Multiple sequence alignment - TraesCS7D01G082200

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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 TraesCS7D01G082200 chr7D 100.000 4190 0 0 1 4190 49208520 49204331 0.000000e+00 7738.0
1 TraesCS7D01G082200 chr7D 97.354 1134 20 7 1 1130 12149540 12150667 0.000000e+00 1919.0
2 TraesCS7D01G082200 chr7D 92.005 838 47 12 1398 2230 27344083 27344905 0.000000e+00 1158.0
3 TraesCS7D01G082200 chr7D 96.232 637 17 7 2154 2788 26869200 26869831 0.000000e+00 1037.0
4 TraesCS7D01G082200 chr7D 98.785 576 6 1 3616 4190 70716937 70717512 0.000000e+00 1024.0
5 TraesCS7D01G082200 chr7D 98.438 576 8 1 3616 4190 51817381 51817956 0.000000e+00 1013.0
6 TraesCS7D01G082200 chr7D 98.438 576 8 1 3616 4190 55154613 55154038 0.000000e+00 1013.0
7 TraesCS7D01G082200 chr7D 97.650 383 9 0 3013 3395 12150869 12151251 0.000000e+00 658.0
8 TraesCS7D01G082200 chr7D 96.413 223 8 0 3393 3615 12151309 12151531 6.620000e-98 368.0
9 TraesCS7D01G082200 chr7D 96.842 190 6 0 1156 1345 12150660 12150849 6.760000e-83 318.0
10 TraesCS7D01G082200 chr7D 100.000 41 0 0 2789 2829 114145746 114145786 4.490000e-10 76.8
11 TraesCS7D01G082200 chr7D 100.000 41 0 0 2789 2829 542753908 542753948 4.490000e-10 76.8
12 TraesCS7D01G082200 chr4A 94.021 1405 62 9 1 1402 725894794 725893409 0.000000e+00 2109.0
13 TraesCS7D01G082200 chr4A 92.603 703 46 6 2057 2754 661823885 661824586 0.000000e+00 1005.0
14 TraesCS7D01G082200 chr4A 91.821 379 28 1 3013 3391 725893412 725893037 3.710000e-145 525.0
15 TraesCS7D01G082200 chr4A 90.541 222 20 1 3394 3615 725892968 725892748 4.100000e-75 292.0
16 TraesCS7D01G082200 chr1D 93.719 1401 58 16 1402 2789 488447982 488446599 0.000000e+00 2073.0
17 TraesCS7D01G082200 chr1D 98.614 577 6 2 3616 4190 3548203 3547627 0.000000e+00 1020.0
18 TraesCS7D01G082200 chr1D 97.283 184 4 1 2830 3012 413580083 413579900 1.130000e-80 311.0
19 TraesCS7D01G082200 chr1D 96.739 184 6 0 2830 3013 299686609 299686792 1.460000e-79 307.0
20 TraesCS7D01G082200 chr1D 100.000 41 0 0 2789 2829 413580199 413580159 4.490000e-10 76.8
21 TraesCS7D01G082200 chr2D 93.252 1393 54 21 1402 2788 29825406 29826764 0.000000e+00 2015.0
22 TraesCS7D01G082200 chr2D 92.693 1396 53 16 1401 2791 29646597 29647948 0.000000e+00 1967.0
23 TraesCS7D01G082200 chr2D 93.116 799 37 9 1402 2196 6983960 6983176 0.000000e+00 1155.0
24 TraesCS7D01G082200 chr2D 98.438 576 8 1 3616 4190 632735397 632735972 0.000000e+00 1013.0
25 TraesCS7D01G082200 chr2D 97.814 183 4 0 2830 3012 3655572 3655390 2.430000e-82 316.0
26 TraesCS7D01G082200 chr5D 92.368 1402 51 19 1402 2789 530922468 530923827 0.000000e+00 1945.0
27 TraesCS7D01G082200 chr5D 92.518 1390 53 15 1402 2787 346198217 346199559 0.000000e+00 1943.0
28 TraesCS7D01G082200 chr5D 98.787 577 6 1 3615 4190 407386551 407385975 0.000000e+00 1026.0
29 TraesCS7D01G082200 chr5D 98.333 180 3 0 2830 3009 83047970 83048149 2.430000e-82 316.0
30 TraesCS7D01G082200 chr5D 95.789 190 7 1 2830 3018 553797359 553797170 5.260000e-79 305.0
31 TraesCS7D01G082200 chr3D 94.131 1295 48 14 1402 2689 597744658 597745931 0.000000e+00 1945.0
32 TraesCS7D01G082200 chr3D 91.813 965 56 16 1402 2352 500194295 500193340 0.000000e+00 1323.0
33 TraesCS7D01G082200 chr3D 92.191 858 45 17 1402 2246 397751017 397750169 0.000000e+00 1194.0
34 TraesCS7D01G082200 chr3D 94.940 751 27 8 2043 2789 578741750 578742493 0.000000e+00 1166.0
35 TraesCS7D01G082200 chr3D 98.785 576 6 1 3616 4190 41584207 41584782 0.000000e+00 1024.0
36 TraesCS7D01G082200 chr3D 97.268 183 5 0 2830 3012 544264138 544263956 1.130000e-80 311.0
37 TraesCS7D01G082200 chr7A 89.626 1282 92 15 130 1402 11438818 11440067 0.000000e+00 1592.0
38 TraesCS7D01G082200 chr7A 92.222 360 25 1 3013 3372 11440064 11440420 1.340000e-139 507.0
39 TraesCS7D01G082200 chr6D 93.000 800 41 12 1401 2196 251638117 251638905 0.000000e+00 1153.0
40 TraesCS7D01G082200 chr6D 94.000 750 35 6 2043 2788 362632110 362632853 0.000000e+00 1127.0
41 TraesCS7D01G082200 chr6D 95.944 641 22 4 2154 2791 417768883 417768244 0.000000e+00 1037.0
42 TraesCS7D01G082200 chr6D 100.000 41 0 0 2789 2829 19619520 19619560 4.490000e-10 76.8
43 TraesCS7D01G082200 chr6D 100.000 41 0 0 2789 2829 121093813 121093773 4.490000e-10 76.8
44 TraesCS7D01G082200 chr5A 89.147 903 69 24 2094 2971 624160214 624161112 0.000000e+00 1098.0
45 TraesCS7D01G082200 chrUn 98.611 576 8 0 3615 4190 92866245 92865670 0.000000e+00 1020.0
46 TraesCS7D01G082200 chrUn 98.438 576 8 1 3616 4190 90404622 90405197 0.000000e+00 1013.0
47 TraesCS7D01G082200 chrUn 98.333 180 3 0 2830 3009 108830756 108830935 2.430000e-82 316.0
48 TraesCS7D01G082200 chrUn 96.739 184 6 0 2830 3013 109065990 109065807 1.460000e-79 307.0
49 TraesCS7D01G082200 chrUn 100.000 41 0 0 2789 2829 48696675 48696635 4.490000e-10 76.8
50 TraesCS7D01G082200 chr6B 97.814 183 4 0 2830 3012 705516028 705515846 2.430000e-82 316.0
51 TraesCS7D01G082200 chr6B 100.000 41 0 0 2789 2829 675613175 675613135 4.490000e-10 76.8
52 TraesCS7D01G082200 chr5B 100.000 41 0 0 2789 2829 16287180 16287220 4.490000e-10 76.8
53 TraesCS7D01G082200 chr4B 100.000 41 0 0 2789 2829 5293210 5293250 4.490000e-10 76.8


