Multiple sequence alignment - TraesCS2B01G115200

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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 TraesCS2B01G115200 chr2B 100.000 2998 0 0 1 2998 78415160 78412163 0.000000e+00 5537.0
1 TraesCS2B01G115200 chr2B 80.553 1229 118 56 844 1995 78812295 78811111 0.000000e+00 833.0
2 TraesCS2B01G115200 chr2B 81.091 1137 97 54 907 1995 579797096 579796030 0.000000e+00 800.0
3 TraesCS2B01G115200 chr2B 79.490 863 98 42 946 1771 78104201 78103381 9.450000e-150 540.0
4 TraesCS2B01G115200 chr2B 83.582 603 36 23 252 819 579919086 579918512 9.590000e-140 507.0
5 TraesCS2B01G115200 chr2B 84.455 431 56 9 844 1264 579916093 579915664 5.980000e-112 414.0
6 TraesCS2B01G115200 chr2B 93.714 175 10 1 399 573 78812885 78812712 8.240000e-66 261.0
7 TraesCS2B01G115200 chr2B 85.246 244 14 8 398 627 579799800 579799565 6.460000e-57 231.0
8 TraesCS2B01G115200 chr2B 86.058 208 14 3 56 248 776646036 776646243 3.030000e-50 209.0
9 TraesCS2B01G115200 chr2B 98.667 75 1 0 252 326 78813140 78813066 1.870000e-27 134.0
10 TraesCS2B01G115200 chr2B 97.059 34 1 0 680 713 78812600 78812567 1.160000e-04 58.4
11 TraesCS2B01G115200 chr2B 97.059 34 1 0 1074 1107 682910926 682910893 1.160000e-04 58.4
12 TraesCS2B01G115200 chr6B 89.116 1029 90 12 1991 2998 677652091 677653118 0.000000e+00 1260.0
13 TraesCS2B01G115200 chr6B 87.904 711 65 7 1991 2680 677793999 677794709 0.000000e+00 817.0
14 TraesCS2B01G115200 chr6B 86.920 711 72 11 1991 2680 677936920 677937630 0.000000e+00 778.0
15 TraesCS2B01G115200 chr6B 86.920 711 72 11 1991 2680 677981208 677981918 0.000000e+00 778.0
16 TraesCS2B01G115200 chr6B 94.774 287 15 0 2712 2998 677981921 677982207 5.900000e-122 448.0
17 TraesCS2B01G115200 chr6B 94.077 287 17 0 2712 2998 677937633 677937919 1.280000e-118 436.0
18 TraesCS2B01G115200 chr6B 93.728 287 18 0 2712 2998 677794712 677794998 5.940000e-117 431.0
19 TraesCS2B01G115200 chr2D 88.955 1014 100 10 1991 2998 528542430 528541423 0.000000e+00 1242.0
20 TraesCS2B01G115200 chr2D 79.570 837 80 41 977 1771 39199798 39200585 5.730000e-142 514.0
21 TraesCS2B01G115200 chr2D 78.149 778 78 45 1046 1771 50343290 50342553 7.730000e-111 411.0
22 TraesCS2B01G115200 chr2D 80.762 551 53 25 1478 1995 50405197 50404667 6.060000e-102 381.0
23 TraesCS2B01G115200 chr2D 92.350 183 10 2 399 581 50405734 50405556 1.070000e-64 257.0
24 TraesCS2B01G115200 chr2D 86.977 215 12 4 56 254 593407565 593407351 8.360000e-56 228.0
25 TraesCS2B01G115200 chr2D 96.262 107 4 0 57 163 141865810 141865916 3.070000e-40 176.0
26 TraesCS2B01G115200 chr4D 83.497 915 114 15 2020 2910 385725794 385724893 0.000000e+00 819.0
27 TraesCS2B01G115200 chr5D 82.729 828 130 11 2177 2998 277299194 277298374 0.000000e+00 725.0
28 TraesCS2B01G115200 chr5D 87.324 213 13 3 53 251 69966637 69966425 6.460000e-57 231.0
29 TraesCS2B01G115200 chr5D 86.486 222 14 4 45 251 563212495 563212715 2.320000e-56 230.0
30 TraesCS2B01G115200 chr5D 86.667 210 17 4 56 254 480753255 480753046 3.890000e-54 222.0
31 TraesCS2B01G115200 chr5D 89.189 111 9 2 1997 2104 277299411 277299301 5.210000e-28 135.0
32 TraesCS2B01G115200 chr5D 86.667 120 12 4 1991 2107 223871024 223871142 2.430000e-26 130.0
33 TraesCS2B01G115200 chr5D 86.792 53 4 2 1072 1124 121341778 121341729 4.170000e-04 56.5
34 TraesCS2B01G115200 chr6D 82.981 805 122 10 2199 2998 49268111 49268905 0.000000e+00 713.0
35 TraesCS2B01G115200 chr6D 88.095 210 11 3 56 251 451070413 451070622 1.390000e-58 237.0
36 TraesCS2B01G115200 chr6D 86.667 210 12 4 57 251 301274399 301274191 5.030000e-53 219.0
37 TraesCS2B01G115200 chr6D 86.528 193 10 6 56 232 45616010 45616202 6.560000e-47 198.0
38 TraesCS2B01G115200 chr6D 87.603 121 10 5 1991 2107 467834225 467834344 5.210000e-28 135.0
39 TraesCS2B01G115200 chr6D 86.777 121 11 5 1988 2104 49231479 49231598 2.430000e-26 130.0
40 TraesCS2B01G115200 chr3B 81.665 829 144 7 2174 2998 9909162 9909986 0.000000e+00 682.0
41 TraesCS2B01G115200 chr3B 79.903 826 151 15 2180 2998 733082856 733083673 2.570000e-165 592.0
42 TraesCS2B01G115200 chr3B 86.726 113 10 5 1997 2105 54865039 54864928 1.460000e-23 121.0
43 TraesCS2B01G115200 chr2A 86.297 613 45 20 1155 1764 52072809 52072233 5.450000e-177 630.0
44 TraesCS2B01G115200 chr2A 80.070 853 91 47 972 1771 52009527 52008701 7.260000e-156 560.0
45 TraesCS2B01G115200 chr2A 87.079 178 17 4 402 578 52080856 52080684 2.360000e-46 196.0
46 TraesCS2B01G115200 chr2A 85.535 159 17 3 579 731 52073102 52072944 8.600000e-36 161.0
47 TraesCS2B01G115200 chr2A 81.633 196 11 14 394 581 52077399 52077221 4.030000e-29 139.0
48 TraesCS2B01G115200 chr2A 95.000 40 2 0 1074 1113 712306485 712306446 2.490000e-06 63.9
49 TraesCS2B01G115200 chrUn 88.038 209 11 3 57 251 98338543 98338751 5.000000e-58 235.0
50 TraesCS2B01G115200 chr1D 87.264 212 12 5 55 251 120994690 120994479 8.360000e-56 228.0
51 TraesCS2B01G115200 chr1D 89.167 120 9 4 1991 2107 486058828 486058710 2.410000e-31 147.0
52 TraesCS2B01G115200 chr1D 88.333 120 10 4 1991 2107 256285089 256284971 1.120000e-29 141.0
53 TraesCS2B01G115200 chr1D 100.000 30 0 0 1304 1333 84866627 84866656 4.170000e-04 56.5
54 TraesCS2B01G115200 chr4B 86.574 216 15 3 49 251 69301981 69301767 3.010000e-55 226.0
