Multiple sequence alignment - TraesCS7D01G302300

Loading Multiple Alignment...

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 TraesCS7D01G302300 chr7D 100.000 3360 0 0 1 3360 382378057 382381416 0.000000e+00 6205.0
1 TraesCS7D01G302300 chr7D 93.594 281 14 4 1 278 250675913 250675634 1.860000e-112 416.0
2 TraesCS7D01G302300 chr7D 93.571 280 14 4 1 277 573896495 573896773 6.710000e-112 414.0
3 TraesCS7D01G302300 chr7D 82.787 122 14 7 282 403 263509300 263509414 5.930000e-18 102.0
4 TraesCS7D01G302300 chr7D 90.476 42 4 0 1040 1081 612403768 612403809 4.680000e-04 56.5
5 TraesCS7D01G302300 chr7D 94.444 36 2 0 1046 1081 612772880 612772915 4.680000e-04 56.5
6 TraesCS7D01G302300 chr7D 94.444 36 2 0 1046 1081 612965657 612965622 4.680000e-04 56.5
7 TraesCS7D01G302300 chr7D 90.244 41 3 1 1036 1076 611649334 611649295 6.000000e-03 52.8
8 TraesCS7D01G302300 chr7B 94.706 2928 89 30 456 3360 376800914 376803798 0.000000e+00 4488.0
9 TraesCS7D01G302300 chr7B 87.931 58 7 0 332 389 706863349 706863292 6.020000e-08 69.4
10 TraesCS7D01G302300 chr7A 96.628 2165 59 5 536 2697 430490536 430492689 0.000000e+00 3581.0
11 TraesCS7D01G302300 chr7A 88.244 689 48 13 2699 3360 430492775 430493457 0.000000e+00 793.0
12 TraesCS7D01G302300 chr7A 92.105 152 7 4 293 439 430489321 430489472 3.400000e-50 209.0
13 TraesCS7D01G302300 chr7A 86.806 144 18 1 278 421 619156736 619156594 3.470000e-35 159.0
14 TraesCS7D01G302300 chr7A 95.588 68 3 0 467 534 430489552 430489485 3.540000e-20 110.0
15 TraesCS7D01G302300 chr7A 95.652 46 2 0 487 532 430489784 430489739 1.290000e-09 75.0
16 TraesCS7D01G302300 chr7A 94.444 36 2 0 1046 1081 703557962 703557997 4.680000e-04 56.5
17 TraesCS7D01G302300 chr7A 94.118 34 2 0 1046 1079 701604945 701604912 6.000000e-03 52.8
18 TraesCS7D01G302300 chr5D 94.203 276 14 2 1 275 535995485 535995759 1.440000e-113 420.0
19 TraesCS7D01G302300 chr5D 93.548 279 16 2 1 277 370788234 370787956 6.710000e-112 414.0
20 TraesCS7D01G302300 chr6D 93.286 283 17 2 2 282 448135894 448135612 1.860000e-112 416.0
21 TraesCS7D01G302300 chr2D 93.907 279 12 4 1 276 136662624 136662348 1.860000e-112 416.0
22 TraesCS7D01G302300 chr2D 83.333 144 23 1 278 421 312016395 312016537 7.560000e-27 132.0
23 TraesCS7D01G302300 chr4D 93.548 279 16 2 1 277 103231025 103231303 6.710000e-112 414.0
24 TraesCS7D01G302300 chr3D 93.571 280 14 4 1 277 417221584 417221306 6.710000e-112 414.0
25 TraesCS7D01G302300 chr3D 92.683 287 18 3 1 284 38894629 38894915 8.680000e-111 411.0
26 TraesCS7D01G302300 chr5B 86.822 129 16 1 278 405 448095610 448095738 3.490000e-30 143.0
27 TraesCS7D01G302300 chr2B 86.726 113 15 0 293 405 578220455 578220567 3.520000e-25 126.0
28 TraesCS7D01G302300 chr1A 84.348 115 16 2 293 405 552234839 552234953 9.850000e-21 111.0
29 TraesCS7D01G302300 chr1B 88.000 50 4 2 1032 1081 10048448 10048401 1.300000e-04 58.4


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

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS7D01G302300 chr7D 382378057 382381416 3359 False 6205.000000 6205 100.000000 1 3360 1 chr7D.!!$F2 3359
1 TraesCS7D01G302300 chr7B 376800914 376803798 2884 False 4488.000000 4488 94.706000 456 3360 1 chr7B.!!$F1 2904
2 TraesCS7D01G302300 chr7A 430489321 430493457 4136 False 1527.666667 3581 92.325667 293 3360 3 chr7A.!!$F2 3067

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
161 162 0.040425 ACGTTGTCAAATGCTTCCGC 60.040 50.0 0.00 0.0 0.00 5.54 F
166 167 0.179189 GTCAAATGCTTCCGCTTCCG 60.179 55.0 0.00 0.0 36.97 4.30 F
276 277 0.250510 TGCATGCTACGTTCCCAACA 60.251 50.0 20.33 0.0 0.00 3.33 F
277 278 0.878416 GCATGCTACGTTCCCAACAA 59.122 50.0 11.37 0.0 0.00 2.83 F
300 301 0.895100 TTGCTGAGGTGGCATGGTTC 60.895 55.0 0.00 0.0 39.54 3.62 F
464 470 1.327690 TGGACTAGCAAGTAGGGCCG 61.328 60.0 0.00 0.0 35.56 6.13 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1007 1981 0.975040 ATGCCTCTCGCTCTTGGACT 60.975 55.000 0.00 0.00 38.78 3.85 R
1792 2766 1.078848 GCGACCTCAAGCTGGTGAT 60.079 57.895 0.00 0.00 38.03 3.06 R
1833 2807 2.182842 CCAGCGCAGGAAGCATACC 61.183 63.158 14.67 0.00 46.13 2.73 R
1910 2884 3.637769 TCCAATACCTTTATTGCCACCC 58.362 45.455 0.00 0.00 42.33 4.61 R
1955 2929 3.825328 AGAGTTGTCAGGCTGTTGAATT 58.175 40.909 15.27 2.77 0.00 2.17 R
2369 3344 0.822164 GTACCGTACATGCTGACCCT 59.178 55.000 3.69 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
17 18 2.047179 GTGCTGACGGAACTCCCC 60.047 66.667 0.00 0.00 0.00 4.81
18 19 3.319198 TGCTGACGGAACTCCCCC 61.319 66.667 0.00 0.00 0.00 5.40
19 20 3.003763 GCTGACGGAACTCCCCCT 61.004 66.667 0.00 0.00 0.00 4.79
20 21 3.020237 GCTGACGGAACTCCCCCTC 62.020 68.421 0.00 0.00 0.00 4.30
21 22 2.678934 TGACGGAACTCCCCCTCG 60.679 66.667 0.00 0.00 0.00 4.63
22 23 2.362120 GACGGAACTCCCCCTCGA 60.362 66.667 0.00 0.00 0.00 4.04
23 24 2.679287 ACGGAACTCCCCCTCGAC 60.679 66.667 0.00 0.00 0.00 4.20
24 25 2.678934 CGGAACTCCCCCTCGACA 60.679 66.667 0.00 0.00 0.00 4.35
25 26 2.979649 GGAACTCCCCCTCGACAC 59.020 66.667 0.00 0.00 0.00 3.67
26 27 1.609794 GGAACTCCCCCTCGACACT 60.610 63.158 0.00 0.00 0.00 3.55
27 28 1.192803 GGAACTCCCCCTCGACACTT 61.193 60.000 0.00 0.00 0.00 3.16
28 29 0.685660 GAACTCCCCCTCGACACTTT 59.314 55.000 0.00 0.00 0.00 2.66
29 30 0.396811 AACTCCCCCTCGACACTTTG 59.603 55.000 0.00 0.00 0.00 2.77
