Multiple sequence alignment - TraesCS6A01G078100

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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 TraesCS6A01G078100 chr6A 100.000 3322 0 0 1 3322 48057849 48054528 0.000000e+00 6135.0
1 TraesCS6A01G078100 chr6A 90.588 1445 108 15 1431 2863 48087839 48089267 0.000000e+00 1890.0
2 TraesCS6A01G078100 chr6A 79.713 1745 265 54 839 2524 47884580 47886294 0.000000e+00 1179.0
3 TraesCS6A01G078100 chr6A 79.777 1706 279 41 851 2524 48036640 48038311 0.000000e+00 1179.0
4 TraesCS6A01G078100 chr6A 88.699 584 57 6 848 1425 48086674 48087254 0.000000e+00 704.0
5 TraesCS6A01G078100 chr6A 78.439 974 143 28 834 1791 47701868 47702790 1.030000e-159 573.0
6 TraesCS6A01G078100 chr6A 84.529 446 43 11 814 1247 48040858 48041289 5.130000e-113 418.0
7 TraesCS6A01G078100 chr6A 99.291 141 1 0 92 232 576900809 576900669 4.250000e-64 255.0
8 TraesCS6A01G078100 chr6A 93.182 132 7 2 96 226 51432093 51432223 3.380000e-45 193.0
9 TraesCS6A01G078100 chrUn 95.229 2494 108 6 539 3030 153389804 153392288 0.000000e+00 3936.0
10 TraesCS6A01G078100 chrUn 93.691 1902 87 17 678 2576 153377960 153379831 0.000000e+00 2817.0
11 TraesCS6A01G078100 chrUn 93.246 1910 93 20 1083 2977 331176322 331178210 0.000000e+00 2780.0
12 TraesCS6A01G078100 chrUn 90.104 1253 90 9 1683 2919 153409021 153407787 0.000000e+00 1596.0
13 TraesCS6A01G078100 chrUn 80.771 1737 255 50 839 2525 143846875 143848582 0.000000e+00 1284.0
14 TraesCS6A01G078100 chrUn 91.792 865 65 4 849 1710 153409882 153409021 0.000000e+00 1199.0
15 TraesCS6A01G078100 chrUn 80.489 1635 242 38 851 2460 26732773 26734355 0.000000e+00 1181.0
16 TraesCS6A01G078100 chrUn 80.508 1534 223 45 814 2311 153436548 153435055 0.000000e+00 1107.0
17 TraesCS6A01G078100 chrUn 93.494 707 37 4 2574 3280 153379885 153380582 0.000000e+00 1042.0
18 TraesCS6A01G078100 chrUn 78.636 1671 271 47 906 2524 153494816 153493180 0.000000e+00 1029.0
19 TraesCS6A01G078100 chrUn 76.896 1688 306 56 900 2524 143908294 143909960 0.000000e+00 880.0
20 TraesCS6A01G078100 chrUn 80.957 1150 157 39 902 2031 153520919 153519812 0.000000e+00 854.0
21 TraesCS6A01G078100 chrUn 80.190 1156 179 35 834 1959 26525608 26524473 0.000000e+00 821.0
22 TraesCS6A01G078100 chrUn 96.018 226 9 0 249 474 153389545 153389770 5.240000e-98 368.0
23 TraesCS6A01G078100 chrUn 89.623 212 21 1 1039 1250 153438387 153438177 5.460000e-68 268.0
24 TraesCS6A01G078100 chrUn 92.857 84 5 1 539 622 153377883 153377965 1.620000e-23 121.0
25 TraesCS6A01G078100 chrUn 81.111 90 13 2 3 92 153407271 153407356 5.950000e-08 69.4
26 TraesCS6A01G078100 chr6B 93.078 2297 106 24 705 2977 84565859 84568126 0.000000e+00 3312.0
27 TraesCS6A01G078100 chr6B 79.795 1074 183 24 906 1962 83127923 83126867 0.000000e+00 750.0
28 TraesCS6A01G078100 chr6B 90.093 323 13 7 249 562 84557484 84557796 5.160000e-108 401.0
29 TraesCS6A01G078100 chr6B 90.000 270 10 6 705 965 84563848 84564109 1.910000e-87 333.0
30 TraesCS6A01G078100 chr6B 96.947 131 4 0 96 226 41440244 41440374 1.550000e-53 220.0
31 TraesCS6A01G078100 chr7D 73.831 1582 305 73 906 2414 560222366 560223911 8.160000e-146 527.0
32 TraesCS6A01G078100 chr7D 92.568 148 8 3 90 235 60488442 60488296 3.360000e-50 209.0
33 TraesCS6A01G078100 chr7D 92.366 131 10 0 96 226 390075272 390075402 1.570000e-43 187.0
34 TraesCS6A01G078100 chr2D 87.943 282 21 9 2974 3245 146395061 146394783 1.490000e-83 320.0
35 TraesCS6A01G078100 chr2D 93.056 144 9 1 88 231 509849891 509850033 3.360000e-50 209.0
36 TraesCS6A01G078100 chr1B 87.500 264 27 2 2980 3237 675955025 675954762 1.940000e-77 300.0
37 TraesCS6A01G078100 chr1B 94.656 131 5 1 96 226 23600441 23600569 5.620000e-48 202.0
38 TraesCS6A01G078100 chr1B 93.204 103 5 2 126 228 633302448 633302348 2.060000e-32 150.0
39 TraesCS6A01G078100 chr1B 95.745 47 0 2 3270 3316 571173337 571173381 1.280000e-09 75.0
40 TraesCS6A01G078100 chr1B 83.824 68 6 4 2562 2625 683390490 683390424 3.580000e-05 60.2
41 TraesCS6A01G078100 chr4B 86.692 263 25 4 2987 3243 576392000 576391742 1.950000e-72 283.0
42 TraesCS6A01G078100 chr4B 82.230 287 32 14 2971 3244 42938430 42938150 2.580000e-56 230.0
43 TraesCS6A01G078100 chr4B 93.985 133 8 0 94 226 132845146 132845278 5.620000e-48 202.0
44 TraesCS6A01G078100 chr4B 94.059 101 6 0 126 226 557756948 557757048 1.600000e-33 154.0
45 TraesCS6A01G078100 chr4B 83.582 134 14 4 93 226 389462635 389462760 5.820000e-23 119.0
46 TraesCS6A01G078100 chr4B 86.441 59 5 3 2577 2634 277407996 277407940 9.950000e-06 62.1
47 TraesCS6A01G078100 chr5B 86.154 260 26 6 2985 3237 655261434 655261178 4.220000e-69 272.0
48 TraesCS6A01G078100 chr5B 97.710 131 3 0 96 226 547592176 547592306 3.330000e-55 226.0
49 TraesCS6A01G078100 chr5B 96.324 136 5 0 93 228 482410422 482410557 1.200000e-54 224.0
50 TraesCS6A01G078100 chr5B 100.000 42 0 0 3275 3316 142701501 142701460 9.880000e-11 78.7