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 TraesCS7D01G082200 chr7D 49204331 49208520 4189 True 7738.000000 7738 100.000000 1 4190 1 chr7D.!!$R1 4189
1 TraesCS7D01G082200 chr7D 27344083 27344905 822 False 1158.000000 1158 92.005000 1398 2230 1 chr7D.!!$F2 832
2 TraesCS7D01G082200 chr7D 26869200 26869831 631 False 1037.000000 1037 96.232000 2154 2788 1 chr7D.!!$F1 634
3 TraesCS7D01G082200 chr7D 70716937 70717512 575 False 1024.000000 1024 98.785000 3616 4190 1 chr7D.!!$F4 574
4 TraesCS7D01G082200 chr7D 51817381 51817956 575 False 1013.000000 1013 98.438000 3616 4190 1 chr7D.!!$F3 574
5 TraesCS7D01G082200 chr7D 55154038 55154613 575 True 1013.000000 1013 98.438000 3616 4190 1 chr7D.!!$R2 574
6 TraesCS7D01G082200 chr7D 12149540 12151531 1991 False 815.750000 1919 97.064750 1 3615 4 chr7D.!!$F7 3614
7 TraesCS7D01G082200 chr4A 661823885 661824586 701 False 1005.000000 1005 92.603000 2057 2754 1 chr4A.!!$F1 697
8 TraesCS7D01G082200 chr4A 725892748 725894794 2046 True 975.333333 2109 92.127667 1 3615 3 chr4A.!!$R1 3614
9 TraesCS7D01G082200 chr1D 488446599 488447982 1383 True 2073.000000 2073 93.719000 1402 2789 1 chr1D.!!$R2 1387
10 TraesCS7D01G082200 chr1D 3547627 3548203 576 True 1020.000000 1020 98.614000 3616 4190 1 chr1D.!!$R1 574
11 TraesCS7D01G082200 chr2D 29825406 29826764 1358 False 2015.000000 2015 93.252000 1402 2788 1 chr2D.!!$F2 1386
12 TraesCS7D01G082200 chr2D 29646597 29647948 1351 False 1967.000000 1967 92.693000 1401 2791 1 chr2D.!!$F1 1390
13 TraesCS7D01G082200 chr2D 6983176 6983960 784 True 1155.000000 1155 93.116000 1402 2196 1 chr2D.!!$R2 794
14 TraesCS7D01G082200 chr2D 632735397 632735972 575 False 1013.000000 1013 98.438000 3616 4190 1 chr2D.!!$F3 574
15 TraesCS7D01G082200 chr5D 530922468 530923827 1359 False 1945.000000 1945 92.368000 1402 2789 1 chr5D.!!$F3 1387
16 TraesCS7D01G082200 chr5D 346198217 346199559 1342 False 1943.000000 1943 92.518000 1402 2787 1 chr5D.!!$F2 1385
17 TraesCS7D01G082200 chr5D 407385975 407386551 576 True 1026.000000 1026 98.787000 3615 4190 1 chr5D.!!$R1 575
18 TraesCS7D01G082200 chr3D 597744658 597745931 1273 False 1945.000000 1945 94.131000 1402 2689 1 chr3D.!!$F3 1287
19 TraesCS7D01G082200 chr3D 500193340 500194295 955 True 1323.000000 1323 91.813000 1402 2352 1 chr3D.!!$R2 950
20 TraesCS7D01G082200 chr3D 397750169 397751017 848 True 1194.000000 1194 92.191000 1402 2246 1 chr3D.!!$R1 844
21 TraesCS7D01G082200 chr3D 578741750 578742493 743 False 1166.000000 1166 94.940000 2043 2789 1 chr3D.!!$F2 746
22 TraesCS7D01G082200 chr3D 41584207 41584782 575 False 1024.000000 1024 98.785000 3616 4190 1 chr3D.!!$F1 574
23 TraesCS7D01G082200 chr7A 11438818 11440420 1602 False 1049.500000 1592 90.924000 130 3372 2 chr7A.!!$F1 3242
24 TraesCS7D01G082200 chr6D 251638117 251638905 788 False 1153.000000 1153 93.000000 1401 2196 1 chr6D.!!$F2 795
25 TraesCS7D01G082200 chr6D 362632110 362632853 743 False 1127.000000 1127 94.000000 2043 2788 1 chr6D.!!$F3 745
26 TraesCS7D01G082200 chr6D 417768244 417768883 639 True 1037.000000 1037 95.944000 2154 2791 1 chr6D.!!$R2 637
27 TraesCS7D01G082200 chr5A 624160214 624161112 898 False 1098.000000 1098 89.147000 2094 2971 1 chr5A.!!$F1 877
28 TraesCS7D01G082200 chrUn 92865670 92866245 575 True 1020.000000 1020 98.611000 3615 4190 1 chrUn.!!$R2 575
29 TraesCS7D01G082200 chrUn 90404622 90405197 575 False 1013.000000 1013 98.438000 3616 4190 1 chrUn.!!$F1 574

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
822 831 0.861837 CCGAAGTGAGTGTCAACAGC 59.138 55.0 0.00 0.0 0.00 4.40 F
1238 1249 0.328258 GGCAAGGCTAAGGACCTTCA 59.672 55.0 10.87 0.0 44.35 3.02 F
2867 3806 0.249573 GTCCCGGTTCGTGTCTCAAA 60.250 55.0 0.00 0.0 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2792 3731 0.821517 AGTATCGGTTCATGGCACGA 59.178 50.0 8.51 8.51 39.85 4.35 R
2898 3837 0.106708 TCCTGCGGCTAAGGCATTAG 59.893 55.0 13.70 13.70 40.09 1.73 R
3680 4687 0.245813 GAACCGCGACTAAAGACCCT 59.754 55.0 8.23 0.00 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
574 582 9.723601 GATAAGAGGAGATCTAAAATGAGCATT 57.276 33.333 0.00 0.00 37.23 3.56
822 831 0.861837 CCGAAGTGAGTGTCAACAGC 59.138 55.000 0.00 0.00 0.00 4.40
1155 1166 3.262420 CAAGAACGCTACAGCCAACTAT 58.738 45.455 0.00 0.00 37.91 2.12
1167 1178 6.655078 ACAGCCAACTATGACAAAGAAATT 57.345 33.333 0.00 0.00 0.00 1.82
1214 1225 3.307906 CCTCCGGTCGGACAACCA 61.308 66.667 10.76 0.00 39.76 3.67
1238 1249 0.328258 GGCAAGGCTAAGGACCTTCA 59.672 55.000 10.87 0.00 44.35 3.02
1287 1298 0.458716 TCAAAGCACGTGTCGTCACA 60.459 50.000 18.38 0.00 44.02 3.58
1386 1397 0.524414 TGGACTATGACGTGACGGTG 59.476 55.000 10.66 0.00 0.00 4.94
1418 1429 5.536260 GAACGTCACTAGTAGAAAAAGGGT 58.464 41.667 3.59 0.00 0.00 4.34
1445 1456 1.213430 TCCCGGTTTATAAGGGCCTTG 59.787 52.381 28.88 9.75 44.70 3.61
1456 1467 2.295602 GGGCCTTGAGTCCCGGTTA 61.296 63.158 0.84 0.00 32.00 2.85
1482 1493 2.564504 ACCAGGAGTAAAGGGTCGTTAC 59.435 50.000 0.00 0.00 0.00 2.50
1496 1507 1.201424 CGTTACCTAAAGCCTCCCCT 58.799 55.000 0.00 0.00 0.00 4.79
1507 1518 1.559965 GCCTCCCCTTTTAGTCCCGT 61.560 60.000 0.00 0.00 0.00 5.28
1701 1738 5.409712 TCTCTAATCATCACCCCTCATCAT 58.590 41.667 0.00 0.00 0.00 2.45
1744 1781 8.452138 AATCTCTAATCATCCCTCATCATTCT 57.548 34.615 0.00 0.00 0.00 2.40
1777 1814 3.075005 CCGGACGGTCACCCATCT 61.075 66.667 10.76 0.00 0.00 2.90