30 31 0.763223 ACTCCCCCTCGACACTTTGT 60.763 55.000 0.00 0.00 0.00 2.83
31 32 0.396811 CTCCCCCTCGACACTTTGTT 59.603 55.000 0.00 0.00 0.00 2.83
32 33 0.107831 TCCCCCTCGACACTTTGTTG 59.892 55.000 0.00 0.00 33.03 3.33
33 34 0.889186 CCCCCTCGACACTTTGTTGG 60.889 60.000 0.00 0.00 32.62 3.77
34 35 0.107831 CCCCTCGACACTTTGTTGGA 59.892 55.000 0.00 0.00 32.62 3.53
35 36 1.271379 CCCCTCGACACTTTGTTGGAT 60.271 52.381 0.00 0.00 32.62 3.41
36 37 2.076863 CCCTCGACACTTTGTTGGATC 58.923 52.381 0.00 0.00 32.62 3.36
37 38 2.549992 CCCTCGACACTTTGTTGGATCA 60.550 50.000 0.00 0.00 32.62 2.92
38 39 3.138304 CCTCGACACTTTGTTGGATCAA 58.862 45.455 0.00 0.00 32.62 2.57
39 40 3.187227 CCTCGACACTTTGTTGGATCAAG 59.813 47.826 0.00 0.00 32.62 3.02
40 41 4.058124 CTCGACACTTTGTTGGATCAAGA 58.942 43.478 0.00 0.00 32.62 3.02
41 42 4.058124 TCGACACTTTGTTGGATCAAGAG 58.942 43.478 0.00 0.00 32.62 2.85
42 43 3.809832 CGACACTTTGTTGGATCAAGAGT 59.190 43.478 0.00 0.00 0.00 3.24
43 44 4.273480 CGACACTTTGTTGGATCAAGAGTT 59.727 41.667 0.00 0.00 0.00 3.01
44 45 5.559035 CGACACTTTGTTGGATCAAGAGTTC 60.559 44.000 0.00 0.00 0.00 3.01
45 46 4.273480 ACACTTTGTTGGATCAAGAGTTCG 59.727 41.667 0.00 0.00 0.00 3.95
46 47 4.511454 CACTTTGTTGGATCAAGAGTTCGA 59.489 41.667 0.00 0.00 0.00 3.71
47 48 4.752101 ACTTTGTTGGATCAAGAGTTCGAG 59.248 41.667 0.00 0.00 0.00 4.04
48 49 3.319137 TGTTGGATCAAGAGTTCGAGG 57.681 47.619 0.00 0.00 0.00 4.63
49 50 2.028112 TGTTGGATCAAGAGTTCGAGGG 60.028 50.000 0.00 0.00 0.00 4.30
50 51 2.231716 TGGATCAAGAGTTCGAGGGA 57.768 50.000 0.00 0.00 0.00 4.20
51 52 1.825474 TGGATCAAGAGTTCGAGGGAC 59.175 52.381 0.00 0.00 0.00 4.46
52 53 1.825474 GGATCAAGAGTTCGAGGGACA 59.175 52.381 0.00 0.00 0.00 4.02
53 54 2.432510 GGATCAAGAGTTCGAGGGACAT 59.567 50.000 0.00 0.00 0.00 3.06
54 55 3.491792 GGATCAAGAGTTCGAGGGACATC 60.492 52.174 0.00 0.00 0.00 3.06
55 56 2.525368 TCAAGAGTTCGAGGGACATCA 58.475 47.619 0.00 0.00 0.00 3.07
56 57 3.099905 TCAAGAGTTCGAGGGACATCAT 58.900 45.455 0.00 0.00 0.00 2.45
57 58 3.131223 TCAAGAGTTCGAGGGACATCATC 59.869 47.826 0.00 0.00 0.00 2.92
58 59 1.678627 AGAGTTCGAGGGACATCATCG 59.321 52.381 0.00 0.00 37.79 3.84
59 60 1.676529 GAGTTCGAGGGACATCATCGA 59.323 52.381 0.00 0.00 43.19 3.59
60 61 1.678627 AGTTCGAGGGACATCATCGAG 59.321 52.381 3.22 0.00 45.23 4.04
61 62 0.385751 TTCGAGGGACATCATCGAGC 59.614 55.000 3.22 0.00 45.23 5.03
62 63 0.466372 TCGAGGGACATCATCGAGCT 60.466 55.000 0.00 0.00 40.29 4.09
63 64 0.318529 CGAGGGACATCATCGAGCTG 60.319 60.000 0.00 0.00 38.72 4.24
64 65 1.035923 GAGGGACATCATCGAGCTGA 58.964 55.000 0.00 0.00 0.00 4.26
65 66 1.410517 GAGGGACATCATCGAGCTGAA 59.589 52.381 0.00 0.00 0.00 3.02
66 67 1.137872 AGGGACATCATCGAGCTGAAC 59.862 52.381 0.00 0.00 0.00 3.18
67 68 1.203928 GGACATCATCGAGCTGAACG 58.796 55.000 0.00 0.00 0.00 3.95
68 69 1.469940 GGACATCATCGAGCTGAACGT 60.470 52.381 0.00 0.00 0.00 3.99
69 70 1.585668 GACATCATCGAGCTGAACGTG 59.414 52.381 0.00 0.00 0.00 4.49
70 71 1.067565 ACATCATCGAGCTGAACGTGT 60.068 47.619 0.00 0.00 0.00 4.49
71 72 1.322637 CATCATCGAGCTGAACGTGTG 59.677 52.381 0.00 0.00 0.00 3.82
72 73 1.008875 TCATCGAGCTGAACGTGTGC 61.009 55.000 0.00 0.00 0.00 4.57
73 74 1.006220 ATCGAGCTGAACGTGTGCA 60.006 52.632 0.00 0.00 0.00 4.57
74 75 1.010935 ATCGAGCTGAACGTGTGCAG 61.011 55.000 3.48 3.48 35.28 4.41
75 76 1.661509 CGAGCTGAACGTGTGCAGA 60.662 57.895 12.25 0.00 34.06 4.26
76 77 1.215014 CGAGCTGAACGTGTGCAGAA 61.215 55.000 12.25 0.00 34.06 3.02
77 78 0.233332 GAGCTGAACGTGTGCAGAAC 59.767 55.000 12.25 1.20 34.06 3.01
78 79 0.179073 AGCTGAACGTGTGCAGAACT 60.179 50.000 12.25 0.00 34.06 3.01
79 80 0.233332 GCTGAACGTGTGCAGAACTC 59.767 55.000 12.25 0.00 34.06 3.01
83 84 3.848142 CGTGTGCAGAACTCGGAG 58.152 61.111 2.83 2.83 41.05 4.63
84 85 1.734477 CGTGTGCAGAACTCGGAGG 60.734 63.158 10.23 0.00 41.05 4.30
85 86 1.367840 GTGTGCAGAACTCGGAGGT 59.632 57.895 10.23 1.51 0.00 3.85
86 87 0.946221 GTGTGCAGAACTCGGAGGTG 60.946 60.000 10.23 5.07 0.00 4.00
87 88 2.029844 GTGCAGAACTCGGAGGTGC 61.030 63.158 17.45 17.45 34.62 5.01
88 89 2.435059 GCAGAACTCGGAGGTGCC 60.435 66.667 10.23 0.00 0.00 5.01
97 98 2.505557 GGAGGTGCCGTACGTTCG 60.506 66.667 15.21 7.68 0.00 3.95
104 105 3.152703 CCGTACGTTCGGTGCTTG 58.847 61.111 23.71 0.00 44.77 4.01
105 106 1.372004 CCGTACGTTCGGTGCTTGA 60.372 57.895 23.71 0.00 44.77 3.02
106 107 0.734942 CCGTACGTTCGGTGCTTGAT 60.735 55.000 23.71 0.00 44.77 2.57
107 108 0.638746 CGTACGTTCGGTGCTTGATC 59.361 55.000 7.22 0.00 0.00 2.92
108 109 0.638746 GTACGTTCGGTGCTTGATCG 59.361 55.000 0.00 0.00 35.32 3.69
109 110 0.457166 TACGTTCGGTGCTTGATCGG 60.457 55.000 0.00 0.00 33.92 4.18
110 111 1.736645 CGTTCGGTGCTTGATCGGT 60.737 57.895 0.00 0.00 0.00 4.69
111 112 1.683790 CGTTCGGTGCTTGATCGGTC 61.684 60.000 0.00 0.00 0.00 4.79
112 113 0.669318 GTTCGGTGCTTGATCGGTCA 60.669 55.000 0.00 0.00 0.00 4.02
113 114 0.389817 TTCGGTGCTTGATCGGTCAG 60.390 55.000 0.00 0.00 35.39 3.51
114 115 1.215382 CGGTGCTTGATCGGTCAGA 59.785 57.895 0.00 0.00 35.39 3.27
115 116 0.389817 CGGTGCTTGATCGGTCAGAA 60.390 55.000 0.00 0.00 35.39 3.02
116 117 1.079503 GGTGCTTGATCGGTCAGAAC 58.920 55.000 0.00 0.00 35.39 3.01
117 118 0.716108 GTGCTTGATCGGTCAGAACG 59.284 55.000 0.00 0.00 35.39 3.95
118 119 0.601057 TGCTTGATCGGTCAGAACGA 59.399 50.000 14.21 14.21 45.19 3.85
119 120 1.272781 GCTTGATCGGTCAGAACGAG 58.727 55.000 17.19 3.50 44.24 4.18
