Multiple sequence alignment - TraesCS2B01G059300

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 TraesCS2B01G059300 chr2B 100.000 3546 0 0 1 3546 28843195 28839650 0.000000e+00 6549.0
1 TraesCS2B01G059300 chr2B 86.936 1707 140 36 1274 2958 28874178 28875823 0.000000e+00 1840.0
2 TraesCS2B01G059300 chr2B 82.707 399 54 11 561 948 28814315 28813921 1.220000e-89 340.0
3 TraesCS2B01G059300 chr2B 87.671 73 8 1 3077 3148 28875870 28875942 2.270000e-12 84.2
4 TraesCS2B01G059300 chr2D 94.711 2647 123 10 12 2645 16961713 16959071 0.000000e+00 4096.0
5 TraesCS2B01G059300 chr2D 86.128 1932 177 41 1307 3165 16886203 16884290 0.000000e+00 1999.0
6 TraesCS2B01G059300 chr2D 84.399 1705 184 37 1274 2958 16982398 16984040 0.000000e+00 1600.0
7 TraesCS2B01G059300 chr2D 85.503 1283 128 27 16 1279 16887303 16886060 0.000000e+00 1286.0
8 TraesCS2B01G059300 chr2D 90.054 925 88 3 2010 2932 16944388 16943466 0.000000e+00 1195.0
9 TraesCS2B01G059300 chr2D 81.603 549 70 15 2500 3039 16985424 16985950 3.270000e-115 425.0
10 TraesCS2B01G059300 chr2D 80.315 508 82 11 1904 2409 16896130 16896621 5.590000e-98 368.0
11 TraesCS2B01G059300 chr2D 84.322 236 19 10 3301 3525 16877900 16877672 7.710000e-52 215.0
12 TraesCS2B01G059300 chr2D 86.559 186 16 6 3344 3525 16947472 16947292 2.790000e-46 196.0
13 TraesCS2B01G059300 chr2D 89.510 143 15 0 3169 3311 46878897 46878755 7.820000e-42 182.0
14 TraesCS2B01G059300 chr2D 85.027 187 14 8 2405 2577 16948315 16948129 1.010000e-40 178.0
15 TraesCS2B01G059300 chr2D 85.549 173 17 3 3357 3525 16947296 16947128 1.310000e-39 174.0
16 TraesCS2B01G059300 chr2D 89.474 133 14 0 3170 3302 606015919 606016051 6.090000e-38 169.0
17 TraesCS2B01G059300 chr2D 86.111 144 16 1 3169 3308 435948009 435947866 6.130000e-33 152.0
18 TraesCS2B01G059300 chr2D 82.286 175 23 4 3357 3529 16947132 16946964 1.030000e-30 145.0
19 TraesCS2B01G059300 chr2D 81.714 175 26 3 3357 3529 16877676 16877506 1.330000e-29 141.0
20 TraesCS2B01G059300 chr2D 92.473 93 7 0 1184 1276 16728922 16728830 2.220000e-27 134.0
21 TraesCS2B01G059300 chr2D 85.455 110 7 8 1308 1408 16729046 16728937 4.840000e-19 106.0
22 TraesCS2B01G059300 chr2D 90.411 73 6 1 3077 3148 16984086 16984158 1.050000e-15 95.3
23 TraesCS2B01G059300 chr2A 87.533 1893 175 27 1307 3165 18494194 18496059 0.000000e+00 2132.0
24 TraesCS2B01G059300 chr2A 83.577 1711 196 39 1274 2961 18468807 18467159 0.000000e+00 1524.0
25 TraesCS2B01G059300 chr2A 86.002 1293 133 24 14 1286 18493081 18494345 0.000000e+00 1341.0
26 TraesCS2B01G059300 chr2A 82.299 548 67 13 2500 3039 18465780 18465255 6.980000e-122 448.0
27 TraesCS2B01G059300 chr2A 86.166 253 26 6 3301 3545 18496020 18496271 7.550000e-67 265.0
28 TraesCS2B01G059300 chr2A 86.842 76 9 1 3080 3154 18467113 18467038 2.270000e-12 84.2
29 TraesCS2B01G059300 chrUn 90.350 1171 92 6 1898 3056 361988638 361989799 0.000000e+00 1517.0
30 TraesCS2B01G059300 chrUn 92.822 822 53 5 1 818 322299418 322300237 0.000000e+00 1186.0
31 TraesCS2B01G059300 chrUn 92.822 822 53 5 1 818 326132374 326133193 0.000000e+00 1186.0
32 TraesCS2B01G059300 chrUn 92.822 822 53 5 1 818 339714666 339715485 0.000000e+00 1186.0
33 TraesCS2B01G059300 chrUn 92.822 822 53 5 1 818 442523295 442524114 0.000000e+00 1186.0
