Multiple sequence alignment - TraesCS2B01G031600

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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 TraesCS2B01G031600 chr2B 100.000 4429 0 0 1 4429 14620673 14616245 0.000000e+00 8179.0
1 TraesCS2B01G031600 chr2B 86.192 2600 257 57 885 3430 15461916 15464467 0.000000e+00 2719.0
2 TraesCS2B01G031600 chr2B 86.249 1898 188 40 1576 3435 14350912 14349050 0.000000e+00 1991.0
3 TraesCS2B01G031600 chr2B 85.629 1670 159 42 1800 3435 14460377 14458755 0.000000e+00 1679.0
4 TraesCS2B01G031600 chr2B 86.960 1250 150 10 2197 3435 14405956 14404709 0.000000e+00 1393.0
5 TraesCS2B01G031600 chr2B 85.668 1242 159 14 2197 3435 14212971 14211746 0.000000e+00 1290.0
6 TraesCS2B01G031600 chr2B 92.191 922 55 13 2523 3431 14477591 14476674 0.000000e+00 1288.0
7 TraesCS2B01G031600 chr2B 92.191 922 55 13 2523 3431 14504825 14503908 0.000000e+00 1288.0
8 TraesCS2B01G031600 chr2B 83.718 1388 161 30 147 1508 14408019 14406671 0.000000e+00 1251.0
9 TraesCS2B01G031600 chr2B 91.369 869 62 11 3445 4309 14981376 14982235 0.000000e+00 1177.0
10 TraesCS2B01G031600 chr2B 86.871 914 106 10 1574 2482 14505733 14504829 0.000000e+00 1011.0
11 TraesCS2B01G031600 chr2B 86.270 925 75 25 9 925 14491660 14490780 0.000000e+00 957.0
12 TraesCS2B01G031600 chr2B 86.433 914 72 25 20 925 14462852 14461983 0.000000e+00 953.0
13 TraesCS2B01G031600 chr2B 88.959 634 60 9 24 651 14345462 14344833 0.000000e+00 774.0
14 TraesCS2B01G031600 chr2B 89.420 586 47 7 2863 3435 14336902 14336319 0.000000e+00 725.0
15 TraesCS2B01G031600 chr2B 86.425 663 71 11 861 1509 14506390 14505733 0.000000e+00 708.0
16 TraesCS2B01G031600 chr2B 88.266 571 51 9 954 1509 14351480 14350911 0.000000e+00 669.0
17 TraesCS2B01G031600 chr2B 87.937 572 52 10 954 1509 14490786 14490216 0.000000e+00 658.0
18 TraesCS2B01G031600 chr2B 87.762 572 53 10 954 1509 14461989 14461419 0.000000e+00 652.0
19 TraesCS2B01G031600 chr2B 82.914 755 97 18 24 765 13905294 13906029 0.000000e+00 651.0
20 TraesCS2B01G031600 chr2B 81.352 858 86 34 19 870 14352287 14351498 8.080000e-177 630.0
21 TraesCS2B01G031600 chr2B 95.467 375 17 0 1577 1951 13910736 13911110 2.280000e-167 599.0
22 TraesCS2B01G031600 chr2B 80.678 678 94 20 244 890 13907568 13908239 3.980000e-135 492.0
23 TraesCS2B01G031600 chr2B 84.412 340 25 18 927 1257 13908242 13908562 4.300000e-80 309.0
24 TraesCS2B01G031600 chr2B 96.094 128 5 0 786 913 14344836 14344709 4.490000e-50 209.0
25 TraesCS2B01G031600 chr2B 98.113 53 1 0 789 841 14214352 14214300 4.720000e-15 93.5
26 TraesCS2B01G031600 chr2D 90.358 1929 140 22 1576 3465 10530924 10529003 0.000000e+00 2490.0
27 TraesCS2B01G031600 chr2D 87.843 1933 173 37 1576 3465 10434501 10432588 0.000000e+00 2211.0
28 TraesCS2B01G031600 chr2D 88.178 1531 117 23 9 1509 10532419 10530923 0.000000e+00 1766.0
29 TraesCS2B01G031600 chr2D 85.970 948 114 16 3488 4429 480067234 480068168 0.000000e+00 996.0
30 TraesCS2B01G031600 chr2D 87.088 697 51 14 68 757 10435852 10435188 0.000000e+00 752.0
31 TraesCS2B01G031600 chr2D 88.421 570 43 11 955 1509 10435061 10434500 0.000000e+00 665.0
32 TraesCS2B01G031600 chr2A 87.713 1880 177 35 1576 3435 10845358 10843513 0.000000e+00 2143.0
33 TraesCS2B01G031600 chr2A 88.854 951 85 14 2181 3122 10735681 10734743 0.000000e+00 1149.0
34 TraesCS2B01G031600 chr2A 85.699 937 123 10 3487 4419 675705246 675706175 0.000000e+00 977.0
35 TraesCS2B01G031600 chr2A 85.445 955 116 17 3487 4429 1261075 1262018 0.000000e+00 972.0
36 TraesCS2B01G031600 chr2A 85.654 941 112 17 3487 4419 609380867 609379942 0.000000e+00 968.0
37 TraesCS2B01G031600 chr2A 86.551 751 70 12 9 753 10737619 10736894 0.000000e+00 798.0
38 TraesCS2B01G031600 chr3D 86.540 951 106 18 3487 4429 347730480 347729544 0.000000e+00 1027.0
39 TraesCS2B01G031600 chr3D 86.441 944 116 9 3487 4424 278275404 278274467 0.000000e+00 1024.0
40 TraesCS2B01G031600 chrUn 86.871 914 106 10 1574 2482 353662821 353661917 0.000000e+00 1011.0
41 TraesCS2B01G031600 chrUn 86.054 925 77 25 9 925 345005675 345006555 0.000000e+00 946.0