120 121 1.135373 GCTTGATCGGTCAGAACGAGA 60.135 52.381 17.19 2.29 44.24 4.04
121 122 2.671351 GCTTGATCGGTCAGAACGAGAA 60.671 50.000 17.19 10.42 44.24 2.87
122 123 2.921634 TGATCGGTCAGAACGAGAAG 57.078 50.000 17.19 0.00 44.24 2.85
123 124 2.433436 TGATCGGTCAGAACGAGAAGA 58.567 47.619 17.19 0.00 44.24 2.87
124 125 2.817844 TGATCGGTCAGAACGAGAAGAA 59.182 45.455 17.19 0.00 44.24 2.52
125 126 2.991434 TCGGTCAGAACGAGAAGAAG 57.009 50.000 6.42 0.00 35.12 2.85
126 127 2.228059 TCGGTCAGAACGAGAAGAAGT 58.772 47.619 6.42 0.00 35.12 3.01
127 128 2.621998 TCGGTCAGAACGAGAAGAAGTT 59.378 45.455 6.42 0.00 35.12 2.66
128 129 2.981140 CGGTCAGAACGAGAAGAAGTTC 59.019 50.000 0.00 0.00 45.02 3.01
135 136 4.781071 GAACGAGAAGAAGTTCGACTACA 58.219 43.478 0.51 0.00 39.93 2.74
136 137 5.373981 AACGAGAAGAAGTTCGACTACAT 57.626 39.130 0.51 0.00 39.93 2.29
137 138 4.972201 ACGAGAAGAAGTTCGACTACATC 58.028 43.478 0.51 0.00 39.93 3.06
138 139 4.454847 ACGAGAAGAAGTTCGACTACATCA 59.545 41.667 0.51 0.00 39.93 3.07
139 140 5.048921 ACGAGAAGAAGTTCGACTACATCAA 60.049 40.000 0.51 0.00 39.93 2.57
140 141 5.284188 CGAGAAGAAGTTCGACTACATCAAC 59.716 44.000 0.00 0.00 39.06 3.18
141 142 5.471257 AGAAGAAGTTCGACTACATCAACC 58.529 41.667 0.00 0.00 37.79 3.77
142 143 4.866508 AGAAGTTCGACTACATCAACCA 57.133 40.909 0.00 0.00 0.00 3.67
143 144 4.557205 AGAAGTTCGACTACATCAACCAC 58.443 43.478 0.00 0.00 0.00 4.16
144 145 2.942710 AGTTCGACTACATCAACCACG 58.057 47.619 0.00 0.00 0.00 4.94
145 146 2.295349 AGTTCGACTACATCAACCACGT 59.705 45.455 0.00 0.00 0.00 4.49
146 147 3.054878 GTTCGACTACATCAACCACGTT 58.945 45.455 0.00 0.00 0.00 3.99
147 148 2.668250 TCGACTACATCAACCACGTTG 58.332 47.619 0.00 0.00 43.99 4.10
148 149 2.034939 TCGACTACATCAACCACGTTGT 59.965 45.455 4.56 0.00 43.23 3.32
149 150 2.407361 CGACTACATCAACCACGTTGTC 59.593 50.000 4.56 0.00 43.23 3.18
150 151 3.386486 GACTACATCAACCACGTTGTCA 58.614 45.455 4.56 0.00 43.23 3.58
151 152 3.799366 ACTACATCAACCACGTTGTCAA 58.201 40.909 4.56 0.00 43.23 3.18
152 153 4.193090 ACTACATCAACCACGTTGTCAAA 58.807 39.130 4.56 0.00 43.23 2.69
153 154 4.819630 ACTACATCAACCACGTTGTCAAAT 59.180 37.500 4.56 0.00 43.23 2.32
154 155 3.963665 ACATCAACCACGTTGTCAAATG 58.036 40.909 4.56 0.72 43.23 2.32
155 156 2.483583 TCAACCACGTTGTCAAATGC 57.516 45.000 4.56 0.00 43.23 3.56
156 157 2.020720 TCAACCACGTTGTCAAATGCT 58.979 42.857 4.56 0.00 43.23 3.79
157 158 2.425312 TCAACCACGTTGTCAAATGCTT 59.575 40.909 4.56 0.00 43.23 3.91
158 159 2.774439 ACCACGTTGTCAAATGCTTC 57.226 45.000 0.00 0.00 0.00 3.86
159 160 1.336755 ACCACGTTGTCAAATGCTTCC 59.663 47.619 0.00 0.00 0.00 3.46
160 161 1.662876 CCACGTTGTCAAATGCTTCCG 60.663 52.381 0.00 0.00 0.00 4.30
161 162 0.040425 ACGTTGTCAAATGCTTCCGC 60.040 50.000 0.00 0.00 0.00 5.54
162 163 0.238289 CGTTGTCAAATGCTTCCGCT 59.762 50.000 0.00 0.00 36.97 5.52
163 164 1.334960 CGTTGTCAAATGCTTCCGCTT 60.335 47.619 0.00 0.00 36.97 4.68
164 165 2.319472 GTTGTCAAATGCTTCCGCTTC 58.681 47.619 0.00 0.00 36.97 3.86
165 166 0.881118 TGTCAAATGCTTCCGCTTCC 59.119 50.000 0.00 0.00 36.97 3.46
166 167 0.179189 GTCAAATGCTTCCGCTTCCG 60.179 55.000 0.00 0.00 36.97 4.30
176 177 2.202570 CGCTTCCGGTCTACGTGG 60.203 66.667 0.00 0.00 42.24 4.94
177 178 2.183555 GCTTCCGGTCTACGTGGG 59.816 66.667 0.00 0.00 42.24 4.61
178 179 2.643232 GCTTCCGGTCTACGTGGGT 61.643 63.158 0.00 0.00 42.24 4.51
179 180 1.315257 GCTTCCGGTCTACGTGGGTA 61.315 60.000 0.00 0.00 42.24 3.69
180 181 0.453390 CTTCCGGTCTACGTGGGTAC 59.547 60.000 0.00 0.00 42.24 3.34
189 190 2.729455 CGTGGGTACGTGGACACA 59.271 61.111 15.33 4.47 44.99 3.72
190 191 4.348857 GTGGGTACGTGGACACAC 57.651 61.111 8.03 8.03 45.92 3.82
191 192 4.281102 TGGGTACGTGGACACACT 57.719 55.556 0.00 0.00 45.50 3.55
192 193 2.043625 TGGGTACGTGGACACACTC 58.956 57.895 0.00 0.00 45.50 3.51
193 194 1.291272 GGGTACGTGGACACACTCC 59.709 63.158 0.00 1.52 45.50 3.85
194 195 1.291272 GGTACGTGGACACACTCCC 59.709 63.158 0.00 0.00 45.50 4.30
195 196 1.291272 GTACGTGGACACACTCCCC 59.709 63.158 0.00 0.00 45.50 4.81
196 197 1.909781 TACGTGGACACACTCCCCC 60.910 63.158 0.00 0.00 45.50 5.40
211 212 3.080647 CCCCCTCTCGTTGTTATGC 57.919 57.895 0.00 0.00 0.00 3.14
212 213 0.251916 CCCCCTCTCGTTGTTATGCA 59.748 55.000 0.00 0.00 0.00 3.96
213 214 1.134098 CCCCCTCTCGTTGTTATGCAT 60.134 52.381 3.79 3.79 0.00 3.96
214 215 2.213499 CCCCTCTCGTTGTTATGCATC 58.787 52.381 0.19 0.00 0.00 3.91
215 216 2.158900 CCCCTCTCGTTGTTATGCATCT 60.159 50.000 0.19 0.00 0.00 2.90
216 217 3.126831 CCCTCTCGTTGTTATGCATCTC 58.873 50.000 0.19 0.00 0.00 2.75
217 218 3.126831 CCTCTCGTTGTTATGCATCTCC 58.873 50.000 0.19 0.00 0.00 3.71
218 219 3.181471 CCTCTCGTTGTTATGCATCTCCT 60.181 47.826 0.19 0.00 0.00 3.69
219 220 4.038042 CCTCTCGTTGTTATGCATCTCCTA 59.962 45.833 0.19 0.00 0.00 2.94
220 221 5.188327 TCTCGTTGTTATGCATCTCCTAG 57.812 43.478 0.19 0.00 0.00 3.02
221 222 4.887655 TCTCGTTGTTATGCATCTCCTAGA 59.112 41.667 0.19 0.00 0.00 2.43
222 223 5.536538 TCTCGTTGTTATGCATCTCCTAGAT 59.463 40.000 0.19 0.00 34.74 1.98
223 224 6.715264 TCTCGTTGTTATGCATCTCCTAGATA 59.285 38.462 0.19 0.00 32.12 1.98
224 225 7.230712 TCTCGTTGTTATGCATCTCCTAGATAA 59.769 37.037 0.19 0.00 32.12 1.75
225 226 7.722363 TCGTTGTTATGCATCTCCTAGATAAA 58.278 34.615 0.19 0.00 32.12 1.40
226 227 8.367911 TCGTTGTTATGCATCTCCTAGATAAAT 58.632 33.333 0.19 0.00 32.12 1.40