34 TraesCS2B01G059300 chrUn 87.966 590 56 6 2473 3056 321113982 321113402 0.000000e+00 682.0
35 TraesCS2B01G059300 chrUn 87.966 590 56 6 2473 3056 405150817 405150237 0.000000e+00 682.0
36 TraesCS2B01G059300 chrUn 82.947 475 58 13 1307 1762 373681279 373681749 1.190000e-109 407.0
37 TraesCS2B01G059300 chrUn 88.889 189 13 4 3312 3492 321113379 321113191 3.560000e-55 226.0
38 TraesCS2B01G059300 chrUn 88.889 189 13 4 3312 3492 361989822 361990010 3.560000e-55 226.0
39 TraesCS2B01G059300 chrUn 88.889 189 13 4 3312 3492 405150214 405150026 3.560000e-55 226.0
40 TraesCS2B01G059300 chrUn 85.714 140 20 0 3169 3308 309779675 309779536 7.930000e-32 148.0
41 TraesCS2B01G059300 chrUn 85.714 140 20 0 3169 3308 432665305 432665444 7.930000e-32 148.0
42 TraesCS2B01G059300 chr7A 80.241 997 124 37 1308 2265 622805901 622806863 0.000000e+00 682.0
43 TraesCS2B01G059300 chr7A 79.841 1007 122 39 1308 2265 622938585 622939559 0.000000e+00 660.0
44 TraesCS2B01G059300 chr7A 79.840 997 122 36 1308 2265 622819738 622820694 0.000000e+00 654.0
45 TraesCS2B01G059300 chr7A 80.882 544 58 18 1308 1833 622833492 622834007 1.540000e-103 387.0
46 TraesCS2B01G059300 chr7A 78.774 636 70 22 625 1238 622832991 622833583 2.010000e-97 366.0
47 TraesCS2B01G059300 chr7B 84.876 443 60 5 1 437 630555249 630555690 1.170000e-119 440.0
48 TraesCS2B01G059300 chr7B 79.067 750 72 32 522 1238 584224168 584224865 1.510000e-118 436.0
49 TraesCS2B01G059300 chr6B 84.807 441 57 7 10 443 136802370 136801933 5.440000e-118 435.0
50 TraesCS2B01G059300 chr6B 88.489 139 16 0 3170 3308 143631577 143631439 6.090000e-38 169.0
51 TraesCS2B01G059300 chr6D 84.270 445 58 8 1 437 201578899 201579339 1.180000e-114 424.0
52 TraesCS2B01G059300 chr3B 84.318 440 61 6 10 443 381979530 381979093 1.180000e-114 424.0
53 TraesCS2B01G059300 chr7D 87.742 155 14 5 3169 3320 1867329 1867177 3.640000e-40 176.0
54 TraesCS2B01G059300 chr1D 87.681 138 17 0 3171 3308 418567860 418567723 1.020000e-35 161.0
55 TraesCS2B01G059300 chr1D 86.014 143 20 0 3169 3311 303198288 303198146 1.700000e-33 154.0


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 TraesCS2B01G059300 chr2B 28839650 28843195 3545 True 6549.000000 6549 100.000000 1 3546 1 chr2B.!!$R2 3545
1 TraesCS2B01G059300 chr2B 28874178 28875942 1764 False 962.100000 1840 87.303500 1274 3148 2 chr2B.!!$F1 1874
2 TraesCS2B01G059300 chr2D 16959071 16961713 2642 True 4096.000000 4096 94.711000 12 2645 1 chr2D.!!$R1 2633
3 TraesCS2B01G059300 chr2D 16884290 16887303 3013 True 1642.500000 1999 85.815500 16 3165 2 chr2D.!!$R6 3149
4 TraesCS2B01G059300 chr2D 16982398 16985950 3552 False 706.766667 1600 85.471000 1274 3148 3 chr2D.!!$F3 1874
5 TraesCS2B01G059300 chr2D 16943466 16948315 4849 True 377.600000 1195 85.895000 2010 3529 5 chr2D.!!$R7 1519
6 TraesCS2B01G059300 chr2A 18493081 18496271 3190 False 1246.000000 2132 86.567000 14 3545 3 chr2A.!!$F1 3531
7 TraesCS2B01G059300 chr2A 18465255 18468807 3552 True 685.400000 1524 84.239333 1274 3154 3 chr2A.!!$R1 1880
8 TraesCS2B01G059300 chrUn 322299418 322300237 819 False 1186.000000 1186 92.822000 1 818 1 chrUn.!!$F1 817