1809 1846 0.895530 AGCCTGAGCACGCTTAACTA 59.104 50.000 0.00 0.00 43.56 2.24
1833 1870 3.369157 CGGGTTCTATTCTCCCTCGTTTT 60.369 47.826 0.00 0.00 39.10 2.43
1935 1972 4.943705 AGTCACACATTTCACTGTTTGAGT 59.056 37.500 0.00 0.00 36.72 3.41
2009 2047 9.744468 ATTTTTGAATAAGTAGTTTGACCACAC 57.256 29.630 0.00 0.00 0.00 3.82
2136 2365 5.653769 CCATAGTTTGACCAGATTTGACCAT 59.346 40.000 0.00 0.00 0.00 3.55
2145 2374 7.829725 TGACCAGATTTGACCATAATTCAAAG 58.170 34.615 4.08 0.00 44.17 2.77
2223 2453 3.426615 AGTTTGACCACAGTTTGACCAA 58.573 40.909 0.00 0.00 0.00 3.67
2555 3491 2.496899 AGGCGGTCAAAATCAGATGT 57.503 45.000 0.00 0.00 0.00 3.06
2643 3581 8.676401 GTTATAGCCGTTTTACATTTTCCCTAA 58.324 33.333 0.00 0.00 0.00 2.69
2791 3730 0.673644 CTGAAAAGGCGATCCACGGT 60.674 55.000 0.00 0.00 42.83 4.83
2792 3731 0.250553 TGAAAAGGCGATCCACGGTT 60.251 50.000 0.00 0.00 42.83 4.44
2793 3732 0.446616 GAAAAGGCGATCCACGGTTC 59.553 55.000 0.00 0.00 42.83 3.62
2794 3733 1.296056 AAAAGGCGATCCACGGTTCG 61.296 55.000 11.37 11.37 42.83 3.95
2795 3734 2.444700 AAAGGCGATCCACGGTTCGT 62.445 55.000 15.82 0.00 42.36 3.85
2804 3743 3.650369 ACGGTTCGTGCCATGAAC 58.350 55.556 19.30 19.30 42.00 3.18
2808 3747 2.466867 GTTCGTGCCATGAACCGAT 58.533 52.632 17.21 0.00 37.98 4.18
2810 3749 1.326548 GTTCGTGCCATGAACCGATAC 59.673 52.381 17.21 0.00 37.98 2.24
2811 3750 0.821517 TCGTGCCATGAACCGATACT 59.178 50.000 0.00 0.00 0.00 2.12
2812 3751 2.025898 TCGTGCCATGAACCGATACTA 58.974 47.619 0.00 0.00 0.00 1.82
2813 3752 2.427812 TCGTGCCATGAACCGATACTAA 59.572 45.455 0.00 0.00 0.00 2.24
2814 3753 3.069016 TCGTGCCATGAACCGATACTAAT 59.931 43.478 0.00 0.00 0.00 1.73
2815 3754 3.184379 CGTGCCATGAACCGATACTAATG 59.816 47.826 0.00 0.00 0.00 1.90
2816 3755 3.058914 GTGCCATGAACCGATACTAATGC 60.059 47.826 0.00 0.00 0.00 3.56
2817 3756 2.484264 GCCATGAACCGATACTAATGCC 59.516 50.000 0.00 0.00 0.00 4.40
2818 3757 3.807209 GCCATGAACCGATACTAATGCCT 60.807 47.826 0.00 0.00 0.00 4.75
2819 3758 3.997021 CCATGAACCGATACTAATGCCTC 59.003 47.826 0.00 0.00 0.00 4.70
2820 3759 4.503123 CCATGAACCGATACTAATGCCTCA 60.503 45.833 0.00 0.00 0.00 3.86
2821 3760 4.746535 TGAACCGATACTAATGCCTCAA 57.253 40.909 0.00 0.00 0.00 3.02
2822 3761 5.092554 TGAACCGATACTAATGCCTCAAA 57.907 39.130 0.00 0.00 0.00 2.69
2823 3762 4.873827 TGAACCGATACTAATGCCTCAAAC 59.126 41.667 0.00 0.00 0.00 2.93
2824 3763 3.805207 ACCGATACTAATGCCTCAAACC 58.195 45.455 0.00 0.00 0.00 3.27
2825 3764 3.139077 CCGATACTAATGCCTCAAACCC 58.861 50.000 0.00 0.00 0.00 4.11
2826 3765 3.139077 CGATACTAATGCCTCAAACCCC 58.861 50.000 0.00 0.00 0.00 4.95
2827 3766 3.433031 CGATACTAATGCCTCAAACCCCA 60.433 47.826 0.00 0.00 0.00 4.96
2828 3767 4.729868 GATACTAATGCCTCAAACCCCAT 58.270 43.478 0.00 0.00 0.00 4.00
2829 3768 5.512404 CGATACTAATGCCTCAAACCCCATA 60.512 44.000 0.00 0.00 0.00 2.74
2830 3769 4.814224 ACTAATGCCTCAAACCCCATAT 57.186 40.909 0.00 0.00 0.00 1.78
2831 3770 4.473444 ACTAATGCCTCAAACCCCATATG 58.527 43.478 0.00 0.00 0.00 1.78
2832 3771 2.386829 ATGCCTCAAACCCCATATGG 57.613 50.000 15.41 15.41 0.00 2.74
2842 3781 3.672293 CCATATGGGCATCGCACC 58.328 61.111 14.52 0.00 0.00 5.01
2848 3787 3.827634 GGGCATCGCACCCTTTAG 58.172 61.111 0.40 0.00 44.68 1.85
2849 3788 1.077716 GGGCATCGCACCCTTTAGT 60.078 57.895 0.40 0.00 44.68 2.24
2850 3789 1.095807 GGGCATCGCACCCTTTAGTC 61.096 60.000 0.40 0.00 44.68 2.59
2851 3790 1.095807 GGCATCGCACCCTTTAGTCC 61.096 60.000 0.00 0.00 0.00 3.85
2852 3791 1.095807 GCATCGCACCCTTTAGTCCC 61.096 60.000 0.00 0.00 0.00 4.46
2853 3792 0.810031 CATCGCACCCTTTAGTCCCG 60.810 60.000 0.00 0.00 0.00 5.14
2854 3793 1.968050 ATCGCACCCTTTAGTCCCGG 61.968 60.000 0.00 0.00 0.00 5.73
2855 3794 2.951101 CGCACCCTTTAGTCCCGGT 61.951 63.158 0.00 0.00 0.00 5.28
2856 3795 1.377612 GCACCCTTTAGTCCCGGTT 59.622 57.895 0.00 0.00 0.00 4.44
2857 3796 0.675837 GCACCCTTTAGTCCCGGTTC 60.676 60.000 0.00 0.00 0.00 3.62
2858 3797 0.390735 CACCCTTTAGTCCCGGTTCG 60.391 60.000 0.00 0.00 0.00 3.95
2859 3798 0.833409 ACCCTTTAGTCCCGGTTCGT 60.833 55.000 0.00 0.00 0.00 3.85
2860 3799 0.390735 CCCTTTAGTCCCGGTTCGTG 60.391 60.000 0.00 0.00 0.00 4.35
2861 3800 0.319405 CCTTTAGTCCCGGTTCGTGT 59.681 55.000 0.00 0.00 0.00 4.49
2862 3801 1.670967 CCTTTAGTCCCGGTTCGTGTC 60.671 57.143 0.00 0.00 0.00 3.67
2863 3802 1.271656 CTTTAGTCCCGGTTCGTGTCT 59.728 52.381 0.00 0.00 0.00 3.41
2864 3803 0.883833 TTAGTCCCGGTTCGTGTCTC 59.116 55.000 0.00 0.00 0.00 3.36
2865 3804 0.250858 TAGTCCCGGTTCGTGTCTCA 60.251 55.000 0.00 0.00 0.00 3.27
2866 3805 1.111116 AGTCCCGGTTCGTGTCTCAA 61.111 55.000 0.00 0.00 0.00 3.02
2867 3806 0.249573 GTCCCGGTTCGTGTCTCAAA 60.250 55.000 0.00 0.00 0.00 2.69
2868 3807 0.249573 TCCCGGTTCGTGTCTCAAAC 60.250 55.000 0.00 0.00 0.00 2.93
2869 3808 1.226030 CCCGGTTCGTGTCTCAAACC 61.226 60.000 0.00 0.00 39.25 3.27
2870 3809 0.531090 CCGGTTCGTGTCTCAAACCA 60.531 55.000 0.00 0.00 42.09 3.67
2871 3810 0.859232 CGGTTCGTGTCTCAAACCAG 59.141 55.000 4.56 0.00 42.09 4.00
2872 3811 1.226746 GGTTCGTGTCTCAAACCAGG 58.773 55.000 0.00 0.00 41.69 4.45
2873 3812 1.202604 GGTTCGTGTCTCAAACCAGGA 60.203 52.381 0.00 0.00 41.69 3.86
2874 3813 1.865340 GTTCGTGTCTCAAACCAGGAC 59.135 52.381 0.00 0.00 0.00 3.85
2875 3814 1.410004 TCGTGTCTCAAACCAGGACT 58.590 50.000 0.00 0.00 0.00 3.85
2876 3815 2.589720 TCGTGTCTCAAACCAGGACTA 58.410 47.619 0.00 0.00 0.00 2.59