42 TraesCS2B01G031600 chrUn 86.805 773 75 22 1800 2568 329538570 329537821 0.000000e+00 837.0
43 TraesCS2B01G031600 chrUn 86.425 663 71 11 861 1509 353663478 353662821 0.000000e+00 708.0
44 TraesCS2B01G031600 chrUn 85.973 663 75 10 861 1509 349801010 349801668 0.000000e+00 693.0
45 TraesCS2B01G031600 chrUn 90.602 532 33 10 2913 3431 461723465 461722938 0.000000e+00 689.0
46 TraesCS2B01G031600 chrUn 86.159 643 71 10 861 1489 365097041 365097679 0.000000e+00 678.0
47 TraesCS2B01G031600 chrUn 87.762 572 53 10 954 1509 329540182 329539612 0.000000e+00 652.0
48 TraesCS2B01G031600 chrUn 88.151 557 47 11 954 1493 345006549 345007103 0.000000e+00 645.0
49 TraesCS2B01G031600 chrUn 84.476 496 40 14 434 925 329540638 329540176 5.220000e-124 455.0
50 TraesCS2B01G031600 chrUn 83.986 281 35 5 1574 1853 349801668 349801939 1.220000e-65 261.0
51 TraesCS2B01G031600 chr7A 85.079 945 122 16 3487 4424 602044633 602043701 0.000000e+00 946.0
52 TraesCS2B01G031600 chr7A 100.000 34 0 0 3467 3500 133769190 133769157 3.700000e-06 63.9
53 TraesCS2B01G031600 chr1D 83.824 952 132 17 3487 4429 378220774 378221712 0.000000e+00 885.0
54 TraesCS2B01G031600 chr1D 92.537 67 4 1 1496 1561 3325803 3325869 1.310000e-15 95.3
55 TraesCS2B01G031600 chr3B 98.276 58 1 0 1504 1561 336930579 336930522 7.840000e-18 102.0
56 TraesCS2B01G031600 chr3B 98.246 57 1 0 1505 1561 133880410 133880466 2.820000e-17 100.0
57 TraesCS2B01G031600 chr6A 90.789 76 3 2 1507 1578 385427750 385427825 1.010000e-16 99.0
58 TraesCS2B01G031600 chr5B 96.610 59 2 0 1502 1560 665560526 665560468 1.010000e-16 99.0
59 TraesCS2B01G031600 chr4A 92.424 66 4 1 1496 1561 154074018 154074082 4.720000e-15 93.5
60 TraesCS2B01G031600 chr4A 94.595 37 2 0 3467 3503 146604747 146604711 1.720000e-04 58.4
61 TraesCS2B01G031600 chr3A 92.424 66 4 1 1496 1561 348754876 348754940 4.720000e-15 93.5
62 TraesCS2B01G031600 chr3A 92.424 66 4 1 1496 1561 348834435 348834499 4.720000e-15 93.5
63 TraesCS2B01G031600 chr3A 100.000 32 0 0 3467 3498 548654207 548654238 4.780000e-05 60.2
64 TraesCS2B01G031600 chr7B 90.000 70 7 0 1493 1562 487328860 487328929 1.700000e-14 91.6
65 TraesCS2B01G031600 chr7D 100.000 31 0 0 3467 3497 321690426 321690396 1.720000e-04 58.4


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS2B01G031600 chr2B 14616245 14620673 4428 True 8179.000000 8179 100.000000 1 4429 1 chr2B.!!$R3 4428
1 TraesCS2B01G031600 chr2B 15461916 15464467 2551 False 2719.000000 2719 86.192000 885 3430 1 chr2B.!!$F2 2545
2 TraesCS2B01G031600 chr2B 14404709 14408019 3310 True 1322.000000 1393 85.339000 147 3435 2 chr2B.!!$R6 3288
3 TraesCS2B01G031600 chr2B 14476674 14477591 917 True 1288.000000 1288 92.191000 2523 3431 1 chr2B.!!$R2 908
4 TraesCS2B01G031600 chr2B 14981376 14982235 859 False 1177.000000 1177 91.369000 3445 4309 1 chr2B.!!$F1 864
5 TraesCS2B01G031600 chr2B 14458755 14462852 4097 True 1094.666667 1679 86.608000 20 3435 3 chr2B.!!$R7 3415
6 TraesCS2B01G031600 chr2B 14503908 14506390 2482 True 1002.333333 1288 88.495667 861 3431 3 chr2B.!!$R9 2570
7 TraesCS2B01G031600 chr2B 14344709 14352287 7578 True 854.600000 1991 88.184000 19 3435 5 chr2B.!!$R5 3416
8 TraesCS2B01G031600 chr2B 14490216 14491660 1444 True 807.500000 957 87.103500 9 1509 2 chr2B.!!$R8 1500
9 TraesCS2B01G031600 chr2B 14336319 14336902 583 True 725.000000 725 89.420000 2863 3435 1 chr2B.!!$R1 572
10 TraesCS2B01G031600 chr2B 14211746 14214352 2606 True 691.750000 1290 91.890500 789 3435 2 chr2B.!!$R4 2646
11 TraesCS2B01G031600 chr2B 13905294 13911110 5816 False 512.750000 651 85.867750 24 1951 4 chr2B.!!$F3 1927
12 TraesCS2B01G031600 chr2D 10529003 10532419 3416 True 2128.000000 2490 89.268000 9 3465 2 chr2D.!!$R2 3456
13 TraesCS2B01G031600 chr2D 10432588 10435852 3264 True 1209.333333 2211 87.784000 68 3465 3 chr2D.!!$R1 3397
14 TraesCS2B01G031600 chr2D 480067234 480068168 934 False 996.000000 996 85.970000 3488 4429 1 chr2D.!!$F1 941
15 TraesCS2B01G031600 chr2A 10843513 10845358 1845 True 2143.000000 2143 87.713000 1576 3435 1 chr2A.!!$R1 1859