51 TraesCS6A01G078100 chr5B 97.727 44 0 1 3273 3316 299731496 299731538 1.280000e-09 75.0
52 TraesCS6A01G078100 chr3B 84.444 270 29 8 2977 3237 821289825 821290090 1.530000e-63 254.0
53 TraesCS6A01G078100 chr3B 83.333 270 32 8 2977 3237 821439246 821439511 1.540000e-58 237.0
54 TraesCS6A01G078100 chr3B 97.674 43 1 0 3279 3321 156864047 156864005 1.280000e-09 75.0
55 TraesCS6A01G078100 chr2B 83.764 271 31 8 2978 3239 718577389 718577655 9.210000e-61 244.0
56 TraesCS6A01G078100 chr7A 99.237 131 1 0 96 226 128929376 128929246 1.540000e-58 237.0
57 TraesCS6A01G078100 chr1A 99.237 131 1 0 96 226 539740145 539740015 1.540000e-58 237.0
58 TraesCS6A01G078100 chr1A 98.462 130 2 0 97 226 579835580 579835451 2.580000e-56 230.0
59 TraesCS6A01G078100 chr1A 87.719 57 4 2 2585 2640 413795945 413795999 2.770000e-06 63.9
60 TraesCS6A01G078100 chr5A 93.960 149 4 4 80 226 15436697 15436842 1.550000e-53 220.0
61 TraesCS6A01G078100 chr5A 95.745 47 2 0 3270 3316 474540443 474540489 3.550000e-10 76.8
62 TraesCS6A01G078100 chr7B 94.928 138 7 0 96 233 181679002 181678865 2.010000e-52 217.0
63 TraesCS6A01G078100 chr7B 95.420 131 6 0 96 226 716022553 716022683 3.360000e-50 209.0
64 TraesCS6A01G078100 chr7B 85.567 97 12 2 2629 2723 608185592 608185688 2.110000e-17 100.0
65 TraesCS6A01G078100 chr7B 97.674 43 1 0 3275 3317 514167408 514167450 1.280000e-09 75.0
66 TraesCS6A01G078100 chr5D 89.781 137 14 0 90 226 504112689 504112825 3.410000e-40 176.0
67 TraesCS6A01G078100 chr5D 100.000 41 0 0 3276 3316 175290744 175290704 3.550000e-10 76.8
68 TraesCS6A01G078100 chr3D 93.694 111 6 1 126 235 564310000 564309890 7.370000e-37 165.0
69 TraesCS6A01G078100 chr6D 95.876 97 4 0 130 226 89705643 89705739 1.230000e-34 158.0
70 TraesCS6A01G078100 chr1D 100.000 41 0 0 3276 3316 104875400 104875360 3.550000e-10 76.8
71 TraesCS6A01G078100 chr4D 95.745 47 1 1 3271 3316 389092233 389092187 1.280000e-09 75.0


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G078100 chr6A 48054528 48057849 3321 True 6135.000000 6135 100.000000 1 3322 1 chr6A.!!$R1 3321
1 TraesCS6A01G078100 chr6A 48086674 48089267 2593 False 1297.000000 1890 89.643500 848 2863 2 chr6A.!!$F5 2015
2 TraesCS6A01G078100 chr6A 47884580 47886294 1714 False 1179.000000 1179 79.713000 839 2524 1 chr6A.!!$F2 1685
3 TraesCS6A01G078100 chr6A 48036640 48041289 4649 False 798.500000 1179 82.153000 814 2524 2 chr6A.!!$F4 1710
4 TraesCS6A01G078100 chr6A 47701868 47702790 922 False 573.000000 573 78.439000 834 1791 1 chr6A.!!$F1 957
5 TraesCS6A01G078100 chrUn 331176322 331178210 1888 False 2780.000000 2780 93.246000 1083 2977 1 chrUn.!!$F5 1894
6 TraesCS6A01G078100 chrUn 153389545 153392288 2743 False 2152.000000 3936 95.623500 249 3030 2 chrUn.!!$F7 2781
7 TraesCS6A01G078100 chrUn 153407787 153409882 2095 True 1397.500000 1596 90.948000 849 2919 2 chrUn.!!$R4 2070
8 TraesCS6A01G078100 chrUn 153377883 153380582 2699 False 1326.666667 2817 93.347333 539 3280 3 chrUn.!!$F6 2741
9 TraesCS6A01G078100 chrUn 143846875 143848582 1707 False 1284.000000 1284 80.771000 839 2525 1 chrUn.!!$F2 1686
10 TraesCS6A01G078100 chrUn 26732773 26734355 1582 False 1181.000000 1181 80.489000 851 2460 1 chrUn.!!$F1 1609
11 TraesCS6A01G078100 chrUn 153493180 153494816 1636 True 1029.000000 1029 78.636000 906 2524 1 chrUn.!!$R2 1618
12 TraesCS6A01G078100 chrUn 143908294 143909960 1666 False 880.000000 880 76.896000 900 2524 1 chrUn.!!$F3 1624
13 TraesCS6A01G078100 chrUn 153519812 153520919 1107 True 854.000000 854 80.957000 902 2031 1 chrUn.!!$R3 1129
14 TraesCS6A01G078100 chrUn 26524473 26525608 1135 True 821.000000 821 80.190000 834 1959 1 chrUn.!!$R1 1125
15 TraesCS6A01G078100 chrUn 153435055 153438387 3332 True 687.500000 1107 85.065500 814 2311 2 chrUn.!!$R5 1497
16 TraesCS6A01G078100 chr6B 84563848 84568126 4278 False 1822.500000 3312 91.539000 705 2977 2 chr6B.!!$F3 2272
17 TraesCS6A01G078100 chr6B 83126867 83127923 1056 True 750.000000 750 79.795000 906 1962 1 chr6B.!!$R1 1056
18 TraesCS6A01G078100 chr7D 560222366 560223911 1545 False 527.000000 527 73.831000 906 2414 1 chr7D.!!$F2 1508

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
114 115 0.034059 AGGCTGTGTTCGGTTGAGAG 59.966 55.0 0.00 0.0 0.0 3.20 F
194 195 0.105504 CCCCAAATCCCCTCCAATCC 60.106 60.0 0.00 0.0 0.0 3.01 F
202 203 0.257039 CCCCTCCAATCCTCTTGTGG 59.743 60.0 0.00 0.0 0.0 4.17 F
1717 4558 0.105964 AGGTAGCAGCAACGTTGTCA 59.894 50.0 27.78 7.6 0.0 3.58 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1359 3567 0.182299 GAGCTTCCTGAGATTGGGGG 59.818 60.000 0.0 0.0 0.00 5.40 R
1371 3579 1.239347 GTGAAACAGGGTGAGCTTCC 58.761 55.000 0.0 0.0 36.32 3.46 R
1736 4581 1.820906 CATCTGCATGTCGGGGTGG 60.821 63.158 0.0 0.0 0.00 4.61 R
3273 8455 1.132657 TGGGACAGAGGGAGTACCAAA 60.133 52.381 0.0 0.0 46.79 3.28 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