2877 3816 2.960384 TCGTGTCTCAAACCAGGACTAA 59.040 45.455 0.00 0.00 0.00 2.24
2878 3817 3.385433 TCGTGTCTCAAACCAGGACTAAA 59.615 43.478 0.00 0.00 0.00 1.85
2879 3818 3.741344 CGTGTCTCAAACCAGGACTAAAG 59.259 47.826 0.00 0.00 0.00 1.85
2880 3819 4.065789 GTGTCTCAAACCAGGACTAAAGG 58.934 47.826 0.00 0.00 0.00 3.11
2881 3820 3.072476 TGTCTCAAACCAGGACTAAAGGG 59.928 47.826 0.00 0.00 0.00 3.95
2882 3821 2.039879 TCTCAAACCAGGACTAAAGGGC 59.960 50.000 0.00 0.00 0.00 5.19
2883 3822 2.040412 CTCAAACCAGGACTAAAGGGCT 59.960 50.000 0.00 0.00 0.00 5.19
2884 3823 2.039879 TCAAACCAGGACTAAAGGGCTC 59.960 50.000 0.00 0.00 0.00 4.70
2885 3824 1.742308 AACCAGGACTAAAGGGCTCA 58.258 50.000 0.00 0.00 0.00 4.26
2886 3825 1.280457 ACCAGGACTAAAGGGCTCAG 58.720 55.000 0.00 0.00 0.00 3.35
2887 3826 0.543749 CCAGGACTAAAGGGCTCAGG 59.456 60.000 0.00 0.00 0.00 3.86
2888 3827 1.280457 CAGGACTAAAGGGCTCAGGT 58.720 55.000 0.00 0.00 0.00 4.00
2889 3828 1.065854 CAGGACTAAAGGGCTCAGGTG 60.066 57.143 0.00 0.00 0.00 4.00
2890 3829 1.203313 AGGACTAAAGGGCTCAGGTGA 60.203 52.381 0.00 0.00 0.00 4.02
2891 3830 1.628846 GGACTAAAGGGCTCAGGTGAA 59.371 52.381 0.00 0.00 0.00 3.18
2892 3831 2.615747 GGACTAAAGGGCTCAGGTGAAC 60.616 54.545 0.00 0.00 0.00 3.18
2893 3832 1.351350 ACTAAAGGGCTCAGGTGAACC 59.649 52.381 0.00 0.00 0.00 3.62
2894 3833 0.323629 TAAAGGGCTCAGGTGAACCG 59.676 55.000 0.00 0.00 42.08 4.44
2895 3834 2.411765 AAAGGGCTCAGGTGAACCGG 62.412 60.000 0.00 0.00 42.08 5.28
2896 3835 4.410400 GGGCTCAGGTGAACCGGG 62.410 72.222 6.32 0.00 42.08 5.73
2897 3836 3.319198 GGCTCAGGTGAACCGGGA 61.319 66.667 6.32 0.00 42.08 5.14
2898 3837 2.047179 GCTCAGGTGAACCGGGAC 60.047 66.667 6.32 0.00 42.08 4.46
2899 3838 2.584391 GCTCAGGTGAACCGGGACT 61.584 63.158 6.32 0.00 42.08 3.85
2900 3839 1.255667 GCTCAGGTGAACCGGGACTA 61.256 60.000 6.32 0.00 42.08 2.59
2901 3840 1.263356 CTCAGGTGAACCGGGACTAA 58.737 55.000 6.32 0.00 42.08 2.24
2902 3841 1.831736 CTCAGGTGAACCGGGACTAAT 59.168 52.381 6.32 0.00 42.08 1.73
2903 3842 1.553248 TCAGGTGAACCGGGACTAATG 59.447 52.381 6.32 0.00 42.08 1.90
2904 3843 0.252197 AGGTGAACCGGGACTAATGC 59.748 55.000 6.32 0.00 42.08 3.56
2905 3844 0.746923 GGTGAACCGGGACTAATGCC 60.747 60.000 6.32 0.00 0.00 4.40
2906 3845 0.252197 GTGAACCGGGACTAATGCCT 59.748 55.000 6.32 0.00 33.05 4.75
2907 3846 0.988832 TGAACCGGGACTAATGCCTT 59.011 50.000 6.32 0.00 33.05 4.35
2908 3847 2.093341 GTGAACCGGGACTAATGCCTTA 60.093 50.000 6.32 0.00 33.05 2.69
2909 3848 2.169769 TGAACCGGGACTAATGCCTTAG 59.830 50.000 6.32 7.17 40.25 2.18
2910 3849 0.468648 ACCGGGACTAATGCCTTAGC 59.531 55.000 6.32 2.56 38.33 3.09
2911 3850 0.250338 CCGGGACTAATGCCTTAGCC 60.250 60.000 8.50 10.09 38.33 3.93
2912 3851 0.600255 CGGGACTAATGCCTTAGCCG 60.600 60.000 8.50 10.12 38.33 5.52
2913 3852 0.885150 GGGACTAATGCCTTAGCCGC 60.885 60.000 8.50 2.93 38.33 6.53
2914 3853 0.179056 GGACTAATGCCTTAGCCGCA 60.179 55.000 8.50 0.00 38.33 5.69
2915 3854 1.221414 GACTAATGCCTTAGCCGCAG 58.779 55.000 8.50 0.00 40.15 5.18
2928 3867 4.323477 CGCAGGAACCGGGACCAA 62.323 66.667 18.79 0.00 0.00 3.67
2929 3868 2.355115 GCAGGAACCGGGACCAAT 59.645 61.111 18.79 0.00 0.00 3.16
2930 3869 2.046285 GCAGGAACCGGGACCAATG 61.046 63.158 18.79 11.46 0.00 2.82
2931 3870 2.046285 CAGGAACCGGGACCAATGC 61.046 63.158 18.79 0.00 0.00 3.56
2932 3871 2.231380 AGGAACCGGGACCAATGCT 61.231 57.895 18.79 0.76 0.00 3.79
2933 3872 1.749258 GGAACCGGGACCAATGCTC 60.749 63.158 6.32 0.00 0.00 4.26
2934 3873 1.002624 GAACCGGGACCAATGCTCA 60.003 57.895 6.32 0.00 0.00 4.26
2935 3874 1.303317 AACCGGGACCAATGCTCAC 60.303 57.895 6.32 0.00 0.00 3.51
2936 3875 2.063015 AACCGGGACCAATGCTCACA 62.063 55.000 6.32 0.00 0.00 3.58
2937 3876 1.077501 CCGGGACCAATGCTCACAT 60.078 57.895 0.00 0.00 38.49 3.21
2939 3878 1.408127 CCGGGACCAATGCTCACATTA 60.408 52.381 0.00 0.00 44.83 1.90
2940 3879 1.942657 CGGGACCAATGCTCACATTAG 59.057 52.381 0.00 0.00 44.83 1.73
2941 3880 2.680805 CGGGACCAATGCTCACATTAGT 60.681 50.000 0.00 0.00 44.83 2.24
2944 3883 2.945668 GACCAATGCTCACATTAGTCCC 59.054 50.000 6.20 0.00 44.37 4.46
2945 3884 1.942657 CCAATGCTCACATTAGTCCCG 59.057 52.381 0.00 0.00 44.83 5.14
2946 3885 1.942657 CAATGCTCACATTAGTCCCGG 59.057 52.381 0.00 0.00 44.83 5.73
2947 3886 1.204146 ATGCTCACATTAGTCCCGGT 58.796 50.000 0.00 0.00 30.07 5.28
2948 3887 0.981183 TGCTCACATTAGTCCCGGTT 59.019 50.000 0.00 0.00 0.00 4.44
2949 3888 1.066430 TGCTCACATTAGTCCCGGTTC 60.066 52.381 0.00 0.00 0.00 3.62
2950 3889 1.066430 GCTCACATTAGTCCCGGTTCA 60.066 52.381 0.00 0.00 0.00 3.18
2951 3890 2.420129 GCTCACATTAGTCCCGGTTCAT 60.420 50.000 0.00 0.00 0.00 2.57
2952 3891 3.198068 CTCACATTAGTCCCGGTTCATG 58.802 50.000 0.00 0.00 0.00 3.07
2953 3892 2.835156 TCACATTAGTCCCGGTTCATGA 59.165 45.455 0.00 0.00 0.00 3.07
2954 3893 2.936498 CACATTAGTCCCGGTTCATGAC 59.064 50.000 0.00 0.00 0.00 3.06
2955 3894 2.838202 ACATTAGTCCCGGTTCATGACT 59.162 45.455 13.76 13.76 41.88 3.41
2956 3895 3.198068 CATTAGTCCCGGTTCATGACTG 58.802 50.000 17.52 0.00 39.56 3.51
2957 3896 2.225382 TAGTCCCGGTTCATGACTGA 57.775 50.000 17.52 2.93 39.56 3.41
2958 3897 1.348064 AGTCCCGGTTCATGACTGAA 58.652 50.000 9.22 0.00 37.92 3.02
2965 3904 3.927555 TTCATGACTGAACCGGGAC 57.072 52.632 6.32 0.00 36.46 4.46
2966 3905 1.348064 TTCATGACTGAACCGGGACT 58.652 50.000 6.32 0.00 36.46 3.85