16 TraesCS2B01G031600 chr2A 675705246 675706175 929 False 977.000000 977 85.699000 3487 4419 1 chr2A.!!$F2 932
17 TraesCS2B01G031600 chr2A 10734743 10737619 2876 True 973.500000 1149 87.702500 9 3122 2 chr2A.!!$R3 3113
18 TraesCS2B01G031600 chr2A 1261075 1262018 943 False 972.000000 972 85.445000 3487 4429 1 chr2A.!!$F1 942
19 TraesCS2B01G031600 chr2A 609379942 609380867 925 True 968.000000 968 85.654000 3487 4419 1 chr2A.!!$R2 932
20 TraesCS2B01G031600 chr3D 347729544 347730480 936 True 1027.000000 1027 86.540000 3487 4429 1 chr3D.!!$R2 942
21 TraesCS2B01G031600 chr3D 278274467 278275404 937 True 1024.000000 1024 86.441000 3487 4424 1 chr3D.!!$R1 937
22 TraesCS2B01G031600 chrUn 353661917 353663478 1561 True 859.500000 1011 86.648000 861 2482 2 chrUn.!!$R3 1621
23 TraesCS2B01G031600 chrUn 345005675 345007103 1428 False 795.500000 946 87.102500 9 1493 2 chrUn.!!$F2 1484
24 TraesCS2B01G031600 chrUn 461722938 461723465 527 True 689.000000 689 90.602000 2913 3431 1 chrUn.!!$R1 518
25 TraesCS2B01G031600 chrUn 365097041 365097679 638 False 678.000000 678 86.159000 861 1489 1 chrUn.!!$F1 628
26 TraesCS2B01G031600 chrUn 329537821 329540638 2817 True 648.000000 837 86.347667 434 2568 3 chrUn.!!$R2 2134
27 TraesCS2B01G031600 chrUn 349801010 349801939 929 False 477.000000 693 84.979500 861 1853 2 chrUn.!!$F3 992
28 TraesCS2B01G031600 chr7A 602043701 602044633 932 True 946.000000 946 85.079000 3487 4424 1 chr7A.!!$R2 937
29 TraesCS2B01G031600 chr1D 378220774 378221712 938 False 885.000000 885 83.824000 3487 4429 1 chr1D.!!$F2 942

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
162 173 0.030603 GGATGAGGAAGGGAGGAGGT 60.031 60.0 0.00 0.00 0.0 3.85 F
755 2924 0.031111 TAGGTATGCTGCTGGGTCCT 60.031 55.0 0.00 4.67 0.0 3.85 F
761 2930 0.031111 TGCTGCTGGGTCCTAGGTAT 60.031 55.0 9.08 0.00 0.0 2.73 F
772 2941 0.107456 CCTAGGTATGCTGCTGGGTG 59.893 60.0 0.00 0.00 0.0 4.61 F
2432 7611 0.318784 GTGTTCTCTTCACCGACGCT 60.319 55.0 0.00 0.00 0.0 5.07 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1556 5762 0.106116 ACTCCCTCCGTCCCTGATAC 60.106 60.0 0.0 0.0 0.00 2.24 R
2329 7508 0.104855 AGCAAGCACTTCTCGACACA 59.895 50.0 0.0 0.0 0.00 3.72 R
2413 7592 0.318784 AGCGTCGGTGAAGAGAACAC 60.319 55.0 0.0 0.0 37.51 3.32 R
2629 7841 1.250328 CATTTTCAGCCACCTCAGCA 58.750 50.0 0.0 0.0 0.00 4.41 R
3670 10722 0.250338 GACGAGGCAAACAGAACCCT 60.250 55.0 0.0 0.0 0.00 4.34 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
77 78 2.750637 TCGGAGGAGACGGCTCAC 60.751 66.667 22.31 13.33 43.14 3.51
124 127 0.981183 ACCACCGCAGATTACAAGGA 59.019 50.000 0.00 0.00 0.00 3.36
127 130 3.199071 ACCACCGCAGATTACAAGGATAA 59.801 43.478 0.00 0.00 0.00 1.75
151 155 0.178876 TTGGACCAGTGGGATGAGGA 60.179 55.000 15.21 0.00 38.05 3.71
160 171 0.030705 TGGGATGAGGAAGGGAGGAG 60.031 60.000 0.00 0.00 0.00 3.69
162 173 0.030603 GGATGAGGAAGGGAGGAGGT 60.031 60.000 0.00 0.00 0.00 3.85
192 203 3.004734 ACGTTGGCAATTTGAAGAGGAAG 59.995 43.478 1.92 0.00 0.00 3.46
244 255 0.596082 CGCCGGTCTGTTGGATTTTT 59.404 50.000 1.90 0.00 0.00 1.94
294 327 4.439563 CCCTTTATGTATTTTCCACCGTGC 60.440 45.833 0.00 0.00 0.00 5.34
300 333 3.252215 TGTATTTTCCACCGTGCTTTCAG 59.748 43.478 0.00 0.00 0.00 3.02
444 500 2.157305 TTGGCGCAAGGATGGCAAAG 62.157 55.000 10.83 0.00 46.03 2.77
536 593 2.231478 ACTTGTCATCCTCGACGAACAT 59.769 45.455 0.00 0.00 38.84 2.71
635 698 7.162082 AGTCTCGAGAAGAAATTTTGGTACAT 58.838 34.615 18.55 0.00 34.52 2.29
638 703 9.098355 TCTCGAGAAGAAATTTTGGTACATATG 57.902 33.333 14.01 0.00 39.30 1.78
669 734 7.260387 TCCCTAGTCACCACAAAAATATGTA 57.740 36.000 0.00 0.00 30.84 2.29
753 2922 0.250081 GCTAGGTATGCTGCTGGGTC 60.250 60.000 0.00 0.00 0.00 4.46
755 2924 0.031111 TAGGTATGCTGCTGGGTCCT 60.031 55.000 0.00 4.67 0.00 3.85
756 2925 0.031111 AGGTATGCTGCTGGGTCCTA 60.031 55.000 0.00 0.00 0.00 2.94
757 2926 0.394565 GGTATGCTGCTGGGTCCTAG 59.605 60.000 0.00 0.00 0.00 3.02
759 2928 0.031111 TATGCTGCTGGGTCCTAGGT 60.031 55.000 9.08 0.00 0.00 3.08
760 2929 0.031111 ATGCTGCTGGGTCCTAGGTA 60.031 55.000 9.08 0.00 0.00 3.08
