Multiple sequence alignment - TraesCS4D01G249300

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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 TraesCS4D01G249300 chr4D 100.000 3722 0 0 1 3722 418534093 418530372 0.000000e+00 6874.0
1 TraesCS4D01G249300 chr4D 95.484 930 27 3 2186 3110 220918826 220919745 0.000000e+00 1471.0
2 TraesCS4D01G249300 chr4D 95.506 623 26 2 3100 3722 220922218 220922838 0.000000e+00 994.0
3 TraesCS4D01G249300 chr7D 98.055 3444 53 7 283 3722 500905611 500902178 0.000000e+00 5976.0
4 TraesCS4D01G249300 chr7D 96.108 925 26 2 2186 3110 244778830 244779744 0.000000e+00 1500.0
5 TraesCS4D01G249300 chr7D 95.776 805 24 2 2306 3110 162120015 162120809 0.000000e+00 1290.0
6 TraesCS4D01G249300 chr7D 96.985 597 15 3 3100 3696 244782218 244782811 0.000000e+00 1000.0
7 TraesCS4D01G249300 chr7D 96.817 597 16 3 3100 3696 162123280 162123873 0.000000e+00 994.0
8 TraesCS4D01G249300 chr5D 97.388 3446 64 4 283 3720 548204748 548208175 0.000000e+00 5842.0
9 TraesCS4D01G249300 chr5D 97.620 3403 68 4 321 3722 425666625 425670015 0.000000e+00 5823.0
10 TraesCS4D01G249300 chr5D 96.438 758 17 2 2350 3107 514416491 514415744 0.000000e+00 1242.0
11 TraesCS4D01G249300 chr5D 95.893 560 18 3 3100 3659 69521526 69520972 0.000000e+00 902.0
12 TraesCS4D01G249300 chr3A 95.527 2258 57 6 283 2539 647362486 647364700 0.000000e+00 3570.0
13 TraesCS4D01G249300 chr3A 96.226 477 10 2 2064 2539 662882607 662882138 0.000000e+00 774.0
14 TraesCS4D01G249300 chr3B 96.296 1323 41 3 283 1602 775480253 775481570 0.000000e+00 2165.0
15 TraesCS4D01G249300 chr3B 94.919 925 37 2 2186 3110 101366129 101367043 0.000000e+00 1439.0
16 TraesCS4D01G249300 chr3B 96.974 793 20 1 2934 3722 775483177 775483969 0.000000e+00 1328.0
17 TraesCS4D01G249300 chr3B 87.186 1116 141 2 423 1538 674485766 674484653 0.000000e+00 1267.0
18 TraesCS4D01G249300 chr3B 96.914 648 19 1 1600 2246 775481731 775482378 0.000000e+00 1085.0
19 TraesCS4D01G249300 chr3B 96.435 533 18 1 3145 3677 802303118 802302587 0.000000e+00 878.0
20 TraesCS4D01G249300 chr3B 85.965 171 19 2 1565 1731 674483578 674483409 1.060000e-40 178.0
21 TraesCS4D01G249300 chr7A 97.660 983 21 1 283 1265 686148905 686147925 0.000000e+00 1687.0
22 TraesCS4D01G249300 chr7A 95.163 765 12 3 1269 2031 686143552 686142811 0.000000e+00 1184.0
23 TraesCS4D01G249300 chr7A 97.188 320 8 1 2067 2385 686142606 686142287 1.180000e-149 540.0
24 TraesCS4D01G249300 chr7A 97.222 36 0 1 2045 2080 686142815 686142781 4.010000e-05 60.2
25 TraesCS4D01G249300 chr6B 87.877 1328 138 10 423 1731 55200773 55202096 0.000000e+00 1539.0
26 TraesCS4D01G249300 chr6B 79.299 314 43 11 1200 1512 180960301 180960009 2.270000e-47 200.0
27 TraesCS4D01G249300 chr2D 96.216 925 25 3 2186 3110 35973770 35972856 0.000000e+00 1506.0
28 TraesCS4D01G249300 chr2A 95.032 926 35 3 2186 3110 427515243 427516158 0.000000e+00 1445.0
29 TraesCS4D01G249300 chr2A 88.213 263 21 5 3 255 355516515 355516253 4.670000e-79 305.0
30 TraesCS4D01G249300 chr5B 84.013 1251 142 30 333 1549 578591811 578590585 0.000000e+00 1149.0
31 TraesCS4D01G249300 chr5B 92.096 291 13 4 1 283 418917524 418917812 5.790000e-108 401.0
32 TraesCS4D01G249300 chr5B 89.844 128 13 0 1742 1869 391869147 391869274 8.270000e-37 165.0
33 TraesCS4D01G249300 chr7B 97.872 282 5 1 1 282 92125944 92126224 1.550000e-133 486.0
34 TraesCS4D01G249300 chr4B 95.053 283 10 3 1 282 591238048 591237769 3.410000e-120 442.0
35 TraesCS4D01G249300 chr1B 94.406 286 9 3 1 283 51881700 51881981 2.050000e-117 433.0
36 TraesCS4D01G249300 chr1B 93.822 259 12 1 1 255 17878854 17878596 1.620000e-103 387.0
37 TraesCS4D01G249300 chr2B 93.972 282 16 1 1 282 74358673 74358393 3.440000e-115 425.0
38 TraesCS4D01G249300 chr2B 92.096 291 13 4 1 283 630735747 630736035 5.790000e-108 401.0
39 TraesCS4D01G249300 chr1D 91.724 290 14 4 1 282 387192594 387192881 9.690000e-106 394.0
40 TraesCS4D01G249300 chr4A 93.388 242 9 4 2186 2427 738595990 738595756 5.910000e-93 351.0


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 TraesCS4D01G249300 chr4D 418530372 418534093 3721 True 6874.000000 6874 100.000000 1 3722 1 chr4D.!!$R1 3721