55 TraesCS2B01G115200 chr5B 87.019 208 14 1 57 251 212193912 212194119 3.890000e-54 222.0
56 TraesCS2B01G115200 chr5B 84.135 208 18 3 59 251 478539032 478538825 1.420000e-43 187.0
57 TraesCS2B01G115200 chr7D 87.368 190 8 6 77 251 210122207 210122395 1.410000e-48 204.0
58 TraesCS2B01G115200 chr7D 86.000 200 14 4 65 251 592903027 592902829 5.070000e-48 202.0
59 TraesCS2B01G115200 chr4A 84.286 210 18 4 57 251 593470054 593469845 1.100000e-44 191.0
60 TraesCS2B01G115200 chr1A 89.744 117 9 2 1991 2104 168567461 168567345 2.410000e-31 147.0
61 TraesCS2B01G115200 chr1A 86.667 120 12 3 1991 2107 554078042 554077924 2.430000e-26 130.0
62 TraesCS2B01G115200 chr3A 86.364 66 6 1 1038 1103 9324926 9324988 5.360000e-08 69.4
63 TraesCS2B01G115200 chr7B 87.273 55 4 1 1079 1133 117221858 117221807 3.230000e-05 60.2
64 TraesCS2B01G115200 chr7B 94.737 38 2 0 1072 1109 394775538 394775575 3.230000e-05 60.2


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 TraesCS2B01G115200 chr2B 78412163 78415160 2997 True 5537.0 5537 100.00000 1 2998 1 chr2B.!!$R2 2997
1 TraesCS2B01G115200 chr2B 78103381 78104201 820 True 540.0 540 79.49000 946 1771 1 chr2B.!!$R1 825
2 TraesCS2B01G115200 chr2B 579796030 579799800 3770 True 515.5 800 83.16850 398 1995 2 chr2B.!!$R5 1597
3 TraesCS2B01G115200 chr2B 579915664 579919086 3422 True 460.5 507 84.01850 252 1264 2 chr2B.!!$R6 1012
4 TraesCS2B01G115200 chr2B 78811111 78813140 2029 True 321.6 833 92.49825 252 1995 4 chr2B.!!$R4 1743
5 TraesCS2B01G115200 chr6B 677652091 677653118 1027 False 1260.0 1260 89.11600 1991 2998 1 chr6B.!!$F1 1007
6 TraesCS2B01G115200 chr6B 677793999 677794998 999 False 624.0 817 90.81600 1991 2998 2 chr6B.!!$F2 1007
7 TraesCS2B01G115200 chr6B 677981208 677982207 999 False 613.0 778 90.84700 1991 2998 2 chr6B.!!$F4 1007
8 TraesCS2B01G115200 chr6B 677936920 677937919 999 False 607.0 778 90.49850 1991 2998 2 chr6B.!!$F3 1007
9 TraesCS2B01G115200 chr2D 528541423 528542430 1007 True 1242.0 1242 88.95500 1991 2998 1 chr2D.!!$R2 1007
10 TraesCS2B01G115200 chr2D 39199798 39200585 787 False 514.0 514 79.57000 977 1771 1 chr2D.!!$F1 794
11 TraesCS2B01G115200 chr2D 50342553 50343290 737 True 411.0 411 78.14900 1046 1771 1 chr2D.!!$R1 725
12 TraesCS2B01G115200 chr2D 50404667 50405734 1067 True 319.0 381 86.55600 399 1995 2 chr2D.!!$R4 1596
13 TraesCS2B01G115200 chr4D 385724893 385725794 901 True 819.0 819 83.49700 2020 2910 1 chr4D.!!$R1 890
14 TraesCS2B01G115200 chr5D 277298374 277299411 1037 True 430.0 725 85.95900 1997 2998 2 chr5D.!!$R4 1001
15 TraesCS2B01G115200 chr6D 49268111 49268905 794 False 713.0 713 82.98100 2199 2998 1 chr6D.!!$F3 799
16 TraesCS2B01G115200 chr3B 9909162 9909986 824 False 682.0 682 81.66500 2174 2998 1 chr3B.!!$F1 824
17 TraesCS2B01G115200 chr3B 733082856 733083673 817 False 592.0 592 79.90300 2180 2998 1 chr3B.!!$F2 818
18 TraesCS2B01G115200 chr2A 52008701 52009527 826 True 560.0 560 80.07000 972 1771 1 chr2A.!!$R1 799
19 TraesCS2B01G115200 chr2A 52072233 52073102 869 True 395.5 630 85.91600 579 1764 2 chr2A.!!$R3 1185

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
242 243 0.034767 CATGGGAAGAGAGCAGGCAA 60.035 55.0 0.0 0.0 0.00 4.52 F
248 249 0.246086 AAGAGAGCAGGCAAGTCTCG 59.754 55.0 0.0 0.0 41.43 4.04 F
1795 6821 0.169672 CAAGCTCCACTCCATTTGCG 59.830 55.0 0.0 0.0 0.00 4.85 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1777 6802 0.036732 TCGCAAATGGAGTGGAGCTT 59.963 50.0 0.00 0.0 0.00 3.74 R
1927 6990 0.246910 TTCGTGGCGGTATGCTTACA 59.753 50.0 11.47 0.0 45.43 2.41 R
2846 7952 5.940470 ACTTTTAGAAGATGTGTGGATGGTC 59.060 40.0 0.00 0.0 36.69 4.02 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
20 21 2.746277 GCCATTCCCGCGAGTTGT 60.746 61.111 8.23 0.00 0.00 3.32
21 22 2.332654 GCCATTCCCGCGAGTTGTT 61.333 57.895 8.23 0.00 0.00 2.83
22 23 1.501741 CCATTCCCGCGAGTTGTTG 59.498 57.895 8.23 0.00 0.00 3.33
23 24 0.953471 CCATTCCCGCGAGTTGTTGA 60.953 55.000 8.23 0.00 0.00 3.18
24 25 1.086696 CATTCCCGCGAGTTGTTGAT 58.913 50.000 8.23 0.00 0.00 2.57
25 26 1.062587 CATTCCCGCGAGTTGTTGATC 59.937 52.381 8.23 0.00 0.00 2.92
26 27 0.672401 TTCCCGCGAGTTGTTGATCC 60.672 55.000 8.23 0.00 0.00 3.36
27 28 2.452813 CCCGCGAGTTGTTGATCCG 61.453 63.158 8.23 0.00 0.00 4.18
28 29 1.445410 CCGCGAGTTGTTGATCCGA 60.445 57.895 8.23 0.00 0.00 4.55
29 30 0.806102 CCGCGAGTTGTTGATCCGAT 60.806 55.000 8.23 0.00 0.00 4.18
30 31 0.999406 CGCGAGTTGTTGATCCGATT 59.001 50.000 0.00 0.00 0.00 3.34
31 32 2.190161 CGCGAGTTGTTGATCCGATTA 58.810 47.619 0.00 0.00 0.00 1.75
32 33 2.601314 CGCGAGTTGTTGATCCGATTAA 59.399 45.455 0.00 0.00 0.00 1.40
33 34 3.061563 CGCGAGTTGTTGATCCGATTAAA 59.938 43.478 0.00 0.00 0.00 1.52
34 35 4.331962 GCGAGTTGTTGATCCGATTAAAC 58.668 43.478 0.00 2.42 0.00 2.01
35 36 4.726876 GCGAGTTGTTGATCCGATTAAACC 60.727 45.833 0.00 0.00 0.00 3.27
36 37 4.491924 CGAGTTGTTGATCCGATTAAACCG 60.492 45.833 0.00 0.00 0.00 4.44
38 39 2.634600 TGTTGATCCGATTAAACCGGG 58.365 47.619 6.32 0.00 46.47 5.73
39 40 1.944709 GTTGATCCGATTAAACCGGGG 59.055 52.381 6.32 0.00 46.47 5.73
40 41 0.470766 TGATCCGATTAAACCGGGGG 59.529 55.000 6.32 0.00 46.47 5.40
41 42 0.887836 GATCCGATTAAACCGGGGGC 60.888 60.000 6.32 5.97 46.47 5.80