9 TraesCS2B01G059300 chrUn 326132374 326133193 819 False 1186.000000 1186 92.822000 1 818 1 chrUn.!!$F2 817
10 TraesCS2B01G059300 chrUn 339714666 339715485 819 False 1186.000000 1186 92.822000 1 818 1 chrUn.!!$F3 817
11 TraesCS2B01G059300 chrUn 442523295 442524114 819 False 1186.000000 1186 92.822000 1 818 1 chrUn.!!$F6 817
12 TraesCS2B01G059300 chrUn 361988638 361990010 1372 False 871.500000 1517 89.619500 1898 3492 2 chrUn.!!$F7 1594
13 TraesCS2B01G059300 chrUn 321113191 321113982 791 True 454.000000 682 88.427500 2473 3492 2 chrUn.!!$R2 1019
14 TraesCS2B01G059300 chrUn 405150026 405150817 791 True 454.000000 682 88.427500 2473 3492 2 chrUn.!!$R3 1019
15 TraesCS2B01G059300 chr7A 622805901 622806863 962 False 682.000000 682 80.241000 1308 2265 1 chr7A.!!$F1 957
16 TraesCS2B01G059300 chr7A 622938585 622939559 974 False 660.000000 660 79.841000 1308 2265 1 chr7A.!!$F3 957
17 TraesCS2B01G059300 chr7A 622819738 622820694 956 False 654.000000 654 79.840000 1308 2265 1 chr7A.!!$F2 957
18 TraesCS2B01G059300 chr7A 622832991 622834007 1016 False 376.500000 387 79.828000 625 1833 2 chr7A.!!$F4 1208
19 TraesCS2B01G059300 chr7B 584224168 584224865 697 False 436.000000 436 79.067000 522 1238 1 chr7B.!!$F1 716

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
233 241 0.729116 CTTGCATAGCGGTTGGTCTG 59.271 55.0 0.0 0.0 0.00 3.51 F
1461 1543 0.769873 ATCCCCATGACTGATGAGGC 59.230 55.0 0.0 0.0 29.75 4.70 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1663 1745 0.388134 CGGTGAGGACGTTCACGAAT 60.388 55.0 12.88 0.0 46.61 3.34 R
3229 5255 0.456628 AACCGGGACAAAACAAACGG 59.543 50.0 6.32 0.0 46.16 4.44 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
129 132 2.850647 GACACTATGCCTACGTCGAAAC 59.149 50.000 0.00 0.00 0.00 2.78
144 147 1.356938 GAAACCGGAAGTGGATCGAC 58.643 55.000 9.46 0.00 0.00 4.20
151 154 1.475403 GAAGTGGATCGACCCTGAGA 58.525 55.000 0.00 0.00 38.00 3.27
206 214 1.153628 GTCTGCTCCAACCGCGTAT 60.154 57.895 4.92 0.00 0.00 3.06
233 241 0.729116 CTTGCATAGCGGTTGGTCTG 59.271 55.000 0.00 0.00 0.00 3.51
250 258 1.608109 TCTGTGGTCGTTGTAGCGTAA 59.392 47.619 0.00 0.00 0.00 3.18
313 321 5.580297 TGCAAAGGAGAAACATTTTTGTCAC 59.420 36.000 4.15 0.00 36.85 3.67
465 474 9.171877 CTGGACTAGCAGATAGAAATTCTTTTT 57.828 33.333 0.00 0.00 35.30 1.94
544 556 8.391106 GCAGATAGAAATTCTCAAAACATACGT 58.609 33.333 0.00 0.00 0.00 3.57
705 721 9.436957 TTTACTTTAGGAAAGCTTCTATCAGTG 57.563 33.333 0.00 0.00 42.27 3.66
728 744 3.093278 GCATGCTGCGACCTGTAC 58.907 61.111 11.37 0.00 31.71 2.90
774 800 3.628487 GCGTGACAGATACTCCTAGTCTT 59.372 47.826 0.00 0.00 0.00 3.01
799 825 3.247173 GCGAATCATCAGTAGAAGCTTGG 59.753 47.826 2.10 0.00 0.00 3.61
843 869 2.035832 ACGGTTGAGGGCAAAGAAATTG 59.964 45.455 0.00 0.00 42.21 2.32
942 971 4.079787 TCCTCCTTTCCATTTCTACATGGG 60.080 45.833 0.00 0.00 43.74 4.00
1076 1109 2.386864 TCCACCATGGAACCAGAGG 58.613 57.895 21.47 8.20 45.00 3.69
1178 1232 8.815565 TTCCTTGTTGCCTTGTTGATATAATA 57.184 30.769 0.00 0.00 0.00 0.98
1182 1240 8.669946 TTGTTGCCTTGTTGATATAATATCGA 57.330 30.769 0.00 0.00 0.00 3.59
1447 1529 2.439507 TCTCCTTTGCAGTATCATCCCC 59.560 50.000 0.00 0.00 0.00 4.81
1461 1543 0.769873 ATCCCCATGACTGATGAGGC 59.230 55.000 0.00 0.00 29.75 4.70
1899 2023 2.114331 ATCTACGACATCGACGGCGG 62.114 60.000 12.94 0.00 43.02 6.13