227 228 8.651588 CGTTGTTATGCATCTCCTAGATAAATC 58.348 37.037 0.19 0.00 32.12 2.17
228 229 9.717942 GTTGTTATGCATCTCCTAGATAAATCT 57.282 33.333 0.19 0.00 40.86 2.40
230 231 9.716531 TGTTATGCATCTCCTAGATAAATCTTG 57.283 33.333 0.19 0.00 38.32 3.02
231 232 8.663911 GTTATGCATCTCCTAGATAAATCTTGC 58.336 37.037 0.19 1.95 38.32 4.01
232 233 5.233225 TGCATCTCCTAGATAAATCTTGCG 58.767 41.667 0.00 0.00 36.48 4.85
233 234 5.221521 TGCATCTCCTAGATAAATCTTGCGT 60.222 40.000 0.00 0.00 36.48 5.24
234 235 5.119898 GCATCTCCTAGATAAATCTTGCGTG 59.880 44.000 0.00 0.00 38.32 5.34
235 236 6.450545 CATCTCCTAGATAAATCTTGCGTGA 58.549 40.000 0.00 0.00 38.32 4.35
236 237 6.078202 TCTCCTAGATAAATCTTGCGTGAG 57.922 41.667 0.00 0.14 38.32 3.51
271 272 6.698359 TTTTTAAATTGCATGCTACGTTCC 57.302 33.333 20.33 0.00 0.00 3.62
272 273 2.939460 AAATTGCATGCTACGTTCCC 57.061 45.000 20.33 0.00 0.00 3.97
273 274 1.832883 AATTGCATGCTACGTTCCCA 58.167 45.000 20.33 0.00 0.00 4.37
274 275 1.832883 ATTGCATGCTACGTTCCCAA 58.167 45.000 20.33 1.11 0.00 4.12
275 276 0.878416 TTGCATGCTACGTTCCCAAC 59.122 50.000 20.33 0.00 0.00 3.77
276 277 0.250510 TGCATGCTACGTTCCCAACA 60.251 50.000 20.33 0.00 0.00 3.33
277 278 0.878416 GCATGCTACGTTCCCAACAA 59.122 50.000 11.37 0.00 0.00 2.83
278 279 1.472480 GCATGCTACGTTCCCAACAAT 59.528 47.619 11.37 0.00 0.00 2.71
279 280 2.731968 GCATGCTACGTTCCCAACAATG 60.732 50.000 11.37 0.00 0.00 2.82
281 282 1.202830 TGCTACGTTCCCAACAATGGT 60.203 47.619 0.00 0.00 46.01 3.55
282 283 1.883926 GCTACGTTCCCAACAATGGTT 59.116 47.619 0.00 0.00 46.01 3.67
291 292 2.427232 CAACAATGGTTGCTGAGGTG 57.573 50.000 0.00 0.00 46.98 4.00
300 301 0.895100 TTGCTGAGGTGGCATGGTTC 60.895 55.000 0.00 0.00 39.54 3.62
312 313 4.022589 GTGGCATGGTTCCATGAATAGATG 60.023 45.833 29.06 7.96 44.61 2.90
316 317 6.233434 GCATGGTTCCATGAATAGATGAGTA 58.767 40.000 29.06 0.00 44.61 2.59
319 320 6.582636 TGGTTCCATGAATAGATGAGTACAC 58.417 40.000 0.00 0.00 0.00 2.90
464 470 1.327690 TGGACTAGCAAGTAGGGCCG 61.328 60.000 0.00 0.00 35.56 6.13
504 730 1.539157 GGAGAGGACAAAGCCCAAAG 58.461 55.000 0.00 0.00 0.00 2.77
1003 1977 3.388024 CCGACTTCCAAAGATAGGGATGA 59.612 47.826 0.00 0.00 33.73 2.92
1007 1981 6.581388 ACTTCCAAAGATAGGGATGATCAA 57.419 37.500 0.00 0.00 33.73 2.57
1440 2414 4.331992 TCGTCGTATCTCAAGAGGTTACAG 59.668 45.833 0.00 0.00 0.00 2.74
1501 2475 2.755103 CTGTTTTCTGGATGCCCTAACC 59.245 50.000 0.00 0.00 0.00 2.85
1571 2545 5.923733 TCCTCTACCAAACTTCAGAGATC 57.076 43.478 0.00 0.00 37.33 2.75
1792 2766 4.260985 TGTTCTCAGTGCTCTTTCAAACA 58.739 39.130 0.00 0.00 0.00 2.83
1833 2807 3.004419 TGTCTCTAACTGTCCGTCACAAG 59.996 47.826 0.00 0.00 33.31 3.16
1910 2884 1.946745 ACATTTTGGGTGTTTTGGCG 58.053 45.000 0.00 0.00 0.00 5.69
1955 2929 2.355716 GGGATGTGCTAAGGTGTGCTAA 60.356 50.000 0.00 0.00 0.00 3.09
2089 3063 2.941453 TACAGATGTGAGTTCTCCGC 57.059 50.000 0.00 0.00 0.00 5.54
2098 3072 1.275291 TGAGTTCTCCGCTTTCCGATT 59.725 47.619 0.00 0.00 40.02 3.34
2388 3363 0.822164 AGGGTCAGCATGTACGGTAC 59.178 55.000 11.33 11.33 37.40 3.34
2440 3415 9.918630 ATGCCAGTAATATATTGATTTCTTTGC 57.081 29.630 8.28 5.15 0.00 3.68
2452 3427 7.783090 TTGATTTCTTTGCATGCTTTTACAA 57.217 28.000 20.33 11.53 0.00 2.41
2490 3465 4.946157 CCATTTCCACTTCTTGTAGCTGAT 59.054 41.667 0.00 0.00 0.00 2.90
2513 3488 0.894835 GGATTTTCATGGCGGTGGTT 59.105 50.000 0.00 0.00 0.00 3.67
2538 3513 9.871238 TTATCAGACTATGGACTAAAAGTGTTC 57.129 33.333 0.00 0.00 0.00 3.18
2549 3524 5.941788 ACTAAAAGTGTTCCTGATTCCTGT 58.058 37.500 0.00 0.00 0.00 4.00
2697 3672 8.287439 CATAACTGTTATGGTAATTGGTTGGA 57.713 34.615 25.74 0.00 39.42 3.53
2707 3766 7.361457 TGGTAATTGGTTGGAATGTGTTTAA 57.639 32.000 0.00 0.00 0.00 1.52
2747 3806 2.782163 AGTCATGTACACGTCGATTCG 58.218 47.619 0.00 0.00 0.00 3.34
2748 3807 2.417586 AGTCATGTACACGTCGATTCGA 59.582 45.455 4.29 4.29 34.70 3.71
2776 3835 6.963242 CGAGGTATTTGAATCTTGTGAATGTG 59.037 38.462 0.00 0.00 0.00 3.21
2793 3852 8.559536 TGTGAATGTGAGAAAAGTCAGTTTATC 58.440 33.333 0.00 0.00 30.94 1.75
2830 3889 4.515191 GCATGTGAGAGGTCTGTGTTTTAA 59.485 41.667 0.00 0.00 0.00 1.52
2845 3904 5.477291 TGTGTTTTAAGACCAACTTGTTCCA 59.523 36.000 0.00 0.00 39.38 3.53
2849 3908 0.535102 AGACCAACTTGTTCCAGGCG 60.535 55.000 0.00 0.00 0.00 5.52
2851 3910 2.192861 CCAACTTGTTCCAGGCGCA 61.193 57.895 10.83 0.00 0.00 6.09
2852 3911 1.008538 CAACTTGTTCCAGGCGCAC 60.009 57.895 10.83 0.00 0.00 5.34
2853 3912 2.193536 AACTTGTTCCAGGCGCACC 61.194 57.895 10.83 0.00 0.00 5.01
2855 3914 4.243008 TTGTTCCAGGCGCACCGA 62.243 61.111 10.83 0.00 42.76 4.69
2899 3980 8.777413 TGATTTGTTGAATGTTGTTTTGTTCAA 58.223 25.926 0.00 0.00 38.01 2.69
2929 4010 9.655769 CATTTGGTTCGATGATTTATCTAGTTG 57.344 33.333 0.00 0.00 33.44 3.16
2930 4011 6.844696 TGGTTCGATGATTTATCTAGTTGC 57.155 37.500 0.00 0.00 33.44 4.17
2938 4019 8.060679 CGATGATTTATCTAGTTGCTGAACAAG 58.939 37.037 0.00 0.00 34.58 3.16
2973 4054 5.548406 AGTCTGTTTGCGAATAACCTACTT 58.452 37.500 0.00 0.00 0.00 2.24
2978 4059 7.433131 TCTGTTTGCGAATAACCTACTTATACG 59.567 37.037 0.00 0.00 0.00 3.06
3000 4081 5.106555 ACGCCTATTGAACAACAGATTGAAG 60.107 40.000 0.00 0.00 39.30 3.02
3001 4082 5.106555 CGCCTATTGAACAACAGATTGAAGT 60.107 40.000 0.00 0.00 39.30 3.01
3005 4086 6.882610 ATTGAACAACAGATTGAAGTAGCA 57.117 33.333 0.00 0.00 39.30 3.49
3042 4123 4.381825 GGATGGAATTTTGTAGTGCATGCA 60.382 41.667 18.46 18.46 39.94 3.96