42 43 2.669777 ATCCGATTAAACCGGGGGCG 62.670 60.000 6.32 0.01 46.47 6.13
43 44 2.125024 CGATTAAACCGGGGGCGT 60.125 61.111 6.32 0.00 0.00 5.68
44 45 2.466140 CGATTAAACCGGGGGCGTG 61.466 63.158 6.32 0.00 0.00 5.34
45 46 1.377594 GATTAAACCGGGGGCGTGT 60.378 57.895 6.32 0.00 0.00 4.49
46 47 1.650314 GATTAAACCGGGGGCGTGTG 61.650 60.000 6.32 0.00 0.00 3.82
47 48 2.127027 ATTAAACCGGGGGCGTGTGA 62.127 55.000 6.32 0.00 0.00 3.58
48 49 2.335092 TTAAACCGGGGGCGTGTGAA 62.335 55.000 6.32 0.00 0.00 3.18
49 50 2.127027 TAAACCGGGGGCGTGTGAAT 62.127 55.000 6.32 0.00 0.00 2.57
50 51 4.715523 ACCGGGGGCGTGTGAATG 62.716 66.667 6.32 0.00 0.00 2.67
51 52 4.402528 CCGGGGGCGTGTGAATGA 62.403 66.667 0.00 0.00 0.00 2.57
52 53 2.359354 CGGGGGCGTGTGAATGAA 60.359 61.111 0.00 0.00 0.00 2.57
53 54 1.969064 CGGGGGCGTGTGAATGAAA 60.969 57.895 0.00 0.00 0.00 2.69
54 55 1.312371 CGGGGGCGTGTGAATGAAAT 61.312 55.000 0.00 0.00 0.00 2.17
55 56 0.173255 GGGGGCGTGTGAATGAAATG 59.827 55.000 0.00 0.00 0.00 2.32
56 57 0.173255 GGGGCGTGTGAATGAAATGG 59.827 55.000 0.00 0.00 0.00 3.16
57 58 0.173255 GGGCGTGTGAATGAAATGGG 59.827 55.000 0.00 0.00 0.00 4.00
58 59 1.173043 GGCGTGTGAATGAAATGGGA 58.827 50.000 0.00 0.00 0.00 4.37
59 60 1.750778 GGCGTGTGAATGAAATGGGAT 59.249 47.619 0.00 0.00 0.00 3.85
60 61 2.223572 GGCGTGTGAATGAAATGGGATC 60.224 50.000 0.00 0.00 0.00 3.36
61 62 2.223572 GCGTGTGAATGAAATGGGATCC 60.224 50.000 1.92 1.92 0.00 3.36
62 63 2.032054 CGTGTGAATGAAATGGGATCCG 59.968 50.000 5.45 0.00 0.00 4.18
63 64 2.358898 GTGTGAATGAAATGGGATCCGG 59.641 50.000 5.45 0.00 0.00 5.14
64 65 1.338020 GTGAATGAAATGGGATCCGGC 59.662 52.381 5.45 0.00 0.00 6.13
65 66 1.215173 TGAATGAAATGGGATCCGGCT 59.785 47.619 5.45 0.00 0.00 5.52
66 67 2.310538 GAATGAAATGGGATCCGGCTT 58.689 47.619 5.45 0.00 0.00 4.35
67 68 1.696063 ATGAAATGGGATCCGGCTTG 58.304 50.000 5.45 0.00 0.00 4.01
68 69 1.037030 TGAAATGGGATCCGGCTTGC 61.037 55.000 5.45 0.00 0.00 4.01
69 70 1.738346 GAAATGGGATCCGGCTTGCC 61.738 60.000 5.45 1.50 0.00 4.52
70 71 2.228841 AAATGGGATCCGGCTTGCCT 62.229 55.000 14.28 0.00 0.00 4.75
71 72 2.916527 AATGGGATCCGGCTTGCCTG 62.917 60.000 14.28 3.29 0.00 4.85
73 74 4.496336 GGATCCGGCTTGCCTGCT 62.496 66.667 10.12 0.00 0.00 4.24
74 75 2.899339 GATCCGGCTTGCCTGCTC 60.899 66.667 10.12 0.76 0.00 4.26
75 76 4.496336 ATCCGGCTTGCCTGCTCC 62.496 66.667 10.12 0.00 0.00 4.70
78 79 4.729918 CGGCTTGCCTGCTCCCTT 62.730 66.667 10.12 0.00 0.00 3.95
79 80 2.283460 GGCTTGCCTGCTCCCTTT 60.283 61.111 4.11 0.00 0.00 3.11
80 81 2.346541 GGCTTGCCTGCTCCCTTTC 61.347 63.158 4.11 0.00 0.00 2.62
81 82 2.346541 GCTTGCCTGCTCCCTTTCC 61.347 63.158 0.00 0.00 0.00 3.13
82 83 1.075482 CTTGCCTGCTCCCTTTCCA 59.925 57.895 0.00 0.00 0.00 3.53
83 84 0.324091 CTTGCCTGCTCCCTTTCCAT 60.324 55.000 0.00 0.00 0.00 3.41
84 85 0.612732 TTGCCTGCTCCCTTTCCATG 60.613 55.000 0.00 0.00 0.00 3.66
85 86 2.421399 GCCTGCTCCCTTTCCATGC 61.421 63.158 0.00 0.00 0.00 4.06
86 87 1.305623 CCTGCTCCCTTTCCATGCT 59.694 57.895 0.00 0.00 0.00 3.79
87 88 0.750911 CCTGCTCCCTTTCCATGCTC 60.751 60.000 0.00 0.00 0.00 4.26
88 89 0.750911 CTGCTCCCTTTCCATGCTCC 60.751 60.000 0.00 0.00 0.00 4.70
89 90 1.454663 GCTCCCTTTCCATGCTCCC 60.455 63.158 0.00 0.00 0.00 4.30
90 91 2.001803 CTCCCTTTCCATGCTCCCA 58.998 57.895 0.00 0.00 0.00 4.37
91 92 0.554792 CTCCCTTTCCATGCTCCCAT 59.445 55.000 0.00 0.00 0.00 4.00
92 93 0.552848 TCCCTTTCCATGCTCCCATC 59.447 55.000 0.00 0.00 0.00 3.51
93 94 0.468771 CCCTTTCCATGCTCCCATCC 60.469 60.000 0.00 0.00 0.00 3.51
94 95 0.820891 CCTTTCCATGCTCCCATCCG 60.821 60.000 0.00 0.00 0.00 4.18
95 96 0.107017 CTTTCCATGCTCCCATCCGT 60.107 55.000 0.00 0.00 0.00 4.69
96 97 0.394216 TTTCCATGCTCCCATCCGTG 60.394 55.000 0.00 0.00 0.00 4.94
97 98 2.891941 TTCCATGCTCCCATCCGTGC 62.892 60.000 0.00 0.00 0.00 5.34
98 99 2.191375 CATGCTCCCATCCGTGCT 59.809 61.111 0.00 0.00 0.00 4.40
99 100 1.890979 CATGCTCCCATCCGTGCTC 60.891 63.158 0.00 0.00 0.00 4.26
100 101 3.112205 ATGCTCCCATCCGTGCTCC 62.112 63.158 0.00 0.00 0.00 4.70
101 102 4.554036 GCTCCCATCCGTGCTCCC 62.554 72.222 0.00 0.00 0.00 4.30
102 103 3.083349 CTCCCATCCGTGCTCCCA 61.083 66.667 0.00 0.00 0.00 4.37
103 104 3.391665 CTCCCATCCGTGCTCCCAC 62.392 68.421 0.00 0.00 38.62 4.61
104 105 3.402681 CCCATCCGTGCTCCCACT 61.403 66.667 0.00 0.00 39.86 4.00
105 106 2.671070 CCATCCGTGCTCCCACTT 59.329 61.111 0.00 0.00 39.86 3.16
106 107 1.450312 CCATCCGTGCTCCCACTTC 60.450 63.158 0.00 0.00 39.86 3.01
107 108 1.296392 CATCCGTGCTCCCACTTCA 59.704 57.895 0.00 0.00 39.86 3.02
108 109 0.107508 CATCCGTGCTCCCACTTCAT 60.108 55.000 0.00 0.00 39.86 2.57
109 110 0.179000 ATCCGTGCTCCCACTTCATC 59.821 55.000 0.00 0.00 39.86 2.92
110 111 1.450312 CCGTGCTCCCACTTCATCC 60.450 63.158 0.00 0.00 39.86 3.51
111 112 1.599047 CGTGCTCCCACTTCATCCT 59.401 57.895 0.00 0.00 39.86 3.24
112 113 0.824109 CGTGCTCCCACTTCATCCTA 59.176 55.000 0.00 0.00 39.86 2.94
113 114 1.471676 CGTGCTCCCACTTCATCCTAC 60.472 57.143 0.00 0.00 39.86 3.18
114 115 1.134371 GTGCTCCCACTTCATCCTACC 60.134 57.143 0.00 0.00 38.93 3.18
115 116 0.105039 GCTCCCACTTCATCCTACCG 59.895 60.000 0.00 0.00 0.00 4.02
116 117 0.105039 CTCCCACTTCATCCTACCGC 59.895 60.000 0.00 0.00 0.00 5.68
117 118 0.325296 TCCCACTTCATCCTACCGCT 60.325 55.000 0.00 0.00 0.00 5.52