1942 2072 2.357517 CTTGTGGCGGCGTCTTCT 60.358 61.111 14.51 0.00 0.00 2.85
2383 4307 3.782046 CATATTTCTCCGGTCGTTGACT 58.218 45.455 0.00 0.00 32.47 3.41
2559 4516 7.282675 TCCAGTTTGATCGTGTAAACCTTTTAA 59.717 33.333 3.47 0.00 37.47 1.52
2613 4578 7.861629 TCTTCCTGGAACATGTATAACAGAAT 58.138 34.615 4.68 0.00 38.20 2.40
2643 4623 6.426937 GTGAATGTACCACAACAACTGAGTAT 59.573 38.462 0.00 0.00 34.81 2.12
2644 4624 6.426633 TGAATGTACCACAACAACTGAGTATG 59.573 38.462 0.00 0.00 32.02 2.39
2645 4625 5.538849 TGTACCACAACAACTGAGTATGA 57.461 39.130 0.00 0.00 0.00 2.15
2646 4626 5.538118 TGTACCACAACAACTGAGTATGAG 58.462 41.667 0.00 0.00 0.00 2.90
2647 4627 4.689612 ACCACAACAACTGAGTATGAGT 57.310 40.909 0.00 0.00 29.50 3.41
2648 4628 4.380531 ACCACAACAACTGAGTATGAGTG 58.619 43.478 0.00 2.69 28.22 3.51
2649 4629 4.141711 ACCACAACAACTGAGTATGAGTGT 60.142 41.667 15.39 3.89 28.22 3.55
2650 4630 4.816385 CCACAACAACTGAGTATGAGTGTT 59.184 41.667 15.39 8.22 28.22 3.32
2708 4694 9.352191 CTATTTCCACTCTTAACCTAGCTACTA 57.648 37.037 0.00 0.00 0.00 1.82
2709 4695 7.401955 TTTCCACTCTTAACCTAGCTACTAC 57.598 40.000 0.00 0.00 0.00 2.73
2710 4696 5.444176 TCCACTCTTAACCTAGCTACTACC 58.556 45.833 0.00 0.00 0.00 3.18
2732 4721 6.248433 ACCTCATCCATGTTATGTTTTCAGT 58.752 36.000 5.48 0.00 0.00 3.41
2742 4731 9.577110 CATGTTATGTTTTCAGTAATGCAATCT 57.423 29.630 0.00 0.00 0.00 2.40
2844 4836 4.055360 CCTTATGATTTATCCACGCGTGA 58.945 43.478 39.10 24.83 0.00 4.35
2875 4867 4.572950 CGTTTTGTACGTAGGATTCACC 57.427 45.455 0.00 0.00 45.14 4.02
2878 4870 3.940209 TTGTACGTAGGATTCACCGTT 57.060 42.857 0.00 0.00 44.74 4.44
2895 4887 3.442977 ACCGTTCGTCTGAGCTTAGTTAT 59.557 43.478 5.29 0.00 0.00 1.89
3076 5085 4.864916 TTTCTGTTAGAATCAGCATCGC 57.135 40.909 0.00 0.00 33.67 4.58
3077 5086 2.826428 TCTGTTAGAATCAGCATCGCC 58.174 47.619 0.00 0.00 33.48 5.54
3118 5141 8.970691 AATATGTCTGCTCAAACATTTACAAC 57.029 30.769 0.00 0.00 37.33 3.32
3174 5200 4.525912 AAATTCATTTGTCCTGTGGAGC 57.474 40.909 0.00 0.00 29.39 4.70
3175 5201 2.957402 TTCATTTGTCCTGTGGAGCT 57.043 45.000 0.00 0.00 29.39 4.09
3176 5202 2.479566 TCATTTGTCCTGTGGAGCTC 57.520 50.000 4.71 4.71 29.39 4.09
3177 5203 1.003580 TCATTTGTCCTGTGGAGCTCC 59.996 52.381 26.78 26.78 29.39 4.70
3178 5204 1.004044 CATTTGTCCTGTGGAGCTCCT 59.996 52.381 32.28 6.14 36.82 3.69
3179 5205 1.140312 TTTGTCCTGTGGAGCTCCTT 58.860 50.000 32.28 0.00 36.82 3.36
3180 5206 1.140312 TTGTCCTGTGGAGCTCCTTT 58.860 50.000 32.28 0.00 36.82 3.11
3181 5207 2.024176 TGTCCTGTGGAGCTCCTTTA 57.976 50.000 32.28 17.42 36.82 1.85
3182 5208 1.902508 TGTCCTGTGGAGCTCCTTTAG 59.097 52.381 32.28 24.42 36.82 1.85
3183 5209 1.903183 GTCCTGTGGAGCTCCTTTAGT 59.097 52.381 32.28 0.00 36.82 2.24
3184 5210 2.093921 GTCCTGTGGAGCTCCTTTAGTC 60.094 54.545 32.28 15.36 36.82 2.59
3185 5211 1.208293 CCTGTGGAGCTCCTTTAGTCC 59.792 57.143 32.28 12.15 36.82 3.85
3186 5212 1.208293 CTGTGGAGCTCCTTTAGTCCC 59.792 57.143 32.28 4.74 36.82 4.46
3187 5213 1.276622 GTGGAGCTCCTTTAGTCCCA 58.723 55.000 32.28 7.65 36.82 4.37
3188 5214 1.208293 GTGGAGCTCCTTTAGTCCCAG 59.792 57.143 32.28 0.00 36.82 4.45
3189 5215 1.203313 TGGAGCTCCTTTAGTCCCAGT 60.203 52.381 32.28 0.00 36.82 4.00