24 25 7.615582 TCTAGATGCTTTTGTATTTCTGGTG 57.384 36.000 0.00 0.00 0.00 4.17
25 26 7.394016 TCTAGATGCTTTTGTATTTCTGGTGA 58.606 34.615 0.00 0.00 0.00 4.02
26 27 6.899393 AGATGCTTTTGTATTTCTGGTGAA 57.101 33.333 0.00 0.00 0.00 3.18
28 29 6.491403 AGATGCTTTTGTATTTCTGGTGAACT 59.509 34.615 0.00 0.00 31.02 3.01
29 30 6.463995 TGCTTTTGTATTTCTGGTGAACTT 57.536 33.333 0.00 0.00 31.02 2.66
30 31 6.872920 TGCTTTTGTATTTCTGGTGAACTTT 58.127 32.000 0.00 0.00 31.02 2.66
31 32 7.327214 TGCTTTTGTATTTCTGGTGAACTTTT 58.673 30.769 0.00 0.00 31.02 2.27
32 33 7.821846 TGCTTTTGTATTTCTGGTGAACTTTTT 59.178 29.630 0.00 0.00 31.02 1.94
33 34 9.308318 GCTTTTGTATTTCTGGTGAACTTTTTA 57.692 29.630 0.00 0.00 31.02 1.52
43 44 9.443323 TTCTGGTGAACTTTTTATAATCGATCA 57.557 29.630 0.00 0.00 0.00 2.92
44 45 9.613428 TCTGGTGAACTTTTTATAATCGATCAT 57.387 29.630 0.00 0.00 0.00 2.45
96 97 4.769345 AAAATCTCCAGGCCTCTCTAAG 57.231 45.455 0.00 0.00 0.00 2.18
106 107 2.285827 CCTCTCTAAGGCTGTGTTCG 57.714 55.000 0.00 0.00 38.67 3.95
108 109 1.546476 CTCTCTAAGGCTGTGTTCGGT 59.454 52.381 0.00 0.00 0.00 4.69
110 111 2.069273 CTCTAAGGCTGTGTTCGGTTG 58.931 52.381 0.00 0.00 0.00 3.77
111 112 1.689813 TCTAAGGCTGTGTTCGGTTGA 59.310 47.619 0.00 0.00 0.00 3.18
112 113 2.069273 CTAAGGCTGTGTTCGGTTGAG 58.931 52.381 0.00 0.00 0.00 3.02
113 114 0.468226 AAGGCTGTGTTCGGTTGAGA 59.532 50.000 0.00 0.00 0.00 3.27
114 115 0.034059 AGGCTGTGTTCGGTTGAGAG 59.966 55.000 0.00 0.00 0.00 3.20
115 116 0.951040 GGCTGTGTTCGGTTGAGAGG 60.951 60.000 0.00 0.00 0.00 3.69
116 117 0.951040 GCTGTGTTCGGTTGAGAGGG 60.951 60.000 0.00 0.00 0.00 4.30
117 118 0.679505 CTGTGTTCGGTTGAGAGGGA 59.320 55.000 0.00 0.00 0.00 4.20
118 119 1.276421 CTGTGTTCGGTTGAGAGGGAT 59.724 52.381 0.00 0.00 0.00 3.85
119 120 1.697432 TGTGTTCGGTTGAGAGGGATT 59.303 47.619 0.00 0.00 0.00 3.01
121 122 1.974957 TGTTCGGTTGAGAGGGATTCA 59.025 47.619 0.00 0.00 0.00 2.57
122 123 2.370519 TGTTCGGTTGAGAGGGATTCAA 59.629 45.455 0.00 0.00 32.44 2.69
123 124 3.181449 TGTTCGGTTGAGAGGGATTCAAA 60.181 43.478 0.00 0.00 36.41 2.69
124 125 3.334583 TCGGTTGAGAGGGATTCAAAG 57.665 47.619 0.00 0.00 36.41 2.77
125 126 2.027192 TCGGTTGAGAGGGATTCAAAGG 60.027 50.000 0.00 0.00 36.41 3.11
126 127 2.728007 GGTTGAGAGGGATTCAAAGGG 58.272 52.381 0.00 0.00 36.41 3.95
129 130 1.299939 GAGAGGGATTCAAAGGGGGT 58.700 55.000 0.00 0.00 0.00 4.95
130 131 1.641192 GAGAGGGATTCAAAGGGGGTT 59.359 52.381 0.00 0.00 0.00 4.11
131 132 2.043115 GAGAGGGATTCAAAGGGGGTTT 59.957 50.000 0.00 0.00 0.00 3.27
132 133 2.179427 GAGGGATTCAAAGGGGGTTTG 58.821 52.381 0.00 0.00 46.17 2.93
134 135 0.613260 GGATTCAAAGGGGGTTTGGC 59.387 55.000 0.00 0.00 45.05 4.52
135 136 1.347062 GATTCAAAGGGGGTTTGGCA 58.653 50.000 0.00 0.00 45.05 4.92
137 138 0.762461 TTCAAAGGGGGTTTGGCAGG 60.762 55.000 0.00 0.00 45.05 4.85
138 139 2.204034 AAAGGGGGTTTGGCAGGG 59.796 61.111 0.00 0.00 0.00 4.45
139 140 2.408203 AAAGGGGGTTTGGCAGGGA 61.408 57.895 0.00 0.00 0.00 4.20
141 142 1.750087 AAGGGGGTTTGGCAGGGATT 61.750 55.000 0.00 0.00 0.00 3.01
142 143 1.989508 GGGGGTTTGGCAGGGATTG 60.990 63.158 0.00 0.00 0.00 2.67
143 144 1.078347 GGGGTTTGGCAGGGATTGA 59.922 57.895 0.00 0.00 0.00 2.57
144 145 0.544120 GGGGTTTGGCAGGGATTGAA 60.544 55.000 0.00 0.00 0.00 2.69
146 147 1.632589 GGTTTGGCAGGGATTGAAGT 58.367 50.000 0.00 0.00 0.00 3.01
147 148 1.273327 GGTTTGGCAGGGATTGAAGTG 59.727 52.381 0.00 0.00 0.00 3.16
148 149 1.273327 GTTTGGCAGGGATTGAAGTGG 59.727 52.381 0.00 0.00 0.00 4.00
150 151 1.002069 TGGCAGGGATTGAAGTGGAT 58.998 50.000 0.00 0.00 0.00 3.41
151 152 1.358787 TGGCAGGGATTGAAGTGGATT 59.641 47.619 0.00 0.00 0.00 3.01
152 153 2.225343 TGGCAGGGATTGAAGTGGATTT 60.225 45.455 0.00 0.00 0.00 2.17
153 154 3.011144 TGGCAGGGATTGAAGTGGATTTA 59.989 43.478 0.00 0.00 0.00 1.40
154 155 4.023291 GGCAGGGATTGAAGTGGATTTAA 58.977 43.478 0.00 0.00 0.00 1.52
155 156 4.651045 GGCAGGGATTGAAGTGGATTTAAT 59.349 41.667 0.00 0.00 30.25 1.40
156 157 5.221322 GGCAGGGATTGAAGTGGATTTAATC 60.221 44.000 0.00 0.00 41.11 1.75
169 170 5.659440 GGATTTAATCCCTTGCAAGTCAA 57.341 39.130 24.35 10.08 43.88 3.18
170 171 6.036577 GGATTTAATCCCTTGCAAGTCAAA 57.963 37.500 24.35 15.50 43.88 2.69
171 172 6.463360 GGATTTAATCCCTTGCAAGTCAAAA 58.537 36.000 24.35 16.08 43.88 2.44
173 174 3.751479 AATCCCTTGCAAGTCAAAACC 57.249 42.857 24.35 0.00 33.65 3.27
174 175 2.452600 TCCCTTGCAAGTCAAAACCT 57.547 45.000 24.35 0.00 33.65 3.50
175 176 2.306847 TCCCTTGCAAGTCAAAACCTC 58.693 47.619 24.35 0.00 33.65 3.85
179 180 0.260230 TGCAAGTCAAAACCTCCCCA 59.740 50.000 0.00 0.00 0.00 4.96
180 181 1.342474 TGCAAGTCAAAACCTCCCCAA 60.342 47.619 0.00 0.00 0.00 4.12
181 182 1.760029 GCAAGTCAAAACCTCCCCAAA 59.240 47.619 0.00 0.00 0.00 3.28
182 183 2.368548 GCAAGTCAAAACCTCCCCAAAT 59.631 45.455 0.00 0.00 0.00 2.32
184 185 2.889512 AGTCAAAACCTCCCCAAATCC 58.110 47.619 0.00 0.00 0.00 3.01