3063 4144 6.351711 TGCATCCATAATCTACTATCATGGC 58.648 40.000 0.00 0.00 36.82 4.40
3084 4165 8.776470 CATGGCTGTTTATTTTCTCAAATTGTT 58.224 29.630 0.00 0.00 34.29 2.83
3161 4242 3.168035 TGCATGAAGGGTGGTAATGTT 57.832 42.857 0.00 0.00 0.00 2.71
3164 4245 4.013728 GCATGAAGGGTGGTAATGTTGTA 58.986 43.478 0.00 0.00 0.00 2.41
3226 4307 6.299604 GTTCGTTGTGACTTGTGAGAATATG 58.700 40.000 0.00 0.00 0.00 1.78
3246 4327 2.702478 TGACATGCTCCCATTCTCCTAG 59.298 50.000 0.00 0.00 0.00 3.02
3303 4389 8.466086 AAAAATCCAATTTCTTAGATGTTCGC 57.534 30.769 0.00 0.00 0.00 4.70
3324 4410 2.951642 CAAGACATGTGTTGACAACCCT 59.048 45.455 27.02 0.18 36.09 4.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.047179 GGGGAGTTCCGTCAGCAC 60.047 66.667 0.00 0.00 36.71 4.40
1 2 3.319198 GGGGGAGTTCCGTCAGCA 61.319 66.667 0.00 0.00 36.71 4.41
2 3 3.003763 AGGGGGAGTTCCGTCAGC 61.004 66.667 0.00 0.00 36.71 4.26
3 4 2.711922 CGAGGGGGAGTTCCGTCAG 61.712 68.421 0.00 0.00 40.60 3.51
4 5 2.678934 CGAGGGGGAGTTCCGTCA 60.679 66.667 0.00 0.00 40.60 4.35
5 6 2.362120 TCGAGGGGGAGTTCCGTC 60.362 66.667 0.00 0.00 38.08 4.79
6 7 2.679287 GTCGAGGGGGAGTTCCGT 60.679 66.667 0.00 0.00 36.71 4.69
7 8 2.678934 TGTCGAGGGGGAGTTCCG 60.679 66.667 0.00 0.00 36.71 4.30
8 9 1.192803 AAGTGTCGAGGGGGAGTTCC 61.193 60.000 0.00 0.00 0.00 3.62
9 10 0.685660 AAAGTGTCGAGGGGGAGTTC 59.314 55.000 0.00 0.00 0.00 3.01
10 11 0.396811 CAAAGTGTCGAGGGGGAGTT 59.603 55.000 0.00 0.00 0.00 3.01
11 12 0.763223 ACAAAGTGTCGAGGGGGAGT 60.763 55.000 0.00 0.00 0.00 3.85
12 13 0.396811 AACAAAGTGTCGAGGGGGAG 59.603 55.000 0.00 0.00 0.00 4.30
13 14 0.107831 CAACAAAGTGTCGAGGGGGA 59.892 55.000 0.00 0.00 0.00 4.81
14 15 0.889186 CCAACAAAGTGTCGAGGGGG 60.889 60.000 0.00 0.00 0.00 5.40
15 16 0.107831 TCCAACAAAGTGTCGAGGGG 59.892 55.000 0.00 0.00 0.00 4.79
16 17 2.076863 GATCCAACAAAGTGTCGAGGG 58.923 52.381 0.00 0.00 0.00 4.30
17 18 2.766313 TGATCCAACAAAGTGTCGAGG 58.234 47.619 0.00 0.00 0.00 4.63
18 19 4.058124 TCTTGATCCAACAAAGTGTCGAG 58.942 43.478 0.00 0.00 0.00 4.04
19 20 4.058124 CTCTTGATCCAACAAAGTGTCGA 58.942 43.478 0.00 0.00 0.00 4.20
20 21 3.809832 ACTCTTGATCCAACAAAGTGTCG 59.190 43.478 0.00 0.00 0.00 4.35
21 22 5.559035 CGAACTCTTGATCCAACAAAGTGTC 60.559 44.000 0.00 0.00 0.00 3.67
22 23 4.273480 CGAACTCTTGATCCAACAAAGTGT 59.727 41.667 0.00 0.00 0.00 3.55
23 24 4.511454 TCGAACTCTTGATCCAACAAAGTG 59.489 41.667 0.00 0.00 0.00 3.16
24 25 4.703897 TCGAACTCTTGATCCAACAAAGT 58.296 39.130 0.00 0.00 0.00 2.66
25 26 4.153117 CCTCGAACTCTTGATCCAACAAAG 59.847 45.833 0.00 0.00 0.00 2.77
26 27 4.065088 CCTCGAACTCTTGATCCAACAAA 58.935 43.478 0.00 0.00 0.00 2.83
27 28 3.557054 CCCTCGAACTCTTGATCCAACAA 60.557 47.826 0.00 0.00 0.00 2.83
28 29 2.028112 CCCTCGAACTCTTGATCCAACA 60.028 50.000 0.00 0.00 0.00 3.33
29 30 2.233922 TCCCTCGAACTCTTGATCCAAC 59.766 50.000 0.00 0.00 0.00 3.77
30 31 2.233922 GTCCCTCGAACTCTTGATCCAA 59.766 50.000 0.00 0.00 0.00 3.53
31 32 1.825474 GTCCCTCGAACTCTTGATCCA 59.175 52.381 0.00 0.00 0.00 3.41
32 33 1.825474 TGTCCCTCGAACTCTTGATCC 59.175 52.381 0.00 0.00 0.00 3.36
33 34 3.131223 TGATGTCCCTCGAACTCTTGATC 59.869 47.826 0.00 0.00 0.00 2.92
34 35 3.099905 TGATGTCCCTCGAACTCTTGAT 58.900 45.455 0.00 0.00 0.00 2.57
35 36 2.525368 TGATGTCCCTCGAACTCTTGA 58.475 47.619 0.00 0.00 0.00 3.02
36 37 3.452474 GATGATGTCCCTCGAACTCTTG 58.548 50.000 0.00 0.00 0.00 3.02
37 38 2.099921 CGATGATGTCCCTCGAACTCTT 59.900 50.000 0.00 0.00 34.41 2.85
38 39 1.678627 CGATGATGTCCCTCGAACTCT 59.321 52.381 0.00 0.00 34.41 3.24
39 40 1.676529 TCGATGATGTCCCTCGAACTC 59.323 52.381 0.00 0.00 38.37 3.01
40 41 1.678627 CTCGATGATGTCCCTCGAACT 59.321 52.381 0.00 0.00 40.52 3.01
41 42 1.866063 GCTCGATGATGTCCCTCGAAC 60.866 57.143 0.00 0.00 40.52 3.95
42 43 0.385751 GCTCGATGATGTCCCTCGAA 59.614 55.000 0.00 0.00 40.52 3.71
43 44 0.466372 AGCTCGATGATGTCCCTCGA 60.466 55.000 0.00 0.00 38.95 4.04
44 45 0.318529 CAGCTCGATGATGTCCCTCG 60.319 60.000 0.00 0.00 0.00 4.63
45 46 1.035923 TCAGCTCGATGATGTCCCTC 58.964 55.000 0.00 0.00 33.14 4.30
46 47 1.137872 GTTCAGCTCGATGATGTCCCT 59.862 52.381 0.00 0.00 33.14 4.20
47 48 1.576356 GTTCAGCTCGATGATGTCCC 58.424 55.000 0.00 0.00 33.14 4.46
48 49 1.203928 CGTTCAGCTCGATGATGTCC 58.796 55.000 0.00 0.00 33.14 4.02
49 50 1.585668 CACGTTCAGCTCGATGATGTC 59.414 52.381 0.00 0.00 33.14 3.06
50 51 1.067565 ACACGTTCAGCTCGATGATGT 60.068 47.619 0.00 0.00 33.14 3.06
51 52 1.322637 CACACGTTCAGCTCGATGATG 59.677 52.381 0.00 0.00 0.00 3.07
52 53 1.633561 CACACGTTCAGCTCGATGAT 58.366 50.000 0.00 0.00 0.00 2.45
53 54 1.008875 GCACACGTTCAGCTCGATGA 61.009 55.000 0.00 0.00 0.00 2.92
54 55 1.284297 TGCACACGTTCAGCTCGATG 61.284 55.000 0.00 0.07 0.00 3.84
55 56 1.006220 TGCACACGTTCAGCTCGAT 60.006 52.632 0.00 0.00 0.00 3.59
56 57 1.661509 CTGCACACGTTCAGCTCGA 60.662 57.895 0.00 0.00 0.00 4.04
57 58 1.215014 TTCTGCACACGTTCAGCTCG 61.215 55.000 5.40 0.00 0.00 5.03
58 59 0.233332 GTTCTGCACACGTTCAGCTC 59.767 55.000 5.40 0.00 0.00 4.09
59 60 0.179073 AGTTCTGCACACGTTCAGCT 60.179 50.000 5.40 0.00 0.00 4.24
60 61 0.233332 GAGTTCTGCACACGTTCAGC 59.767 55.000 4.78 1.26 0.00 4.26
61 62 0.504384 CGAGTTCTGCACACGTTCAG 59.496 55.000 0.00 0.00 35.01 3.02
62 63 0.874175 CCGAGTTCTGCACACGTTCA 60.874 55.000 0.00 0.00 37.75 3.18
63 64 0.596600 TCCGAGTTCTGCACACGTTC 60.597 55.000 0.00 0.00 37.75 3.95