761 2930 0.031111 TGCTGCTGGGTCCTAGGTAT 60.031 55.000 9.08 0.00 0.00 2.73
763 2932 0.394565 CTGCTGGGTCCTAGGTATGC 59.605 60.000 9.08 8.15 0.00 3.14
765 2934 0.394565 GCTGGGTCCTAGGTATGCTG 59.605 60.000 9.08 0.00 0.00 4.41
766 2935 0.394565 CTGGGTCCTAGGTATGCTGC 59.605 60.000 9.08 0.00 0.00 5.25
767 2936 0.031111 TGGGTCCTAGGTATGCTGCT 60.031 55.000 9.08 0.00 0.00 4.24
768 2937 0.394565 GGGTCCTAGGTATGCTGCTG 59.605 60.000 9.08 0.00 0.00 4.41
769 2938 0.394565 GGTCCTAGGTATGCTGCTGG 59.605 60.000 9.08 0.00 0.00 4.85
770 2939 0.394565 GTCCTAGGTATGCTGCTGGG 59.605 60.000 9.08 0.00 0.00 4.45
771 2940 0.031111 TCCTAGGTATGCTGCTGGGT 60.031 55.000 9.08 0.00 0.00 4.51
772 2941 0.107456 CCTAGGTATGCTGCTGGGTG 59.893 60.000 0.00 0.00 0.00 4.61
773 2942 0.533755 CTAGGTATGCTGCTGGGTGC 60.534 60.000 0.00 0.00 43.25 5.01
774 2943 1.983119 TAGGTATGCTGCTGGGTGCC 61.983 60.000 0.00 0.00 42.00 5.01
775 2944 2.045045 GTATGCTGCTGGGTGCCA 60.045 61.111 0.00 0.00 42.00 4.92
776 2945 2.045045 TATGCTGCTGGGTGCCAC 60.045 61.111 0.00 0.00 42.00 5.01
777 2946 3.974835 TATGCTGCTGGGTGCCACG 62.975 63.158 0.00 0.00 42.00 4.94
780 2949 2.360350 CTGCTGGGTGCCACGATT 60.360 61.111 0.00 0.00 42.00 3.34
781 2950 1.973281 CTGCTGGGTGCCACGATTT 60.973 57.895 0.00 0.00 42.00 2.17
875 3052 7.366513 ACTGTTTAGAAGTACTAACCTCGTTC 58.633 38.462 0.00 0.00 40.29 3.95
883 3060 2.532843 ACTAACCTCGTTCCCAAGCTA 58.467 47.619 0.00 0.00 0.00 3.32
917 3094 3.258372 TGCCAAGAAGTACTCCACTAGTG 59.742 47.826 16.34 16.34 39.39 2.74
1010 3189 3.308053 CACGATGAGTACATGCTTTCAGG 59.692 47.826 0.00 0.00 36.82 3.86
1056 3258 4.814294 GCGGTCTGCCCACTACGG 62.814 72.222 0.00 0.00 37.76 4.02
1133 3338 5.294552 GGACAGGCAGATCAAGTACATTTAC 59.705 44.000 0.00 0.00 0.00 2.01
1150 3358 7.886629 ACATTTACCAGCTGAACATATCATT 57.113 32.000 17.39 0.00 37.44 2.57
1170 3382 6.588204 TCATTTTCTACCGGCATGTAGTATT 58.412 36.000 0.00 0.00 39.39 1.89
1204 3423 8.562892 AGATGAAGTGCTTATGGAAATTATTCG 58.437 33.333 0.00 0.00 36.36 3.34
1327 5485 4.349871 GTCGACACGGTGCAACGC 62.350 66.667 26.87 7.19 38.12 4.84
1422 5583 2.101783 CAGCTGGGACAATAATGCCAA 58.898 47.619 5.57 0.00 38.70 4.52
1482 5643 0.602905 GACGGTGGTTTCCCAGTCTG 60.603 60.000 0.00 0.00 42.94 3.51
1508 5714 6.359873 TCCCTCCAGGTACCTAGTTAAATA 57.640 41.667 15.80 0.00 36.75 1.40
1509 5715 6.138967 TCCCTCCAGGTACCTAGTTAAATAC 58.861 44.000 15.80 0.00 36.75 1.89
1510 5716 6.068021 TCCCTCCAGGTACCTAGTTAAATACT 60.068 42.308 15.80 0.00 37.65 2.12
1511 5717 6.267242 CCCTCCAGGTACCTAGTTAAATACTC 59.733 46.154 15.80 0.00 38.33 2.59
1512 5718 6.267242 CCTCCAGGTACCTAGTTAAATACTCC 59.733 46.154 15.80 0.00 38.33 3.85
1513 5719 6.138967 TCCAGGTACCTAGTTAAATACTCCC 58.861 44.000 15.80 0.00 38.33 4.30
1514 5720 6.068021 TCCAGGTACCTAGTTAAATACTCCCT 60.068 42.308 15.80 0.00 38.33 4.20
1515 5721 6.267242 CCAGGTACCTAGTTAAATACTCCCTC 59.733 46.154 15.80 0.00 38.33 4.30
1516 5722 6.267242 CAGGTACCTAGTTAAATACTCCCTCC 59.733 46.154 15.80 0.00 38.33 4.30
1517 5723 5.242615 GGTACCTAGTTAAATACTCCCTCCG 59.757 48.000 4.06 0.00 38.33 4.63
1518 5724 4.876580 ACCTAGTTAAATACTCCCTCCGT 58.123 43.478 0.00 0.00 38.33 4.69
1519 5725 4.892345 ACCTAGTTAAATACTCCCTCCGTC 59.108 45.833 0.00 0.00 38.33 4.79
1520 5726 5.139001 CCTAGTTAAATACTCCCTCCGTCT 58.861 45.833 0.00 0.00 38.33 4.18
1521 5727 5.241285 CCTAGTTAAATACTCCCTCCGTCTC 59.759 48.000 0.00 0.00 38.33 3.36
1522 5728 4.607239 AGTTAAATACTCCCTCCGTCTCA 58.393 43.478 0.00 0.00 28.23 3.27
1523 5729 5.021458 AGTTAAATACTCCCTCCGTCTCAA 58.979 41.667 0.00 0.00 28.23 3.02
1524 5730 5.482878 AGTTAAATACTCCCTCCGTCTCAAA 59.517 40.000 0.00 0.00 28.23 2.69
1525 5731 4.903045 AAATACTCCCTCCGTCTCAAAA 57.097 40.909 0.00 0.00 0.00 2.44
1526 5732 5.437191 AAATACTCCCTCCGTCTCAAAAT 57.563 39.130 0.00 0.00 0.00 1.82
1527 5733 5.437191 AATACTCCCTCCGTCTCAAAATT 57.563 39.130 0.00 0.00 0.00 1.82
1528 5734 3.336138 ACTCCCTCCGTCTCAAAATTC 57.664 47.619 0.00 0.00 0.00 2.17
1529 5735 2.907042 ACTCCCTCCGTCTCAAAATTCT 59.093 45.455 0.00 0.00 0.00 2.40
1530 5736 3.328050 ACTCCCTCCGTCTCAAAATTCTT 59.672 43.478 0.00 0.00 0.00 2.52