185 186 1.899814 GTCAAAACCTCCCCAAATCCC 59.100 52.381 0.00 0.00 0.00 3.85
187 188 1.176182 AAAACCTCCCCAAATCCCCT 58.824 50.000 0.00 0.00 0.00 4.79
188 189 0.710588 AAACCTCCCCAAATCCCCTC 59.289 55.000 0.00 0.00 0.00 4.30
190 191 1.622442 CCTCCCCAAATCCCCTCCA 60.622 63.158 0.00 0.00 0.00 3.86
192 193 0.936691 CTCCCCAAATCCCCTCCAAT 59.063 55.000 0.00 0.00 0.00 3.16
193 194 0.933700 TCCCCAAATCCCCTCCAATC 59.066 55.000 0.00 0.00 0.00 2.67
194 195 0.105504 CCCCAAATCCCCTCCAATCC 60.106 60.000 0.00 0.00 0.00 3.01
195 196 0.936691 CCCAAATCCCCTCCAATCCT 59.063 55.000 0.00 0.00 0.00 3.24
198 199 2.245806 CCAAATCCCCTCCAATCCTCTT 59.754 50.000 0.00 0.00 0.00 2.85
200 201 2.293598 ATCCCCTCCAATCCTCTTGT 57.706 50.000 0.00 0.00 0.00 3.16
201 202 1.289160 TCCCCTCCAATCCTCTTGTG 58.711 55.000 0.00 0.00 0.00 3.33
202 203 0.257039 CCCCTCCAATCCTCTTGTGG 59.743 60.000 0.00 0.00 0.00 4.17
203 204 1.289160 CCCTCCAATCCTCTTGTGGA 58.711 55.000 0.00 0.00 39.14 4.02
214 215 1.003233 CTCTTGTGGAGGGGTGTAACC 59.997 57.143 0.00 0.00 44.66 2.85
215 216 4.562142 CTCTTGTGGAGGGGTGTAACCG 62.562 59.091 0.00 0.00 45.67 4.44
225 226 3.317449 GTGTAACCGAACAAGGCCT 57.683 52.632 0.00 0.00 33.69 5.19
226 227 2.460757 GTGTAACCGAACAAGGCCTA 57.539 50.000 5.16 0.00 33.69 3.93
229 230 3.754850 GTGTAACCGAACAAGGCCTAAAT 59.245 43.478 5.16 0.00 33.69 1.40
230 231 3.754323 TGTAACCGAACAAGGCCTAAATG 59.246 43.478 5.16 2.75 33.69 2.32
231 232 2.871096 ACCGAACAAGGCCTAAATGA 57.129 45.000 5.16 0.00 33.69 2.57
232 233 2.711542 ACCGAACAAGGCCTAAATGAG 58.288 47.619 5.16 0.00 33.69 2.90
234 235 3.054361 ACCGAACAAGGCCTAAATGAGAT 60.054 43.478 5.16 0.00 33.69 2.75
236 237 4.752101 CCGAACAAGGCCTAAATGAGATAG 59.248 45.833 5.16 0.00 0.00 2.08
237 238 4.752101 CGAACAAGGCCTAAATGAGATAGG 59.248 45.833 5.16 0.00 42.41 2.57
239 240 5.975988 ACAAGGCCTAAATGAGATAGGAA 57.024 39.130 5.16 0.00 42.16 3.36
240 241 5.934781 ACAAGGCCTAAATGAGATAGGAAG 58.065 41.667 5.16 0.00 42.16 3.46
242 243 6.183361 ACAAGGCCTAAATGAGATAGGAAGAG 60.183 42.308 5.16 0.00 42.16 2.85
243 244 4.285775 AGGCCTAAATGAGATAGGAAGAGC 59.714 45.833 1.29 0.00 42.16 4.09
244 245 4.040952 GGCCTAAATGAGATAGGAAGAGCA 59.959 45.833 0.00 0.00 42.16 4.26
246 247 5.453903 GCCTAAATGAGATAGGAAGAGCACA 60.454 44.000 3.83 0.00 42.16 4.57
247 248 6.743773 GCCTAAATGAGATAGGAAGAGCACAT 60.744 42.308 3.83 0.00 42.16 3.21
254 255 7.971201 TGAGATAGGAAGAGCACATTATGATT 58.029 34.615 0.00 0.00 0.00 2.57
260 261 6.830324 AGGAAGAGCACATTATGATTGCTTTA 59.170 34.615 10.85 0.00 46.62 1.85
261 262 7.504911 AGGAAGAGCACATTATGATTGCTTTAT 59.495 33.333 10.85 2.50 46.62 1.40
327 328 4.535781 CATCAACTAATGATCCCCAACCA 58.464 43.478 0.00 0.00 45.91 3.67
344 345 3.758931 AAATTCAAGCGGCGCCCC 61.759 61.111 30.40 13.23 0.00 5.80
474 475 3.632080 TCCCGGGCGTGTTGTGAT 61.632 61.111 18.49 0.00 0.00 3.06
476 477 2.265182 CCCGGGCGTGTTGTGATTT 61.265 57.895 8.08 0.00 0.00 2.17
478 479 1.652012 CGGGCGTGTTGTGATTTGT 59.348 52.632 0.00 0.00 0.00 2.83
479 480 0.660005 CGGGCGTGTTGTGATTTGTG 60.660 55.000 0.00 0.00 0.00 3.33
481 482 1.066303 GGGCGTGTTGTGATTTGTGAA 59.934 47.619 0.00 0.00 0.00 3.18
482 483 2.288152 GGGCGTGTTGTGATTTGTGAAT 60.288 45.455 0.00 0.00 0.00 2.57
483 484 2.725723 GGCGTGTTGTGATTTGTGAATG 59.274 45.455 0.00 0.00 0.00 2.67
485 486 4.041049 GCGTGTTGTGATTTGTGAATGAA 58.959 39.130 0.00 0.00 0.00 2.57
486 487 4.681025 GCGTGTTGTGATTTGTGAATGAAT 59.319 37.500 0.00 0.00 0.00 2.57
488 489 6.362016 GCGTGTTGTGATTTGTGAATGAATAA 59.638 34.615 0.00 0.00 0.00 1.40
491 492 8.905702 GTGTTGTGATTTGTGAATGAATAAGTC 58.094 33.333 0.00 0.00 0.00 3.01
492 493 7.802720 TGTTGTGATTTGTGAATGAATAAGTCG 59.197 33.333 0.00 0.00 0.00 4.18
493 494 7.665561 TGTGATTTGTGAATGAATAAGTCGA 57.334 32.000 0.00 0.00 0.00 4.20
494 495 8.093659 TGTGATTTGTGAATGAATAAGTCGAA 57.906 30.769 0.00 0.00 0.00 3.71
497 498 5.524511 TTGTGAATGAATAAGTCGAACCG 57.475 39.130 0.00 0.00 0.00 4.44
498 499 4.562082 TGTGAATGAATAAGTCGAACCGT 58.438 39.130 0.00 0.00 0.00 4.83
499 500 4.624024 TGTGAATGAATAAGTCGAACCGTC 59.376 41.667 0.00 0.00 0.00 4.79
500 501 4.863131 GTGAATGAATAAGTCGAACCGTCT 59.137 41.667 0.00 0.00 0.00 4.18
501 502 6.032094 GTGAATGAATAAGTCGAACCGTCTA 58.968 40.000 0.00 0.00 0.00 2.59
502 503 6.696148 GTGAATGAATAAGTCGAACCGTCTAT 59.304 38.462 0.00 0.00 0.00 1.98
503 504 7.222224 GTGAATGAATAAGTCGAACCGTCTATT 59.778 37.037 0.00 0.00 0.00 1.73
504 505 7.434307 TGAATGAATAAGTCGAACCGTCTATTC 59.566 37.037 0.00 0.00 0.00 1.75
506 507 5.125900 TGAATAAGTCGAACCGTCTATTCCA 59.874 40.000 0.00 0.00 0.00 3.53
507 508 5.786264 ATAAGTCGAACCGTCTATTCCAT 57.214 39.130 0.00 0.00 0.00 3.41
508 509 4.467198 AAGTCGAACCGTCTATTCCATT 57.533 40.909 0.00 0.00 0.00 3.16
509 510 4.043037 AGTCGAACCGTCTATTCCATTC 57.957 45.455 0.00 0.00 0.00 2.67
511 512 2.761767 TCGAACCGTCTATTCCATTCCA 59.238 45.455 0.00 0.00 0.00 3.53
512 513 3.386726 TCGAACCGTCTATTCCATTCCAT 59.613 43.478 0.00 0.00 0.00 3.41