64 65 0.597637 CTCCGAGTTCTGCACACGTT 60.598 55.000 0.00 0.00 37.75 3.99
65 66 1.007271 CTCCGAGTTCTGCACACGT 60.007 57.895 0.00 0.00 37.75 4.49
66 67 1.734477 CCTCCGAGTTCTGCACACG 60.734 63.158 0.00 0.00 39.03 4.49
67 68 0.946221 CACCTCCGAGTTCTGCACAC 60.946 60.000 0.00 0.00 0.00 3.82
68 69 1.367471 CACCTCCGAGTTCTGCACA 59.633 57.895 0.00 0.00 0.00 4.57
69 70 2.029844 GCACCTCCGAGTTCTGCAC 61.030 63.158 0.00 0.00 0.00 4.57
70 71 2.343758 GCACCTCCGAGTTCTGCA 59.656 61.111 0.00 0.00 0.00 4.41
71 72 2.435059 GGCACCTCCGAGTTCTGC 60.435 66.667 0.00 0.00 0.00 4.26
80 81 2.505557 CGAACGTACGGCACCTCC 60.506 66.667 21.06 0.00 0.00 4.30
81 82 2.505557 CCGAACGTACGGCACCTC 60.506 66.667 21.06 6.84 46.20 3.85
88 89 0.638746 GATCAAGCACCGAACGTACG 59.361 55.000 15.01 15.01 0.00 3.67
89 90 0.638746 CGATCAAGCACCGAACGTAC 59.361 55.000 0.00 0.00 0.00 3.67
90 91 0.457166 CCGATCAAGCACCGAACGTA 60.457 55.000 0.00 0.00 0.00 3.57
91 92 1.736645 CCGATCAAGCACCGAACGT 60.737 57.895 0.00 0.00 0.00 3.99
92 93 1.683790 GACCGATCAAGCACCGAACG 61.684 60.000 0.00 0.00 0.00 3.95
93 94 0.669318 TGACCGATCAAGCACCGAAC 60.669 55.000 0.00 0.00 0.00 3.95
94 95 0.389817 CTGACCGATCAAGCACCGAA 60.390 55.000 0.00 0.00 33.30 4.30
95 96 1.215382 CTGACCGATCAAGCACCGA 59.785 57.895 0.00 0.00 33.30 4.69
96 97 0.389817 TTCTGACCGATCAAGCACCG 60.390 55.000 0.00 0.00 33.30 4.94
97 98 1.079503 GTTCTGACCGATCAAGCACC 58.920 55.000 0.00 0.00 33.30 5.01
98 99 0.716108 CGTTCTGACCGATCAAGCAC 59.284 55.000 0.00 0.00 33.30 4.40
99 100 0.601057 TCGTTCTGACCGATCAAGCA 59.399 50.000 0.00 0.00 33.30 3.91
100 101 1.135373 TCTCGTTCTGACCGATCAAGC 60.135 52.381 0.00 0.00 33.30 4.01
101 102 2.921634 TCTCGTTCTGACCGATCAAG 57.078 50.000 0.00 0.00 33.30 3.02
102 103 2.817844 TCTTCTCGTTCTGACCGATCAA 59.182 45.455 0.00 0.00 33.30 2.57
103 104 2.433436 TCTTCTCGTTCTGACCGATCA 58.567 47.619 0.00 0.00 33.27 2.92
104 105 3.119779 ACTTCTTCTCGTTCTGACCGATC 60.120 47.826 0.00 0.00 33.27 3.69
105 106 2.820787 ACTTCTTCTCGTTCTGACCGAT 59.179 45.455 0.00 0.00 33.27 4.18
106 107 2.228059 ACTTCTTCTCGTTCTGACCGA 58.772 47.619 0.00 0.00 0.00 4.69
107 108 2.708386 ACTTCTTCTCGTTCTGACCG 57.292 50.000 0.00 0.00 0.00 4.79
108 109 2.981140 CGAACTTCTTCTCGTTCTGACC 59.019 50.000 0.00 0.00 37.85 4.02
109 110 3.664947 GTCGAACTTCTTCTCGTTCTGAC 59.335 47.826 0.00 0.00 37.85 3.51
110 111 3.564644 AGTCGAACTTCTTCTCGTTCTGA 59.435 43.478 0.00 0.00 37.85 3.27
111 112 3.891324 AGTCGAACTTCTTCTCGTTCTG 58.109 45.455 0.00 0.00 37.85 3.02
112 113 4.514441 TGTAGTCGAACTTCTTCTCGTTCT 59.486 41.667 0.00 0.00 37.85 3.01
113 114 4.781071 TGTAGTCGAACTTCTTCTCGTTC 58.219 43.478 0.00 0.00 36.46 3.95
114 115 4.825546 TGTAGTCGAACTTCTTCTCGTT 57.174 40.909 0.00 0.00 36.46 3.85
115 116 4.454847 TGATGTAGTCGAACTTCTTCTCGT 59.545 41.667 0.00 0.00 36.46 4.18
116 117 4.971008 TGATGTAGTCGAACTTCTTCTCG 58.029 43.478 0.00 0.00 36.39 4.04
117 118 5.573669 GGTTGATGTAGTCGAACTTCTTCTC 59.426 44.000 0.00 0.00 0.00 2.87
118 119 5.010719 TGGTTGATGTAGTCGAACTTCTTCT 59.989 40.000 0.00 0.00 0.00 2.85
119 120 5.118817 GTGGTTGATGTAGTCGAACTTCTTC 59.881 44.000 0.00 0.00 0.00 2.87
120 121 4.989168 GTGGTTGATGTAGTCGAACTTCTT 59.011 41.667 0.00 0.00 0.00 2.52
121 122 4.557205 GTGGTTGATGTAGTCGAACTTCT 58.443 43.478 0.00 0.00 0.00 2.85
122 123 3.364023 CGTGGTTGATGTAGTCGAACTTC 59.636 47.826 0.00 0.00 0.00 3.01
123 124 3.243636 ACGTGGTTGATGTAGTCGAACTT 60.244 43.478 0.00 0.00 0.00 2.66
124 125 2.295349 ACGTGGTTGATGTAGTCGAACT 59.705 45.455 0.00 0.00 0.00 3.01
125 126 2.669364 ACGTGGTTGATGTAGTCGAAC 58.331 47.619 0.00 0.00 0.00 3.95
126 127 3.054166 CAACGTGGTTGATGTAGTCGAA 58.946 45.455 2.40 0.00 45.28 3.71
127 128 2.034939 ACAACGTGGTTGATGTAGTCGA 59.965 45.455 14.79 0.00 45.28 4.20
128 129 2.400399 ACAACGTGGTTGATGTAGTCG 58.600 47.619 14.79 0.00 45.28 4.18
129 130 3.386486 TGACAACGTGGTTGATGTAGTC 58.614 45.455 14.79 2.29 45.28 2.59
130 131 3.462483 TGACAACGTGGTTGATGTAGT 57.538 42.857 14.79 0.00 45.28 2.73
131 132 4.804608 TTTGACAACGTGGTTGATGTAG 57.195 40.909 14.79 0.00 45.28 2.74
132 133 4.555708 GCATTTGACAACGTGGTTGATGTA 60.556 41.667 14.79 0.00 45.28 2.29
133 134 3.795150 GCATTTGACAACGTGGTTGATGT 60.795 43.478 14.79 0.00 45.28 3.06
134 135 2.725723 GCATTTGACAACGTGGTTGATG 59.274 45.455 14.79 3.63 45.28 3.07
135 136 2.622942 AGCATTTGACAACGTGGTTGAT 59.377 40.909 14.79 0.00 45.28 2.57
136 137 2.020720 AGCATTTGACAACGTGGTTGA 58.979 42.857 14.79 0.00 45.28 3.18
138 139 2.223711 GGAAGCATTTGACAACGTGGTT 60.224 45.455 13.87 13.87 35.27 3.67
139 140 1.336755 GGAAGCATTTGACAACGTGGT 59.663 47.619 0.00 0.00 0.00 4.16
140 141 1.662876 CGGAAGCATTTGACAACGTGG 60.663 52.381 0.00 0.00 0.00 4.94
141 142 1.673760 CGGAAGCATTTGACAACGTG 58.326 50.000 0.00 0.00 0.00 4.49
155 156 1.226603 CGTAGACCGGAAGCGGAAG 60.227 63.158 9.46 0.00 0.00 3.46
156 157 1.973281 ACGTAGACCGGAAGCGGAA 60.973 57.895 9.46 0.00 42.24 4.30
157 158 2.360350 ACGTAGACCGGAAGCGGA 60.360 61.111 9.46 0.00 42.24 5.54
158 159 2.202570 CACGTAGACCGGAAGCGG 60.203 66.667 9.46 0.00 42.24 5.52
159 160 2.202570 CCACGTAGACCGGAAGCG 60.203 66.667 9.46 9.75 42.24 4.68
160 161 1.315257 TACCCACGTAGACCGGAAGC 61.315 60.000 9.46 0.00 42.24 3.86
161 162 0.453390 GTACCCACGTAGACCGGAAG 59.547 60.000 9.46 0.00 42.24 3.46
162 163 1.305219 CGTACCCACGTAGACCGGAA 61.305 60.000 9.46 0.00 43.31 4.30