1531 5737 3.674997 TCCCTCCGTCTCAAAATTCTTG 58.325 45.455 0.00 0.00 0.00 3.02
1532 5738 3.072476 TCCCTCCGTCTCAAAATTCTTGT 59.928 43.478 0.00 0.00 0.00 3.16
1533 5739 3.437049 CCCTCCGTCTCAAAATTCTTGTC 59.563 47.826 0.00 0.00 0.00 3.18
1534 5740 4.319177 CCTCCGTCTCAAAATTCTTGTCT 58.681 43.478 0.00 0.00 0.00 3.41
1535 5741 4.757149 CCTCCGTCTCAAAATTCTTGTCTT 59.243 41.667 0.00 0.00 0.00 3.01
1536 5742 5.932303 CCTCCGTCTCAAAATTCTTGTCTTA 59.068 40.000 0.00 0.00 0.00 2.10
1537 5743 6.091441 CCTCCGTCTCAAAATTCTTGTCTTAG 59.909 42.308 0.00 0.00 0.00 2.18
1538 5744 6.755206 TCCGTCTCAAAATTCTTGTCTTAGA 58.245 36.000 0.00 0.00 0.00 2.10
1539 5745 7.386851 TCCGTCTCAAAATTCTTGTCTTAGAT 58.613 34.615 0.00 0.00 0.00 1.98
1540 5746 7.878127 TCCGTCTCAAAATTCTTGTCTTAGATT 59.122 33.333 0.00 0.00 0.00 2.40
1541 5747 9.151471 CCGTCTCAAAATTCTTGTCTTAGATTA 57.849 33.333 0.00 0.00 0.00 1.75
1564 5770 9.653516 ATTAGTCTAGATATGGATGTATCAGGG 57.346 37.037 0.00 0.00 34.27 4.45
1565 5771 7.290658 AGTCTAGATATGGATGTATCAGGGA 57.709 40.000 0.00 0.00 34.27 4.20
1566 5772 7.122715 AGTCTAGATATGGATGTATCAGGGAC 58.877 42.308 0.00 0.00 34.27 4.46
1567 5773 6.038825 GTCTAGATATGGATGTATCAGGGACG 59.961 46.154 0.00 0.00 34.27 4.79
1568 5774 4.026744 AGATATGGATGTATCAGGGACGG 58.973 47.826 0.00 0.00 34.27 4.79
1569 5775 2.398754 ATGGATGTATCAGGGACGGA 57.601 50.000 0.00 0.00 36.71 4.69
1570 5776 1.704641 TGGATGTATCAGGGACGGAG 58.295 55.000 0.00 0.00 35.10 4.63
1571 5777 0.969894 GGATGTATCAGGGACGGAGG 59.030 60.000 0.00 0.00 35.10 4.30
1572 5778 0.969894 GATGTATCAGGGACGGAGGG 59.030 60.000 0.00 0.00 35.10 4.30
1573 5779 0.561184 ATGTATCAGGGACGGAGGGA 59.439 55.000 0.00 0.00 35.10 4.20
1683 5944 4.178540 CAAATGCATGGTCCAGATTCAAC 58.821 43.478 0.00 0.00 0.00 3.18
1853 6934 3.282021 GAGGCTTCATACCTTGCATTCA 58.718 45.455 0.00 0.00 37.77 2.57
1855 6936 3.019564 GGCTTCATACCTTGCATTCAGT 58.980 45.455 0.00 0.00 0.00 3.41
1913 6994 8.864069 TTCTAAGAAAGCTCTCATAAATCTCG 57.136 34.615 0.00 0.00 0.00 4.04
2035 7116 5.310594 AGATCACTATGCTAGAGAGGAGAGT 59.689 44.000 0.00 0.00 45.40 3.24
2036 7117 5.381184 TCACTATGCTAGAGAGGAGAGTT 57.619 43.478 0.00 0.00 42.28 3.01
2080 7164 2.095213 TGCAACGACAGACTTCAACAAC 59.905 45.455 0.00 0.00 0.00 3.32
2083 7167 2.190981 ACGACAGACTTCAACAACGTC 58.809 47.619 0.00 0.00 0.00 4.34
2120 7204 1.384525 AGAACTCGCGAGACTAGCAT 58.615 50.000 40.58 15.39 35.39 3.79
2131 7215 4.499865 GCGAGACTAGCATGGTAATTGAGA 60.500 45.833 6.04 0.00 34.19 3.27
2177 7264 9.627123 AAATAGCCTGCTAATTACTTCACATAA 57.373 29.630 2.52 0.00 31.73 1.90
2367 7546 6.598753 TTGCTAAAGTCGCCAATCTAATAC 57.401 37.500 0.00 0.00 0.00 1.89
2413 7592 5.891451 TGTGTATGGAACTCTAGATGAACG 58.109 41.667 0.00 0.00 0.00 3.95
2432 7611 0.318784 GTGTTCTCTTCACCGACGCT 60.319 55.000 0.00 0.00 0.00 5.07
2444 7623 1.407979 ACCGACGCTATTGGAAGGTAG 59.592 52.381 0.00 0.00 35.48 3.18
2459 7640 2.803956 AGGTAGCTATATGCAGCGGTA 58.196 47.619 0.00 0.00 46.52 4.02
2505 7703 9.770097 AATATCATTGTCCTAGAGTTACATGTG 57.230 33.333 9.11 0.00 0.00 3.21
2629 7841 1.610038 TCCGTCATGTACAACACGTCT 59.390 47.619 21.73 0.00 0.00 4.18
2700 7912 8.832521 TCGTTATTTTCTTCAGAAAGCAGTAAA 58.167 29.630 2.35 0.00 43.90 2.01
2732 7944 9.975218 ATACACAATTAACTTCCTAACAGGATT 57.025 29.630 0.00 0.00 45.34 3.01
2754 7966 8.141268 GGATTTAGATTGTTTTCACAAGGAACA 58.859 33.333 0.00 0.00 46.25 3.18
2816 8033 1.376037 GTCTTTCCTGGTGGAGGCG 60.376 63.158 0.00 0.00 44.24 5.52
2898 8115 2.306805 TCATCCTCTGCTCCATTGTTGT 59.693 45.455 0.00 0.00 0.00 3.32
2918 8135 2.562125 GCAACATGCGTTTCCCCTA 58.438 52.632 0.00 0.00 31.71 3.53
2948 8165 3.011144 TGGATGAAAAGCTCACCCCAATA 59.989 43.478 0.00 0.00 36.79 1.90
2973 8190 4.968259 TCTTGCTAAAGTTGGAAGCTACA 58.032 39.130 0.00 0.00 37.16 2.74
3034 8251 1.045407 AACGACTCTGCAACCCACTA 58.955 50.000 0.00 0.00 0.00 2.74
3052 8270 6.327626 ACCCACTATGTAAGCACAATCTATCT 59.672 38.462 0.00 0.00 38.42 1.98
3128 8374 5.822519 GGTGTCTCATGATATTTAACAGGCA 59.177 40.000 0.00 0.00 0.00 4.75
3132 8378 7.147672 TGTCTCATGATATTTAACAGGCAGAGA 60.148 37.037 0.00 0.00 0.00 3.10