513 514 4.127171 CGAACCGTCTATTCCATTCCATT 58.873 43.478 0.00 0.00 0.00 3.16
514 515 4.024893 CGAACCGTCTATTCCATTCCATTG 60.025 45.833 0.00 0.00 0.00 2.82
516 517 5.310409 ACCGTCTATTCCATTCCATTGAT 57.690 39.130 0.00 0.00 0.00 2.57
517 518 5.065914 ACCGTCTATTCCATTCCATTGATG 58.934 41.667 0.00 0.00 0.00 3.07
519 520 5.942236 CCGTCTATTCCATTCCATTGATGAT 59.058 40.000 0.00 0.00 0.00 2.45
520 521 6.432162 CCGTCTATTCCATTCCATTGATGATT 59.568 38.462 0.00 0.00 0.00 2.57
563 573 1.593209 GAACAGCCACGTCCGTTCA 60.593 57.895 9.73 0.00 38.09 3.18
780 2801 2.654863 CATCCCCATAAACCCAGTGAC 58.345 52.381 0.00 0.00 0.00 3.67
794 2815 1.008881 GTGACAGTGTGAGACGCGA 60.009 57.895 15.93 0.00 33.01 5.87
795 2816 0.999228 GTGACAGTGTGAGACGCGAG 60.999 60.000 15.93 0.00 33.01 5.03
809 2830 3.458163 CGAGCTTACCCCTCGCCA 61.458 66.667 0.00 0.00 44.53 5.69
915 2975 0.886490 GGCGGCGAGGATTTCATCAT 60.886 55.000 12.98 0.00 0.00 2.45
1126 3244 4.166539 CTGTCTCCCAGATAATCTCCCAT 58.833 47.826 0.00 0.00 44.49 4.00
1132 3250 3.008813 CCCAGATAATCTCCCATCACCAG 59.991 52.174 0.00 0.00 0.00 4.00
1135 3253 1.140312 TAATCTCCCATCACCAGGGC 58.860 55.000 0.00 0.00 46.36 5.19
1359 3567 1.447317 ATCGTGCCGGCCATGAATTC 61.447 55.000 26.77 0.00 42.45 2.17
1371 3579 3.228453 CCATGAATTCCCCCAATCTCAG 58.772 50.000 2.27 0.00 0.00 3.35
1624 4424 2.120232 GGAAGCGATCGTGTGACTATG 58.880 52.381 17.81 0.00 0.00 2.23
1717 4558 0.105964 AGGTAGCAGCAACGTTGTCA 59.894 50.000 27.78 7.60 0.00 3.58
1718 4559 1.156736 GGTAGCAGCAACGTTGTCAT 58.843 50.000 27.78 12.81 0.00 3.06
1719 4560 2.028476 AGGTAGCAGCAACGTTGTCATA 60.028 45.455 27.78 13.75 0.00 2.15
1736 4581 6.471976 TGTCATATCTAATCTTGCATTCGC 57.528 37.500 0.00 0.00 39.24 4.70
1817 4689 2.035442 GGTCAGCTCGGCAAACTCC 61.035 63.158 0.00 0.00 0.00 3.85
1883 4755 3.508793 AGCTGCATGCAGTTCTTAACATT 59.491 39.130 39.95 15.79 45.24 2.71
2095 4989 2.221749 CACTACATCCAATCGAATGCCG 59.778 50.000 0.00 0.00 40.25 5.69
2213 5107 6.363088 TGCTAGACAAAATTGAATTTGAAGCG 59.637 34.615 3.62 0.00 41.73 4.68
2418 5326 5.163612 GGGTTAATGCCTGAAGATTGAAGTC 60.164 44.000 0.00 0.00 0.00 3.01
2449 5364 5.739070 GCTCATTCGGTAGATGGTGTTGATA 60.739 44.000 0.00 0.00 0.00 2.15
2460 5375 7.437713 AGATGGTGTTGATACCTGAAGATTA 57.562 36.000 0.00 0.00 41.43 1.75
2748 6224 6.691754 TCATGCTTGTCAACTTGTTTTCTA 57.308 33.333 0.00 0.00 0.00 2.10
2753 6229 7.990917 TGCTTGTCAACTTGTTTTCTACATTA 58.009 30.769 0.00 0.00 36.44 1.90
2885 6370 5.478679 AGAAGAGATCCGAGTTCTTGAAAGA 59.521 40.000 0.00 0.00 31.67 2.52
2943 7495 3.370061 GGACGTGCATAGTTTTCCAGTAC 59.630 47.826 0.63 0.00 0.00 2.73
2983 7535 7.208064 AGAGCTATGGTGTTTTTATTAGGGA 57.792 36.000 0.00 0.00 0.00 4.20
3048 7600 8.468399 TGCATGTATGATGACAATAAAACATGT 58.532 29.630 16.19 0.00 42.96 3.21
3066 7618 9.693739 AAAACATGTATACAATGGGTTATCTCA 57.306 29.630 10.14 0.00 0.00 3.27
3205 8387 6.327626 ACACCTCAGCAATTATCCTATGTAGT 59.672 38.462 0.00 0.00 0.00 2.73
3209 8391 5.991606 TCAGCAATTATCCTATGTAGTGCAC 59.008 40.000 9.40 9.40 33.21 4.57
3273 8455 0.673437 CAAAACAGGGTGGCGAACAT 59.327 50.000 0.00 0.00 0.00 2.71
3280 8462 0.524414 GGGTGGCGAACATTTGGTAC 59.476 55.000 0.00 0.00 0.00 3.34
3281 8463 1.530323 GGTGGCGAACATTTGGTACT 58.470 50.000 0.00 0.00 0.00 2.73
3283 8465 1.467342 GTGGCGAACATTTGGTACTCC 59.533 52.381 0.00 0.00 0.00 3.85
3285 8467 1.339727 GGCGAACATTTGGTACTCCCT 60.340 52.381 0.00 0.00 0.00 4.20
3286 8468 2.007608 GCGAACATTTGGTACTCCCTC 58.992 52.381 0.00 0.00 0.00 4.30
3287 8469 2.354805 GCGAACATTTGGTACTCCCTCT 60.355 50.000 0.00 0.00 0.00 3.69
3288 8470 3.262420 CGAACATTTGGTACTCCCTCTG 58.738 50.000 0.00 0.00 0.00 3.35
3289 8471 3.306780 CGAACATTTGGTACTCCCTCTGT 60.307 47.826 0.00 0.00 0.00 3.41
3290 8472 3.983044 ACATTTGGTACTCCCTCTGTC 57.017 47.619 0.00 0.00 0.00 3.51
3293 8475 0.490017 TTGGTACTCCCTCTGTCCCA 59.510 55.000 0.00 0.00 0.00 4.37
3294 8476 0.716591 TGGTACTCCCTCTGTCCCAT 59.283 55.000 0.00 0.00 0.00 4.00
3295 8477 1.934480 TGGTACTCCCTCTGTCCCATA 59.066 52.381 0.00 0.00 0.00 2.74
3296 8478 2.316677 TGGTACTCCCTCTGTCCCATAA 59.683 50.000 0.00 0.00 0.00 1.90
3297 8479 3.051341 TGGTACTCCCTCTGTCCCATAAT 60.051 47.826 0.00 0.00 0.00 1.28
3298 8480 4.171243 TGGTACTCCCTCTGTCCCATAATA 59.829 45.833 0.00 0.00 0.00 0.98
3299 8481 5.162760 TGGTACTCCCTCTGTCCCATAATAT 60.163 44.000 0.00 0.00 0.00 1.28
3300 8482 6.047479 TGGTACTCCCTCTGTCCCATAATATA 59.953 42.308 0.00 0.00 0.00 0.86
3302 8484 7.124448 GGTACTCCCTCTGTCCCATAATATAAG 59.876 44.444 0.00 0.00 0.00 1.73
3303 8485 6.875469 ACTCCCTCTGTCCCATAATATAAGA 58.125 40.000 0.00 0.00 0.00 2.10
3304 8486 7.313731 ACTCCCTCTGTCCCATAATATAAGAA 58.686 38.462 0.00 0.00 0.00 2.52
3306 8488 6.210784 TCCCTCTGTCCCATAATATAAGAACG 59.789 42.308 0.00 0.00 0.00 3.95
3308 8490 7.442656 CCTCTGTCCCATAATATAAGAACGTT 58.557 38.462 0.00 0.00 0.00 3.99
3309 8491 7.931948 CCTCTGTCCCATAATATAAGAACGTTT 59.068 37.037 0.46 0.00 0.00 3.60
3310 8492 9.326413 CTCTGTCCCATAATATAAGAACGTTTT 57.674 33.333 0.46 0.00 0.00 2.43