3190 5216 1.909986 GGAGCTCCTTTAGTCCCAGTT 59.090 52.381 26.25 0.00 0.00 3.16
3191 5217 2.093394 GGAGCTCCTTTAGTCCCAGTTC 60.093 54.545 26.25 0.00 0.00 3.01
3192 5218 2.567615 GAGCTCCTTTAGTCCCAGTTCA 59.432 50.000 0.87 0.00 0.00 3.18
3193 5219 3.185455 AGCTCCTTTAGTCCCAGTTCAT 58.815 45.455 0.00 0.00 0.00 2.57
3194 5220 4.362677 AGCTCCTTTAGTCCCAGTTCATA 58.637 43.478 0.00 0.00 0.00 2.15
3195 5221 4.783227 AGCTCCTTTAGTCCCAGTTCATAA 59.217 41.667 0.00 0.00 0.00 1.90
3196 5222 5.104735 AGCTCCTTTAGTCCCAGTTCATAAG 60.105 44.000 0.00 0.00 0.00 1.73
3197 5223 5.099042 TCCTTTAGTCCCAGTTCATAAGC 57.901 43.478 0.00 0.00 0.00 3.09
3198 5224 4.080526 TCCTTTAGTCCCAGTTCATAAGCC 60.081 45.833 0.00 0.00 0.00 4.35
3199 5225 4.324254 CCTTTAGTCCCAGTTCATAAGCCA 60.324 45.833 0.00 0.00 0.00 4.75
3200 5226 4.919774 TTAGTCCCAGTTCATAAGCCAA 57.080 40.909 0.00 0.00 0.00 4.52
3201 5227 3.073274 AGTCCCAGTTCATAAGCCAAC 57.927 47.619 0.00 0.00 0.00 3.77
3202 5228 2.092323 GTCCCAGTTCATAAGCCAACC 58.908 52.381 0.00 0.00 0.00 3.77
3203 5229 1.094785 CCCAGTTCATAAGCCAACCG 58.905 55.000 0.00 0.00 0.00 4.44
3204 5230 1.094785 CCAGTTCATAAGCCAACCGG 58.905 55.000 0.00 0.00 0.00 5.28
3205 5231 1.094785 CAGTTCATAAGCCAACCGGG 58.905 55.000 6.32 0.00 40.85 5.73
3206 5232 0.988832 AGTTCATAAGCCAACCGGGA 59.011 50.000 6.32 0.00 40.01 5.14
3207 5233 1.092348 GTTCATAAGCCAACCGGGAC 58.908 55.000 6.32 0.00 40.01 4.46
3208 5234 0.988832 TTCATAAGCCAACCGGGACT 59.011 50.000 6.32 0.00 40.01 3.85
3209 5235 1.868713 TCATAAGCCAACCGGGACTA 58.131 50.000 6.32 0.00 40.01 2.59
3210 5236 2.189676 TCATAAGCCAACCGGGACTAA 58.810 47.619 6.32 0.00 40.01 2.24
3211 5237 2.572556 TCATAAGCCAACCGGGACTAAA 59.427 45.455 6.32 0.00 40.01 1.85
3212 5238 3.009253 TCATAAGCCAACCGGGACTAAAA 59.991 43.478 6.32 0.00 40.01 1.52
3213 5239 1.905637 AAGCCAACCGGGACTAAAAG 58.094 50.000 6.32 0.00 40.01 2.27
3214 5240 0.769247 AGCCAACCGGGACTAAAAGT 59.231 50.000 6.32 0.00 40.01 2.66
3215 5241 1.144298 AGCCAACCGGGACTAAAAGTT 59.856 47.619 6.32 0.00 40.01 2.66
3216 5242 1.958579 GCCAACCGGGACTAAAAGTTT 59.041 47.619 6.32 0.00 40.01 2.66
3217 5243 2.363038 GCCAACCGGGACTAAAAGTTTT 59.637 45.455 6.32 6.06 40.01 2.43
3218 5244 3.797524 GCCAACCGGGACTAAAAGTTTTG 60.798 47.826 6.32 4.03 40.01 2.44
3219 5245 3.243602 CCAACCGGGACTAAAAGTTTTGG 60.244 47.826 6.32 10.52 40.01 3.28
3220 5246 2.589720 ACCGGGACTAAAAGTTTTGGG 58.410 47.619 15.20 8.62 0.00 4.12
3221 5247 1.271379 CCGGGACTAAAAGTTTTGGGC 59.729 52.381 15.20 12.32 0.00 5.36
3222 5248 1.957877 CGGGACTAAAAGTTTTGGGCA 59.042 47.619 18.16 0.00 0.00 5.36
3223 5249 2.560981 CGGGACTAAAAGTTTTGGGCAT 59.439 45.455 18.16 0.00 0.00 4.40
3224 5250 3.006430 CGGGACTAAAAGTTTTGGGCATT 59.994 43.478 18.16 0.00 0.00 3.56
3225 5251 4.218852 CGGGACTAAAAGTTTTGGGCATTA 59.781 41.667 18.16 0.00 0.00 1.90
3226 5252 5.279056 CGGGACTAAAAGTTTTGGGCATTAA 60.279 40.000 18.16 0.00 0.00 1.40
3227 5253 6.573485 CGGGACTAAAAGTTTTGGGCATTAAT 60.573 38.462 18.16 0.00 0.00 1.40
3228 5254 6.816640 GGGACTAAAAGTTTTGGGCATTAATC 59.183 38.462 18.16 4.27 0.00 1.75
3229 5255 6.816640 GGACTAAAAGTTTTGGGCATTAATCC 59.183 38.462 18.16 9.08 0.00 3.01
3230 5256 6.707290 ACTAAAAGTTTTGGGCATTAATCCC 58.293 36.000 15.20 13.28 44.17 3.85
3231 5257 3.885724 AAGTTTTGGGCATTAATCCCG 57.114 42.857 14.53 0.00 46.92 5.14