2967 3906 2.225382 TCATGACTGAACCGGGACTA 57.775 50.000 6.32 0.00 0.00 2.59
2968 3907 2.531771 TCATGACTGAACCGGGACTAA 58.468 47.619 6.32 0.00 0.00 2.24
2969 3908 3.104512 TCATGACTGAACCGGGACTAAT 58.895 45.455 6.32 0.00 0.00 1.73
2970 3909 3.118775 TCATGACTGAACCGGGACTAATG 60.119 47.826 6.32 0.82 0.00 1.90
2971 3910 2.253610 TGACTGAACCGGGACTAATGT 58.746 47.619 6.32 0.00 0.00 2.71
2972 3911 2.028476 TGACTGAACCGGGACTAATGTG 60.028 50.000 6.32 0.00 0.00 3.21
2973 3912 2.232941 GACTGAACCGGGACTAATGTGA 59.767 50.000 6.32 0.00 0.00 3.58
2974 3913 2.635915 ACTGAACCGGGACTAATGTGAA 59.364 45.455 6.32 0.00 0.00 3.18
2975 3914 3.263425 ACTGAACCGGGACTAATGTGAAT 59.737 43.478 6.32 0.00 0.00 2.57
2976 3915 4.468510 ACTGAACCGGGACTAATGTGAATA 59.531 41.667 6.32 0.00 0.00 1.75
2977 3916 5.130477 ACTGAACCGGGACTAATGTGAATAT 59.870 40.000 6.32 0.00 0.00 1.28
2978 3917 5.996644 TGAACCGGGACTAATGTGAATATT 58.003 37.500 6.32 0.00 0.00 1.28
2979 3918 5.820423 TGAACCGGGACTAATGTGAATATTG 59.180 40.000 6.32 0.00 0.00 1.90
2980 3919 4.134563 ACCGGGACTAATGTGAATATTGC 58.865 43.478 6.32 0.00 0.00 3.56
2981 3920 3.502211 CCGGGACTAATGTGAATATTGCC 59.498 47.826 0.00 0.00 0.00 4.52
2982 3921 3.502211 CGGGACTAATGTGAATATTGCCC 59.498 47.826 0.00 0.00 0.00 5.36
2983 3922 4.729868 GGGACTAATGTGAATATTGCCCT 58.270 43.478 0.00 0.00 30.77 5.19
2984 3923 4.520492 GGGACTAATGTGAATATTGCCCTG 59.480 45.833 0.00 0.00 30.77 4.45
2985 3924 5.133221 GGACTAATGTGAATATTGCCCTGT 58.867 41.667 0.00 0.00 0.00 4.00
2986 3925 5.009010 GGACTAATGTGAATATTGCCCTGTG 59.991 44.000 0.00 0.00 0.00 3.66
2987 3926 5.754782 ACTAATGTGAATATTGCCCTGTGA 58.245 37.500 0.00 0.00 0.00 3.58
2988 3927 4.989279 AATGTGAATATTGCCCTGTGAC 57.011 40.909 0.00 0.00 0.00 3.67
2989 3928 2.722094 TGTGAATATTGCCCTGTGACC 58.278 47.619 0.00 0.00 0.00 4.02
2990 3929 2.040947 TGTGAATATTGCCCTGTGACCA 59.959 45.455 0.00 0.00 0.00 4.02
2991 3930 3.088532 GTGAATATTGCCCTGTGACCAA 58.911 45.455 0.00 0.00 0.00 3.67
2992 3931 3.509575 GTGAATATTGCCCTGTGACCAAA 59.490 43.478 0.00 0.00 0.00 3.28
2993 3932 3.763360 TGAATATTGCCCTGTGACCAAAG 59.237 43.478 0.00 0.00 0.00 2.77
2994 3933 1.544724 TATTGCCCTGTGACCAAAGC 58.455 50.000 0.00 0.00 0.00 3.51
2995 3934 1.187567 ATTGCCCTGTGACCAAAGCC 61.188 55.000 0.00 0.00 0.00 4.35
2996 3935 2.991540 GCCCTGTGACCAAAGCCC 60.992 66.667 0.00 0.00 0.00 5.19
2997 3936 2.846532 CCCTGTGACCAAAGCCCT 59.153 61.111 0.00 0.00 0.00 5.19
2998 3937 1.604593 CCCTGTGACCAAAGCCCTG 60.605 63.158 0.00 0.00 0.00 4.45
2999 3938 1.151450 CCTGTGACCAAAGCCCTGT 59.849 57.895 0.00 0.00 0.00 4.00
3000 3939 0.468029 CCTGTGACCAAAGCCCTGTT 60.468 55.000 0.00 0.00 0.00 3.16
3001 3940 1.402787 CTGTGACCAAAGCCCTGTTT 58.597 50.000 0.00 0.00 0.00 2.83
3002 3941 1.756538 CTGTGACCAAAGCCCTGTTTT 59.243 47.619 0.00 0.00 0.00 2.43
3003 3942 1.754226 TGTGACCAAAGCCCTGTTTTC 59.246 47.619 0.00 0.00 0.00 2.29
3004 3943 2.031870 GTGACCAAAGCCCTGTTTTCT 58.968 47.619 0.00 0.00 0.00 2.52
3005 3944 3.219281 GTGACCAAAGCCCTGTTTTCTA 58.781 45.455 0.00 0.00 0.00 2.10
3006 3945 3.004419 GTGACCAAAGCCCTGTTTTCTAC 59.996 47.826 0.00 0.00 0.00 2.59
3007 3946 3.117663 TGACCAAAGCCCTGTTTTCTACT 60.118 43.478 0.00 0.00 0.00 2.57
3008 3947 4.103469 TGACCAAAGCCCTGTTTTCTACTA 59.897 41.667 0.00 0.00 0.00 1.82
3009 3948 5.056553 ACCAAAGCCCTGTTTTCTACTAA 57.943 39.130 0.00 0.00 0.00 2.24
3010 3949 5.641155 ACCAAAGCCCTGTTTTCTACTAAT 58.359 37.500 0.00 0.00 0.00 1.73
3011 3950 5.476945 ACCAAAGCCCTGTTTTCTACTAATG 59.523 40.000 0.00 0.00 0.00 1.90
3012 3951 5.402398 CAAAGCCCTGTTTTCTACTAATGC 58.598 41.667 0.00 0.00 0.00 3.56
3046 3985 1.153823 CTGAAGGACTACCGTGGCG 60.154 63.158 0.00 0.00 41.83 5.69
3095 4034 3.190874 CGTCTTTTATGCTCCCTCACTC 58.809 50.000 0.00 0.00 0.00 3.51
3113 4052 1.002888 CTCTGTGGAGCAGGTGAACAT 59.997 52.381 0.00 0.00 45.08 2.71
3188 4127 6.764877 GTTGTTCAACGAGAATCTTGACTA 57.235 37.500 4.19 0.00 38.76 2.59
3277 4216 2.691409 TTAGCCTGAGTGGTGTATGC 57.309 50.000 0.00 0.00 38.35 3.14
3411 4416 8.620416 TGTGCTGAATCTATTTATTTTACGCAT 58.380 29.630 0.00 0.00 0.00 4.73
3534 4539 4.231718 TGTCGCCTTTTCGCTTTTTATT 57.768 36.364 0.00 0.00 0.00 1.40
3609 4614 8.738199 TTCTTCTGACACGTTAACTATAGTTG 57.262 34.615 25.27 13.13 38.90 3.16
3665 4672 5.773176 CGCCCCATTAGTCCCTAAAATAATT 59.227 40.000 0.00 0.00 29.35 1.40
3680 4687 6.830114 AAAATAATTGAACCGCGACAAAAA 57.170 29.167 8.23 4.46 0.00 1.94
3863 4870 1.410224 GGAACTAAAGGCCCATCCCTG 60.410 57.143 0.00 0.00 34.80 4.45
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
48 51 6.877668 TTTTTCCACTTTTCCCCTAACTTT 57.122 33.333 0.00 0.00 0.00 2.66
591 599 7.018550 TGGATATCCTTGTATTAATGCCCTCTT 59.981 37.037 22.35 0.00 36.82 2.85
822 831 1.066002 CCAGTTTGGTTGTGCACAGAG 59.934 52.381 20.59 5.00 31.35 3.35
1155 1166 4.811555 CGTGAGGTGAATTTCTTTGTCA 57.188 40.909 0.00 0.00 0.00 3.58
1214 1225 0.960861 GTCCTTAGCCTTGCCGCTTT 60.961 55.000 0.00 0.00 40.39 3.51
1238 1249 0.682209 GCCAATGAGTGCCAGGTCAT 60.682 55.000 0.00 0.00 34.79 3.06
1287 1298 1.992557 TCTTGGACCTTACCATTGGCT 59.007 47.619 1.54 0.00 39.82 4.75
1350 1361 1.141657 TCCAGCTTGCAGAAAGTGAGT 59.858 47.619 0.00 0.00 38.25 3.41
1386 1397 2.177977 CTAGTGACGTTCGTGATGCTC 58.822 52.381 1.74 0.00 0.00 4.26
1399 1410 7.498239 ACAAAAGACCCTTTTTCTACTAGTGAC 59.502 37.037 5.39 0.00 0.00 3.67