1 TraesCS4D01G249300 chr4D 220918826 220922838 4012 False 1232.500000 1471 95.495000 2186 3722 2 chr4D.!!$F1 1536
2 TraesCS4D01G249300 chr7D 500902178 500905611 3433 True 5976.000000 5976 98.055000 283 3722 1 chr7D.!!$R1 3439
3 TraesCS4D01G249300 chr7D 244778830 244782811 3981 False 1250.000000 1500 96.546500 2186 3696 2 chr7D.!!$F2 1510
4 TraesCS4D01G249300 chr7D 162120015 162123873 3858 False 1142.000000 1290 96.296500 2306 3696 2 chr7D.!!$F1 1390
5 TraesCS4D01G249300 chr5D 548204748 548208175 3427 False 5842.000000 5842 97.388000 283 3720 1 chr5D.!!$F2 3437
6 TraesCS4D01G249300 chr5D 425666625 425670015 3390 False 5823.000000 5823 97.620000 321 3722 1 chr5D.!!$F1 3401
7 TraesCS4D01G249300 chr5D 514415744 514416491 747 True 1242.000000 1242 96.438000 2350 3107 1 chr5D.!!$R2 757
8 TraesCS4D01G249300 chr5D 69520972 69521526 554 True 902.000000 902 95.893000 3100 3659 1 chr5D.!!$R1 559
9 TraesCS4D01G249300 chr3A 647362486 647364700 2214 False 3570.000000 3570 95.527000 283 2539 1 chr3A.!!$F1 2256
10 TraesCS4D01G249300 chr3B 775480253 775483969 3716 False 1526.000000 2165 96.728000 283 3722 3 chr3B.!!$F2 3439
11 TraesCS4D01G249300 chr3B 101366129 101367043 914 False 1439.000000 1439 94.919000 2186 3110 1 chr3B.!!$F1 924
12 TraesCS4D01G249300 chr3B 802302587 802303118 531 True 878.000000 878 96.435000 3145 3677 1 chr3B.!!$R1 532
13 TraesCS4D01G249300 chr3B 674483409 674485766 2357 True 722.500000 1267 86.575500 423 1731 2 chr3B.!!$R2 1308
14 TraesCS4D01G249300 chr7A 686147925 686148905 980 True 1687.000000 1687 97.660000 283 1265 1 chr7A.!!$R1 982
15 TraesCS4D01G249300 chr7A 686142287 686143552 1265 True 594.733333 1184 96.524333 1269 2385 3 chr7A.!!$R2 1116
16 TraesCS4D01G249300 chr6B 55200773 55202096 1323 False 1539.000000 1539 87.877000 423 1731 1 chr6B.!!$F1 1308
17 TraesCS4D01G249300 chr2D 35972856 35973770 914 True 1506.000000 1506 96.216000 2186 3110 1 chr2D.!!$R1 924
18 TraesCS4D01G249300 chr2A 427515243 427516158 915 False 1445.000000 1445 95.032000 2186 3110 1 chr2A.!!$F1 924
19 TraesCS4D01G249300 chr5B 578590585 578591811 1226 True 1149.000000 1149 84.013000 333 1549 1 chr5B.!!$R1 1216

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
251 252 0.034896 TCAAGTCTGAAACTCGCCCC 59.965 55.000 0.0 0.0 37.17 5.80 F
278 279 0.035439 TCAAATTCCTGGCTCCGTCC 60.035 55.000 0.0 0.0 0.00 4.79 F
279 280 1.032114 CAAATTCCTGGCTCCGTCCC 61.032 60.000 0.0 0.0 0.00 4.46 F
280 281 1.208165 AAATTCCTGGCTCCGTCCCT 61.208 55.000 0.0 0.0 0.00 4.20 F
281 282 1.915078 AATTCCTGGCTCCGTCCCTG 61.915 60.000 0.0 0.0 0.00 4.45 F
1826 3150 1.957877 CGAGGTTCAGATCCTAGACCC 59.042 57.143 0.0 0.0 35.20 4.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1668 2988 0.482446 ACTGGGGGTGCATCAAGAAA 59.518 50.000 0.00 0.0 0.00 2.52 R
1734 3058 2.078849 ATCAATGAACGACGCTGACA 57.921 45.000 0.00 0.0 0.00 3.58 R
2163 3675 3.197766 TGCCCTGAACATAGTACAAGAGG 59.802 47.826 0.00 0.0 0.00 3.69 R
2388 4062 8.627403 GCCCAAAAGGAAACCTATAGTATTAAC 58.373 37.037 0.00 0.0 38.24 2.01 R
2571 4246 8.584600 CATTCTGTTGTTAGTATCAACTACGTC 58.415 37.037 19.77 0.0 43.54 4.34 R
3384 7560 6.156602 AGTCTCCATCTTCTGACTGAATTCAT 59.843 38.462 8.96 0.0 38.22 2.57 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
40 41 8.981724 ATTGATTGACATGAAAATCAGAGTTG 57.018 30.769 19.69 0.00 42.20 3.16
41 42 6.916440 TGATTGACATGAAAATCAGAGTTGG 58.084 36.000 17.91 0.00 37.76 3.77
42 43 6.491062 TGATTGACATGAAAATCAGAGTTGGT 59.509 34.615 17.91 0.00 37.76 3.67
43 44 5.947228 TGACATGAAAATCAGAGTTGGTC 57.053 39.130 0.00 0.00 0.00 4.02
44 45 5.375773 TGACATGAAAATCAGAGTTGGTCA 58.624 37.500 0.00 0.00 0.00 4.02
45 46 5.827267 TGACATGAAAATCAGAGTTGGTCAA 59.173 36.000 0.00 0.00 0.00 3.18
46 47 6.491062 TGACATGAAAATCAGAGTTGGTCAAT 59.509 34.615 0.00 0.00 0.00 2.57
47 48 7.014518 TGACATGAAAATCAGAGTTGGTCAATT 59.985 33.333 0.00 0.00 0.00 2.32
48 49 7.373493 ACATGAAAATCAGAGTTGGTCAATTC 58.627 34.615 0.00 0.00 0.00 2.17
49 50 6.957920 TGAAAATCAGAGTTGGTCAATTCA 57.042 33.333 8.52 0.17 30.52 2.57
50 51 7.345422 TGAAAATCAGAGTTGGTCAATTCAA 57.655 32.000 8.52 0.00 30.52 2.69
51 52 7.202526 TGAAAATCAGAGTTGGTCAATTCAAC 58.797 34.615 8.52 1.27 43.31 3.18
52 53 5.362556 AATCAGAGTTGGTCAATTCAACG 57.637 39.130 8.52 0.00 46.36 4.10