3170 8416 6.243148 TGCACCATCATCAATAGCTATTCAT 58.757 36.000 16.21 6.50 0.00 2.57
3175 8421 9.970553 ACCATCATCAATAGCTATTCATATGTT 57.029 29.630 16.21 11.66 0.00 2.71
3281 8527 2.679355 TCGAACAGTGCCAATTTTCG 57.321 45.000 7.07 7.07 40.28 3.46
3435 8681 3.907894 TTGAGGAACATTAAACGGTGC 57.092 42.857 0.00 0.00 0.00 5.01
3436 8682 3.134574 TGAGGAACATTAAACGGTGCT 57.865 42.857 0.00 0.00 0.00 4.40
3515 9176 5.163258 GGGAGAGATAATTGATGTGTCCACT 60.163 44.000 0.00 0.00 41.76 4.00
3577 9646 0.798776 GTCTTCTTGCGGGTCATGTG 59.201 55.000 0.00 0.00 0.00 3.21
3586 9655 2.031919 GGTCATGTGTGTCCCGCA 59.968 61.111 0.00 0.00 38.10 5.69
3670 10722 2.747686 GGGTCCGCCTTTGTCTCA 59.252 61.111 0.00 0.00 34.45 3.27
3744 10797 0.803117 CGCTTCGACCACTCTCTGTA 59.197 55.000 0.00 0.00 0.00 2.74
3813 10867 5.075448 CGTTTCATAGCATATTTAGCGCAG 58.925 41.667 11.47 0.00 37.01 5.18
3878 10936 7.739295 TCTTTGATTATTTTAGCACTCACGTC 58.261 34.615 0.00 0.00 0.00 4.34
3929 10988 6.029346 CAACATATTCTCTTTTGTTGGCCT 57.971 37.500 3.32 0.00 43.16 5.19
3935 10995 6.976934 ATTCTCTTTTGTTGGCCTAAGAAA 57.023 33.333 3.32 5.25 30.54 2.52
3936 10996 5.767816 TCTCTTTTGTTGGCCTAAGAAAC 57.232 39.130 3.32 0.00 32.00 2.78
4058 11124 4.321008 GGCTACTATATGACGCTAGTTGCA 60.321 45.833 13.80 0.00 43.72 4.08
4188 11289 2.092484 TGAAGGATCGAAATCATGCCCA 60.092 45.455 0.00 0.00 33.21 5.36
4238 11342 4.559251 CACTCGAAGAAATGAGTTCTACCG 59.441 45.833 9.84 9.84 46.36 4.02
4245 11349 6.540438 AGAAATGAGTTCTACCGACCAATA 57.460 37.500 0.00 0.00 45.18 1.90
4264 11775 5.127682 CCAATAACCAGCTCAAGCCTTTAAT 59.872 40.000 0.00 0.00 43.38 1.40
4291 11802 2.305927 ACTCCAACGTCAGATTGGGATT 59.694 45.455 3.47 0.00 45.73 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
44 45 2.041891 CTCCGACCATCCCTCTATACCT 59.958 54.545 0.00 0.00 0.00 3.08
77 78 4.286320 CTAGCGGCCCTACCTGCG 62.286 72.222 0.00 0.00 41.16 5.18
124 127 1.134098 CCCACTGGTCCAATCGCTTAT 60.134 52.381 0.00 0.00 0.00 1.73
127 130 1.274703 ATCCCACTGGTCCAATCGCT 61.275 55.000 0.00 0.00 0.00 4.93
151 155 2.236395 CGTGAACAATACCTCCTCCCTT 59.764 50.000 0.00 0.00 0.00 3.95
160 171 3.569250 ATTGCCAACGTGAACAATACC 57.431 42.857 8.05 0.00 31.20 2.73
162 173 5.188327 TCAAATTGCCAACGTGAACAATA 57.812 34.783 9.71 0.00 32.63 1.90
192 203 8.040716 TCTTCAACTTCCGGAAGAATTAATTC 57.959 34.615 43.20 18.70 44.67 2.17
205 216 1.734465 GTGCTCCATCTTCAACTTCCG 59.266 52.381 0.00 0.00 0.00 4.30
244 255 6.591834 CCGCATAACAAAAATGGTTGGAATTA 59.408 34.615 0.00 0.00 32.50 1.40
261 276 6.628919 AAATACATAAAGGGACCGCATAAC 57.371 37.500 0.00 0.00 0.00 1.89
294 327 3.243839 CCAAACCATGGTGGAACTGAAAG 60.244 47.826 20.60 0.00 44.85 2.62
419 475 1.538512 CCATCCTTGCGCCAATATGAG 59.461 52.381 4.18 0.00 0.00 2.90
444 500 8.395633 AGAATATATCCGTGTTTGCAAACTAAC 58.604 33.333 35.09 26.41 39.59 2.34
488 545 1.234821 GTGAGCACAACAAATCGGGA 58.765 50.000 0.00 0.00 0.00 5.14
489 546 0.240945 GGTGAGCACAACAAATCGGG 59.759 55.000 2.75 0.00 33.34 5.14
499 556 3.616219 ACAAGTTTAGTTGGTGAGCACA 58.384 40.909 2.75 0.00 0.00 4.57
500 557 3.625764 TGACAAGTTTAGTTGGTGAGCAC 59.374 43.478 2.66 0.00 0.00 4.40
574 636 6.294342 CCCAGATATCCAACGAACGTTAGATA 60.294 42.308 22.12 22.12 40.76 1.98
612 675 9.098355 CATATGTACCAAAATTTCTTCTCGAGA 57.902 33.333 12.08 12.08 0.00 4.04
616 679 8.897752 AGAGCATATGTACCAAAATTTCTTCTC 58.102 33.333 4.29 0.00 0.00 2.87
626 689 4.660303 AGGGATGAGAGCATATGTACCAAA 59.340 41.667 4.29 0.00 34.11 3.28
635 698 3.117131 TGGTGACTAGGGATGAGAGCATA 60.117 47.826 0.00 0.00 34.11 3.14
638 703 1.410882 GTGGTGACTAGGGATGAGAGC 59.589 57.143 0.00 0.00 0.00 4.09
669 734 6.869206 TGGTAGTACTATTTCCTTTCAGCT 57.131 37.500 5.75 0.00 0.00 4.24
753 2922 0.107456 CACCCAGCAGCATACCTAGG 59.893 60.000 7.41 7.41 0.00 3.02
755 2924 1.526887 GCACCCAGCAGCATACCTA 59.473 57.895 0.00 0.00 44.79 3.08
756 2925 2.273449 GCACCCAGCAGCATACCT 59.727 61.111 0.00 0.00 44.79 3.08
765 2934 1.212751 GAAAATCGTGGCACCCAGC 59.787 57.895 12.86 0.00 44.65 4.85
766 2935 1.501741 CGAAAATCGTGGCACCCAG 59.498 57.895 12.86 0.00 34.72 4.45
767 2936 2.622011 GCGAAAATCGTGGCACCCA 61.622 57.895 12.86 0.00 42.81 4.51