3232 5258 2.815158 AGTTTTGGGCATTAATCCCGT 58.185 42.857 14.53 0.26 46.92 5.28
3233 5259 3.169908 AGTTTTGGGCATTAATCCCGTT 58.830 40.909 14.53 1.33 46.92 4.44
3234 5260 3.580895 AGTTTTGGGCATTAATCCCGTTT 59.419 39.130 14.53 1.58 46.92 3.60
3235 5261 3.601443 TTTGGGCATTAATCCCGTTTG 57.399 42.857 14.53 0.00 46.92 2.93
3236 5262 2.223803 TGGGCATTAATCCCGTTTGT 57.776 45.000 14.53 0.00 46.92 2.83
3237 5263 2.530701 TGGGCATTAATCCCGTTTGTT 58.469 42.857 14.53 0.00 46.92 2.83
3238 5264 2.900546 TGGGCATTAATCCCGTTTGTTT 59.099 40.909 14.53 0.00 46.92 2.83
3239 5265 3.325135 TGGGCATTAATCCCGTTTGTTTT 59.675 39.130 14.53 0.00 46.92 2.43
3240 5266 3.682377 GGGCATTAATCCCGTTTGTTTTG 59.318 43.478 7.08 0.00 33.43 2.44
3241 5267 4.311606 GGCATTAATCCCGTTTGTTTTGT 58.688 39.130 0.00 0.00 0.00 2.83
3242 5268 4.387559 GGCATTAATCCCGTTTGTTTTGTC 59.612 41.667 0.00 0.00 0.00 3.18
3243 5269 4.387559 GCATTAATCCCGTTTGTTTTGTCC 59.612 41.667 0.00 0.00 0.00 4.02
3244 5270 4.587584 TTAATCCCGTTTGTTTTGTCCC 57.412 40.909 0.00 0.00 0.00 4.46
3245 5271 0.955905 ATCCCGTTTGTTTTGTCCCG 59.044 50.000 0.00 0.00 0.00 5.14
3246 5272 1.102222 TCCCGTTTGTTTTGTCCCGG 61.102 55.000 0.00 0.00 35.32 5.73
3247 5273 1.385756 CCCGTTTGTTTTGTCCCGGT 61.386 55.000 0.00 0.00 33.77 5.28
3248 5274 0.456628 CCGTTTGTTTTGTCCCGGTT 59.543 50.000 0.00 0.00 0.00 4.44
3249 5275 1.534385 CCGTTTGTTTTGTCCCGGTTC 60.534 52.381 0.00 0.00 0.00 3.62
3250 5276 1.534385 CGTTTGTTTTGTCCCGGTTCC 60.534 52.381 0.00 0.00 0.00 3.62
3251 5277 1.477295 GTTTGTTTTGTCCCGGTTCCA 59.523 47.619 0.00 0.00 0.00 3.53
3252 5278 1.394618 TTGTTTTGTCCCGGTTCCAG 58.605 50.000 0.00 0.00 0.00 3.86
3253 5279 0.547075 TGTTTTGTCCCGGTTCCAGA 59.453 50.000 0.00 0.00 0.00 3.86
3254 5280 1.064611 TGTTTTGTCCCGGTTCCAGAA 60.065 47.619 0.00 0.00 0.00 3.02
3255 5281 1.335810 GTTTTGTCCCGGTTCCAGAAC 59.664 52.381 0.00 1.77 40.45 3.01
3266 5292 2.629051 GTTCCAGAACCGGGACTAATG 58.371 52.381 6.32 0.00 35.36 1.90
3267 5293 1.200519 TCCAGAACCGGGACTAATGG 58.799 55.000 6.32 5.20 0.00 3.16
3268 5294 0.463833 CCAGAACCGGGACTAATGGC 60.464 60.000 6.32 0.00 0.00 4.40
3269 5295 0.463833 CAGAACCGGGACTAATGGCC 60.464 60.000 6.32 0.00 0.00 5.36
3270 5296 1.153025 GAACCGGGACTAATGGCCC 60.153 63.158 6.32 0.00 41.11 5.80
3271 5297 1.618447 AACCGGGACTAATGGCCCT 60.618 57.895 6.32 0.00 42.40 5.19
3272 5298 1.632965 AACCGGGACTAATGGCCCTC 61.633 60.000 6.32 0.00 42.40 4.30
3273 5299 1.766461 CCGGGACTAATGGCCCTCT 60.766 63.158 0.00 0.00 42.40 3.69
3274 5300 1.749033 CGGGACTAATGGCCCTCTC 59.251 63.158 0.00 0.00 42.40 3.20
3275 5301 1.749033 GGGACTAATGGCCCTCTCG 59.251 63.158 0.00 0.00 41.31 4.04
3276 5302 0.759436 GGGACTAATGGCCCTCTCGA 60.759 60.000 0.00 0.00 41.31 4.04
3277 5303 1.120530 GGACTAATGGCCCTCTCGAA 58.879 55.000 0.00 0.00 0.00 3.71
3278 5304 1.202545 GGACTAATGGCCCTCTCGAAC 60.203 57.143 0.00 0.00 0.00 3.95
3279 5305 0.831307 ACTAATGGCCCTCTCGAACC 59.169 55.000 0.00 0.00 0.00 3.62
3280 5306 0.830648 CTAATGGCCCTCTCGAACCA 59.169 55.000 0.00 0.00 36.43 3.67
3281 5307 0.830648 TAATGGCCCTCTCGAACCAG 59.169 55.000 0.00 0.00 35.20 4.00
3282 5308 0.909610 AATGGCCCTCTCGAACCAGA 60.910 55.000 0.00 0.00 35.20 3.86
3283 5309 0.909610 ATGGCCCTCTCGAACCAGAA 60.910 55.000 0.00 0.00 35.20 3.02