53 54 3.804036 TCAGAGTTGGTCAATTCAACGT 58.196 40.909 8.52 0.00 46.36 3.99
54 55 4.951254 TCAGAGTTGGTCAATTCAACGTA 58.049 39.130 8.52 0.00 46.36 3.57
55 56 4.988540 TCAGAGTTGGTCAATTCAACGTAG 59.011 41.667 8.52 0.00 46.36 3.51
57 58 5.924254 CAGAGTTGGTCAATTCAACGTAGTA 59.076 40.000 8.52 0.00 45.00 1.82
58 59 5.924825 AGAGTTGGTCAATTCAACGTAGTAC 59.075 40.000 8.52 0.00 45.00 2.73
59 60 4.992951 AGTTGGTCAATTCAACGTAGTACC 59.007 41.667 0.00 0.00 45.00 3.34
60 61 3.577667 TGGTCAATTCAACGTAGTACCG 58.422 45.455 0.00 0.00 45.00 4.02
61 62 3.005684 TGGTCAATTCAACGTAGTACCGT 59.994 43.478 0.00 0.00 45.00 4.83
62 63 3.609807 GGTCAATTCAACGTAGTACCGTC 59.390 47.826 0.00 0.00 45.00 4.79
63 64 4.479619 GTCAATTCAACGTAGTACCGTCT 58.520 43.478 0.00 0.00 45.00 4.18
64 65 4.322804 GTCAATTCAACGTAGTACCGTCTG 59.677 45.833 0.00 0.71 45.00 3.51
65 66 2.336554 TTCAACGTAGTACCGTCTGC 57.663 50.000 0.00 0.00 45.00 4.26
66 67 0.523072 TCAACGTAGTACCGTCTGCC 59.477 55.000 0.00 0.00 45.00 4.85
67 68 0.241749 CAACGTAGTACCGTCTGCCA 59.758 55.000 0.00 0.00 45.00 4.92
68 69 0.961019 AACGTAGTACCGTCTGCCAA 59.039 50.000 0.00 0.00 45.00 4.52
69 70 0.961019 ACGTAGTACCGTCTGCCAAA 59.039 50.000 0.00 0.00 41.94 3.28
70 71 1.547372 ACGTAGTACCGTCTGCCAAAT 59.453 47.619 0.00 0.00 41.94 2.32
71 72 2.028748 ACGTAGTACCGTCTGCCAAATT 60.029 45.455 0.00 0.00 41.94 1.82
72 73 3.193267 ACGTAGTACCGTCTGCCAAATTA 59.807 43.478 0.00 0.00 41.94 1.40
73 74 4.142093 ACGTAGTACCGTCTGCCAAATTAT 60.142 41.667 0.00 0.00 41.94 1.28
74 75 4.208460 CGTAGTACCGTCTGCCAAATTATG 59.792 45.833 0.00 0.00 0.00 1.90
75 76 4.216411 AGTACCGTCTGCCAAATTATGT 57.784 40.909 0.00 0.00 0.00 2.29
76 77 5.347620 AGTACCGTCTGCCAAATTATGTA 57.652 39.130 0.00 0.00 0.00 2.29
77 78 5.114081 AGTACCGTCTGCCAAATTATGTAC 58.886 41.667 0.00 0.00 0.00 2.90
78 79 4.216411 ACCGTCTGCCAAATTATGTACT 57.784 40.909 0.00 0.00 0.00 2.73
79 80 5.347620 ACCGTCTGCCAAATTATGTACTA 57.652 39.130 0.00 0.00 0.00 1.82
80 81 5.925509 ACCGTCTGCCAAATTATGTACTAT 58.074 37.500 0.00 0.00 0.00 2.12
81 82 7.058023 ACCGTCTGCCAAATTATGTACTATA 57.942 36.000 0.00 0.00 0.00 1.31
82 83 7.502696 ACCGTCTGCCAAATTATGTACTATAA 58.497 34.615 0.00 0.00 0.00 0.98
83 84 7.440255 ACCGTCTGCCAAATTATGTACTATAAC 59.560 37.037 0.00 0.00 0.00 1.89
84 85 7.656137 CCGTCTGCCAAATTATGTACTATAACT 59.344 37.037 0.00 0.00 0.00 2.24
85 86 9.687210 CGTCTGCCAAATTATGTACTATAACTA 57.313 33.333 0.00 0.00 0.00 2.24
149 150 8.025243 TGTAATGTTTAGCTGTTTACACTAGC 57.975 34.615 0.00 0.00 37.71 3.42
150 151 5.779806 ATGTTTAGCTGTTTACACTAGCG 57.220 39.130 0.00 0.00 42.10 4.26
151 152 4.873817 TGTTTAGCTGTTTACACTAGCGA 58.126 39.130 0.00 0.00 42.10 4.93
152 153 5.291178 TGTTTAGCTGTTTACACTAGCGAA 58.709 37.500 0.00 0.00 42.10 4.70
153 154 5.754406 TGTTTAGCTGTTTACACTAGCGAAA 59.246 36.000 0.00 0.00 42.10 3.46
154 155 6.258287 TGTTTAGCTGTTTACACTAGCGAAAA 59.742 34.615 0.00 0.00 41.38 2.29
155 156 4.727235 AGCTGTTTACACTAGCGAAAAC 57.273 40.909 7.23 7.23 42.10 2.43
156 157 4.124238 AGCTGTTTACACTAGCGAAAACA 58.876 39.130 13.38 13.38 42.10 2.83
157 158 4.025145 AGCTGTTTACACTAGCGAAAACAC 60.025 41.667 11.13 9.26 42.10 3.32
158 159 4.440851 TGTTTACACTAGCGAAAACACG 57.559 40.909 11.13 0.00 37.02 4.49
159 160 4.111198 TGTTTACACTAGCGAAAACACGA 58.889 39.130 11.13 0.00 37.02 4.35
160 161 4.207635 TGTTTACACTAGCGAAAACACGAG 59.792 41.667 11.13 0.00 37.02 4.18
161 162 2.503920 ACACTAGCGAAAACACGAGT 57.496 45.000 0.00 0.00 35.09 4.18
162 163 2.391879 ACACTAGCGAAAACACGAGTC 58.608 47.619 0.00 0.00 35.09 3.36
163 164 2.034305 ACACTAGCGAAAACACGAGTCT 59.966 45.455 0.00 0.00 35.09 3.24
164 165 2.405357 CACTAGCGAAAACACGAGTCTG 59.595 50.000 0.00 0.00 35.09 3.51
165 166 1.986378 CTAGCGAAAACACGAGTCTGG 59.014 52.381 0.00 0.00 35.09 3.86
166 167 0.600255 AGCGAAAACACGAGTCTGGG 60.600 55.000 0.00 0.00 35.09 4.45
167 168 1.860078 CGAAAACACGAGTCTGGGC 59.140 57.895 0.00 0.00 35.09 5.36
168 169 0.600255 CGAAAACACGAGTCTGGGCT 60.600 55.000 0.00 0.00 35.09 5.19
169 170 1.594331 GAAAACACGAGTCTGGGCTT 58.406 50.000 0.00 0.00 0.00 4.35
170 171 2.762745 GAAAACACGAGTCTGGGCTTA 58.237 47.619 0.00 0.00 0.00 3.09
171 172 3.335579 GAAAACACGAGTCTGGGCTTAT 58.664 45.455 0.00 0.00 0.00 1.73