768 2937 2.178273 GCGAAAATCGTGGCACCC 59.822 61.111 12.86 0.00 42.81 4.61
769 2938 1.022451 TAGGCGAAAATCGTGGCACC 61.022 55.000 12.86 0.00 42.81 5.01
770 2939 1.014352 ATAGGCGAAAATCGTGGCAC 58.986 50.000 7.79 7.79 42.81 5.01
771 2940 2.605837 TATAGGCGAAAATCGTGGCA 57.394 45.000 1.45 0.00 42.81 4.92
772 2941 3.955771 TTTATAGGCGAAAATCGTGGC 57.044 42.857 1.45 0.00 42.81 5.01
773 2942 5.212194 CCAATTTATAGGCGAAAATCGTGG 58.788 41.667 1.45 0.00 42.81 4.94
774 2943 4.675114 GCCAATTTATAGGCGAAAATCGTG 59.325 41.667 1.45 0.00 42.81 4.35
775 2944 4.855531 GCCAATTTATAGGCGAAAATCGT 58.144 39.130 1.45 0.00 42.81 3.73
852 3027 6.294731 GGGAACGAGGTTAGTACTTCTAAACA 60.295 42.308 0.00 0.00 45.78 2.83
854 3029 5.774690 TGGGAACGAGGTTAGTACTTCTAAA 59.225 40.000 0.00 0.00 39.88 1.85
1049 3251 1.682684 AGGAGCTGGGACCGTAGTG 60.683 63.158 0.00 0.00 0.00 2.74
1133 3338 6.293081 CGGTAGAAAATGATATGTTCAGCTGG 60.293 42.308 15.13 0.00 37.89 4.85
1150 3358 9.701098 CTTTATAATACTACATGCCGGTAGAAA 57.299 33.333 16.20 6.54 42.68 2.52
1185 3402 4.976116 GCACCGAATAATTTCCATAAGCAC 59.024 41.667 0.00 0.00 0.00 4.40
1204 3423 1.000607 GACATCATCCATGCATGCACC 60.001 52.381 25.37 0.00 35.65 5.01
1422 5583 1.202855 AGGCCGCAGAAGCAATATCAT 60.203 47.619 0.00 0.00 42.27 2.45
1482 5643 1.343176 ACTAGGTACCTGGAGGGAAGC 60.343 57.143 30.17 0.00 40.27 3.86
1508 5714 2.907042 AGAATTTTGAGACGGAGGGAGT 59.093 45.455 0.00 0.00 0.00 3.85
1509 5715 3.618690 AGAATTTTGAGACGGAGGGAG 57.381 47.619 0.00 0.00 0.00 4.30
1510 5716 3.072476 ACAAGAATTTTGAGACGGAGGGA 59.928 43.478 7.18 0.00 0.00 4.20
1511 5717 3.412386 ACAAGAATTTTGAGACGGAGGG 58.588 45.455 7.18 0.00 0.00 4.30
1512 5718 4.319177 AGACAAGAATTTTGAGACGGAGG 58.681 43.478 7.18 0.00 0.00 4.30
1513 5719 5.931441 AAGACAAGAATTTTGAGACGGAG 57.069 39.130 7.18 0.00 0.00 4.63
1514 5720 6.755206 TCTAAGACAAGAATTTTGAGACGGA 58.245 36.000 7.18 0.00 0.00 4.69
1515 5721 7.602517 ATCTAAGACAAGAATTTTGAGACGG 57.397 36.000 7.18 0.00 0.00 4.79
1538 5744 9.653516 CCCTGATACATCCATATCTAGACTAAT 57.346 37.037 0.00 0.00 33.42 1.73
1539 5745 8.846804 TCCCTGATACATCCATATCTAGACTAA 58.153 37.037 0.00 0.00 33.42 2.24
1540 5746 8.275758 GTCCCTGATACATCCATATCTAGACTA 58.724 40.741 0.00 0.00 33.42 2.59
1541 5747 7.122715 GTCCCTGATACATCCATATCTAGACT 58.877 42.308 0.00 0.00 33.42 3.24
1542 5748 6.038825 CGTCCCTGATACATCCATATCTAGAC 59.961 46.154 0.00 0.00 33.42 2.59
1543 5749 6.122964 CGTCCCTGATACATCCATATCTAGA 58.877 44.000 0.00 0.00 33.42 2.43
1544 5750 5.300539 CCGTCCCTGATACATCCATATCTAG 59.699 48.000 0.00 0.00 33.42 2.43
1545 5751 5.044402 TCCGTCCCTGATACATCCATATCTA 60.044 44.000 0.00 0.00 33.42 1.98
1546 5752 4.026744 CCGTCCCTGATACATCCATATCT 58.973 47.826 0.00 0.00 33.42 1.98
1547 5753 4.023980 TCCGTCCCTGATACATCCATATC 58.976 47.826 0.00 0.00 32.95 1.63
1548 5754 4.026744 CTCCGTCCCTGATACATCCATAT 58.973 47.826 0.00 0.00 0.00 1.78
1549 5755 3.431415 CTCCGTCCCTGATACATCCATA 58.569 50.000 0.00 0.00 0.00 2.74
1550 5756 2.251818 CTCCGTCCCTGATACATCCAT 58.748 52.381 0.00 0.00 0.00 3.41
1551 5757 1.704641 CTCCGTCCCTGATACATCCA 58.295 55.000 0.00 0.00 0.00 3.41
1552 5758 0.969894 CCTCCGTCCCTGATACATCC 59.030 60.000 0.00 0.00 0.00 3.51
1553 5759 0.969894 CCCTCCGTCCCTGATACATC 59.030 60.000 0.00 0.00 0.00 3.06
1554 5760 0.561184 TCCCTCCGTCCCTGATACAT 59.439 55.000 0.00 0.00 0.00 2.29
1555 5761 0.106167 CTCCCTCCGTCCCTGATACA 60.106 60.000 0.00 0.00 0.00 2.29
1556 5762 0.106116 ACTCCCTCCGTCCCTGATAC 60.106 60.000 0.00 0.00 0.00 2.24
1557 5763 1.526315 TACTCCCTCCGTCCCTGATA 58.474 55.000 0.00 0.00 0.00 2.15
1558 5764 0.861155 ATACTCCCTCCGTCCCTGAT 59.139 55.000 0.00 0.00 0.00 2.90
1559 5765 0.106167 CATACTCCCTCCGTCCCTGA 60.106 60.000 0.00 0.00 0.00 3.86
1560 5766 0.106167 TCATACTCCCTCCGTCCCTG 60.106 60.000 0.00 0.00 0.00 4.45
1561 5767 0.635009 TTCATACTCCCTCCGTCCCT 59.365 55.000 0.00 0.00 0.00 4.20
1562 5768 1.492764 TTTCATACTCCCTCCGTCCC 58.507 55.000 0.00 0.00 0.00 4.46
1563 5769 4.527038 TCATATTTCATACTCCCTCCGTCC 59.473 45.833 0.00 0.00 0.00 4.79
1564 5770 5.723672 TCATATTTCATACTCCCTCCGTC 57.276 43.478 0.00 0.00 0.00 4.79