1418 1429 4.591929 CCCTTATAAACCGGGACAAAAGA 58.408 43.478 6.32 0.00 40.55 2.52
1445 1456 3.774616 GGTTCCATAACCGGGACTC 57.225 57.895 6.32 0.00 45.61 3.36
1456 1467 2.576648 GACCCTTTACTCCTGGTTCCAT 59.423 50.000 0.00 0.00 0.00 3.41
1482 1493 3.371702 GGACTAAAAGGGGAGGCTTTAGG 60.372 52.174 6.40 0.00 37.09 2.69
1496 1507 4.942852 TCGTGTAAGAAACGGGACTAAAA 58.057 39.130 0.00 0.00 41.34 1.52
1507 1518 1.688197 AGTCCCGGTTCGTGTAAGAAA 59.312 47.619 0.00 0.00 0.00 2.52
1731 1768 9.163894 AGTTAGATGATTTAGAATGATGAGGGA 57.836 33.333 0.00 0.00 0.00 4.20
1744 1781 4.202182 CCGTCCGGGAAGTTAGATGATTTA 60.202 45.833 0.00 0.00 38.47 1.40
1777 1814 2.451490 CTCAGGCTGGAGTAGTGAGAA 58.549 52.381 15.73 0.00 37.43 2.87
2007 2045 2.752354 TGGTCAAACTGTGGTCAAAGTG 59.248 45.455 0.00 0.00 0.00 3.16
2009 2047 3.278574 TCTGGTCAAACTGTGGTCAAAG 58.721 45.455 0.00 0.00 0.00 2.77
2104 2333 5.441500 TCTGGTCAAACTATGGTCAAACAA 58.558 37.500 0.00 0.00 0.00 2.83
2105 2334 5.042463 TCTGGTCAAACTATGGTCAAACA 57.958 39.130 0.00 0.00 0.00 2.83
2285 2711 5.612725 ATGGTCAAACAATGGTCAAACTT 57.387 34.783 0.00 0.00 0.00 2.66
2428 3361 6.370442 TGTTAAATCTGGTCAAACTATGGTCG 59.630 38.462 0.00 0.00 0.00 4.79
2509 3445 6.574462 CGGCTTGTTTGCAAATTTTTAGAATG 59.426 34.615 16.21 0.00 33.73 2.67
2550 3486 3.057969 TCAGCACGAAAATCCACATCT 57.942 42.857 0.00 0.00 0.00 2.90
2555 3491 4.582701 AAATGTTCAGCACGAAAATCCA 57.417 36.364 0.00 0.00 34.69 3.41
2643 3581 6.566197 TTTGGACATGTTTTGCAAAAAGTT 57.434 29.167 25.40 10.88 0.00 2.66
2754 3693 9.838975 CCTTTTCAGTTTTGTAAAAAGCAAAAT 57.161 25.926 6.50 0.00 44.33 1.82
2791 3730 1.206132 AGTATCGGTTCATGGCACGAA 59.794 47.619 9.78 0.00 38.94 3.85
2792 3731 0.821517 AGTATCGGTTCATGGCACGA 59.178 50.000 8.51 8.51 39.85 4.35
2793 3732 2.502213 TAGTATCGGTTCATGGCACG 57.498 50.000 0.00 0.00 0.00 5.34
2794 3733 3.058914 GCATTAGTATCGGTTCATGGCAC 60.059 47.826 0.00 0.00 0.00 5.01
2795 3734 3.138304 GCATTAGTATCGGTTCATGGCA 58.862 45.455 0.00 0.00 0.00 4.92
2797 3736 3.997021 GAGGCATTAGTATCGGTTCATGG 59.003 47.826 0.00 0.00 0.00 3.66
2798 3737 4.631131 TGAGGCATTAGTATCGGTTCATG 58.369 43.478 0.00 0.00 0.00 3.07
2799 3738 4.955811 TGAGGCATTAGTATCGGTTCAT 57.044 40.909 0.00 0.00 0.00 2.57
2800 3739 4.746535 TTGAGGCATTAGTATCGGTTCA 57.253 40.909 0.00 0.00 0.00 3.18
2802 3741 4.196971 GGTTTGAGGCATTAGTATCGGTT 58.803 43.478 0.00 0.00 0.00 4.44
2803 3742 3.433173 GGGTTTGAGGCATTAGTATCGGT 60.433 47.826 0.00 0.00 0.00 4.69
2804 3743 3.139077 GGGTTTGAGGCATTAGTATCGG 58.861 50.000 0.00 0.00 0.00 4.18
2805 3744 3.139077 GGGGTTTGAGGCATTAGTATCG 58.861 50.000 0.00 0.00 0.00 2.92
2806 3745 4.164843 TGGGGTTTGAGGCATTAGTATC 57.835 45.455 0.00 0.00 0.00 2.24
2808 3747 5.457487 CCATATGGGGTTTGAGGCATTAGTA 60.457 44.000 14.52 0.00 0.00 1.82
2810 3749 3.828451 CCATATGGGGTTTGAGGCATTAG 59.172 47.826 14.52 0.00 0.00 1.73
2811 3750 3.843422 CCATATGGGGTTTGAGGCATTA 58.157 45.455 14.52 0.00 0.00 1.90
2812 3751 2.681422 CCATATGGGGTTTGAGGCATT 58.319 47.619 14.52 0.00 0.00 3.56
2813 3752 2.386829 CCATATGGGGTTTGAGGCAT 57.613 50.000 14.52 0.00 0.00 4.40
2814 3753 3.922426 CCATATGGGGTTTGAGGCA 57.078 52.632 14.52 0.00 0.00 4.75
2825 3764 1.973281 GGGTGCGATGCCCATATGG 60.973 63.158 15.41 15.41 45.40 2.74
2826 3765 3.672293 GGGTGCGATGCCCATATG 58.328 61.111 0.00 0.00 45.40 1.78
2831 3770 1.077716 ACTAAAGGGTGCGATGCCC 60.078 57.895 1.67 1.67 46.43 5.36
2832 3771 1.095807 GGACTAAAGGGTGCGATGCC 61.096 60.000 0.00 0.00 0.00 4.40
2833 3772 1.095807 GGGACTAAAGGGTGCGATGC 61.096 60.000 0.00 0.00 0.00 3.91
2834 3773 0.810031 CGGGACTAAAGGGTGCGATG 60.810 60.000 0.00 0.00 0.00 3.84
2835 3774 1.520666 CGGGACTAAAGGGTGCGAT 59.479 57.895 0.00 0.00 0.00 4.58
2836 3775 2.652095 CCGGGACTAAAGGGTGCGA 61.652 63.158 0.00 0.00 0.00 5.10
2837 3776 2.125269 CCGGGACTAAAGGGTGCG 60.125 66.667 0.00 0.00 0.00 5.34
2838 3777 0.675837 GAACCGGGACTAAAGGGTGC 60.676 60.000 6.32 0.00 31.96 5.01
2839 3778 0.390735 CGAACCGGGACTAAAGGGTG 60.391 60.000 6.32 0.00 31.96 4.61
2840 3779 0.833409 ACGAACCGGGACTAAAGGGT 60.833 55.000 6.32 0.00 0.00 4.34
2841 3780 0.390735 CACGAACCGGGACTAAAGGG 60.391 60.000 6.32 0.00 28.17 3.95
2842 3781 0.319405 ACACGAACCGGGACTAAAGG 59.681 55.000 6.32 0.00 32.98 3.11
2843 3782 1.271656 AGACACGAACCGGGACTAAAG 59.728 52.381 6.32 0.00 33.23 1.85
2844 3783 1.270550 GAGACACGAACCGGGACTAAA 59.729 52.381 6.32 0.00 35.29 1.85
2845 3784 0.883833 GAGACACGAACCGGGACTAA 59.116 55.000 6.32 0.00 35.29 2.24
2846 3785 0.250858 TGAGACACGAACCGGGACTA 60.251 55.000 6.32 0.00 35.29 2.59
2847 3786 1.111116 TTGAGACACGAACCGGGACT 61.111 55.000 6.32 0.00 38.03 3.85
2848 3787 0.249573 TTTGAGACACGAACCGGGAC 60.250 55.000 6.32 0.00 32.98 4.46
2849 3788 0.249573 GTTTGAGACACGAACCGGGA 60.250 55.000 6.32 0.00 37.02 5.14
2850 3789 2.231820 GTTTGAGACACGAACCGGG 58.768 57.895 6.32 0.00 37.02 5.73
2854 3793 1.865340 GTCCTGGTTTGAGACACGAAC 59.135 52.381 0.00 0.00 40.95 3.95
2855 3794 1.760613 AGTCCTGGTTTGAGACACGAA 59.239 47.619 0.00 0.00 32.82 3.85
2856 3795 1.410004 AGTCCTGGTTTGAGACACGA 58.590 50.000 0.00 0.00 32.82 4.35
2857 3796 3.380479 TTAGTCCTGGTTTGAGACACG 57.620 47.619 0.00 0.00 32.82 4.49
2858 3797 4.065789 CCTTTAGTCCTGGTTTGAGACAC 58.934 47.826 0.00 0.00 32.82 3.67
2859 3798 3.072476 CCCTTTAGTCCTGGTTTGAGACA 59.928 47.826 0.00 0.00 32.82 3.41