3284 5310 1.079057 GGCCCTCTCGAACCAGAAC 60.079 63.158 0.00 0.00 0.00 3.01
3285 5311 1.545706 GGCCCTCTCGAACCAGAACT 61.546 60.000 0.00 0.00 0.00 3.01
3286 5312 1.183549 GCCCTCTCGAACCAGAACTA 58.816 55.000 0.00 0.00 0.00 2.24
3287 5313 1.549170 GCCCTCTCGAACCAGAACTAA 59.451 52.381 0.00 0.00 0.00 2.24
3288 5314 2.028385 GCCCTCTCGAACCAGAACTAAA 60.028 50.000 0.00 0.00 0.00 1.85
3289 5315 3.851098 CCCTCTCGAACCAGAACTAAAG 58.149 50.000 0.00 0.00 0.00 1.85
3290 5316 3.368531 CCCTCTCGAACCAGAACTAAAGG 60.369 52.174 0.00 0.00 0.00 3.11
3291 5317 3.254892 CTCTCGAACCAGAACTAAAGGC 58.745 50.000 0.00 0.00 0.00 4.35
3292 5318 2.028385 TCTCGAACCAGAACTAAAGGCC 60.028 50.000 0.00 0.00 0.00 5.19
3293 5319 1.002773 TCGAACCAGAACTAAAGGCCC 59.997 52.381 0.00 0.00 0.00 5.80
3294 5320 1.450025 GAACCAGAACTAAAGGCCCG 58.550 55.000 0.00 0.00 0.00 6.13
3295 5321 0.769247 AACCAGAACTAAAGGCCCGT 59.231 50.000 0.00 0.00 0.00 5.28
3296 5322 0.769247 ACCAGAACTAAAGGCCCGTT 59.231 50.000 0.00 0.00 0.00 4.44
3297 5323 1.144298 ACCAGAACTAAAGGCCCGTTT 59.856 47.619 0.00 0.00 0.00 3.60
3298 5324 2.235891 CCAGAACTAAAGGCCCGTTTT 58.764 47.619 0.00 0.00 0.00 2.43
3299 5325 2.228103 CCAGAACTAAAGGCCCGTTTTC 59.772 50.000 0.00 0.00 0.00 2.29
3300 5326 3.146847 CAGAACTAAAGGCCCGTTTTCT 58.853 45.455 0.00 0.00 0.00 2.52
3301 5327 4.320870 CAGAACTAAAGGCCCGTTTTCTA 58.679 43.478 0.00 0.00 0.00 2.10
3302 5328 4.941873 CAGAACTAAAGGCCCGTTTTCTAT 59.058 41.667 0.00 0.00 0.00 1.98
3303 5329 5.414765 CAGAACTAAAGGCCCGTTTTCTATT 59.585 40.000 0.00 0.00 0.00 1.73
3304 5330 6.596497 CAGAACTAAAGGCCCGTTTTCTATTA 59.404 38.462 0.00 0.00 0.00 0.98
3305 5331 7.120138 CAGAACTAAAGGCCCGTTTTCTATTAA 59.880 37.037 0.00 0.00 0.00 1.40
3306 5332 7.832685 AGAACTAAAGGCCCGTTTTCTATTAAT 59.167 33.333 0.00 0.00 0.00 1.40
3307 5333 7.329588 ACTAAAGGCCCGTTTTCTATTAATG 57.670 36.000 0.00 0.00 0.00 1.90
3308 5334 4.649088 AAGGCCCGTTTTCTATTAATGC 57.351 40.909 0.00 0.00 0.00 3.56
3309 5335 3.626930 AGGCCCGTTTTCTATTAATGCA 58.373 40.909 0.00 0.00 0.00 3.96
3310 5336 4.215109 AGGCCCGTTTTCTATTAATGCAT 58.785 39.130 0.00 0.00 0.00 3.96
3311 5337 5.381757 AGGCCCGTTTTCTATTAATGCATA 58.618 37.500 0.00 0.00 0.00 3.14
3312 5338 6.010219 AGGCCCGTTTTCTATTAATGCATAT 58.990 36.000 0.00 0.00 0.00 1.78
3313 5339 6.071952 AGGCCCGTTTTCTATTAATGCATATG 60.072 38.462 0.00 0.00 0.00 1.78
3314 5340 6.294508 GGCCCGTTTTCTATTAATGCATATGT 60.295 38.462 0.00 0.00 0.00 2.29
3315 5341 7.094549 GGCCCGTTTTCTATTAATGCATATGTA 60.095 37.037 0.00 0.00 0.00 2.29
3316 5342 7.749126 GCCCGTTTTCTATTAATGCATATGTAC 59.251 37.037 0.00 0.00 0.00 2.90
3317 5343 8.999431 CCCGTTTTCTATTAATGCATATGTACT 58.001 33.333 0.00 0.00 0.00 2.73
3318 5344 9.811655 CCGTTTTCTATTAATGCATATGTACTG 57.188 33.333 0.00 0.00 0.00 2.74
3531 6238 7.200778 TCTCTTCTTCTGATATGATGACTCG 57.799 40.000 0.00 0.00 0.00 4.18
3545 6252 5.487433 TGATGACTCGCCTAATCAAAGAAA 58.513 37.500 0.00 0.00 0.00 2.52
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
7 8 5.130975 TGTGTGTCCTAATTATGCAGAGGAT 59.869 40.000 7.19 0.00 40.19 3.24
8 9 4.469586 TGTGTGTCCTAATTATGCAGAGGA 59.530 41.667 0.00 0.00 35.69 3.71
84 85 6.943146 TCGCTCTATAGGAGTCTACAATGATT 59.057 38.462 0.00 0.00 43.62 2.57