163 164 1.745115 CGTACCCACGTAGACCGGA 60.745 63.158 9.46 0.00 43.31 5.14
164 165 2.793946 CGTACCCACGTAGACCGG 59.206 66.667 0.00 0.00 43.31 5.28
173 174 0.319297 GAGTGTGTCCACGTACCCAC 60.319 60.000 0.00 0.00 46.56 4.61
174 175 1.466025 GGAGTGTGTCCACGTACCCA 61.466 60.000 0.00 0.00 46.10 4.51
175 176 1.291272 GGAGTGTGTCCACGTACCC 59.709 63.158 0.00 0.00 46.10 3.69
176 177 4.981415 GGAGTGTGTCCACGTACC 57.019 61.111 0.00 0.00 46.10 3.34
193 194 0.251916 TGCATAACAACGAGAGGGGG 59.748 55.000 0.00 0.00 0.00 5.40
194 195 2.158900 AGATGCATAACAACGAGAGGGG 60.159 50.000 0.00 0.00 0.00 4.79
195 196 3.126831 GAGATGCATAACAACGAGAGGG 58.873 50.000 0.00 0.00 0.00 4.30
196 197 3.126831 GGAGATGCATAACAACGAGAGG 58.873 50.000 0.00 0.00 0.00 3.69
197 198 4.052159 AGGAGATGCATAACAACGAGAG 57.948 45.455 0.00 0.00 0.00 3.20
198 199 4.887655 TCTAGGAGATGCATAACAACGAGA 59.112 41.667 0.00 0.00 0.00 4.04
199 200 5.188327 TCTAGGAGATGCATAACAACGAG 57.812 43.478 0.00 0.00 0.00 4.18
200 201 5.791336 ATCTAGGAGATGCATAACAACGA 57.209 39.130 0.00 0.00 32.80 3.85
201 202 7.946655 TTTATCTAGGAGATGCATAACAACG 57.053 36.000 0.00 0.00 35.37 4.10
202 203 9.717942 AGATTTATCTAGGAGATGCATAACAAC 57.282 33.333 0.00 0.00 35.37 3.32
204 205 9.716531 CAAGATTTATCTAGGAGATGCATAACA 57.283 33.333 0.00 0.00 35.37 2.41
205 206 8.663911 GCAAGATTTATCTAGGAGATGCATAAC 58.336 37.037 0.00 0.00 35.37 1.89
206 207 7.547019 CGCAAGATTTATCTAGGAGATGCATAA 59.453 37.037 0.00 0.00 35.65 1.90
207 208 7.038048 CGCAAGATTTATCTAGGAGATGCATA 58.962 38.462 0.00 0.00 35.65 3.14
208 209 5.873712 CGCAAGATTTATCTAGGAGATGCAT 59.126 40.000 0.00 0.00 35.65 3.96
209 210 5.221521 ACGCAAGATTTATCTAGGAGATGCA 60.222 40.000 10.64 0.00 36.70 3.96
210 211 5.119898 CACGCAAGATTTATCTAGGAGATGC 59.880 44.000 0.00 0.00 36.70 3.91
211 212 6.450545 TCACGCAAGATTTATCTAGGAGATG 58.549 40.000 0.00 0.00 36.70 2.90
212 213 6.656632 TCACGCAAGATTTATCTAGGAGAT 57.343 37.500 0.00 0.00 38.77 2.75
213 214 5.508153 GCTCACGCAAGATTTATCTAGGAGA 60.508 44.000 0.00 0.00 43.62 3.71
214 215 4.683781 GCTCACGCAAGATTTATCTAGGAG 59.316 45.833 0.00 0.00 43.62 3.69
215 216 4.621991 GCTCACGCAAGATTTATCTAGGA 58.378 43.478 0.00 0.00 43.62 2.94
216 217 3.426859 CGCTCACGCAAGATTTATCTAGG 59.573 47.826 0.00 0.00 43.62 3.02
217 218 4.045104 ACGCTCACGCAAGATTTATCTAG 58.955 43.478 0.00 0.00 45.53 2.43
218 219 4.041740 ACGCTCACGCAAGATTTATCTA 57.958 40.909 0.00 0.00 45.53 1.98
219 220 2.893637 ACGCTCACGCAAGATTTATCT 58.106 42.857 0.00 0.00 45.53 1.98
220 221 4.974103 ATACGCTCACGCAAGATTTATC 57.026 40.909 0.00 0.00 45.53 1.75
221 222 8.703604 AATATATACGCTCACGCAAGATTTAT 57.296 30.769 0.00 0.00 45.53 1.40
222 223 8.528917 AAATATATACGCTCACGCAAGATTTA 57.471 30.769 0.00 0.00 45.53 1.40
223 224 7.421530 AAATATATACGCTCACGCAAGATTT 57.578 32.000 0.00 0.00 45.53 2.17
224 225 7.421530 AAAATATATACGCTCACGCAAGATT 57.578 32.000 0.00 0.00 45.53 2.40
225 226 7.421530 AAAAATATATACGCTCACGCAAGAT 57.578 32.000 0.00 0.00 45.53 2.40
226 227 6.838198 AAAAATATATACGCTCACGCAAGA 57.162 33.333 0.00 0.00 45.53 3.02
248 249 5.635700 GGGAACGTAGCATGCAATTTAAAAA 59.364 36.000 21.98 0.00 0.00 1.94
249 250 5.164954 GGGAACGTAGCATGCAATTTAAAA 58.835 37.500 21.98 0.00 0.00 1.52
250 251 4.218635 TGGGAACGTAGCATGCAATTTAAA 59.781 37.500 21.98 0.00 0.00 1.52
251 252 3.759086 TGGGAACGTAGCATGCAATTTAA 59.241 39.130 21.98 0.00 0.00 1.52
252 253 3.348119 TGGGAACGTAGCATGCAATTTA 58.652 40.909 21.98 0.00 0.00 1.40
253 254 2.166829 TGGGAACGTAGCATGCAATTT 58.833 42.857 21.98 7.02 0.00 1.82
254 255 1.832883 TGGGAACGTAGCATGCAATT 58.167 45.000 21.98 7.96 0.00 2.32
255 256 1.472480 GTTGGGAACGTAGCATGCAAT 59.528 47.619 21.98 1.90 0.00 3.56
256 257 0.878416 GTTGGGAACGTAGCATGCAA 59.122 50.000 21.98 0.00 0.00 4.08
257 258 0.250510 TGTTGGGAACGTAGCATGCA 60.251 50.000 21.98 2.77 0.00 3.96
258 259 0.878416 TTGTTGGGAACGTAGCATGC 59.122 50.000 10.51 10.51 0.00 4.06
259 260 2.159393 CCATTGTTGGGAACGTAGCATG 60.159 50.000 0.00 0.00 39.56 4.06
260 261 2.091541 CCATTGTTGGGAACGTAGCAT 58.908 47.619 0.00 0.00 39.56 3.79
261 262 1.529226 CCATTGTTGGGAACGTAGCA 58.471 50.000 0.00 0.00 39.56 3.49
273 274 1.331214 CCACCTCAGCAACCATTGTT 58.669 50.000 0.00 0.00 34.14 2.83
274 275 1.181098 GCCACCTCAGCAACCATTGT 61.181 55.000 0.00 0.00 0.00 2.71
275 276 1.180456 TGCCACCTCAGCAACCATTG 61.180 55.000 0.00 0.00 37.28 2.82
276 277 0.251922 ATGCCACCTCAGCAACCATT 60.252 50.000 0.00 0.00 44.83 3.16
277 278 0.968901 CATGCCACCTCAGCAACCAT 60.969 55.000 0.00 0.00 44.83 3.55
278 279 1.604308 CATGCCACCTCAGCAACCA 60.604 57.895 0.00 0.00 44.83 3.67
279 280 2.345760 CCATGCCACCTCAGCAACC 61.346 63.158 0.00 0.00 44.83 3.77
280 281 1.181098 AACCATGCCACCTCAGCAAC 61.181 55.000 0.00 0.00 44.83 4.17
281 282 0.895100 GAACCATGCCACCTCAGCAA 60.895 55.000 0.00 0.00 44.83 3.91
282 283 1.303561 GAACCATGCCACCTCAGCA 60.304 57.895 0.00 0.00 45.94 4.41
283 284 2.048603 GGAACCATGCCACCTCAGC 61.049 63.158 0.00 0.00 0.00 4.26
284 285 0.033796 ATGGAACCATGCCACCTCAG 60.034 55.000 5.47 0.00 38.44 3.35
285 286 0.323633 CATGGAACCATGCCACCTCA 60.324 55.000 18.82 0.00 45.71 3.86
286 287 2.496942 CATGGAACCATGCCACCTC 58.503 57.895 18.82 0.00 45.71 3.85
287 288 4.770540 CATGGAACCATGCCACCT 57.229 55.556 18.82 0.00 45.71 4.00
312 313 9.826574 TGGTCATAGGTTATAATTTGTGTACTC 57.173 33.333 0.00 0.00 0.00 2.59
316 317 8.902806 CATGTGGTCATAGGTTATAATTTGTGT 58.097 33.333 0.00 0.00 32.47 3.72