172 173 2.386661 AACACGAGTCTGGGCTTATG 57.613 50.000 0.00 0.00 0.00 1.90
173 174 1.267121 ACACGAGTCTGGGCTTATGT 58.733 50.000 0.00 0.00 0.00 2.29
174 175 1.623811 ACACGAGTCTGGGCTTATGTT 59.376 47.619 0.00 0.00 0.00 2.71
175 176 2.038557 ACACGAGTCTGGGCTTATGTTT 59.961 45.455 0.00 0.00 0.00 2.83
176 177 2.673368 CACGAGTCTGGGCTTATGTTTC 59.327 50.000 0.00 0.00 0.00 2.78
177 178 2.567615 ACGAGTCTGGGCTTATGTTTCT 59.432 45.455 0.00 0.00 0.00 2.52
178 179 3.008049 ACGAGTCTGGGCTTATGTTTCTT 59.992 43.478 0.00 0.00 0.00 2.52
179 180 4.003648 CGAGTCTGGGCTTATGTTTCTTT 58.996 43.478 0.00 0.00 0.00 2.52
180 181 4.142816 CGAGTCTGGGCTTATGTTTCTTTG 60.143 45.833 0.00 0.00 0.00 2.77
181 182 3.507622 AGTCTGGGCTTATGTTTCTTTGC 59.492 43.478 0.00 0.00 0.00 3.68
182 183 3.255642 GTCTGGGCTTATGTTTCTTTGCA 59.744 43.478 0.00 0.00 0.00 4.08
183 184 3.255642 TCTGGGCTTATGTTTCTTTGCAC 59.744 43.478 0.00 0.00 0.00 4.57
184 185 2.961741 TGGGCTTATGTTTCTTTGCACA 59.038 40.909 0.00 0.00 0.00 4.57
185 186 3.243704 TGGGCTTATGTTTCTTTGCACAC 60.244 43.478 0.00 0.00 0.00 3.82
186 187 3.005791 GGGCTTATGTTTCTTTGCACACT 59.994 43.478 0.00 0.00 0.00 3.55
187 188 4.501400 GGGCTTATGTTTCTTTGCACACTT 60.501 41.667 0.00 0.00 0.00 3.16
188 189 5.049828 GGCTTATGTTTCTTTGCACACTTT 58.950 37.500 0.00 0.00 0.00 2.66
189 190 6.212955 GGCTTATGTTTCTTTGCACACTTTA 58.787 36.000 0.00 0.00 0.00 1.85
190 191 6.699642 GGCTTATGTTTCTTTGCACACTTTAA 59.300 34.615 0.00 0.00 0.00 1.52
191 192 7.223777 GGCTTATGTTTCTTTGCACACTTTAAA 59.776 33.333 0.00 0.00 0.00 1.52
192 193 8.055986 GCTTATGTTTCTTTGCACACTTTAAAC 58.944 33.333 0.00 0.00 0.00 2.01
193 194 9.301153 CTTATGTTTCTTTGCACACTTTAAACT 57.699 29.630 0.00 0.00 0.00 2.66
194 195 9.646427 TTATGTTTCTTTGCACACTTTAAACTT 57.354 25.926 0.00 0.00 0.00 2.66
195 196 7.575332 TGTTTCTTTGCACACTTTAAACTTC 57.425 32.000 0.00 0.00 0.00 3.01
196 197 7.375053 TGTTTCTTTGCACACTTTAAACTTCT 58.625 30.769 0.00 0.00 0.00 2.85
197 198 7.328249 TGTTTCTTTGCACACTTTAAACTTCTG 59.672 33.333 0.00 0.00 0.00 3.02
198 199 6.751514 TCTTTGCACACTTTAAACTTCTGA 57.248 33.333 0.00 0.00 0.00 3.27
199 200 6.785191 TCTTTGCACACTTTAAACTTCTGAG 58.215 36.000 0.00 0.00 0.00 3.35
200 201 6.374333 TCTTTGCACACTTTAAACTTCTGAGT 59.626 34.615 0.00 0.00 37.87 3.41
201 202 5.484173 TGCACACTTTAAACTTCTGAGTG 57.516 39.130 0.00 0.00 42.48 3.51
202 203 5.182487 TGCACACTTTAAACTTCTGAGTGA 58.818 37.500 8.60 0.00 39.97 3.41
203 204 5.822519 TGCACACTTTAAACTTCTGAGTGAT 59.177 36.000 8.60 0.00 39.97 3.06
204 205 6.017934 TGCACACTTTAAACTTCTGAGTGATC 60.018 38.462 8.60 0.00 39.97 2.92
205 206 6.017934 GCACACTTTAAACTTCTGAGTGATCA 60.018 38.462 8.60 0.00 39.97 2.92
206 207 7.308229 GCACACTTTAAACTTCTGAGTGATCAT 60.308 37.037 0.00 0.00 39.97 2.45
207 208 8.226448 CACACTTTAAACTTCTGAGTGATCATC 58.774 37.037 0.00 0.00 39.97 2.92
208 209 7.389053 ACACTTTAAACTTCTGAGTGATCATCC 59.611 37.037 0.00 0.00 39.97 3.51
209 210 6.591834 ACTTTAAACTTCTGAGTGATCATCCG 59.408 38.462 0.00 0.00 35.91 4.18
210 211 3.533606 AACTTCTGAGTGATCATCCGG 57.466 47.619 0.00 0.00 35.91 5.14
211 212 2.461695 ACTTCTGAGTGATCATCCGGT 58.538 47.619 0.00 0.00 33.99 5.28
212 213 2.167281 ACTTCTGAGTGATCATCCGGTG 59.833 50.000 0.00 0.00 33.99 4.94
213 214 0.461548 TCTGAGTGATCATCCGGTGC 59.538 55.000 0.00 0.00 0.00 5.01
214 215 0.531532 CTGAGTGATCATCCGGTGCC 60.532 60.000 0.00 0.00 0.00 5.01
215 216 1.227674 GAGTGATCATCCGGTGCCC 60.228 63.158 0.00 0.00 0.00 5.36
216 217 1.971505 GAGTGATCATCCGGTGCCCA 61.972 60.000 0.00 0.00 0.00 5.36
217 218 1.149174 GTGATCATCCGGTGCCCAT 59.851 57.895 0.00 0.00 0.00 4.00
218 219 0.886490 GTGATCATCCGGTGCCCATC 60.886 60.000 0.00 0.00 0.00 3.51
219 220 1.344191 TGATCATCCGGTGCCCATCA 61.344 55.000 0.00 2.46 0.00 3.07
220 221 0.604780 GATCATCCGGTGCCCATCAG 60.605 60.000 0.00 0.00 0.00 2.90
221 222 1.348008 ATCATCCGGTGCCCATCAGT 61.348 55.000 0.00 0.00 0.00 3.41
222 223 1.524621 CATCCGGTGCCCATCAGTC 60.525 63.158 0.00 0.00 0.00 3.51
223 224 1.690633 ATCCGGTGCCCATCAGTCT 60.691 57.895 0.00 0.00 0.00 3.24
224 225 0.398522 ATCCGGTGCCCATCAGTCTA 60.399 55.000 0.00 0.00 0.00 2.59
225 226 0.398522 TCCGGTGCCCATCAGTCTAT 60.399 55.000 0.00 0.00 0.00 1.98
226 227 1.133294 TCCGGTGCCCATCAGTCTATA 60.133 52.381 0.00 0.00 0.00 1.31