118 119 0.179073 CCCACTTCATCCTACCGCTG 60.179 60.000 0.00 0.00 0.00 5.18
119 120 0.537188 CCACTTCATCCTACCGCTGT 59.463 55.000 0.00 0.00 0.00 4.40
120 121 1.066143 CCACTTCATCCTACCGCTGTT 60.066 52.381 0.00 0.00 0.00 3.16
121 122 2.615493 CCACTTCATCCTACCGCTGTTT 60.615 50.000 0.00 0.00 0.00 2.83
122 123 3.074412 CACTTCATCCTACCGCTGTTTT 58.926 45.455 0.00 0.00 0.00 2.43
123 124 3.502211 CACTTCATCCTACCGCTGTTTTT 59.498 43.478 0.00 0.00 0.00 1.94
156 157 9.462606 TTTTCTTTTCTAATCTAACCATCTCCC 57.537 33.333 0.00 0.00 0.00 4.30
157 158 7.138054 TCTTTTCTAATCTAACCATCTCCCC 57.862 40.000 0.00 0.00 0.00 4.81
158 159 5.906772 TTTCTAATCTAACCATCTCCCCC 57.093 43.478 0.00 0.00 0.00 5.40
172 173 4.400251 CCCCCTGAGGACGGGTCT 62.400 72.222 0.00 0.00 40.24 3.85
173 174 2.284699 CCCCTGAGGACGGGTCTT 60.285 66.667 0.00 0.00 40.24 3.01
174 175 1.001248 CCCCTGAGGACGGGTCTTA 59.999 63.158 0.00 0.00 40.24 2.10
175 176 0.398664 CCCCTGAGGACGGGTCTTAT 60.399 60.000 0.00 0.00 40.24 1.73
176 177 1.497161 CCCTGAGGACGGGTCTTATT 58.503 55.000 0.00 0.00 40.75 1.40
177 178 1.838077 CCCTGAGGACGGGTCTTATTT 59.162 52.381 0.00 0.00 40.75 1.40
178 179 2.238898 CCCTGAGGACGGGTCTTATTTT 59.761 50.000 0.00 0.00 40.75 1.82
179 180 3.532542 CCTGAGGACGGGTCTTATTTTC 58.467 50.000 0.00 0.00 37.74 2.29
180 181 3.197983 CCTGAGGACGGGTCTTATTTTCT 59.802 47.826 0.00 0.00 37.74 2.52
181 182 4.323562 CCTGAGGACGGGTCTTATTTTCTT 60.324 45.833 0.00 0.00 37.74 2.52
182 183 5.237236 TGAGGACGGGTCTTATTTTCTTT 57.763 39.130 0.00 0.00 0.00 2.52
183 184 5.243207 TGAGGACGGGTCTTATTTTCTTTC 58.757 41.667 0.00 0.00 0.00 2.62
184 185 5.221762 TGAGGACGGGTCTTATTTTCTTTCA 60.222 40.000 0.00 0.00 0.00 2.69
185 186 5.627135 AGGACGGGTCTTATTTTCTTTCAA 58.373 37.500 0.00 0.00 0.00 2.69
186 187 6.246163 AGGACGGGTCTTATTTTCTTTCAAT 58.754 36.000 0.00 0.00 0.00 2.57
187 188 6.374613 AGGACGGGTCTTATTTTCTTTCAATC 59.625 38.462 0.00 0.00 0.00 2.67
188 189 6.150474 GGACGGGTCTTATTTTCTTTCAATCA 59.850 38.462 0.00 0.00 0.00 2.57
189 190 7.308951 GGACGGGTCTTATTTTCTTTCAATCAA 60.309 37.037 0.00 0.00 0.00 2.57
190 191 7.947282 ACGGGTCTTATTTTCTTTCAATCAAA 58.053 30.769 0.00 0.00 0.00 2.69
191 192 8.585018 ACGGGTCTTATTTTCTTTCAATCAAAT 58.415 29.630 0.00 0.00 0.00 2.32
192 193 9.076596 CGGGTCTTATTTTCTTTCAATCAAATC 57.923 33.333 0.00 0.00 0.00 2.17
193 194 9.927668 GGGTCTTATTTTCTTTCAATCAAATCA 57.072 29.630 0.00 0.00 0.00 2.57
198 199 9.775854 TTATTTTCTTTCAATCAAATCAAGCCA 57.224 25.926 0.00 0.00 0.00 4.75
199 200 7.481275 TTTTCTTTCAATCAAATCAAGCCAC 57.519 32.000 0.00 0.00 0.00 5.01
200 201 4.797471 TCTTTCAATCAAATCAAGCCACG 58.203 39.130 0.00 0.00 0.00 4.94
201 202 4.278170 TCTTTCAATCAAATCAAGCCACGT 59.722 37.500 0.00 0.00 0.00 4.49
202 203 5.471797 TCTTTCAATCAAATCAAGCCACGTA 59.528 36.000 0.00 0.00 0.00 3.57
203 204 4.678509 TCAATCAAATCAAGCCACGTAC 57.321 40.909 0.00 0.00 0.00 3.67
204 205 3.124466 TCAATCAAATCAAGCCACGTACG 59.876 43.478 15.01 15.01 0.00 3.67
205 206 0.793861 TCAAATCAAGCCACGTACGC 59.206 50.000 16.72 0.00 0.00 4.42
206 207 0.518355 CAAATCAAGCCACGTACGCG 60.518 55.000 16.72 3.53 44.93 6.01
222 223 4.420143 CGTAAGCACGGATGGGAG 57.580 61.111 0.00 0.00 44.59 4.30
223 224 1.883084 CGTAAGCACGGATGGGAGC 60.883 63.158 0.00 0.00 44.59 4.70
224 225 1.220749 GTAAGCACGGATGGGAGCA 59.779 57.895 0.00 0.00 0.00 4.26
225 226 0.179045 GTAAGCACGGATGGGAGCAT 60.179 55.000 0.00 0.00 0.00 3.79
226 227 0.179048 TAAGCACGGATGGGAGCATG 60.179 55.000 0.00 0.00 0.00 4.06
227 228 2.898920 AAGCACGGATGGGAGCATGG 62.899 60.000 0.00 0.00 0.00 3.66
228 229 2.203252 CACGGATGGGAGCATGGG 60.203 66.667 0.00 0.00 0.00 4.00
229 230 2.366837 ACGGATGGGAGCATGGGA 60.367 61.111 0.00 0.00 0.00 4.37
230 231 2.000701 ACGGATGGGAGCATGGGAA 61.001 57.895 0.00 0.00 0.00 3.97
231 232 1.228063 CGGATGGGAGCATGGGAAG 60.228 63.158 0.00 0.00 0.00 3.46
232 233 1.699054 CGGATGGGAGCATGGGAAGA 61.699 60.000 0.00 0.00 0.00 2.87
233 234 0.110104 GGATGGGAGCATGGGAAGAG 59.890 60.000 0.00 0.00 0.00 2.85
234 235 1.135094 GATGGGAGCATGGGAAGAGA 58.865 55.000 0.00 0.00 0.00 3.10
235 236 1.072015 GATGGGAGCATGGGAAGAGAG 59.928 57.143 0.00 0.00 0.00 3.20
236 237 1.148048 GGGAGCATGGGAAGAGAGC 59.852 63.158 0.00 0.00 0.00 4.09
237 238 1.630126 GGGAGCATGGGAAGAGAGCA 61.630 60.000 0.00 0.00 0.00 4.26
238 239 0.179051 GGAGCATGGGAAGAGAGCAG 60.179 60.000 0.00 0.00 0.00 4.24
239 240 0.179051 GAGCATGGGAAGAGAGCAGG 60.179 60.000 0.00 0.00 0.00 4.85
240 241 1.823041 GCATGGGAAGAGAGCAGGC 60.823 63.158 0.00 0.00 0.00 4.85
241 242 1.605992 CATGGGAAGAGAGCAGGCA 59.394 57.895 0.00 0.00 0.00 4.75
242 243 0.034767 CATGGGAAGAGAGCAGGCAA 60.035 55.000 0.00 0.00 0.00 4.52
243 244 0.255318 ATGGGAAGAGAGCAGGCAAG 59.745 55.000 0.00 0.00 0.00 4.01
244 245 1.130054 TGGGAAGAGAGCAGGCAAGT 61.130 55.000 0.00 0.00 0.00 3.16
245 246 0.392327 GGGAAGAGAGCAGGCAAGTC 60.392 60.000 0.00 0.00 0.00 3.01
246 247 0.612744 GGAAGAGAGCAGGCAAGTCT 59.387 55.000 0.00 0.00 0.00 3.24
247 248 1.405391 GGAAGAGAGCAGGCAAGTCTC 60.405 57.143 0.00 0.00 37.57 3.36
248 249 0.246086 AAGAGAGCAGGCAAGTCTCG 59.754 55.000 0.00 0.00 41.43 4.04
249 250 0.897863 AGAGAGCAGGCAAGTCTCGT 60.898 55.000 0.00 0.00 41.43 4.18
250 251 0.457681 GAGAGCAGGCAAGTCTCGTC 60.458 60.000 0.00 0.00 32.42 4.20
351 368 0.750850 GCCTCCCACTAATCACGCTA 59.249 55.000 0.00 0.00 0.00 4.26