319 320 7.939782 TGCATGTGGTCATAGGTTATAATTTG 58.060 34.615 0.00 0.00 32.47 2.32
330 331 5.761165 TCAAATCATGCATGTGGTCATAG 57.239 39.130 25.43 8.52 32.47 2.23
407 408 7.773690 GGCCTCCTACTACATCTTCAATTTTAA 59.226 37.037 0.00 0.00 0.00 1.52
410 411 5.398012 GGGCCTCCTACTACATCTTCAATTT 60.398 44.000 0.84 0.00 0.00 1.82
414 420 2.023404 TGGGCCTCCTACTACATCTTCA 60.023 50.000 4.53 0.00 0.00 3.02
439 445 4.687219 GCCCTACTTGCTAGTCCATTCATT 60.687 45.833 3.45 0.00 35.78 2.57
440 446 3.181450 GCCCTACTTGCTAGTCCATTCAT 60.181 47.826 3.45 0.00 35.78 2.57
443 449 1.490910 GGCCCTACTTGCTAGTCCATT 59.509 52.381 3.45 0.00 35.78 3.16
446 452 1.041447 TCGGCCCTACTTGCTAGTCC 61.041 60.000 3.45 0.00 35.78 3.85
447 453 0.822164 TTCGGCCCTACTTGCTAGTC 59.178 55.000 3.45 0.00 35.78 2.59
449 455 0.530870 GCTTCGGCCCTACTTGCTAG 60.531 60.000 0.00 0.00 34.32 3.42
450 456 1.520666 GCTTCGGCCCTACTTGCTA 59.479 57.895 0.00 0.00 34.32 3.49
451 457 2.269241 GCTTCGGCCCTACTTGCT 59.731 61.111 0.00 0.00 34.32 3.91
464 470 1.087501 GTGAAGATCGGTTGGGCTTC 58.912 55.000 0.00 0.00 37.76 3.86
476 483 1.938585 TTGTCCTCTCCGGTGAAGAT 58.061 50.000 8.02 0.00 0.00 2.40
489 496 0.113190 CTCCCTTTGGGCTTTGTCCT 59.887 55.000 0.00 0.00 43.94 3.85
689 1663 0.179078 CCATCACCAGAGCTGAGAGC 60.179 60.000 0.00 0.00 42.84 4.09
690 1664 0.464870 CCCATCACCAGAGCTGAGAG 59.535 60.000 0.00 0.00 0.00 3.20
691 1665 0.979709 CCCCATCACCAGAGCTGAGA 60.980 60.000 0.00 0.00 0.00 3.27
692 1666 1.270414 ACCCCATCACCAGAGCTGAG 61.270 60.000 0.00 0.00 0.00 3.35
693 1667 0.842030 AACCCCATCACCAGAGCTGA 60.842 55.000 0.00 0.00 0.00 4.26
694 1668 0.911769 TAACCCCATCACCAGAGCTG 59.088 55.000 0.00 0.00 0.00 4.24
695 1669 1.771255 GATAACCCCATCACCAGAGCT 59.229 52.381 0.00 0.00 0.00 4.09
1003 1977 1.480137 CCTCTCGCTCTTGGACTTGAT 59.520 52.381 0.00 0.00 0.00 2.57
1007 1981 0.975040 ATGCCTCTCGCTCTTGGACT 60.975 55.000 0.00 0.00 38.78 3.85
1059 2033 3.680786 TGGTGGAGCAGGTCGTCG 61.681 66.667 0.00 0.00 0.00 5.12
1474 2448 2.560105 GGCATCCAGAAAACAGCTTCTT 59.440 45.455 0.00 0.00 33.25 2.52
1501 2475 5.010922 AGCATATCAGCTCTAACTCTTCCAG 59.989 44.000 0.00 0.00 42.18 3.86
1792 2766 1.078848 GCGACCTCAAGCTGGTGAT 60.079 57.895 0.00 0.00 38.03 3.06
1833 2807 2.182842 CCAGCGCAGGAAGCATACC 61.183 63.158 14.67 0.00 46.13 2.73
1910 2884 3.637769 TCCAATACCTTTATTGCCACCC 58.362 45.455 0.00 0.00 42.33 4.61
1955 2929 3.825328 AGAGTTGTCAGGCTGTTGAATT 58.175 40.909 15.27 2.77 0.00 2.17
2369 3344 0.822164 GTACCGTACATGCTGACCCT 59.178 55.000 3.69 0.00 0.00 4.34
2388 3363 3.500680 TGCTAGTTGGGCTTTAGAAAACG 59.499 43.478 0.00 0.00 0.00 3.60
2397 3372 2.369394 GCATAGTTGCTAGTTGGGCTT 58.631 47.619 0.00 0.00 45.77 4.35
2435 3410 5.106987 GGTCCAATTGTAAAAGCATGCAAAG 60.107 40.000 21.98 1.69 0.00 2.77
2440 3415 7.601886 TGTTATTGGTCCAATTGTAAAAGCATG 59.398 33.333 22.13 0.00 35.54 4.06
2452 3427 5.046663 GTGGAAATGGTGTTATTGGTCCAAT 60.047 40.000 20.82 20.82 37.80 3.16
2490 3465 2.364632 CACCGCCATGAAAATCCAGTA 58.635 47.619 0.00 0.00 0.00 2.74
2513 3488 8.475639 GGAACACTTTTAGTCCATAGTCTGATA 58.524 37.037 0.00 0.00 0.00 2.15
2549 3524 1.968493 ACAAACGGAGCAGAAGTCCTA 59.032 47.619 0.00 0.00 31.14 2.94
2697 3672 9.221933 TGATAACCGAGTTACATTAAACACATT 57.778 29.630 0.00 0.00 30.49 2.71
2707 3766 7.342769 TGACTACATGATAACCGAGTTACAT 57.657 36.000 0.00 3.67 30.49 2.29
2729 3788 2.674357 TCTCGAATCGACGTGTACATGA 59.326 45.455 21.82 7.25 34.70 3.07
2739 3798 3.605743 AATACCTCGTCTCGAATCGAC 57.394 47.619 0.00 0.90 34.74 4.20
2747 3806 6.100004 TCACAAGATTCAAATACCTCGTCTC 58.900 40.000 0.00 0.00 0.00 3.36
2748 3807 6.037786 TCACAAGATTCAAATACCTCGTCT 57.962 37.500 0.00 0.00 0.00 4.18
2793 3852 6.238897 CCTCTCACATGCTACCTACTAGAAAG 60.239 46.154 0.00 0.00 0.00 2.62
2830 3889 0.535102 CGCCTGGAACAAGTTGGTCT 60.535 55.000 20.02 0.00 38.70 3.85
2845 3904 2.748058 AAATTCTGGTCGGTGCGCCT 62.748 55.000 15.69 0.00 0.00 5.52
2899 3980 8.511604 AGATAAATCATCGAACCAAATGAAGT 57.488 30.769 0.00 0.00 38.81 3.01
2960 4041 8.239314 TCAATAGGCGTATAAGTAGGTTATTCG 58.761 37.037 0.00 0.00 42.03 3.34
2973 4054 7.269316 TCAATCTGTTGTTCAATAGGCGTATA 58.731 34.615 0.00 0.00 36.69 1.47
2978 4059 6.259550 ACTTCAATCTGTTGTTCAATAGGC 57.740 37.500 8.87 0.00 36.69 3.93
3000 4081 0.318784 CTCGGGCGGTTAGATGCTAC 60.319 60.000 0.00 0.00 0.00 3.58
3001 4082 1.461091 CCTCGGGCGGTTAGATGCTA 61.461 60.000 0.00 0.00 0.00 3.49
3005 4086 1.472662 CCATCCTCGGGCGGTTAGAT 61.473 60.000 0.00 0.00 0.00 1.98
3042 4123 7.746243 ACAGCCATGATAGTAGATTATGGAT 57.254 36.000 11.41 3.37 40.52 3.41
3161 4242 4.666412 TCCAATTTCCACCCTTCATACA 57.334 40.909 0.00 0.00 0.00 2.29
3164 4245 4.686891 TGATTCCAATTTCCACCCTTCAT 58.313 39.130 0.00 0.00 0.00 2.57
3226 4307 2.968574 TCTAGGAGAATGGGAGCATGTC 59.031 50.000 0.00 0.00 0.00 3.06
3281 4367 6.757897 TGCGAACATCTAAGAAATTGGATT 57.242 33.333 0.00 0.00 0.00 3.01
3282 4368 6.599244 TCTTGCGAACATCTAAGAAATTGGAT 59.401 34.615 0.00 0.00 0.00 3.41
3283 4369 5.937540 TCTTGCGAACATCTAAGAAATTGGA 59.062 36.000 0.00 0.00 0.00 3.53
3284 4370 6.024049 GTCTTGCGAACATCTAAGAAATTGG 58.976 40.000 0.00 0.00 31.64 3.16
3302 4388 2.543653 GGGTTGTCAACACATGTCTTGC 60.544 50.000 17.29 5.42 34.08 4.01
3303 4389 2.951642 AGGGTTGTCAACACATGTCTTG 59.048 45.455 19.92 7.47 37.23 3.02


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

AutoCloner maintained by Alex Coulton.