3311 8493 9.675464 TCTGTCCCATAATATAAGAACGTTTTT 57.325 29.630 9.22 9.22 0.00 1.94
3312 8494 9.716507 CTGTCCCATAATATAAGAACGTTTTTG 57.283 33.333 13.87 0.00 0.00 2.44
3313 8495 9.451002 TGTCCCATAATATAAGAACGTTTTTGA 57.549 29.630 13.87 2.81 0.00 2.69
3314 8496 9.712359 GTCCCATAATATAAGAACGTTTTTGAC 57.288 33.333 13.87 5.89 0.00 3.18
3315 8497 9.451002 TCCCATAATATAAGAACGTTTTTGACA 57.549 29.630 13.87 0.01 0.00 3.58
3319 8501 7.775729 AATATAAGAACGTTTTTGACAAGCG 57.224 32.000 13.87 7.14 0.00 4.68
3320 8502 3.481112 AAGAACGTTTTTGACAAGCGT 57.519 38.095 0.46 8.15 37.38 5.07
3321 8503 4.603231 AAGAACGTTTTTGACAAGCGTA 57.397 36.364 0.46 0.00 35.22 4.42
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.394016 TCACCAGAAATACAAAAGCATCTAGA 58.606 34.615 0.00 0.00 0.00 2.43
2 3 7.665559 AGTTCACCAGAAATACAAAAGCATCTA 59.334 33.333 0.00 0.00 35.08 1.98
4 5 6.681777 AGTTCACCAGAAATACAAAAGCATC 58.318 36.000 0.00 0.00 35.08 3.91
6 7 6.463995 AAGTTCACCAGAAATACAAAAGCA 57.536 33.333 0.00 0.00 35.08 3.91
7 8 7.770801 AAAAGTTCACCAGAAATACAAAAGC 57.229 32.000 0.00 0.00 35.08 3.51
17 18 9.443323 TGATCGATTATAAAAAGTTCACCAGAA 57.557 29.630 0.00 0.00 0.00 3.02
18 19 9.613428 ATGATCGATTATAAAAAGTTCACCAGA 57.387 29.630 0.00 0.00 0.00 3.86
75 76 3.457749 CCTTAGAGAGGCCTGGAGATTTT 59.542 47.826 12.00 0.00 39.09 1.82
77 78 2.688477 CCTTAGAGAGGCCTGGAGATT 58.312 52.381 12.00 0.00 39.09 2.40
79 80 3.935371 CCTTAGAGAGGCCTGGAGA 57.065 57.895 12.00 0.00 39.09 3.71
89 90 1.629043 ACCGAACACAGCCTTAGAGA 58.371 50.000 0.00 0.00 0.00 3.10
91 92 1.689813 TCAACCGAACACAGCCTTAGA 59.310 47.619 0.00 0.00 0.00 2.10
92 93 2.069273 CTCAACCGAACACAGCCTTAG 58.931 52.381 0.00 0.00 0.00 2.18
94 95 0.468226 TCTCAACCGAACACAGCCTT 59.532 50.000 0.00 0.00 0.00 4.35
95 96 0.034059 CTCTCAACCGAACACAGCCT 59.966 55.000 0.00 0.00 0.00 4.58
96 97 0.951040 CCTCTCAACCGAACACAGCC 60.951 60.000 0.00 0.00 0.00 4.85
97 98 0.951040 CCCTCTCAACCGAACACAGC 60.951 60.000 0.00 0.00 0.00 4.40
99 100 1.348064 ATCCCTCTCAACCGAACACA 58.652 50.000 0.00 0.00 0.00 3.72
100 101 2.289444 TGAATCCCTCTCAACCGAACAC 60.289 50.000 0.00 0.00 0.00 3.32
101 102 1.974957 TGAATCCCTCTCAACCGAACA 59.025 47.619 0.00 0.00 0.00 3.18
102 103 2.762535 TGAATCCCTCTCAACCGAAC 57.237 50.000 0.00 0.00 0.00 3.95
103 104 3.559171 CCTTTGAATCCCTCTCAACCGAA 60.559 47.826 0.00 0.00 32.61 4.30
104 105 2.027192 CCTTTGAATCCCTCTCAACCGA 60.027 50.000 0.00 0.00 32.61 4.69
106 107 2.621668 CCCCTTTGAATCCCTCTCAACC 60.622 54.545 0.00 0.00 32.61 3.77
108 109 1.640670 CCCCCTTTGAATCCCTCTCAA 59.359 52.381 0.00 0.00 0.00 3.02
110 111 1.299939 ACCCCCTTTGAATCCCTCTC 58.700 55.000 0.00 0.00 0.00 3.20
111 112 1.773541 AACCCCCTTTGAATCCCTCT 58.226 50.000 0.00 0.00 0.00 3.69
112 113 2.179427 CAAACCCCCTTTGAATCCCTC 58.821 52.381 0.00 0.00 41.81 4.30
113 114 1.203300 CCAAACCCCCTTTGAATCCCT 60.203 52.381 0.00 0.00 41.81 4.20
114 115 1.275666 CCAAACCCCCTTTGAATCCC 58.724 55.000 0.00 0.00 41.81 3.85
115 116 0.613260 GCCAAACCCCCTTTGAATCC 59.387 55.000 0.00 0.00 41.81 3.01
116 117 1.276138 CTGCCAAACCCCCTTTGAATC 59.724 52.381 0.00 0.00 41.81 2.52
117 118 1.351076 CTGCCAAACCCCCTTTGAAT 58.649 50.000 0.00 0.00 41.81 2.57
118 119 0.762461 CCTGCCAAACCCCCTTTGAA 60.762 55.000 0.00 0.00 41.81 2.69
119 120 1.152355 CCTGCCAAACCCCCTTTGA 60.152 57.895 0.00 0.00 41.81 2.69
121 122 1.750087 ATCCCTGCCAAACCCCCTTT 61.750 55.000 0.00 0.00 0.00 3.11
122 123 1.750087 AATCCCTGCCAAACCCCCTT 61.750 55.000 0.00 0.00 0.00 3.95
123 124 2.176812 AATCCCTGCCAAACCCCCT 61.177 57.895 0.00 0.00 0.00 4.79
124 125 1.989508 CAATCCCTGCCAAACCCCC 60.990 63.158 0.00 0.00 0.00 5.40
125 126 0.544120 TTCAATCCCTGCCAAACCCC 60.544 55.000 0.00 0.00 0.00 4.95
126 127 0.897621 CTTCAATCCCTGCCAAACCC 59.102 55.000 0.00 0.00 0.00 4.11
129 130 1.146774 TCCACTTCAATCCCTGCCAAA 59.853 47.619 0.00 0.00 0.00 3.28
130 131 0.776810 TCCACTTCAATCCCTGCCAA 59.223 50.000 0.00 0.00 0.00 4.52
131 132 1.002069 ATCCACTTCAATCCCTGCCA 58.998 50.000 0.00 0.00 0.00 4.92
132 133 2.149973 AATCCACTTCAATCCCTGCC 57.850 50.000 0.00 0.00 0.00 4.85
144 145 8.618033 TTTGACTTGCAAGGGATTAAATCCACT 61.618 37.037 29.18 3.75 42.49 4.00
146 147 5.541868 TTTGACTTGCAAGGGATTAAATCCA 59.458 36.000 29.18 5.37 42.49 3.41
147 148 6.036577 TTTGACTTGCAAGGGATTAAATCC 57.963 37.500 29.18 0.00 39.39 3.01
148 149 6.368791 GGTTTTGACTTGCAAGGGATTAAATC 59.631 38.462 29.18 16.95 37.87 2.17
150 151 5.365314 AGGTTTTGACTTGCAAGGGATTAAA 59.635 36.000 29.18 18.00 37.87 1.52
151 152 4.898861 AGGTTTTGACTTGCAAGGGATTAA 59.101 37.500 29.18 13.81 37.87 1.40
152 153 4.479158 AGGTTTTGACTTGCAAGGGATTA 58.521 39.130 29.18 9.74 37.87 1.75
153 154 3.308401 AGGTTTTGACTTGCAAGGGATT 58.692 40.909 29.18 9.27 37.87 3.01
154 155 2.893489 GAGGTTTTGACTTGCAAGGGAT 59.107 45.455 29.18 9.67 37.87 3.85
155 156 2.306847 GAGGTTTTGACTTGCAAGGGA 58.693 47.619 29.18 13.09 37.87 4.20