227 228 1.691976 CCGGTGCCCATCAGTCTATAA 59.308 52.381 0.00 0.00 0.00 0.98
228 229 2.289072 CCGGTGCCCATCAGTCTATAAG 60.289 54.545 0.00 0.00 0.00 1.73
229 230 2.628178 CGGTGCCCATCAGTCTATAAGA 59.372 50.000 0.00 0.00 0.00 2.10
230 231 3.305676 CGGTGCCCATCAGTCTATAAGAG 60.306 52.174 0.00 0.00 0.00 2.85
231 232 3.556004 GGTGCCCATCAGTCTATAAGAGC 60.556 52.174 0.00 0.00 0.00 4.09
232 233 3.323403 GTGCCCATCAGTCTATAAGAGCT 59.677 47.826 0.00 0.00 0.00 4.09
233 234 3.576118 TGCCCATCAGTCTATAAGAGCTC 59.424 47.826 5.27 5.27 0.00 4.09
234 235 3.576118 GCCCATCAGTCTATAAGAGCTCA 59.424 47.826 17.77 0.00 0.00 4.26
235 236 4.039730 GCCCATCAGTCTATAAGAGCTCAA 59.960 45.833 17.77 3.56 0.00 3.02
236 237 5.782047 CCCATCAGTCTATAAGAGCTCAAG 58.218 45.833 17.77 7.72 0.00 3.02
237 238 5.304101 CCCATCAGTCTATAAGAGCTCAAGT 59.696 44.000 17.77 2.98 0.00 3.16
238 239 6.446318 CCATCAGTCTATAAGAGCTCAAGTC 58.554 44.000 17.77 5.63 0.00 3.01
239 240 6.265196 CCATCAGTCTATAAGAGCTCAAGTCT 59.735 42.308 17.77 7.75 0.00 3.24
240 241 6.691754 TCAGTCTATAAGAGCTCAAGTCTG 57.308 41.667 17.77 17.84 0.00 3.51
241 242 6.418946 TCAGTCTATAAGAGCTCAAGTCTGA 58.581 40.000 17.77 19.50 32.50 3.27
242 243 6.887002 TCAGTCTATAAGAGCTCAAGTCTGAA 59.113 38.462 17.77 8.03 32.18 3.02
243 244 7.394641 TCAGTCTATAAGAGCTCAAGTCTGAAA 59.605 37.037 17.77 3.91 32.18 2.69
244 245 7.487829 CAGTCTATAAGAGCTCAAGTCTGAAAC 59.512 40.741 17.77 3.01 0.00 2.78
245 246 7.396055 AGTCTATAAGAGCTCAAGTCTGAAACT 59.604 37.037 17.77 5.26 41.10 2.66
246 247 7.700656 GTCTATAAGAGCTCAAGTCTGAAACTC 59.299 40.741 17.77 0.00 37.17 3.01
247 248 3.296322 AGAGCTCAAGTCTGAAACTCG 57.704 47.619 17.77 0.00 38.78 4.18
248 249 1.724082 GAGCTCAAGTCTGAAACTCGC 59.276 52.381 9.40 0.00 37.17 5.03
249 250 0.793250 GCTCAAGTCTGAAACTCGCC 59.207 55.000 0.00 0.00 37.17 5.54
250 251 1.433534 CTCAAGTCTGAAACTCGCCC 58.566 55.000 0.00 0.00 37.17 6.13
251 252 0.034896 TCAAGTCTGAAACTCGCCCC 59.965 55.000 0.00 0.00 37.17 5.80
252 253 0.955919 CAAGTCTGAAACTCGCCCCC 60.956 60.000 0.00 0.00 37.17 5.40
270 271 2.949447 CCCCCTATGTCAAATTCCTGG 58.051 52.381 0.00 0.00 0.00 4.45
271 272 2.310538 CCCCTATGTCAAATTCCTGGC 58.689 52.381 0.00 0.00 0.00 4.85
272 273 2.091665 CCCCTATGTCAAATTCCTGGCT 60.092 50.000 0.00 0.00 0.00 4.75
273 274 3.217626 CCCTATGTCAAATTCCTGGCTC 58.782 50.000 0.00 0.00 0.00 4.70
274 275 3.217626 CCTATGTCAAATTCCTGGCTCC 58.782 50.000 0.00 0.00 0.00 4.70
275 276 1.755179 ATGTCAAATTCCTGGCTCCG 58.245 50.000 0.00 0.00 0.00 4.63
276 277 0.400213 TGTCAAATTCCTGGCTCCGT 59.600 50.000 0.00 0.00 0.00 4.69
277 278 1.087501 GTCAAATTCCTGGCTCCGTC 58.912 55.000 0.00 0.00 0.00 4.79
278 279 0.035439 TCAAATTCCTGGCTCCGTCC 60.035 55.000 0.00 0.00 0.00 4.79
279 280 1.032114 CAAATTCCTGGCTCCGTCCC 61.032 60.000 0.00 0.00 0.00 4.46
280 281 1.208165 AAATTCCTGGCTCCGTCCCT 61.208 55.000 0.00 0.00 0.00 4.20
281 282 1.915078 AATTCCTGGCTCCGTCCCTG 61.915 60.000 0.00 0.00 0.00 4.45
726 736 2.104530 GGCTCGGCGAAGTACCTC 59.895 66.667 12.13 0.00 0.00 3.85
1267 1344 4.382320 GGCGACGGTGTAAGCCCA 62.382 66.667 0.00 0.00 43.54 5.36
1539 1646 5.454187 CGGCATTATAAACCCTGAAGACCTA 60.454 44.000 0.00 0.00 0.00 3.08
1631 2949 6.958767 AGTAACCAGTTATACATGCTTCCTT 58.041 36.000 0.00 0.00 0.00 3.36
1668 2988 5.484998 ACCCACATTTGCTCAAATTCCTAAT 59.515 36.000 5.19 0.00 38.84 1.73
1734 3058 5.651612 TCATTGTGATGTAGGGATCCATT 57.348 39.130 15.23 3.45 34.77 3.16
1826 3150 1.957877 CGAGGTTCAGATCCTAGACCC 59.042 57.143 0.00 0.00 35.20 4.46
2163 3675 4.143094 GGCGGAAGATATATTCAAAGTCGC 60.143 45.833 17.00 17.00 35.50 5.19
2784 4459 5.016173 TGGTAAGCATGCTCAGGTTTAATT 58.984 37.500 22.93 3.29 0.00 1.40
2974 4654 2.435805 AGAGTGGTGTCTCTTGCAGAAA 59.564 45.455 0.00 0.00 41.36 2.52
3384 7560 5.001874 GGATGCATGAGCTTCAGATATGAA 58.998 41.667 2.46 2.26 44.33 2.57
3642 7823 8.363390 TGTTTAAATATCAACCAACATGCTTGA 58.637 29.630 6.60 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
14 15 9.419297 CAACTCTGATTTTCATGTCAATCAATT 57.581 29.630 17.45 11.91 38.61 2.32
15 16 8.033038 CCAACTCTGATTTTCATGTCAATCAAT 58.967 33.333 17.45 8.28 38.61 2.57
16 17 7.014518 ACCAACTCTGATTTTCATGTCAATCAA 59.985 33.333 17.45 10.91 38.61 2.57
17 18 6.491062 ACCAACTCTGATTTTCATGTCAATCA 59.509 34.615 16.47 16.47 37.12 2.57