365 382 0.949397 ACGCTACTCTGTTCACGTCA 59.051 50.000 0.00 0.00 0.00 4.35
479 588 2.359850 CCGCTGCCTGCTGGTTTA 60.360 61.111 11.69 0.00 40.11 2.01
540 649 2.497092 CTCGTCGCGTTGATCCGTG 61.497 63.158 5.77 0.00 39.59 4.94
565 683 3.246112 TGGAGACGGGTTGGTGGG 61.246 66.667 0.00 0.00 0.00 4.61
598 757 1.547372 GCACAATCAAGCCCATCACTT 59.453 47.619 0.00 0.00 0.00 3.16
601 760 3.758023 CACAATCAAGCCCATCACTTACA 59.242 43.478 0.00 0.00 0.00 2.41
602 761 4.218200 CACAATCAAGCCCATCACTTACAA 59.782 41.667 0.00 0.00 0.00 2.41
617 776 4.170062 CAATGCACCGCAGCTCCG 62.170 66.667 0.00 0.00 43.65 4.63
644 2670 3.625853 TCACTGATGAGTAGTAGCAGCT 58.374 45.455 0.00 0.00 0.00 4.24
646 2672 3.379688 CACTGATGAGTAGTAGCAGCTGA 59.620 47.826 20.43 0.00 0.00 4.26
647 2673 4.037803 CACTGATGAGTAGTAGCAGCTGAT 59.962 45.833 20.43 15.46 0.00 2.90
731 3028 0.264657 TATGCTGGCCTGACCTCCTA 59.735 55.000 14.77 0.00 40.22 2.94
790 3156 1.603739 GGTTGGGTTGACTCCAGCC 60.604 63.158 0.47 0.47 45.83 4.85
811 3233 2.187946 CCGAGACATGCCCAGACC 59.812 66.667 0.00 0.00 0.00 3.85
812 3234 2.202797 CGAGACATGCCCAGACCG 60.203 66.667 0.00 0.00 0.00 4.79
813 3235 2.512515 GAGACATGCCCAGACCGC 60.513 66.667 0.00 0.00 0.00 5.68
814 3236 4.457496 AGACATGCCCAGACCGCG 62.457 66.667 0.00 0.00 0.00 6.46
851 5683 4.457496 CGACACTGCCCGATGCCT 62.457 66.667 0.00 0.00 40.16 4.75
912 5775 4.722535 TGCCTCGCTCCCCTTCCT 62.723 66.667 0.00 0.00 0.00 3.36
944 5836 2.665000 CTCCCACGCACACCATCT 59.335 61.111 0.00 0.00 0.00 2.90
948 5843 1.302431 CCACGCACACCATCTTCCA 60.302 57.895 0.00 0.00 0.00 3.53
965 5866 2.156917 TCCACCTGTACTACACTCACG 58.843 52.381 0.00 0.00 0.00 4.35
966 5867 2.156917 CCACCTGTACTACACTCACGA 58.843 52.381 0.00 0.00 0.00 4.35
971 5872 3.003482 CCTGTACTACACTCACGATAGCC 59.997 52.174 0.00 0.00 42.67 3.93
979 5880 3.264897 CACGATAGCCGCACCTGC 61.265 66.667 0.00 0.00 43.32 4.85
1022 5947 5.057149 ACTTTAACGTGCTTCACTTCTCAT 58.943 37.500 0.00 0.00 31.34 2.90
1023 5948 5.177696 ACTTTAACGTGCTTCACTTCTCATC 59.822 40.000 0.00 0.00 31.34 2.92
1161 6100 1.825281 AAGCGCTGCACTTCTCCTCT 61.825 55.000 12.58 0.00 0.00 3.69
1174 6113 0.689623 CTCCTCTATGTCCATGCCCC 59.310 60.000 0.00 0.00 0.00 5.80
1242 6190 4.467107 GGGCCCTCCTCGTCCTCT 62.467 72.222 17.04 0.00 0.00 3.69
1258 6206 0.746563 CTCTCTCCTCGCGGACTTCT 60.747 60.000 6.13 0.00 34.92 2.85
1606 6603 3.243816 TGCTGGAGCTGGACTGCA 61.244 61.111 0.00 0.00 45.63 4.41
1609 6606 3.947132 CTGGAGCTGGACTGCACCG 62.947 68.421 11.60 4.82 42.55 4.94
1618 6615 1.664965 GACTGCACCGCTTTCGACT 60.665 57.895 0.00 0.00 38.10 4.18
1697 6709 2.203394 CCACCAACAGCAGCTGGT 60.203 61.111 26.38 18.44 44.89 4.00
1795 6821 0.169672 CAAGCTCCACTCCATTTGCG 59.830 55.000 0.00 0.00 0.00 4.85
1842 6900 1.291877 CGAAACCCTGACTTCGCCTG 61.292 60.000 0.00 0.00 38.13 4.85
1847 6905 2.125912 CTGACTTCGCCTGGACGG 60.126 66.667 0.00 0.00 0.00 4.79
1859 6917 0.249868 CTGGACGGCAGAAGAACACA 60.250 55.000 0.00 0.00 0.00 3.72
1876 6937 7.304497 AGAACACAAAGTAGATAGTTCACCT 57.696 36.000 0.00 0.00 38.18 4.00
1918 6981 5.982516 CACATTATCTCAGACAAGACTAGCC 59.017 44.000 0.00 0.00 0.00 3.93
1927 6990 4.404073 CAGACAAGACTAGCCAGGACTAAT 59.596 45.833 0.00 0.00 0.00 1.73
1937 7000 4.962155 AGCCAGGACTAATGTAAGCATAC 58.038 43.478 0.00 0.00 34.39 2.39
1939 7002 4.307432 CCAGGACTAATGTAAGCATACCG 58.693 47.826 0.00 0.00 34.39 4.02
1962 7025 3.408634 CACGAATTAGGGACTGTTTGGT 58.591 45.455 0.00 0.00 41.52 3.67
1969 7032 3.223674 AGGGACTGTTTGGTTGGTTAG 57.776 47.619 0.00 0.00 37.18 2.34
2052 7118 3.586430 GCAAAGGCGAAACCAACAT 57.414 47.368 0.00 0.00 43.14 2.71
2124 7217 1.834263 GGAGTACATCACAGGAAGCCT 59.166 52.381 0.00 0.00 0.00 4.58
2172 7266 8.752005 ATATAGGCAAATTCAAGCTAGTTCAA 57.248 30.769 0.00 0.00 0.00 2.69
2232 7336 2.745281 CCGATCCAAAAGCCTTAAACGA 59.255 45.455 0.00 0.00 0.00 3.85
2295 7399 2.121385 TGCCTCAGCAGTCCTCCT 59.879 61.111 0.00 0.00 46.52 3.69
2377 7481 0.173255 CAAAAGCCATAAGCCCCACG 59.827 55.000 0.00 0.00 45.47 4.94
2394 7498 0.818296 ACGAGGTAGCAGATGTGACC 59.182 55.000 0.00 0.00 0.00 4.02
2403 7507 3.525537 AGCAGATGTGACCAGATTAACG 58.474 45.455 0.00 0.00 0.00 3.18
2410 7514 1.207089 TGACCAGATTAACGGCCTCTG 59.793 52.381 11.16 11.16 36.89 3.35
2474 7578 7.490657 AAGATGTAGGTAAGGTGATACACAA 57.509 36.000 0.00 0.00 35.86 3.33
2515 7619 2.433604 CAGATCTGGACAGCTACCACAT 59.566 50.000 15.38 4.08 33.57 3.21
2610 7714 5.836358 CCTCTTAGCTAGGTTATCTCTGGTT 59.164 44.000 0.00 0.00 0.00 3.67
2714 7818 9.732130 AATATTAGAAGATATGCCTCCAAAGTC 57.268 33.333 0.00 0.00 0.00 3.01
2830 7934 8.540507 ACTAACTACATCACATAGATCCAACT 57.459 34.615 0.00 0.00 33.72 3.16
2846 7952 5.089970 TCCAACTACTTGATCATGGTGAG 57.910 43.478 12.76 9.00 0.00 3.51
2945 8052 2.489722 GACAGATGTCAAAAAGCTCCCC 59.510 50.000 8.09 0.00 44.18 4.81
2950 8057 4.594491 AGATGTCAAAAAGCTCCCCAAATT 59.406 37.500 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 2.332654 AACAACTCGCGGGAATGGC 61.333 57.895 15.95 0.00 0.00 4.40
4 5 0.953471 TCAACAACTCGCGGGAATGG 60.953 55.000 15.95 0.41 0.00 3.16
6 7 1.369625 GATCAACAACTCGCGGGAAT 58.630 50.000 15.95 0.00 0.00 3.01
8 9 1.079405 GGATCAACAACTCGCGGGA 60.079 57.895 15.95 0.92 0.00 5.14
9 10 2.452813 CGGATCAACAACTCGCGGG 61.453 63.158 3.27 3.27 0.00 6.13