2860 3799 3.676093 CCCTTTAGTCCTGGTTTGAGAC 58.324 50.000 0.00 0.00 0.00 3.36
2861 3800 2.039879 GCCCTTTAGTCCTGGTTTGAGA 59.960 50.000 0.00 0.00 0.00 3.27
2862 3801 2.040412 AGCCCTTTAGTCCTGGTTTGAG 59.960 50.000 0.00 0.00 0.00 3.02
2863 3802 2.039879 GAGCCCTTTAGTCCTGGTTTGA 59.960 50.000 0.00 0.00 0.00 2.69
2864 3803 2.224769 TGAGCCCTTTAGTCCTGGTTTG 60.225 50.000 0.00 0.00 0.00 2.93
2865 3804 2.040412 CTGAGCCCTTTAGTCCTGGTTT 59.960 50.000 0.00 0.00 0.00 3.27
2866 3805 1.630878 CTGAGCCCTTTAGTCCTGGTT 59.369 52.381 0.00 0.00 0.00 3.67
2867 3806 1.280457 CTGAGCCCTTTAGTCCTGGT 58.720 55.000 0.00 0.00 0.00 4.00
2868 3807 0.543749 CCTGAGCCCTTTAGTCCTGG 59.456 60.000 0.00 0.00 0.00 4.45
2869 3808 1.065854 CACCTGAGCCCTTTAGTCCTG 60.066 57.143 0.00 0.00 0.00 3.86
2870 3809 1.203313 TCACCTGAGCCCTTTAGTCCT 60.203 52.381 0.00 0.00 0.00 3.85
2871 3810 1.276622 TCACCTGAGCCCTTTAGTCC 58.723 55.000 0.00 0.00 0.00 3.85
2872 3811 2.615747 GGTTCACCTGAGCCCTTTAGTC 60.616 54.545 0.00 0.00 39.22 2.59
2873 3812 1.351350 GGTTCACCTGAGCCCTTTAGT 59.649 52.381 0.00 0.00 39.22 2.24
2874 3813 1.676014 CGGTTCACCTGAGCCCTTTAG 60.676 57.143 2.85 0.00 41.71 1.85
2875 3814 0.323629 CGGTTCACCTGAGCCCTTTA 59.676 55.000 2.85 0.00 41.71 1.85
2876 3815 1.073199 CGGTTCACCTGAGCCCTTT 59.927 57.895 2.85 0.00 41.71 3.11
2877 3816 2.750350 CGGTTCACCTGAGCCCTT 59.250 61.111 2.85 0.00 41.71 3.95
2878 3817 3.322466 CCGGTTCACCTGAGCCCT 61.322 66.667 0.00 0.00 41.71 5.19
2879 3818 4.410400 CCCGGTTCACCTGAGCCC 62.410 72.222 0.00 0.00 41.71 5.19
2880 3819 3.319198 TCCCGGTTCACCTGAGCC 61.319 66.667 0.00 0.00 41.37 4.70
2881 3820 1.255667 TAGTCCCGGTTCACCTGAGC 61.256 60.000 0.00 0.00 0.00 4.26
2882 3821 1.263356 TTAGTCCCGGTTCACCTGAG 58.737 55.000 0.00 0.00 0.00 3.35
2883 3822 1.553248 CATTAGTCCCGGTTCACCTGA 59.447 52.381 0.00 0.00 0.00 3.86
2884 3823 2.012051 GCATTAGTCCCGGTTCACCTG 61.012 57.143 0.00 0.00 0.00 4.00
2885 3824 0.252197 GCATTAGTCCCGGTTCACCT 59.748 55.000 0.00 0.00 0.00 4.00
2886 3825 0.746923 GGCATTAGTCCCGGTTCACC 60.747 60.000 0.00 0.00 0.00 4.02
2887 3826 0.252197 AGGCATTAGTCCCGGTTCAC 59.748 55.000 0.00 0.00 0.00 3.18
2888 3827 0.988832 AAGGCATTAGTCCCGGTTCA 59.011 50.000 0.00 0.00 0.00 3.18
2889 3828 2.835027 CTAAGGCATTAGTCCCGGTTC 58.165 52.381 9.96 0.00 34.77 3.62
2890 3829 1.134189 GCTAAGGCATTAGTCCCGGTT 60.134 52.381 18.55 0.00 40.55 4.44
2891 3830 0.468648 GCTAAGGCATTAGTCCCGGT 59.531 55.000 18.55 0.00 40.55 5.28
2892 3831 0.250338 GGCTAAGGCATTAGTCCCGG 60.250 60.000 18.55 0.00 40.55 5.73
2893 3832 0.600255 CGGCTAAGGCATTAGTCCCG 60.600 60.000 16.40 17.46 39.96 5.14
2894 3833 0.885150 GCGGCTAAGGCATTAGTCCC 60.885 60.000 16.40 10.33 39.96 4.46
2895 3834 0.179056 TGCGGCTAAGGCATTAGTCC 60.179 55.000 16.40 16.54 39.96 3.85
2896 3835 1.221414 CTGCGGCTAAGGCATTAGTC 58.779 55.000 18.55 15.72 40.55 2.59
2897 3836 0.179045 CCTGCGGCTAAGGCATTAGT 60.179 55.000 18.55 0.00 40.55 2.24
2898 3837 0.106708 TCCTGCGGCTAAGGCATTAG 59.893 55.000 13.70 13.70 40.09 1.73
2899 3838 0.544223 TTCCTGCGGCTAAGGCATTA 59.456 50.000 0.00 0.00 40.09 1.90
2900 3839 1.032114 GTTCCTGCGGCTAAGGCATT 61.032 55.000 0.00 0.00 40.09 3.56
2901 3840 1.452108 GTTCCTGCGGCTAAGGCAT 60.452 57.895 0.00 0.00 40.09 4.40
2902 3841 2.046314 GTTCCTGCGGCTAAGGCA 60.046 61.111 0.00 0.00 40.87 4.75
2903 3842 2.824489 GGTTCCTGCGGCTAAGGC 60.824 66.667 0.00 0.00 34.56 4.35
2904 3843 2.511600 CGGTTCCTGCGGCTAAGG 60.512 66.667 0.00 0.01 36.02 2.69
2905 3844 2.511600 CCGGTTCCTGCGGCTAAG 60.512 66.667 0.00 0.00 0.00 2.18
2906 3845 4.090588 CCCGGTTCCTGCGGCTAA 62.091 66.667 0.00 0.00 0.00 3.09
2911 3850 3.622060 ATTGGTCCCGGTTCCTGCG 62.622 63.158 0.00 0.00 0.00 5.18
2912 3851 2.046285 CATTGGTCCCGGTTCCTGC 61.046 63.158 0.00 0.00 0.00 4.85
2913 3852 2.046285 GCATTGGTCCCGGTTCCTG 61.046 63.158 0.00 0.00 0.00 3.86
2914 3853 2.198304 GAGCATTGGTCCCGGTTCCT 62.198 60.000 0.00 0.00 0.00 3.36
2915 3854 1.749258 GAGCATTGGTCCCGGTTCC 60.749 63.158 0.00 2.55 0.00 3.62
2916 3855 1.002624 TGAGCATTGGTCCCGGTTC 60.003 57.895 12.99 0.00 0.00 3.62
2917 3856 1.303317 GTGAGCATTGGTCCCGGTT 60.303 57.895 12.99 0.00 0.00 4.44
2918 3857 1.852157 ATGTGAGCATTGGTCCCGGT 61.852 55.000 12.99 0.00 29.54 5.28
2919 3858 0.680921 AATGTGAGCATTGGTCCCGG 60.681 55.000 12.99 0.00 43.12 5.73
2920 3859 1.942657 CTAATGTGAGCATTGGTCCCG 59.057 52.381 12.99 0.00 44.32 5.14
2925 3864 1.942657 CGGGACTAATGTGAGCATTGG 59.057 52.381 3.39 3.10 44.32 3.16
2926 3865 1.942657 CCGGGACTAATGTGAGCATTG 59.057 52.381 0.00 0.00 44.32 2.82
2927 3866 1.559682 ACCGGGACTAATGTGAGCATT 59.440 47.619 6.32 0.00 46.14 3.56
2928 3867 1.204146 ACCGGGACTAATGTGAGCAT 58.796 50.000 6.32 0.00 36.80 3.79
2929 3868 0.981183 AACCGGGACTAATGTGAGCA 59.019 50.000 6.32 0.00 0.00 4.26
2930 3869 1.066430 TGAACCGGGACTAATGTGAGC 60.066 52.381 6.32 0.00 0.00 4.26
2931 3870 3.118775 TCATGAACCGGGACTAATGTGAG 60.119 47.826 6.32 0.00 0.00 3.51
2932 3871 2.835156 TCATGAACCGGGACTAATGTGA 59.165 45.455 6.32 0.00 0.00 3.58
2933 3872 2.936498 GTCATGAACCGGGACTAATGTG 59.064 50.000 6.32 0.00 0.00 3.21
2934 3873 2.838202 AGTCATGAACCGGGACTAATGT 59.162 45.455 6.32 0.00 39.95 2.71
2935 3874 3.118775 TCAGTCATGAACCGGGACTAATG 60.119 47.826 6.32 2.35 39.75 1.90
2936 3875 3.104512 TCAGTCATGAACCGGGACTAAT 58.895 45.455 6.32 0.00 39.75 1.73