18 19 6.917533 ACCAACTCTGATTTTCATGTCAATC 58.082 36.000 10.81 10.81 0.00 2.67
19 20 6.491062 TGACCAACTCTGATTTTCATGTCAAT 59.509 34.615 0.00 0.00 0.00 2.57
20 21 5.827267 TGACCAACTCTGATTTTCATGTCAA 59.173 36.000 0.00 0.00 0.00 3.18
21 22 5.375773 TGACCAACTCTGATTTTCATGTCA 58.624 37.500 0.00 0.00 0.00 3.58
22 23 5.947228 TGACCAACTCTGATTTTCATGTC 57.053 39.130 0.00 0.00 0.00 3.06
23 24 6.906157 ATTGACCAACTCTGATTTTCATGT 57.094 33.333 0.00 0.00 0.00 3.21
24 25 7.372714 TGAATTGACCAACTCTGATTTTCATG 58.627 34.615 0.00 0.00 0.00 3.07
25 26 7.528996 TGAATTGACCAACTCTGATTTTCAT 57.471 32.000 0.00 0.00 0.00 2.57
26 27 6.957920 TGAATTGACCAACTCTGATTTTCA 57.042 33.333 0.00 0.00 0.00 2.69
27 28 6.360681 CGTTGAATTGACCAACTCTGATTTTC 59.639 38.462 0.00 0.00 41.11 2.29
28 29 6.183360 ACGTTGAATTGACCAACTCTGATTTT 60.183 34.615 0.00 0.00 41.11 1.82
29 30 5.299279 ACGTTGAATTGACCAACTCTGATTT 59.701 36.000 0.00 0.00 41.11 2.17
30 31 4.821805 ACGTTGAATTGACCAACTCTGATT 59.178 37.500 0.00 0.00 41.11 2.57
31 32 4.389374 ACGTTGAATTGACCAACTCTGAT 58.611 39.130 0.00 0.00 41.11 2.90
32 33 3.804036 ACGTTGAATTGACCAACTCTGA 58.196 40.909 0.00 0.00 41.11 3.27
33 34 4.750098 ACTACGTTGAATTGACCAACTCTG 59.250 41.667 3.44 0.00 41.11 3.35
34 35 4.957296 ACTACGTTGAATTGACCAACTCT 58.043 39.130 3.44 0.00 41.11 3.24
35 36 5.119743 GGTACTACGTTGAATTGACCAACTC 59.880 44.000 3.44 0.00 41.11 3.01
36 37 4.992951 GGTACTACGTTGAATTGACCAACT 59.007 41.667 3.44 0.00 41.11 3.16
37 38 4.143263 CGGTACTACGTTGAATTGACCAAC 60.143 45.833 3.44 0.00 40.19 3.77
38 39 3.989167 CGGTACTACGTTGAATTGACCAA 59.011 43.478 3.44 0.00 0.00 3.67
39 40 3.005684 ACGGTACTACGTTGAATTGACCA 59.994 43.478 3.44 0.00 46.25 4.02
40 41 3.578688 ACGGTACTACGTTGAATTGACC 58.421 45.455 3.44 2.52 46.25 4.02
51 52 2.288961 ATTTGGCAGACGGTACTACG 57.711 50.000 0.00 0.00 40.31 3.51
52 53 5.114081 ACATAATTTGGCAGACGGTACTAC 58.886 41.667 0.00 0.00 0.00 2.73
53 54 5.347620 ACATAATTTGGCAGACGGTACTA 57.652 39.130 0.00 0.00 0.00 1.82
54 55 4.216411 ACATAATTTGGCAGACGGTACT 57.784 40.909 0.00 0.00 0.00 2.73
55 56 5.114081 AGTACATAATTTGGCAGACGGTAC 58.886 41.667 0.00 0.00 0.00 3.34
56 57 5.347620 AGTACATAATTTGGCAGACGGTA 57.652 39.130 0.00 0.00 0.00 4.02
57 58 4.216411 AGTACATAATTTGGCAGACGGT 57.784 40.909 0.00 0.00 0.00 4.83
58 59 7.656137 AGTTATAGTACATAATTTGGCAGACGG 59.344 37.037 0.00 0.00 0.00 4.79
59 60 8.589335 AGTTATAGTACATAATTTGGCAGACG 57.411 34.615 0.00 0.00 0.00 4.18
123 124 8.500773 GCTAGTGTAAACAGCTAAACATTACAA 58.499 33.333 9.25 0.00 37.97 2.41
124 125 7.148705 CGCTAGTGTAAACAGCTAAACATTACA 60.149 37.037 0.00 0.00 34.94 2.41
125 126 7.062605 TCGCTAGTGTAAACAGCTAAACATTAC 59.937 37.037 2.66 0.00 33.03 1.89
126 127 7.092079 TCGCTAGTGTAAACAGCTAAACATTA 58.908 34.615 2.66 0.00 33.03 1.90
127 128 5.929992 TCGCTAGTGTAAACAGCTAAACATT 59.070 36.000 2.66 0.00 33.03 2.71
128 129 5.475719 TCGCTAGTGTAAACAGCTAAACAT 58.524 37.500 2.66 0.00 33.03 2.71
129 130 4.873817 TCGCTAGTGTAAACAGCTAAACA 58.126 39.130 2.66 0.00 33.03 2.83
130 131 5.834239 TTCGCTAGTGTAAACAGCTAAAC 57.166 39.130 2.66 0.00 33.03 2.01
131 132 6.258287 TGTTTTCGCTAGTGTAAACAGCTAAA 59.742 34.615 27.30 11.54 36.05 1.85
132 133 5.754406 TGTTTTCGCTAGTGTAAACAGCTAA 59.246 36.000 27.30 12.10 36.05 3.09
133 134 5.176223 GTGTTTTCGCTAGTGTAAACAGCTA 59.824 40.000 29.96 13.90 40.10 3.32
134 135 4.025145 GTGTTTTCGCTAGTGTAAACAGCT 60.025 41.667 29.96 0.00 40.10 4.24
135 136 4.209112 GTGTTTTCGCTAGTGTAAACAGC 58.791 43.478 29.96 22.70 40.10 4.40
136 137 4.207635 TCGTGTTTTCGCTAGTGTAAACAG 59.792 41.667 29.96 24.17 40.10 3.16
137 138 4.111198 TCGTGTTTTCGCTAGTGTAAACA 58.889 39.130 27.30 27.30 37.95 2.83
138 139 4.207841 ACTCGTGTTTTCGCTAGTGTAAAC 59.792 41.667 23.80 23.80 35.52 2.01
139 140 4.362279 ACTCGTGTTTTCGCTAGTGTAAA 58.638 39.130 2.66 3.51 35.52 2.01
140 141 3.968649 ACTCGTGTTTTCGCTAGTGTAA 58.031 40.909 2.66 0.00 35.52 2.41
141 142 3.251729 AGACTCGTGTTTTCGCTAGTGTA 59.748 43.478 2.66 0.00 36.66 2.90
142 143 2.034305 AGACTCGTGTTTTCGCTAGTGT 59.966 45.455 2.66 0.00 36.66 3.55
143 144 2.405357 CAGACTCGTGTTTTCGCTAGTG 59.595 50.000 0.00 0.00 36.66 2.74
144 145 2.607282 CCAGACTCGTGTTTTCGCTAGT 60.607 50.000 0.00 0.00 38.69 2.57
145 146 1.986378 CCAGACTCGTGTTTTCGCTAG 59.014 52.381 0.00 0.00 0.00 3.42