1565 5771 6.494666 TTTCATATTTCATACTCCCTCCGT 57.505 37.500 0.00 0.00 0.00 4.69
1566 5772 6.073003 GCTTTTCATATTTCATACTCCCTCCG 60.073 42.308 0.00 0.00 0.00 4.63
1567 5773 6.772716 TGCTTTTCATATTTCATACTCCCTCC 59.227 38.462 0.00 0.00 0.00 4.30
1568 5774 7.807977 TGCTTTTCATATTTCATACTCCCTC 57.192 36.000 0.00 0.00 0.00 4.30
1569 5775 9.289782 GTATGCTTTTCATATTTCATACTCCCT 57.710 33.333 0.00 0.00 39.63 4.20
1570 5776 9.066892 TGTATGCTTTTCATATTTCATACTCCC 57.933 33.333 10.33 0.00 39.63 4.30
1571 5777 9.884465 GTGTATGCTTTTCATATTTCATACTCC 57.116 33.333 10.33 0.67 39.63 3.85
1683 5944 6.692681 CACATAAGTCAAAGTTTCAACTGTGG 59.307 38.462 9.55 0.00 43.12 4.17
1773 6554 3.764434 ACGCTTGAGAGTTTCCAGAGATA 59.236 43.478 0.00 0.00 0.00 1.98
1853 6934 0.400213 TCCAATGTTTCCTCGCCACT 59.600 50.000 0.00 0.00 0.00 4.00
1855 6936 0.953471 CGTCCAATGTTTCCTCGCCA 60.953 55.000 0.00 0.00 0.00 5.69
1929 7010 0.320073 TACACTGCACCGTAAGTGGC 60.320 55.000 14.78 0.00 46.55 5.01
2029 7110 3.471680 GAGCAATGGGTCATAACTCTCC 58.528 50.000 0.00 0.00 41.19 3.71
2035 7116 4.746535 TCTAACGAGCAATGGGTCATAA 57.253 40.909 0.00 0.00 41.62 1.90
2036 7117 4.955811 ATCTAACGAGCAATGGGTCATA 57.044 40.909 0.00 0.00 41.62 2.15
2080 7164 0.518636 CCTGATGCACACTTTGGACG 59.481 55.000 0.00 0.00 0.00 4.79
2083 7167 2.507484 TCTTCCTGATGCACACTTTGG 58.493 47.619 0.00 0.00 0.00 3.28
2153 7238 9.799106 AATTATGTGAAGTAATTAGCAGGCTAT 57.201 29.630 1.24 0.00 31.77 2.97
2205 7384 4.323945 CCACCACCTACATTTAAGCAGGTA 60.324 45.833 0.00 0.00 39.40 3.08
2210 7389 3.694566 CCTTCCACCACCTACATTTAAGC 59.305 47.826 0.00 0.00 0.00 3.09
2216 7395 0.120377 TCCCCTTCCACCACCTACAT 59.880 55.000 0.00 0.00 0.00 2.29
2245 7424 1.974236 TGGCGAACCCCAATTTTTCAT 59.026 42.857 0.00 0.00 33.59 2.57
2308 7487 0.893270 TCCATTGTTTGGCTCCCACG 60.893 55.000 0.00 0.00 46.01 4.94
2329 7508 0.104855 AGCAAGCACTTCTCGACACA 59.895 50.000 0.00 0.00 0.00 3.72
2413 7592 0.318784 AGCGTCGGTGAAGAGAACAC 60.319 55.000 0.00 0.00 37.51 3.32
2432 7611 5.624509 CGCTGCATATAGCTACCTTCCAATA 60.625 44.000 0.00 0.00 45.94 1.90
2444 7623 2.440539 AGTGTACCGCTGCATATAGC 57.559 50.000 0.00 0.00 45.96 2.97
2629 7841 1.250328 CATTTTCAGCCACCTCAGCA 58.750 50.000 0.00 0.00 0.00 4.41
2726 7938 7.885297 TCCTTGTGAAAACAATCTAAATCCTG 58.115 34.615 0.00 0.00 0.00 3.86
2816 8033 0.603065 GGTTTCCATGGTGCCACTTC 59.397 55.000 12.58 0.00 0.00 3.01
2856 8073 8.512956 GGATGAAATTGATCCATTGTCTAGATG 58.487 37.037 6.59 0.00 39.49 2.90
2861 8078 6.546403 CAGAGGATGAAATTGATCCATTGTCT 59.454 38.462 13.71 4.93 41.82 3.41
2898 8115 1.112315 AGGGGAAACGCATGTTGCAA 61.112 50.000 0.00 0.00 45.36 4.08
2948 8165 4.916183 AGCTTCCAACTTTAGCAAGAGAT 58.084 39.130 0.00 0.00 37.37 2.75
2973 8190 4.857588 CGACGCAGACTGAACTAATTTAGT 59.142 41.667 6.65 3.16 41.73 2.24
3128 8374 0.831288 CATCCCCTCGCTCCATCTCT 60.831 60.000 0.00 0.00 0.00 3.10
3132 8378 2.769621 TGCATCCCCTCGCTCCAT 60.770 61.111 0.00 0.00 0.00 3.41
3264 8510 3.896648 TCTCGAAAATTGGCACTGTTC 57.103 42.857 0.00 0.00 0.00 3.18
3269 8515 4.090498 GCAAAAGATCTCGAAAATTGGCAC 59.910 41.667 0.00 0.00 0.00 5.01
3281 8527 3.669023 CGCAAGTCTTGGCAAAAGATCTC 60.669 47.826 14.40 0.00 0.00 2.75
3515 9176 4.116961 CACCGCTATGGAGATCGTTTTTA 58.883 43.478 0.00 0.00 42.00 1.52
3577 9646 2.029838 ATCAAGATCTTGCGGGACAC 57.970 50.000 27.45 0.00 40.24 3.67
3586 9655 5.726793 ACTAACCCCACACTATCAAGATCTT 59.273 40.000 0.88 0.88 0.00 2.40
3670 10722 0.250338 GACGAGGCAAACAGAACCCT 60.250 55.000 0.00 0.00 0.00 4.34
3725 10778 0.803117 TACAGAGAGTGGTCGAAGCG 59.197 55.000 0.00 0.00 0.00 4.68
4058 11124 0.881118 CGCCCCGCATGCTATTTTAT 59.119 50.000 17.13 0.00 0.00 1.40
4082 11149 0.459585 CTGGTCCATACACGAACCGG 60.460 60.000 0.00 0.00 34.39 5.28
4238 11342 1.745653 GGCTTGAGCTGGTTATTGGTC 59.254 52.381 0.00 0.00 41.70 4.02
4245 11349 5.509498 TGATATTAAAGGCTTGAGCTGGTT 58.491 37.500 0.00 0.00 41.70 3.67
4349 12185 8.657387 TGGTGGGATTTTCAAAAGTATTCATA 57.343 30.769 0.00 0.00 0.00 2.15


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

AutoCloner maintained by Alex Coulton.