156 157 1.341209 GGAGGTTTTGACTTGCAAGGG 59.659 52.381 29.18 7.81 37.87 3.95
157 158 1.341209 GGGAGGTTTTGACTTGCAAGG 59.659 52.381 29.18 12.28 37.87 3.61
158 159 1.341209 GGGGAGGTTTTGACTTGCAAG 59.659 52.381 24.84 24.84 37.87 4.01
159 160 1.342474 TGGGGAGGTTTTGACTTGCAA 60.342 47.619 0.00 0.00 33.88 4.08
162 163 3.006859 GGATTTGGGGAGGTTTTGACTTG 59.993 47.826 0.00 0.00 0.00 3.16
163 164 3.239449 GGATTTGGGGAGGTTTTGACTT 58.761 45.455 0.00 0.00 0.00 3.01
164 165 2.492753 GGGATTTGGGGAGGTTTTGACT 60.493 50.000 0.00 0.00 0.00 3.41
165 166 1.899814 GGGATTTGGGGAGGTTTTGAC 59.100 52.381 0.00 0.00 0.00 3.18
166 167 1.203250 GGGGATTTGGGGAGGTTTTGA 60.203 52.381 0.00 0.00 0.00 2.69
167 168 1.203300 AGGGGATTTGGGGAGGTTTTG 60.203 52.381 0.00 0.00 0.00 2.44
168 169 1.078823 GAGGGGATTTGGGGAGGTTTT 59.921 52.381 0.00 0.00 0.00 2.43
169 170 0.710588 GAGGGGATTTGGGGAGGTTT 59.289 55.000 0.00 0.00 0.00 3.27
170 171 1.221909 GGAGGGGATTTGGGGAGGTT 61.222 60.000 0.00 0.00 0.00 3.50
171 172 1.622752 GGAGGGGATTTGGGGAGGT 60.623 63.158 0.00 0.00 0.00 3.85
173 174 0.936691 ATTGGAGGGGATTTGGGGAG 59.063 55.000 0.00 0.00 0.00 4.30
174 175 0.933700 GATTGGAGGGGATTTGGGGA 59.066 55.000 0.00 0.00 0.00 4.81
175 176 0.105504 GGATTGGAGGGGATTTGGGG 60.106 60.000 0.00 0.00 0.00 4.96
179 180 2.929043 ACAAGAGGATTGGAGGGGATTT 59.071 45.455 0.00 0.00 0.00 2.17
180 181 2.243221 CACAAGAGGATTGGAGGGGATT 59.757 50.000 0.00 0.00 0.00 3.01
181 182 1.849039 CACAAGAGGATTGGAGGGGAT 59.151 52.381 0.00 0.00 0.00 3.85
182 183 1.289160 CACAAGAGGATTGGAGGGGA 58.711 55.000 0.00 0.00 0.00 4.81
184 185 1.289160 TCCACAAGAGGATTGGAGGG 58.711 55.000 0.00 0.00 34.35 4.30
194 195 1.003233 GGTTACACCCCTCCACAAGAG 59.997 57.143 0.00 0.00 42.83 2.85
195 196 1.061546 GGTTACACCCCTCCACAAGA 58.938 55.000 0.00 0.00 30.04 3.02
198 199 0.763604 TTCGGTTACACCCCTCCACA 60.764 55.000 0.00 0.00 33.75 4.17
200 201 0.763604 TGTTCGGTTACACCCCTCCA 60.764 55.000 0.00 0.00 33.75 3.86
201 202 0.397564 TTGTTCGGTTACACCCCTCC 59.602 55.000 0.00 0.00 33.75 4.30
202 203 1.609841 CCTTGTTCGGTTACACCCCTC 60.610 57.143 0.00 0.00 33.75 4.30
203 204 0.399075 CCTTGTTCGGTTACACCCCT 59.601 55.000 0.00 0.00 33.75 4.79
204 205 1.239296 GCCTTGTTCGGTTACACCCC 61.239 60.000 0.00 0.00 33.75 4.95
206 207 0.250597 AGGCCTTGTTCGGTTACACC 60.251 55.000 0.00 0.00 34.05 4.16
207 208 2.460757 TAGGCCTTGTTCGGTTACAC 57.539 50.000 12.58 0.00 0.00 2.90
209 210 4.004982 TCATTTAGGCCTTGTTCGGTTAC 58.995 43.478 12.58 0.00 0.00 2.50
210 211 4.020039 TCTCATTTAGGCCTTGTTCGGTTA 60.020 41.667 12.58 0.00 0.00 2.85
214 215 4.752101 CCTATCTCATTTAGGCCTTGTTCG 59.248 45.833 12.58 0.00 30.39 3.95
215 216 5.930135 TCCTATCTCATTTAGGCCTTGTTC 58.070 41.667 12.58 0.00 36.87 3.18
217 218 5.667626 TCTTCCTATCTCATTTAGGCCTTGT 59.332 40.000 12.58 0.00 36.87 3.16
218 219 6.179906 TCTTCCTATCTCATTTAGGCCTTG 57.820 41.667 12.58 2.75 36.87 3.61
219 220 5.221823 GCTCTTCCTATCTCATTTAGGCCTT 60.222 44.000 12.58 0.00 36.87 4.35
221 222 4.040952 TGCTCTTCCTATCTCATTTAGGCC 59.959 45.833 0.00 0.00 36.87 5.19
222 223 4.994217 GTGCTCTTCCTATCTCATTTAGGC 59.006 45.833 0.00 0.00 36.87 3.93
225 226 9.716531 CATAATGTGCTCTTCCTATCTCATTTA 57.283 33.333 0.00 0.00 0.00 1.40
226 227 8.435187 TCATAATGTGCTCTTCCTATCTCATTT 58.565 33.333 0.00 0.00 0.00 2.32
229 230 6.983906 TCATAATGTGCTCTTCCTATCTCA 57.016 37.500 0.00 0.00 0.00 3.27
230 231 7.148440 GCAATCATAATGTGCTCTTCCTATCTC 60.148 40.741 0.00 0.00 35.36 2.75
231 232 6.654161 GCAATCATAATGTGCTCTTCCTATCT 59.346 38.462 0.00 0.00 35.36 1.98
232 233 6.654161 AGCAATCATAATGTGCTCTTCCTATC 59.346 38.462 0.00 0.00 45.32 2.08
234 235 5.933617 AGCAATCATAATGTGCTCTTCCTA 58.066 37.500 0.00 0.00 45.32 2.94
260 261 0.464036 TCGTCCGAATTGGCTGCTAT 59.536 50.000 0.00 0.00 37.80 2.97
261 262 0.459585 GTCGTCCGAATTGGCTGCTA 60.460 55.000 0.00 0.00 37.80 3.49
316 317 2.417243 CGCTTGAATTTGGTTGGGGATC 60.417 50.000 0.00 0.00 0.00 3.36
318 319 0.965439 CGCTTGAATTTGGTTGGGGA 59.035 50.000 0.00 0.00 0.00 4.81
327 328 3.758931 GGGGCGCCGCTTGAATTT 61.759 61.111 34.09 0.00 0.00 1.82
344 345 4.415150 ATGGTGGCGGTGCTGGAG 62.415 66.667 0.00 0.00 0.00 3.86
474 475 5.467399 ACGGTTCGACTTATTCATTCACAAA 59.533 36.000 0.00 0.00 0.00 2.83
476 477 4.562082 ACGGTTCGACTTATTCATTCACA 58.438 39.130 0.00 0.00 0.00 3.58
478 479 5.068234 AGACGGTTCGACTTATTCATTCA 57.932 39.130 0.00 0.00 0.00 2.57
479 480 7.096147 GGAATAGACGGTTCGACTTATTCATTC 60.096 40.741 16.16 11.07 33.72 2.67
481 482 6.183360 TGGAATAGACGGTTCGACTTATTCAT 60.183 38.462 16.16 0.00 33.72 2.57
482 483 5.125900 TGGAATAGACGGTTCGACTTATTCA 59.874 40.000 16.16 4.70 33.72 2.57
483 484 5.585390 TGGAATAGACGGTTCGACTTATTC 58.415 41.667 0.00 6.28 33.72 1.75
485 486 5.786264 ATGGAATAGACGGTTCGACTTAT 57.214 39.130 0.00 0.00 33.72 1.73
486 487 5.450965 GGAATGGAATAGACGGTTCGACTTA 60.451 44.000 0.00 0.00 33.72 2.24
488 489 3.181478 GGAATGGAATAGACGGTTCGACT 60.181 47.826 0.00 0.00 35.90 4.18