146 147 1.336517 CCCAGACTCGTGTTTTCGCTA 60.337 52.381 0.00 0.00 0.00 4.26
147 148 0.600255 CCCAGACTCGTGTTTTCGCT 60.600 55.000 0.00 0.00 0.00 4.93
148 149 1.860078 CCCAGACTCGTGTTTTCGC 59.140 57.895 0.00 0.00 0.00 4.70
149 150 0.600255 AGCCCAGACTCGTGTTTTCG 60.600 55.000 0.00 0.00 0.00 3.46
150 151 1.594331 AAGCCCAGACTCGTGTTTTC 58.406 50.000 0.00 0.00 0.00 2.29
151 152 2.922740 TAAGCCCAGACTCGTGTTTT 57.077 45.000 0.00 0.00 0.00 2.43
152 153 2.038557 ACATAAGCCCAGACTCGTGTTT 59.961 45.455 0.00 0.00 0.00 2.83
153 154 1.623811 ACATAAGCCCAGACTCGTGTT 59.376 47.619 0.00 0.00 0.00 3.32
154 155 1.267121 ACATAAGCCCAGACTCGTGT 58.733 50.000 0.00 0.00 0.00 4.49
155 156 2.386661 AACATAAGCCCAGACTCGTG 57.613 50.000 0.00 0.00 0.00 4.35
156 157 2.567615 AGAAACATAAGCCCAGACTCGT 59.432 45.455 0.00 0.00 0.00 4.18
157 158 3.252974 AGAAACATAAGCCCAGACTCG 57.747 47.619 0.00 0.00 0.00 4.18
158 159 4.379918 GCAAAGAAACATAAGCCCAGACTC 60.380 45.833 0.00 0.00 0.00 3.36
159 160 3.507622 GCAAAGAAACATAAGCCCAGACT 59.492 43.478 0.00 0.00 0.00 3.24
160 161 3.255642 TGCAAAGAAACATAAGCCCAGAC 59.744 43.478 0.00 0.00 0.00 3.51
161 162 3.255642 GTGCAAAGAAACATAAGCCCAGA 59.744 43.478 0.00 0.00 0.00 3.86
162 163 3.005684 TGTGCAAAGAAACATAAGCCCAG 59.994 43.478 0.00 0.00 0.00 4.45
163 164 2.961741 TGTGCAAAGAAACATAAGCCCA 59.038 40.909 0.00 0.00 0.00 5.36
164 165 3.005791 AGTGTGCAAAGAAACATAAGCCC 59.994 43.478 0.00 0.00 0.00 5.19
165 166 4.243007 AGTGTGCAAAGAAACATAAGCC 57.757 40.909 0.00 0.00 0.00 4.35
166 167 7.692908 TTAAAGTGTGCAAAGAAACATAAGC 57.307 32.000 0.00 0.00 0.00 3.09
167 168 9.301153 AGTTTAAAGTGTGCAAAGAAACATAAG 57.699 29.630 0.00 0.00 0.00 1.73
168 169 9.646427 AAGTTTAAAGTGTGCAAAGAAACATAA 57.354 25.926 0.00 0.00 0.00 1.90
169 170 9.296400 GAAGTTTAAAGTGTGCAAAGAAACATA 57.704 29.630 0.00 0.00 0.00 2.29
170 171 8.034804 AGAAGTTTAAAGTGTGCAAAGAAACAT 58.965 29.630 0.00 0.00 0.00 2.71
171 172 7.328249 CAGAAGTTTAAAGTGTGCAAAGAAACA 59.672 33.333 0.00 0.00 0.00 2.83
172 173 7.540745 TCAGAAGTTTAAAGTGTGCAAAGAAAC 59.459 33.333 0.00 0.00 0.00 2.78
173 174 7.598278 TCAGAAGTTTAAAGTGTGCAAAGAAA 58.402 30.769 0.00 0.00 0.00 2.52
174 175 7.094377 ACTCAGAAGTTTAAAGTGTGCAAAGAA 60.094 33.333 0.00 0.00 28.74 2.52
175 176 6.374333 ACTCAGAAGTTTAAAGTGTGCAAAGA 59.626 34.615 0.00 0.00 28.74 2.52
176 177 6.470235 CACTCAGAAGTTTAAAGTGTGCAAAG 59.530 38.462 0.00 0.00 34.14 2.77
177 178 6.150307 TCACTCAGAAGTTTAAAGTGTGCAAA 59.850 34.615 0.00 0.00 38.71 3.68
178 179 5.645929 TCACTCAGAAGTTTAAAGTGTGCAA 59.354 36.000 0.00 0.00 38.71 4.08
179 180 5.182487 TCACTCAGAAGTTTAAAGTGTGCA 58.818 37.500 0.00 0.00 38.71 4.57
180 181 5.734855 TCACTCAGAAGTTTAAAGTGTGC 57.265 39.130 0.00 0.00 38.71 4.57
181 182 7.482654 TGATCACTCAGAAGTTTAAAGTGTG 57.517 36.000 0.00 0.69 38.71 3.82
182 183 7.389053 GGATGATCACTCAGAAGTTTAAAGTGT 59.611 37.037 0.00 0.00 38.71 3.55
183 184 7.412346 CGGATGATCACTCAGAAGTTTAAAGTG 60.412 40.741 0.00 0.00 38.91 3.16
184 185 6.591834 CGGATGATCACTCAGAAGTTTAAAGT 59.408 38.462 0.00 0.00 34.12 2.66
185 186 6.036517 CCGGATGATCACTCAGAAGTTTAAAG 59.963 42.308 0.00 0.00 34.12 1.85
186 187 5.874810 CCGGATGATCACTCAGAAGTTTAAA 59.125 40.000 0.00 0.00 34.12 1.52
187 188 5.046591 ACCGGATGATCACTCAGAAGTTTAA 60.047 40.000 9.46 0.00 34.12 1.52
188 189 4.466370 ACCGGATGATCACTCAGAAGTTTA 59.534 41.667 9.46 0.00 34.12 2.01
189 190 3.261897 ACCGGATGATCACTCAGAAGTTT 59.738 43.478 9.46 0.00 34.12 2.66
190 191 2.834549 ACCGGATGATCACTCAGAAGTT 59.165 45.455 9.46 0.00 34.12 2.66
191 192 2.167281 CACCGGATGATCACTCAGAAGT 59.833 50.000 9.46 0.00 34.12 3.01
192 193 2.819115 CACCGGATGATCACTCAGAAG 58.181 52.381 9.46 0.00 34.12 2.85
193 194 1.134699 GCACCGGATGATCACTCAGAA 60.135 52.381 9.46 0.00 34.12 3.02
194 195 0.461548 GCACCGGATGATCACTCAGA 59.538 55.000 9.46 0.00 34.12 3.27
195 196 0.531532 GGCACCGGATGATCACTCAG 60.532 60.000 9.46 0.00 34.12 3.35
196 197 1.522092 GGCACCGGATGATCACTCA 59.478 57.895 9.46 0.00 35.41 3.41
197 198 1.227674 GGGCACCGGATGATCACTC 60.228 63.158 9.46 0.00 40.86 3.51
198 199 2.911143 GGGCACCGGATGATCACT 59.089 61.111 9.46 0.00 40.86 3.41
210 211 3.323403 AGCTCTTATAGACTGATGGGCAC 59.677 47.826 0.00 0.00 0.00 5.01
211 212 3.576118 GAGCTCTTATAGACTGATGGGCA 59.424 47.826 6.43 0.00 0.00 5.36