10 11 0.806102 ATCGGATCAACAACTCGCGG 60.806 55.000 6.13 0.00 0.00 6.46
11 12 0.999406 AATCGGATCAACAACTCGCG 59.001 50.000 0.00 0.00 0.00 5.87
12 13 4.331962 GTTTAATCGGATCAACAACTCGC 58.668 43.478 0.00 0.00 0.00 5.03
13 14 4.491924 CGGTTTAATCGGATCAACAACTCG 60.492 45.833 12.53 5.66 0.00 4.18
14 15 4.893795 CGGTTTAATCGGATCAACAACTC 58.106 43.478 12.53 0.00 0.00 3.01
15 16 4.939509 CGGTTTAATCGGATCAACAACT 57.060 40.909 12.53 0.00 0.00 3.16
25 26 2.898343 CGCCCCCGGTTTAATCGG 60.898 66.667 10.05 10.05 46.43 4.18
26 27 2.125024 ACGCCCCCGGTTTAATCG 60.125 61.111 0.00 0.00 39.22 3.34
27 28 1.377594 ACACGCCCCCGGTTTAATC 60.378 57.895 0.00 0.00 39.22 1.75
28 29 1.676303 CACACGCCCCCGGTTTAAT 60.676 57.895 0.00 0.00 39.22 1.40
29 30 2.281622 CACACGCCCCCGGTTTAA 60.282 61.111 0.00 0.00 39.22 1.52
30 31 2.127027 ATTCACACGCCCCCGGTTTA 62.127 55.000 0.00 0.00 39.22 2.01
31 32 3.501040 ATTCACACGCCCCCGGTTT 62.501 57.895 0.00 0.00 39.22 3.27
32 33 3.961414 ATTCACACGCCCCCGGTT 61.961 61.111 0.00 0.00 39.22 4.44
33 34 4.715523 CATTCACACGCCCCCGGT 62.716 66.667 0.00 0.00 39.22 5.28
34 35 3.910914 TTCATTCACACGCCCCCGG 62.911 63.158 0.00 0.00 39.22 5.73
35 36 1.312371 ATTTCATTCACACGCCCCCG 61.312 55.000 0.00 0.00 41.14 5.73
36 37 0.173255 CATTTCATTCACACGCCCCC 59.827 55.000 0.00 0.00 0.00 5.40
37 38 0.173255 CCATTTCATTCACACGCCCC 59.827 55.000 0.00 0.00 0.00 5.80
38 39 0.173255 CCCATTTCATTCACACGCCC 59.827 55.000 0.00 0.00 0.00 6.13
39 40 1.173043 TCCCATTTCATTCACACGCC 58.827 50.000 0.00 0.00 0.00 5.68
40 41 2.223572 GGATCCCATTTCATTCACACGC 60.224 50.000 0.00 0.00 0.00 5.34
41 42 2.032054 CGGATCCCATTTCATTCACACG 59.968 50.000 6.06 0.00 0.00 4.49
42 43 2.358898 CCGGATCCCATTTCATTCACAC 59.641 50.000 6.06 0.00 0.00 3.82
43 44 2.653726 CCGGATCCCATTTCATTCACA 58.346 47.619 6.06 0.00 0.00 3.58
44 45 1.338020 GCCGGATCCCATTTCATTCAC 59.662 52.381 5.05 0.00 0.00 3.18
45 46 1.215173 AGCCGGATCCCATTTCATTCA 59.785 47.619 5.05 0.00 0.00 2.57
46 47 1.986882 AGCCGGATCCCATTTCATTC 58.013 50.000 5.05 0.00 0.00 2.67
47 48 2.034124 CAAGCCGGATCCCATTTCATT 58.966 47.619 5.05 0.00 0.00 2.57
48 49 1.696063 CAAGCCGGATCCCATTTCAT 58.304 50.000 5.05 0.00 0.00 2.57
49 50 1.037030 GCAAGCCGGATCCCATTTCA 61.037 55.000 5.05 0.00 0.00 2.69
50 51 1.735973 GCAAGCCGGATCCCATTTC 59.264 57.895 5.05 0.00 0.00 2.17
51 52 1.758122 GGCAAGCCGGATCCCATTT 60.758 57.895 5.05 0.00 0.00 2.32
52 53 2.123726 GGCAAGCCGGATCCCATT 60.124 61.111 5.05 0.00 0.00 3.16
53 54 3.099170 AGGCAAGCCGGATCCCAT 61.099 61.111 5.05 0.00 41.95 4.00
54 55 4.113815 CAGGCAAGCCGGATCCCA 62.114 66.667 5.05 0.00 41.95 4.37
56 57 4.496336 AGCAGGCAAGCCGGATCC 62.496 66.667 15.46 0.00 41.95 3.36
57 58 2.899339 GAGCAGGCAAGCCGGATC 60.899 66.667 15.46 14.32 39.23 3.36
58 59 4.496336 GGAGCAGGCAAGCCGGAT 62.496 66.667 15.46 8.74 41.95 4.18
61 62 4.729918 AAGGGAGCAGGCAAGCCG 62.730 66.667 5.28 2.12 41.95 5.52
62 63 2.283460 AAAGGGAGCAGGCAAGCC 60.283 61.111 2.02 2.02 34.23 4.35
63 64 2.346541 GGAAAGGGAGCAGGCAAGC 61.347 63.158 0.00 0.00 0.00 4.01
64 65 0.324091 ATGGAAAGGGAGCAGGCAAG 60.324 55.000 0.00 0.00 0.00 4.01
65 66 0.612732 CATGGAAAGGGAGCAGGCAA 60.613 55.000 0.00 0.00 0.00 4.52
66 67 1.000521 CATGGAAAGGGAGCAGGCA 60.001 57.895 0.00 0.00 0.00 4.75
67 68 2.421399 GCATGGAAAGGGAGCAGGC 61.421 63.158 0.00 0.00 0.00 4.85
68 69 0.750911 GAGCATGGAAAGGGAGCAGG 60.751 60.000 0.00 0.00 0.00 4.85
69 70 0.750911 GGAGCATGGAAAGGGAGCAG 60.751 60.000 0.00 0.00 0.00 4.24
70 71 1.304282 GGAGCATGGAAAGGGAGCA 59.696 57.895 0.00 0.00 0.00 4.26
71 72 1.454663 GGGAGCATGGAAAGGGAGC 60.455 63.158 0.00 0.00 0.00 4.70
72 73 0.554792 ATGGGAGCATGGAAAGGGAG 59.445 55.000 0.00 0.00 0.00 4.30
73 74 0.552848 GATGGGAGCATGGAAAGGGA 59.447 55.000 0.00 0.00 0.00 4.20
74 75 0.468771 GGATGGGAGCATGGAAAGGG 60.469 60.000 0.00 0.00 0.00 3.95
75 76 0.820891 CGGATGGGAGCATGGAAAGG 60.821 60.000 0.00 0.00 0.00 3.11
76 77 0.107017 ACGGATGGGAGCATGGAAAG 60.107 55.000 0.00 0.00 0.00 2.62
77 78 0.394216 CACGGATGGGAGCATGGAAA 60.394 55.000 0.00 0.00 0.00 3.13
78 79 1.224315 CACGGATGGGAGCATGGAA 59.776 57.895 0.00 0.00 0.00 3.53
79 80 2.910360 CACGGATGGGAGCATGGA 59.090 61.111 0.00 0.00 0.00 3.41
80 81 2.903855 GCACGGATGGGAGCATGG 60.904 66.667 0.00 0.00 0.00 3.66
81 82 1.890979 GAGCACGGATGGGAGCATG 60.891 63.158 0.00 0.00 0.00 4.06
82 83 2.507944 GAGCACGGATGGGAGCAT 59.492 61.111 0.00 0.00 0.00 3.79
83 84 3.785859 GGAGCACGGATGGGAGCA 61.786 66.667 0.00 0.00 0.00 4.26
84 85 4.554036 GGGAGCACGGATGGGAGC 62.554 72.222 0.00 0.00 0.00 4.70
85 86 3.083349 TGGGAGCACGGATGGGAG 61.083 66.667 0.00 0.00 0.00 4.30
86 87 3.399181 GTGGGAGCACGGATGGGA 61.399 66.667 0.00 0.00 0.00 4.37
87 88 2.876368 GAAGTGGGAGCACGGATGGG 62.876 65.000 0.00 0.00 0.00 4.00
88 89 1.450312 GAAGTGGGAGCACGGATGG 60.450 63.158 0.00 0.00 0.00 3.51
89 90 0.107508 ATGAAGTGGGAGCACGGATG 60.108 55.000 0.00 0.00 0.00 3.51
90 91 0.179000 GATGAAGTGGGAGCACGGAT 59.821 55.000 0.00 0.00 0.00 4.18
91 92 1.596934 GATGAAGTGGGAGCACGGA 59.403 57.895 0.00 0.00 0.00 4.69
92 93 1.450312 GGATGAAGTGGGAGCACGG 60.450 63.158 0.00 0.00 0.00 4.94
93 94 0.824109 TAGGATGAAGTGGGAGCACG 59.176 55.000 0.00 0.00 0.00 5.34
94 95 1.134371 GGTAGGATGAAGTGGGAGCAC 60.134 57.143 0.00 0.00 0.00 4.40
95 96 1.204146 GGTAGGATGAAGTGGGAGCA 58.796 55.000 0.00 0.00 0.00 4.26