2937 3876 2.531771 TCAGTCATGAACCGGGACTAA 58.468 47.619 6.32 0.00 39.75 2.24
2938 3877 2.225382 TCAGTCATGAACCGGGACTA 57.775 50.000 6.32 0.00 39.75 2.59
2939 3878 1.348064 TTCAGTCATGAACCGGGACT 58.652 50.000 6.32 5.31 40.54 3.85
2940 3879 3.927555 TTCAGTCATGAACCGGGAC 57.072 52.632 6.32 2.53 40.54 4.46
2947 3886 1.348064 AGTCCCGGTTCAGTCATGAA 58.652 50.000 0.00 0.00 43.20 2.57
2948 3887 2.225382 TAGTCCCGGTTCAGTCATGA 57.775 50.000 0.00 0.00 0.00 3.07
2949 3888 3.198068 CATTAGTCCCGGTTCAGTCATG 58.802 50.000 0.00 0.00 0.00 3.07
2950 3889 2.838202 ACATTAGTCCCGGTTCAGTCAT 59.162 45.455 0.00 0.00 0.00 3.06
2951 3890 2.028476 CACATTAGTCCCGGTTCAGTCA 60.028 50.000 0.00 0.00 0.00 3.41
2952 3891 2.232941 TCACATTAGTCCCGGTTCAGTC 59.767 50.000 0.00 0.00 0.00 3.51
2953 3892 2.253610 TCACATTAGTCCCGGTTCAGT 58.746 47.619 0.00 0.00 0.00 3.41
2954 3893 3.328382 TTCACATTAGTCCCGGTTCAG 57.672 47.619 0.00 0.00 0.00 3.02
2955 3894 3.992943 ATTCACATTAGTCCCGGTTCA 57.007 42.857 0.00 0.00 0.00 3.18
2956 3895 5.277828 GCAATATTCACATTAGTCCCGGTTC 60.278 44.000 0.00 0.00 0.00 3.62
2957 3896 4.578928 GCAATATTCACATTAGTCCCGGTT 59.421 41.667 0.00 0.00 0.00 4.44
2958 3897 4.134563 GCAATATTCACATTAGTCCCGGT 58.865 43.478 0.00 0.00 0.00 5.28
2959 3898 3.502211 GGCAATATTCACATTAGTCCCGG 59.498 47.826 0.00 0.00 0.00 5.73
2960 3899 3.502211 GGGCAATATTCACATTAGTCCCG 59.498 47.826 0.00 0.00 0.00 5.14
2961 3900 4.520492 CAGGGCAATATTCACATTAGTCCC 59.480 45.833 0.00 0.00 0.00 4.46
2962 3901 5.009010 CACAGGGCAATATTCACATTAGTCC 59.991 44.000 0.00 0.00 0.00 3.85
2963 3902 5.822519 TCACAGGGCAATATTCACATTAGTC 59.177 40.000 0.00 0.00 0.00 2.59
2964 3903 5.590259 GTCACAGGGCAATATTCACATTAGT 59.410 40.000 0.00 0.00 0.00 2.24
2965 3904 5.009010 GGTCACAGGGCAATATTCACATTAG 59.991 44.000 0.00 0.00 0.00 1.73
2966 3905 4.887071 GGTCACAGGGCAATATTCACATTA 59.113 41.667 0.00 0.00 0.00 1.90
2967 3906 3.701040 GGTCACAGGGCAATATTCACATT 59.299 43.478 0.00 0.00 0.00 2.71
2968 3907 3.290710 GGTCACAGGGCAATATTCACAT 58.709 45.455 0.00 0.00 0.00 3.21
2969 3908 2.040947 TGGTCACAGGGCAATATTCACA 59.959 45.455 0.00 0.00 0.00 3.58
2970 3909 2.722094 TGGTCACAGGGCAATATTCAC 58.278 47.619 0.00 0.00 0.00 3.18
2971 3910 3.448093 TTGGTCACAGGGCAATATTCA 57.552 42.857 0.00 0.00 0.00 2.57
2972 3911 3.429410 GCTTTGGTCACAGGGCAATATTC 60.429 47.826 0.00 0.00 0.00 1.75
2973 3912 2.497273 GCTTTGGTCACAGGGCAATATT 59.503 45.455 0.00 0.00 0.00 1.28
2974 3913 2.102578 GCTTTGGTCACAGGGCAATAT 58.897 47.619 0.00 0.00 0.00 1.28
2975 3914 1.544724 GCTTTGGTCACAGGGCAATA 58.455 50.000 0.00 0.00 0.00 1.90
2976 3915 1.187567 GGCTTTGGTCACAGGGCAAT 61.188 55.000 0.00 0.00 0.00 3.56
2977 3916 1.832167 GGCTTTGGTCACAGGGCAA 60.832 57.895 0.00 0.00 0.00 4.52
2978 3917 2.203480 GGCTTTGGTCACAGGGCA 60.203 61.111 0.00 0.00 0.00 5.36
2979 3918 2.991540 GGGCTTTGGTCACAGGGC 60.992 66.667 0.00 0.00 0.00 5.19
2980 3919 1.604593 CAGGGCTTTGGTCACAGGG 60.605 63.158 0.00 0.00 0.00 4.45
2981 3920 0.468029 AACAGGGCTTTGGTCACAGG 60.468 55.000 0.00 0.00 0.00 4.00
2982 3921 1.402787 AAACAGGGCTTTGGTCACAG 58.597 50.000 0.00 0.00 0.00 3.66
2983 3922 1.754226 GAAAACAGGGCTTTGGTCACA 59.246 47.619 0.00 0.00 0.00 3.58
2984 3923 2.031870 AGAAAACAGGGCTTTGGTCAC 58.968 47.619 0.00 0.00 0.00 3.67
2985 3924 2.452600 AGAAAACAGGGCTTTGGTCA 57.547 45.000 0.00 0.00 0.00 4.02
2986 3925 3.487372 AGTAGAAAACAGGGCTTTGGTC 58.513 45.455 0.00 0.00 0.00 4.02
2987 3926 3.595190 AGTAGAAAACAGGGCTTTGGT 57.405 42.857 0.00 0.00 0.00 3.67
2988 3927 5.622233 GCATTAGTAGAAAACAGGGCTTTGG 60.622 44.000 0.00 0.00 0.00 3.28
2989 3928 5.402398 GCATTAGTAGAAAACAGGGCTTTG 58.598 41.667 0.00 0.00 0.00 2.77
2990 3929 4.156008 CGCATTAGTAGAAAACAGGGCTTT 59.844 41.667 0.00 0.00 0.00 3.51
2991 3930 3.689649 CGCATTAGTAGAAAACAGGGCTT 59.310 43.478 0.00 0.00 0.00 4.35
2992 3931 3.270877 CGCATTAGTAGAAAACAGGGCT 58.729 45.455 0.00 0.00 0.00 5.19
2993 3932 3.007635 ACGCATTAGTAGAAAACAGGGC 58.992 45.455 0.00 0.00 0.00 5.19
2994 3933 4.330074 CAGACGCATTAGTAGAAAACAGGG 59.670 45.833 0.00 0.00 0.00 4.45
2995 3934 4.201724 GCAGACGCATTAGTAGAAAACAGG 60.202 45.833 0.00 0.00 38.36 4.00
2996 3935 4.388773 TGCAGACGCATTAGTAGAAAACAG 59.611 41.667 0.00 0.00 45.36 3.16
2997 3936 4.311606 TGCAGACGCATTAGTAGAAAACA 58.688 39.130 0.00 0.00 45.36 2.83
2998 3937 4.921470 TGCAGACGCATTAGTAGAAAAC 57.079 40.909 0.00 0.00 45.36 2.43
3046 3985 2.594962 CGTTGTCACCACCGTCAGC 61.595 63.158 0.00 0.00 0.00 4.26
3075 4014 4.187694 CAGAGTGAGGGAGCATAAAAGAC 58.812 47.826 0.00 0.00 0.00 3.01
3095 4034 1.446907 GATGTTCACCTGCTCCACAG 58.553 55.000 0.00 0.00 46.77 3.66
3113 4052 2.571757 CGCAGTAACCGCTGAGGA 59.428 61.111 3.87 0.00 45.00 3.71
3188 4127 1.307343 AGGTGGGCCAGCATACTCT 60.307 57.895 34.81 12.72 37.19 3.24
3411 4416 7.195646 GCTATGAGCATGCAACTAAAATTACA 58.804 34.615 21.98 2.85 41.89 2.41
3475 4480 1.561076 TGGCCATAGAGATGCAGTTGT 59.439 47.619 0.00 0.00 0.00 3.32
3609 4614 4.621886 CCTCTTTTTCTACTAGTGACGTGC 59.378 45.833 5.39 0.00 0.00 5.34
3665 4672 0.748729 ACCCTTTTTGTCGCGGTTCA 60.749 50.000 6.13 0.23 0.00 3.18
3680 4687 0.245813 GAACCGCGACTAAAGACCCT 59.754 55.000 8.23 0.00 0.00 4.34
3863 4870 6.263392 TGTGAAGTGAGCTGAGTCCTATATAC 59.737 42.308 0.00 0.00 0.00 1.47


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

AutoCloner maintained by Alex Coulton.