491 492 3.173668 TGGAATGGAATAGACGGTTCG 57.826 47.619 0.00 0.00 0.00 3.95
492 493 5.123227 TCAATGGAATGGAATAGACGGTTC 58.877 41.667 0.00 0.00 0.00 3.62
493 494 5.110814 TCAATGGAATGGAATAGACGGTT 57.889 39.130 0.00 0.00 0.00 4.44
494 495 4.771114 TCAATGGAATGGAATAGACGGT 57.229 40.909 0.00 0.00 0.00 4.83
497 498 9.512588 ACTAATCATCAATGGAATGGAATAGAC 57.487 33.333 0.00 0.00 23.88 2.59
501 502 9.293404 CTGTACTAATCATCAATGGAATGGAAT 57.707 33.333 0.00 0.00 23.88 3.01
502 503 7.720957 CCTGTACTAATCATCAATGGAATGGAA 59.279 37.037 0.00 0.00 23.88 3.53
503 504 7.072328 TCCTGTACTAATCATCAATGGAATGGA 59.928 37.037 0.00 0.00 0.00 3.41
504 505 7.226441 TCCTGTACTAATCATCAATGGAATGG 58.774 38.462 0.00 0.00 0.00 3.16
506 507 9.872684 AAATCCTGTACTAATCATCAATGGAAT 57.127 29.630 0.00 0.00 0.00 3.01
508 509 9.778741 GTAAATCCTGTACTAATCATCAATGGA 57.221 33.333 0.00 0.00 0.00 3.41
509 510 9.559732 TGTAAATCCTGTACTAATCATCAATGG 57.440 33.333 0.00 0.00 0.00 3.16
516 517 8.418662 AGCGTTATGTAAATCCTGTACTAATCA 58.581 33.333 0.00 0.00 0.00 2.57
517 518 8.813643 AGCGTTATGTAAATCCTGTACTAATC 57.186 34.615 0.00 0.00 0.00 1.75
519 520 7.857389 CGTAGCGTTATGTAAATCCTGTACTAA 59.143 37.037 0.00 0.00 0.00 2.24
520 521 7.226523 TCGTAGCGTTATGTAAATCCTGTACTA 59.773 37.037 0.00 0.00 0.00 1.82
536 537 0.730155 CGTGGCTGTTCGTAGCGTTA 60.730 55.000 0.00 0.00 44.60 3.18
563 573 1.075536 GGAGAAACACCAGTTCCCCAT 59.924 52.381 0.00 0.00 36.84 4.00
669 680 3.642778 ATGTTCGTCTCACGCCCCG 62.643 63.158 0.00 0.00 42.21 5.73
701 712 6.265196 TGGTAGTAACTTCTCCTGTTCGTAAA 59.735 38.462 0.00 0.00 0.00 2.01
780 2801 0.109735 TAAGCTCGCGTCTCACACTG 60.110 55.000 5.77 0.00 0.00 3.66
794 2815 2.284699 ACTGGCGAGGGGTAAGCT 60.285 61.111 0.00 0.00 0.00 3.74
795 2816 2.187163 GACTGGCGAGGGGTAAGC 59.813 66.667 0.00 0.00 0.00 3.09
915 2975 3.957435 ATGTCGTCGGGGAGCCTGA 62.957 63.158 0.00 0.00 36.43 3.86
1023 3083 3.700109 CCTCGAGGTTGAGAGGCA 58.300 61.111 24.04 0.00 46.23 4.75
1143 3264 1.827399 GCAGTGGAAGGAGAACCGGA 61.827 60.000 9.46 0.00 41.83 5.14
1359 3567 0.182299 GAGCTTCCTGAGATTGGGGG 59.818 60.000 0.00 0.00 0.00 5.40
1371 3579 1.239347 GTGAAACAGGGTGAGCTTCC 58.761 55.000 0.00 0.00 36.32 3.46
1624 4424 2.710237 TAGGCGCCCTAGCTACCCTC 62.710 65.000 26.15 0.00 34.61 4.30
1717 4558 4.697352 GGTGGCGAATGCAAGATTAGATAT 59.303 41.667 0.00 0.00 45.35 1.63
1718 4559 4.065088 GGTGGCGAATGCAAGATTAGATA 58.935 43.478 0.00 0.00 45.35 1.98
1719 4560 2.880890 GGTGGCGAATGCAAGATTAGAT 59.119 45.455 0.00 0.00 45.35 1.98
1736 4581 1.820906 CATCTGCATGTCGGGGTGG 60.821 63.158 0.00 0.00 0.00 4.61
1817 4689 3.573558 ACCTTTACGGTGCGCATG 58.426 55.556 15.91 12.72 46.80 4.06
1971 4849 7.690952 ATGGCAGTAGCTAACTAGACTATAC 57.309 40.000 0.00 0.00 41.70 1.47
2213 5107 7.041372 ACCATTTCAATGCCGTAGTGATTATAC 60.041 37.037 0.00 0.00 32.79 1.47
2418 5326 3.510388 TCTACCGAATGAGCACAAGAG 57.490 47.619 0.00 0.00 0.00 2.85
2460 5375 1.271054 GCAGACAGTGGAAGATGGTGT 60.271 52.381 0.00 0.00 0.00 4.16
2472 5387 4.148838 AGACTAGAAACAGAGCAGACAGT 58.851 43.478 0.00 0.00 0.00 3.55
2748 6224 6.552445 ACTAAATCTCTCTGGCAGTAATGT 57.448 37.500 15.27 2.24 0.00 2.71
2753 6229 6.538263 AGAAAAACTAAATCTCTCTGGCAGT 58.462 36.000 15.27 0.00 0.00 4.40
2885 6370 4.762251 GGAGCCAATCTAGTCAAAACTGTT 59.238 41.667 0.00 0.00 36.92 3.16
2888 7133 4.640771 TGGAGCCAATCTAGTCAAAACT 57.359 40.909 0.00 0.00 39.66 2.66
2943 7495 2.005451 GCTCTACAACATGCCACTCAG 58.995 52.381 0.00 0.00 0.00 3.35
3089 7641 8.821686 ATGTGTCACCATGATTTTAGGAATAA 57.178 30.769 0.00 0.00 0.00 1.40
3174 8356 4.345257 GGATAATTGCTGAGGTGTAGGAGA 59.655 45.833 0.00 0.00 0.00 3.71
3180 8362 5.636903 ACATAGGATAATTGCTGAGGTGT 57.363 39.130 0.00 0.00 0.00 4.16
3205 8387 3.054434 ACAATGGTGCTATCTTAGGTGCA 60.054 43.478 0.00 0.00 0.00 4.57
3209 8391 5.180117 GCATGTACAATGGTGCTATCTTAGG 59.820 44.000 11.12 0.00 34.85 2.69
3221 8403 2.880890 GCTCTAAGGGCATGTACAATGG 59.119 50.000 0.00 0.00 0.00 3.16
3273 8455 1.132657 TGGGACAGAGGGAGTACCAAA 60.133 52.381 0.00 0.00 46.79 3.28
3288 8470 9.712359 GTCAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
3289 8471 9.451002 TGTCAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
3293 8475 9.485591 CGCTTGTCAAAAACGTTCTTATATTAT 57.514 29.630 0.00 0.00 0.00 1.28
3294 8476 8.497554 ACGCTTGTCAAAAACGTTCTTATATTA 58.502 29.630 0.00 0.00 32.09 0.98
3295 8477 7.357303 ACGCTTGTCAAAAACGTTCTTATATT 58.643 30.769 0.00 0.00 32.09 1.28
3296 8478 6.894828 ACGCTTGTCAAAAACGTTCTTATAT 58.105 32.000 0.00 0.00 32.09 0.86
3297 8479 6.289745 ACGCTTGTCAAAAACGTTCTTATA 57.710 33.333 0.00 0.00 32.09 0.98
3298 8480 5.164606 ACGCTTGTCAAAAACGTTCTTAT 57.835 34.783 0.00 0.00 32.09 1.73
3299 8481 4.603231 ACGCTTGTCAAAAACGTTCTTA 57.397 36.364 0.00 0.00 32.09 2.10
3300 8482 3.481112 ACGCTTGTCAAAAACGTTCTT 57.519 38.095 0.00 0.00 32.09 2.52


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

AutoCloner maintained by Alex Coulton.