96 97 0.105039 CGGTAGGATGAAGTGGGAGC 59.895 60.000 0.00 0.00 0.00 4.70
97 98 0.105039 GCGGTAGGATGAAGTGGGAG 59.895 60.000 0.00 0.00 0.00 4.30
98 99 0.325296 AGCGGTAGGATGAAGTGGGA 60.325 55.000 0.00 0.00 0.00 4.37
99 100 0.179073 CAGCGGTAGGATGAAGTGGG 60.179 60.000 0.00 0.00 32.47 4.61
100 101 0.537188 ACAGCGGTAGGATGAAGTGG 59.463 55.000 0.00 0.00 35.55 4.00
101 102 2.386661 AACAGCGGTAGGATGAAGTG 57.613 50.000 0.00 0.00 35.55 3.16
102 103 3.418684 AAAACAGCGGTAGGATGAAGT 57.581 42.857 0.00 0.00 35.55 3.01
130 131 9.462606 GGGAGATGGTTAGATTAGAAAAGAAAA 57.537 33.333 0.00 0.00 0.00 2.29
131 132 8.053355 GGGGAGATGGTTAGATTAGAAAAGAAA 58.947 37.037 0.00 0.00 0.00 2.52
132 133 7.366551 GGGGGAGATGGTTAGATTAGAAAAGAA 60.367 40.741 0.00 0.00 0.00 2.52
133 134 6.101296 GGGGGAGATGGTTAGATTAGAAAAGA 59.899 42.308 0.00 0.00 0.00 2.52
134 135 6.299922 GGGGGAGATGGTTAGATTAGAAAAG 58.700 44.000 0.00 0.00 0.00 2.27
135 136 6.262056 GGGGGAGATGGTTAGATTAGAAAA 57.738 41.667 0.00 0.00 0.00 2.29
136 137 5.906772 GGGGGAGATGGTTAGATTAGAAA 57.093 43.478 0.00 0.00 0.00 2.52
158 159 3.197983 AGAAAATAAGACCCGTCCTCAGG 59.802 47.826 0.00 0.00 0.00 3.86
159 160 4.473477 AGAAAATAAGACCCGTCCTCAG 57.527 45.455 0.00 0.00 0.00 3.35
160 161 4.903045 AAGAAAATAAGACCCGTCCTCA 57.097 40.909 0.00 0.00 0.00 3.86
161 162 5.243207 TGAAAGAAAATAAGACCCGTCCTC 58.757 41.667 0.00 0.00 0.00 3.71
162 163 5.237236 TGAAAGAAAATAAGACCCGTCCT 57.763 39.130 0.00 0.00 0.00 3.85
163 164 5.952526 TTGAAAGAAAATAAGACCCGTCC 57.047 39.130 0.00 0.00 0.00 4.79
164 165 7.141100 TGATTGAAAGAAAATAAGACCCGTC 57.859 36.000 0.00 0.00 0.00 4.79
165 166 7.519032 TTGATTGAAAGAAAATAAGACCCGT 57.481 32.000 0.00 0.00 0.00 5.28
166 167 8.986477 ATTTGATTGAAAGAAAATAAGACCCG 57.014 30.769 0.00 0.00 0.00 5.28
167 168 9.927668 TGATTTGATTGAAAGAAAATAAGACCC 57.072 29.630 0.00 0.00 0.00 4.46
172 173 9.775854 TGGCTTGATTTGATTGAAAGAAAATAA 57.224 25.926 0.00 0.00 0.00 1.40
173 174 9.206870 GTGGCTTGATTTGATTGAAAGAAAATA 57.793 29.630 0.00 0.00 0.00 1.40
174 175 7.095523 CGTGGCTTGATTTGATTGAAAGAAAAT 60.096 33.333 0.00 0.00 0.00 1.82
175 176 6.200665 CGTGGCTTGATTTGATTGAAAGAAAA 59.799 34.615 0.00 0.00 0.00 2.29
176 177 5.691305 CGTGGCTTGATTTGATTGAAAGAAA 59.309 36.000 0.00 0.00 0.00 2.52
177 178 5.221224 ACGTGGCTTGATTTGATTGAAAGAA 60.221 36.000 0.00 0.00 0.00 2.52
178 179 4.278170 ACGTGGCTTGATTTGATTGAAAGA 59.722 37.500 0.00 0.00 0.00 2.52
179 180 4.549458 ACGTGGCTTGATTTGATTGAAAG 58.451 39.130 0.00 0.00 0.00 2.62
180 181 4.582701 ACGTGGCTTGATTTGATTGAAA 57.417 36.364 0.00 0.00 0.00 2.69
181 182 4.377943 CGTACGTGGCTTGATTTGATTGAA 60.378 41.667 7.22 0.00 0.00 2.69
182 183 3.124466 CGTACGTGGCTTGATTTGATTGA 59.876 43.478 7.22 0.00 0.00 2.57
183 184 3.416277 CGTACGTGGCTTGATTTGATTG 58.584 45.455 7.22 0.00 0.00 2.67
184 185 2.159572 GCGTACGTGGCTTGATTTGATT 60.160 45.455 17.90 0.00 0.00 2.57
185 186 1.396996 GCGTACGTGGCTTGATTTGAT 59.603 47.619 17.90 0.00 0.00 2.57
186 187 0.793861 GCGTACGTGGCTTGATTTGA 59.206 50.000 17.90 0.00 0.00 2.69
187 188 0.518355 CGCGTACGTGGCTTGATTTG 60.518 55.000 20.84 0.00 33.53 2.32
188 189 1.785321 CGCGTACGTGGCTTGATTT 59.215 52.632 20.84 0.00 33.53 2.17
189 190 3.470267 CGCGTACGTGGCTTGATT 58.530 55.556 20.84 0.00 33.53 2.57
204 205 1.883084 CTCCCATCCGTGCTTACGC 60.883 63.158 0.00 0.00 0.00 4.42
205 206 1.883084 GCTCCCATCCGTGCTTACG 60.883 63.158 0.00 0.00 0.00 3.18
206 207 0.179045 ATGCTCCCATCCGTGCTTAC 60.179 55.000 0.00 0.00 0.00 2.34
207 208 0.179048 CATGCTCCCATCCGTGCTTA 60.179 55.000 0.00 0.00 0.00 3.09
208 209 1.452651 CATGCTCCCATCCGTGCTT 60.453 57.895 0.00 0.00 0.00 3.91
209 210 2.191375 CATGCTCCCATCCGTGCT 59.809 61.111 0.00 0.00 0.00 4.40
210 211 2.903855 CCATGCTCCCATCCGTGC 60.904 66.667 0.00 0.00 0.00 5.34
211 212 2.203252 CCCATGCTCCCATCCGTG 60.203 66.667 0.00 0.00 0.00 4.94
212 213 1.987807 CTTCCCATGCTCCCATCCGT 61.988 60.000 0.00 0.00 0.00 4.69
213 214 1.228063 CTTCCCATGCTCCCATCCG 60.228 63.158 0.00 0.00 0.00 4.18
214 215 0.110104 CTCTTCCCATGCTCCCATCC 59.890 60.000 0.00 0.00 0.00 3.51
215 216 1.072015 CTCTCTTCCCATGCTCCCATC 59.928 57.143 0.00 0.00 0.00 3.51
216 217 1.138568 CTCTCTTCCCATGCTCCCAT 58.861 55.000 0.00 0.00 0.00 4.00
217 218 1.630126 GCTCTCTTCCCATGCTCCCA 61.630 60.000 0.00 0.00 0.00 4.37
218 219 1.148048 GCTCTCTTCCCATGCTCCC 59.852 63.158 0.00 0.00 0.00 4.30
219 220 0.179051 CTGCTCTCTTCCCATGCTCC 60.179 60.000 0.00 0.00 0.00 4.70
220 221 0.179051 CCTGCTCTCTTCCCATGCTC 60.179 60.000 0.00 0.00 0.00 4.26
221 222 1.913722 CCTGCTCTCTTCCCATGCT 59.086 57.895 0.00 0.00 0.00 3.79
222 223 1.823041 GCCTGCTCTCTTCCCATGC 60.823 63.158 0.00 0.00 0.00 4.06
223 224 0.034767 TTGCCTGCTCTCTTCCCATG 60.035 55.000 0.00 0.00 0.00 3.66
224 225 0.255318 CTTGCCTGCTCTCTTCCCAT 59.745 55.000 0.00 0.00 0.00 4.00
225 226 1.130054 ACTTGCCTGCTCTCTTCCCA 61.130 55.000 0.00 0.00 0.00 4.37
226 227 0.392327 GACTTGCCTGCTCTCTTCCC 60.392 60.000 0.00 0.00 0.00 3.97
227 228 0.612744 AGACTTGCCTGCTCTCTTCC 59.387 55.000 0.00 0.00 0.00 3.46
228 229 1.735369 CGAGACTTGCCTGCTCTCTTC 60.735 57.143 5.64 0.00 0.00 2.87
229 230 0.246086 CGAGACTTGCCTGCTCTCTT 59.754 55.000 5.64 0.00 0.00 2.85
230 231 0.897863 ACGAGACTTGCCTGCTCTCT 60.898 55.000 0.00 0.00 0.00 3.10
