051 GCAAAGCAAAGCACAAAACCT 58.991 42.857 0.00 0.00 0.00 3.50
4026 6301 2.009051 AGCAAAGCAAAGCACAAAACC 58.991 42.857 0.00 0.00 0.00 3.27
4027 6302 2.223089 CCAGCAAAGCAAAGCACAAAAC 60.223 45.455 0.00 0.00 0.00 2.43
4029 6304 1.206610 TCCAGCAAAGCAAAGCACAAA 59.793 42.857 0.00 0.00 0.00 2.83
4031 6306 0.822811 TTCCAGCAAAGCAAAGCACA 59.177 45.000 0.00 0.00 0.00 4.57
4032 6307 1.202452 ACTTCCAGCAAAGCAAAGCAC 60.202 47.619 0.00 0.00 0.00 4.40
4033 6308 1.113788 ACTTCCAGCAAAGCAAAGCA 58.886 45.000 0.00 0.00 0.00 3.91
4034 6309 2.294512 ACTACTTCCAGCAAAGCAAAGC 59.705 45.455 0.00 0.00 0.00 3.51
4035 6310 3.565482 TGACTACTTCCAGCAAAGCAAAG 59.435 43.478 0.00 0.00 0.00 2.77
4036 6311 3.315191 GTGACTACTTCCAGCAAAGCAAA 59.685 43.478 0.00 0.00 0.00 3.68
4092 6466 4.489810 CTCTACTTCACAAGCAGTACCAG 58.510 47.826 0.00 0.00 0.00 4.00
4093 6467 3.258372 CCTCTACTTCACAAGCAGTACCA 59.742 47.826 0.00 0.00 0.00 3.25
4095 6469 3.254892 GCCTCTACTTCACAAGCAGTAC 58.745 50.000 0.00 0.00 0.00 2.73
4097 6471 1.002544 GGCCTCTACTTCACAAGCAGT 59.997 52.381 0.00 0.00 0.00 4.40
4145 6519 2.288458 GCAACCAAACACGCACTACTAA 59.712 45.455 0.00 0.00 0.00 2.24
4194 6568 1.930251 CCAGACTGAGTGGAGAAGGA 58.070 55.000 3.32 0.00 37.23 3.36
4224 6598 3.129109 CAGATGTCGCATATGAAGCTGT 58.871 45.455 6.97 0.00 0.00 4.40
4229 6603 2.223805 ACTCGCAGATGTCGCATATGAA 60.224 45.455 6.97 4.95 33.89 2.57
4273 6647 1.549037 GGTTCACCCCATGCAGGTAAA 60.549 52.381 5.41 0.00 35.24 2.01
4287 6693 1.152963 ACCAGGCAGTGTGGTTCAC 60.153 57.895 0.00 0.00 46.73 3.18
4384 6790 2.271944 ACCTCACCAACTAGCCAAAC 57.728 50.000 0.00 0.00 0.00 2.93
4482 6888 7.121907 TGTGGTACTGCTTATTTGAATTATGCA 59.878 33.333 0.00 0.00 0.00 3.96
4493 6901 7.165485 TGTTATGAAGTGTGGTACTGCTTATT 58.835 34.615 0.00 0.00 40.26 1.40
4690 7129 4.523083 TCAAGATTGGCTACATGGTAACC 58.477 43.478 0.00 0.00 0.00 2.85
4693 7132 5.366477 TCAGATCAAGATTGGCTACATGGTA 59.634 40.000 0.00 0.00 0.00 3.25
4705 7144 3.875727 CAGCCGTTCATCAGATCAAGATT 59.124 43.478 0.00 0.00 0.00 2.40
4816 7271 2.733218 CAAGCACTTCGTCGCGGA 60.733 61.111 6.13 0.00 0.00 5.54
4885 7340 0.741221 GGCCCGACTAACTTCTGCAG 60.741 60.000 7.63 7.63 0.00 4.41
4895 7352 1.457643 CAGGAGGATGGCCCGACTA 60.458 63.158 0.00 0.00 40.87 2.59
4975 7438 3.719214 GCCTAAGAATGGCGACGG 58.281 61.111 0.00 0.00 41.03 4.79
4984 7447 1.345415 AGACCCGAAAACGCCTAAGAA 59.655 47.619 0.00 0.00 0.00 2.52
4985 7448 0.971386 AGACCCGAAAACGCCTAAGA 59.029 50.000 0.00 0.00 0.00 2.10
4995 7458 2.660802 GCCGAGGAAGACCCGAAA 59.339 61.111 0.00 0.00 40.87 3.46


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

AutoCloner maintained by Alex Coulton.