212 213 3.576118 TGAGCTCTTATAGACTGATGGGC 59.424 47.826 16.19 0.00 0.00 5.36
213 214 5.304101 ACTTGAGCTCTTATAGACTGATGGG 59.696 44.000 16.19 0.00 0.00 4.00
214 215 6.265196 AGACTTGAGCTCTTATAGACTGATGG 59.735 42.308 16.19 0.00 0.00 3.51
215 216 7.013178 TCAGACTTGAGCTCTTATAGACTGATG 59.987 40.741 22.57 10.28 34.44 3.07
216 217 7.059788 TCAGACTTGAGCTCTTATAGACTGAT 58.940 38.462 22.57 3.07 34.44 2.90
217 218 6.418946 TCAGACTTGAGCTCTTATAGACTGA 58.581 40.000 22.57 22.57 36.06 3.41
218 219 6.691754 TCAGACTTGAGCTCTTATAGACTG 57.308 41.667 16.19 18.93 32.48 3.51
219 220 7.396055 AGTTTCAGACTTGAGCTCTTATAGACT 59.604 37.037 16.19 9.50 33.92 3.24
220 221 7.543756 AGTTTCAGACTTGAGCTCTTATAGAC 58.456 38.462 16.19 7.52 33.92 2.59
221 222 7.414651 CGAGTTTCAGACTTGAGCTCTTATAGA 60.415 40.741 16.19 3.40 41.59 1.98
222 223 6.690957 CGAGTTTCAGACTTGAGCTCTTATAG 59.309 42.308 16.19 9.38 41.59 1.31
223 224 6.556212 CGAGTTTCAGACTTGAGCTCTTATA 58.444 40.000 16.19 0.00 41.59 0.98
224 225 5.406649 CGAGTTTCAGACTTGAGCTCTTAT 58.593 41.667 16.19 0.00 41.59 1.73
225 226 4.799678 CGAGTTTCAGACTTGAGCTCTTA 58.200 43.478 16.19 1.96 41.59 2.10
226 227 3.648009 CGAGTTTCAGACTTGAGCTCTT 58.352 45.455 16.19 0.00 41.59 2.85
227 228 2.609244 GCGAGTTTCAGACTTGAGCTCT 60.609 50.000 16.19 0.00 41.59 4.09
228 229 1.724082 GCGAGTTTCAGACTTGAGCTC 59.276 52.381 6.82 6.82 41.59 4.09
229 230 1.606737 GGCGAGTTTCAGACTTGAGCT 60.607 52.381 0.00 0.00 41.59 4.09
230 231 0.793250 GGCGAGTTTCAGACTTGAGC 59.207 55.000 0.00 0.00 41.59 4.26
231 232 1.433534 GGGCGAGTTTCAGACTTGAG 58.566 55.000 0.00 0.00 41.59 3.02
232 233 0.034896 GGGGCGAGTTTCAGACTTGA 59.965 55.000 0.00 0.00 41.59 3.02
233 234 0.955919 GGGGGCGAGTTTCAGACTTG 60.956 60.000 0.00 0.00 41.91 3.16
234 235 1.375326 GGGGGCGAGTTTCAGACTT 59.625 57.895 0.00 0.00 39.19 3.01
235 236 3.069778 GGGGGCGAGTTTCAGACT 58.930 61.111 0.00 0.00 42.70 3.24
250 251 2.949447 CCAGGAATTTGACATAGGGGG 58.051 52.381 0.00 0.00 0.00 5.40
251 252 2.091665 AGCCAGGAATTTGACATAGGGG 60.092 50.000 0.00 0.00 0.00 4.79
252 253 3.217626 GAGCCAGGAATTTGACATAGGG 58.782 50.000 0.00 0.00 0.00 3.53
253 254 3.217626 GGAGCCAGGAATTTGACATAGG 58.782 50.000 0.00 0.00 0.00 2.57
254 255 2.874701 CGGAGCCAGGAATTTGACATAG 59.125 50.000 0.00 0.00 0.00 2.23
255 256 2.238646 ACGGAGCCAGGAATTTGACATA 59.761 45.455 0.00 0.00 0.00 2.29
256 257 1.004745 ACGGAGCCAGGAATTTGACAT 59.995 47.619 0.00 0.00 0.00 3.06
257 258 0.400213 ACGGAGCCAGGAATTTGACA 59.600 50.000 0.00 0.00 0.00 3.58
258 259 1.087501 GACGGAGCCAGGAATTTGAC 58.912 55.000 0.00 0.00 0.00 3.18
259 260 0.035439 GGACGGAGCCAGGAATTTGA 60.035 55.000 0.00 0.00 0.00 2.69
260 261 1.032114 GGGACGGAGCCAGGAATTTG 61.032 60.000 0.00 0.00 0.00 2.32
261 262 1.208165 AGGGACGGAGCCAGGAATTT 61.208 55.000 0.00 0.00 0.00 1.82
262 263 1.616628 AGGGACGGAGCCAGGAATT 60.617 57.895 0.00 0.00 0.00 2.17
263 264 2.041265 AGGGACGGAGCCAGGAAT 59.959 61.111 0.00 0.00 0.00 3.01
264 265 3.003173 CAGGGACGGAGCCAGGAA 61.003 66.667 0.00 0.00 0.00 3.36
267 268 3.775654 GACCAGGGACGGAGCCAG 61.776 72.222 0.00 0.00 0.00 4.85
271 272 4.135153 CAGCGACCAGGGACGGAG 62.135 72.222 11.77 0.00 34.26 4.63
372 373 2.792542 GCATCCGGATCTTCGCTTTTTG 60.793 50.000 15.88 0.82 0.00 2.44
373 374 1.401905 GCATCCGGATCTTCGCTTTTT 59.598 47.619 15.88 0.00 0.00 1.94
1267 1344 7.782049 TGTCGAATATCTTCAAATACAGGACT 58.218 34.615 0.00 0.00 0.00 3.85
1539 1646 1.123861 TCTTCAGGGTGCTGAGCTGT 61.124 55.000 5.83 0.00 34.56 4.40
1631 2949 4.860802 AATGTGGGTTGATGGAGATGTA 57.139 40.909 0.00 0.00 0.00 2.29
1668 2988 0.482446 ACTGGGGGTGCATCAAGAAA 59.518 50.000 0.00 0.00 0.00 2.52
1734 3058 2.078849 ATCAATGAACGACGCTGACA 57.921 45.000 0.00 0.00 0.00 3.58
2163 3675 3.197766 TGCCCTGAACATAGTACAAGAGG 59.802 47.826 0.00 0.00 0.00 3.69
2388 4062 8.627403 GCCCAAAAGGAAACCTATAGTATTAAC 58.373 37.037 0.00 0.00 38.24 2.01
2571 4246 8.584600 CATTCTGTTGTTAGTATCAACTACGTC 58.415 37.037 19.77 0.00 43.54 4.34
2784 4459 7.453126 TGAAATTAGGGAGGAAATTGCAGTAAA 59.547 33.333 0.00 0.00 29.23 2.01
3384 7560 6.156602 AGTCTCCATCTTCTGACTGAATTCAT 59.843 38.462 8.96 0.00 38.22 2.57


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

AutoCloner maintained by Alex Coulton.