231 232 0.457681 GACGAGACTTGCCTGCTCTC 60.458 60.000 0.00 0.00 0.00 3.20
232 233 1.589113 GACGAGACTTGCCTGCTCT 59.411 57.895 0.00 0.00 0.00 4.09
233 234 1.803519 CGACGAGACTTGCCTGCTC 60.804 63.158 0.00 0.00 0.00 4.26
234 235 2.259818 CGACGAGACTTGCCTGCT 59.740 61.111 0.00 0.00 0.00 4.24
235 236 2.564553 ATCCGACGAGACTTGCCTGC 62.565 60.000 0.00 0.00 0.00 4.85
236 237 0.803768 CATCCGACGAGACTTGCCTG 60.804 60.000 0.00 0.00 0.00 4.85
237 238 0.965866 TCATCCGACGAGACTTGCCT 60.966 55.000 0.00 0.00 0.00 4.75
238 239 0.108804 TTCATCCGACGAGACTTGCC 60.109 55.000 0.00 0.00 0.00 4.52
239 240 1.710013 TTTCATCCGACGAGACTTGC 58.290 50.000 0.00 0.00 0.00 4.01
240 241 2.604914 CCATTTCATCCGACGAGACTTG 59.395 50.000 0.00 0.00 0.00 3.16
241 242 2.496070 TCCATTTCATCCGACGAGACTT 59.504 45.455 0.00 0.00 0.00 3.01
242 243 2.100197 TCCATTTCATCCGACGAGACT 58.900 47.619 0.00 0.00 0.00 3.24
243 244 2.194271 GTCCATTTCATCCGACGAGAC 58.806 52.381 0.00 0.00 0.00 3.36
244 245 2.579207 GTCCATTTCATCCGACGAGA 57.421 50.000 0.00 0.00 0.00 4.04
248 249 1.722011 ACACGTCCATTTCATCCGAC 58.278 50.000 0.00 0.00 0.00 4.79
249 250 3.596310 TTACACGTCCATTTCATCCGA 57.404 42.857 0.00 0.00 0.00 4.55
250 251 3.181514 GGTTTACACGTCCATTTCATCCG 60.182 47.826 0.00 0.00 0.00 4.18
351 368 3.736252 CGAAAGAATGACGTGAACAGAGT 59.264 43.478 0.00 0.00 0.00 3.24
436 545 2.956964 GAGATTCCGACTGGCGCG 60.957 66.667 0.00 0.00 39.11 6.86
439 548 0.103937 CTCCTGAGATTCCGACTGGC 59.896 60.000 0.00 0.00 34.14 4.85
565 683 2.501223 ATTGTGCCACATGCTGCTGC 62.501 55.000 8.89 8.89 42.00 5.25
598 757 1.745115 GGAGCTGCGGTGCATTGTA 60.745 57.895 0.00 0.00 38.13 2.41
617 776 4.558496 GCTACTACTCATCAGTGATCAGCC 60.558 50.000 3.59 0.00 33.62 4.85
644 2670 1.515519 GCGCTAACCACGTCGATCA 60.516 57.895 0.00 0.00 0.00 2.92
646 2672 0.668096 TTTGCGCTAACCACGTCGAT 60.668 50.000 9.73 0.00 0.00 3.59
647 2673 1.279527 CTTTGCGCTAACCACGTCGA 61.280 55.000 9.73 0.00 0.00 4.20
771 3137 1.966451 GCTGGAGTCAACCCAACCG 60.966 63.158 0.00 0.00 32.53 4.44
912 5775 1.214589 GGAGCGTCTCTGCGGTTTA 59.785 57.895 6.78 0.00 42.89 2.01
944 5836 2.555325 CGTGAGTGTAGTACAGGTGGAA 59.445 50.000 2.39 0.00 0.00 3.53
948 5843 3.626670 GCTATCGTGAGTGTAGTACAGGT 59.373 47.826 2.39 0.00 0.00 4.00
997 5921 5.156804 AGAAGTGAAGCACGTTAAAGTTG 57.843 39.130 0.00 0.00 39.64 3.16
1022 5947 0.601046 GCAAGGCGGATGATGATCGA 60.601 55.000 0.00 0.00 0.00 3.59
1023 5948 1.572085 GGCAAGGCGGATGATGATCG 61.572 60.000 0.00 0.00 0.00 3.69
1161 6100 3.752622 TGCTGGGGCATGGACATA 58.247 55.556 0.00 0.00 44.28 2.29
1174 6113 1.536149 GAGTAAGCGTACTCGTGCTG 58.464 55.000 21.41 0.00 45.16 4.41
1226 6174 2.835895 GAGAGGACGAGGAGGGCC 60.836 72.222 0.00 0.00 0.00 5.80
1272 6220 3.426568 GCGAACCAGCTGCTGTCC 61.427 66.667 26.41 14.31 0.00 4.02
1274 6225 3.890936 GAGGCGAACCAGCTGCTGT 62.891 63.158 26.41 10.66 39.06 4.40
1590 6587 2.745492 GTGCAGTCCAGCTCCAGC 60.745 66.667 0.00 0.00 42.49 4.85
1591 6588 2.046507 GGTGCAGTCCAGCTCCAG 60.047 66.667 0.00 0.00 45.15 3.86
1592 6589 4.007644 CGGTGCAGTCCAGCTCCA 62.008 66.667 7.66 0.00 45.89 3.86
1594 6591 3.890936 AAGCGGTGCAGTCCAGCTC 62.891 63.158 11.21 0.00 39.77 4.09
1595 6592 3.482232 AAAGCGGTGCAGTCCAGCT 62.482 57.895 6.80 6.80 39.77 4.24
1609 6606 2.202058 GAACGCGCAGTCGAAAGC 60.202 61.111 5.73 0.00 38.10 3.51
1718 6730 2.044555 CACGAGTCCAGCGTAGGGA 61.045 63.158 0.00 0.00 40.44 4.20
1722 6734 2.697761 GCTCCACGAGTCCAGCGTA 61.698 63.158 0.00 0.00 40.44 4.42
1771 6790 1.198713 ATGGAGTGGAGCTTGATCGT 58.801 50.000 0.00 0.00 0.00 3.73
1777 6802 0.036732 TCGCAAATGGAGTGGAGCTT 59.963 50.000 0.00 0.00 0.00 3.74
1784 6809 0.678048 GGCTTCCTCGCAAATGGAGT 60.678 55.000 0.00 0.00 33.46 3.85
1842 6900 1.264288 CTTTGTGTTCTTCTGCCGTCC 59.736 52.381 0.00 0.00 0.00 4.79
1847 6905 7.385205 TGAACTATCTACTTTGTGTTCTTCTGC 59.615 37.037 0.00 0.00 35.99 4.26
1859 6917 7.670559 AGTCTGTGTAGGTGAACTATCTACTTT 59.329 37.037 0.00 0.00 42.43 2.66
1876 6937 2.498078 TGTGTGGTGTTGAGTCTGTGTA 59.502 45.455 0.00 0.00 0.00 2.90
1918 6981 3.741344 GCGGTATGCTTACATTAGTCCTG 59.259 47.826 11.47 0.00 41.73 3.86
1927 6990 0.246910 TTCGTGGCGGTATGCTTACA 59.753 50.000 11.47 0.00 45.43 2.41
1937 7000 0.810031 CAGTCCCTAATTCGTGGCGG 60.810 60.000 0.00 0.00 0.00 6.13
1939 7002 2.109425 AACAGTCCCTAATTCGTGGC 57.891 50.000 0.00 0.00 0.00 5.01
2052 7118 2.035961 GCGCTGTAAGATGTCCTGGATA 59.964 50.000 0.00 0.00 34.07 2.59
2139 7232 8.313292 AGCTTGAATTTGCCTATATTTTGTCAA 58.687 29.630 0.00 0.00 0.00 3.18
2172 7266 2.200081 AGAATAGCCTGGGATGTGTGT 58.800 47.619 0.00 0.00 0.00 3.72
2232 7336 1.080025 GGGTGCGCTACTTCTTCGT 60.080 57.895 9.73 0.00 0.00 3.85
2295 7399 1.210234 CACTGCATCATGGACCTGGTA 59.790 52.381 0.00 0.00 0.00 3.25
2377 7481 2.103373 TCTGGTCACATCTGCTACCTC 58.897 52.381 0.00 0.00 32.99 3.85
2394 7498 4.003648 AGAAAACAGAGGCCGTTAATCTG 58.996 43.478 15.49 15.49 44.81 2.90
2403 7507 4.655762 ACAAAGAAAGAAAACAGAGGCC 57.344 40.909 0.00 0.00 0.00 5.19
2474 7578 9.104713 AGATCTGGAAAATAATTTTTGAAGGGT 57.895 29.630 0.00 0.00 35.20 4.34
2846 7952 5.940470 ACTTTTAGAAGATGTGTGGATGGTC 59.060 40.000 0.00 0.00 36.69 4.02
2945 8052 7.870826 GGAATGTTCCCTAAAAACCAAATTTG 58.129 34.615 11.40 11.40 41.62 2.32


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

AutoCloner maintained by Alex Coulton.