129 132 2.058595 AGGGTCGATCCACTTCCGG 61.059 63.158 19.03 0.00 38.11 5.14
144 147 2.947312 ATGGATGGCACCATCTCAGGG 61.947 57.143 24.97 0.00 46.24 4.45
206 214 3.507597 CGCTATGCAAGGCGGTATA 57.492 52.632 22.98 0.00 46.42 1.47
233 241 1.456923 GGTTTACGCTACAACGACCAC 59.543 52.381 0.00 0.00 36.70 4.16
250 258 1.000506 ACACTCGCTTCGTACATGGTT 59.999 47.619 0.00 0.00 0.00 3.67
339 347 1.938016 GCCTTACTTTGGTCGCTTCGA 60.938 52.381 0.00 0.00 0.00 3.71
465 474 7.487829 CCTCAAAGAAAATCAACGACTCAAAAA 59.512 33.333 0.00 0.00 0.00 1.94
482 491 0.323629 CGGGTAGCCACCTCAAAGAA 59.676 55.000 12.31 0.00 45.04 2.52
484 493 1.745489 GCGGGTAGCCACCTCAAAG 60.745 63.158 12.31 0.00 45.04 2.77
503 515 1.207593 CTGCGACCGCTTGGAAAAG 59.792 57.895 15.61 0.00 42.51 2.27
559 571 3.518003 GCAGCGAGCCCATTGAAT 58.482 55.556 0.00 0.00 37.23 2.57
728 744 0.811281 GGAAAACCGATCCAAGCAGG 59.189 55.000 0.00 0.00 36.92 4.85
774 800 3.382865 AGCTTCTACTGATGATTCGCTGA 59.617 43.478 0.00 0.00 0.00 4.26
820 846 1.770294 TTCTTTGCCCTCAACCGTTT 58.230 45.000 0.00 0.00 30.75 3.60
843 869 8.177663 ACATGATGTGAATTAATTTCTCGTGAC 58.822 33.333 18.89 2.61 35.23 3.67
942 971 2.484264 GGATCAACTTATATGGTGGCGC 59.516 50.000 0.00 0.00 0.00 6.53
1076 1109 0.737019 TCGTCGCCGGGAATGTTAAC 60.737 55.000 2.18 0.00 33.95 2.01
1189 1247 9.853177 TTCACTAGATGAGATCTAACATACTGA 57.147 33.333 0.00 0.00 41.07 3.41
1447 1529 1.931841 CAGTTCGCCTCATCAGTCATG 59.068 52.381 0.00 0.00 0.00 3.07
1461 1543 2.572284 GGAGGTCGTCCCAGTTCG 59.428 66.667 0.00 0.00 39.88 3.95
1663 1745 0.388134 CGGTGAGGACGTTCACGAAT 60.388 55.000 12.88 0.00 46.61 3.34
1804 1892 4.357947 GCGACGGCTCTGGTCACA 62.358 66.667 0.00 0.00 34.04 3.58
1924 2048 2.357034 GAAGACGCCGCCACAAGA 60.357 61.111 0.00 0.00 0.00 3.02
1942 2072 1.663379 CGTAGAGGACCATGTCGGCA 61.663 60.000 0.00 0.00 39.03 5.69
1945 2075 1.065928 GGCGTAGAGGACCATGTCG 59.934 63.158 0.00 0.00 32.65 4.35
2383 4307 1.134995 CACTCTCAATGCGTGCCTAGA 60.135 52.381 0.00 0.00 0.00 2.43
2577 4537 4.222810 TGTTCCAGGAAGAAATCGATCTCA 59.777 41.667 0.54 0.00 0.00 3.27
2613 4578 4.061357 TGTTGTGGTACATTCACGAAGA 57.939 40.909 0.00 0.00 44.52 2.87
2643 4623 4.873259 TGAAATCTTCGTGTCAAACACTCA 59.127 37.500 8.44 1.33 46.46 3.41
2644 4624 5.006746 AGTGAAATCTTCGTGTCAAACACTC 59.993 40.000 8.44 0.00 46.46 3.51
2645 4625 4.876107 AGTGAAATCTTCGTGTCAAACACT 59.124 37.500 8.44 0.00 46.46 3.55
2646 4626 5.156804 AGTGAAATCTTCGTGTCAAACAC 57.843 39.130 0.08 0.08 45.26 3.32
2647 4627 5.448496 CCAAGTGAAATCTTCGTGTCAAACA 60.448 40.000 0.00 0.00 0.00 2.83
2648 4628 4.970003 CCAAGTGAAATCTTCGTGTCAAAC 59.030 41.667 0.00 0.00 0.00 2.93
2649 4629 4.878971 TCCAAGTGAAATCTTCGTGTCAAA 59.121 37.500 0.00 0.00 0.00 2.69
2650 4630 4.447290 TCCAAGTGAAATCTTCGTGTCAA 58.553 39.130 0.00 0.00 0.00 3.18
2667 4647 7.512992 AGTGGAAATAGAATAGTCCATCCAAG 58.487 38.462 5.70 0.00 39.87 3.61
2708 4694 6.248433 ACTGAAAACATAACATGGATGAGGT 58.752 36.000 14.77 1.80 33.60 3.85
2709 4695 6.764308 ACTGAAAACATAACATGGATGAGG 57.236 37.500 14.77 0.00 33.60 3.86
2710 4696 9.726232 CATTACTGAAAACATAACATGGATGAG 57.274 33.333 14.77 5.73 33.60 2.90
2837 4829 2.742372 GGGACATTGCTCACGCGT 60.742 61.111 5.58 5.58 39.65 6.01
2875 4867 4.413087 ACATAACTAAGCTCAGACGAACG 58.587 43.478 0.00 0.00 0.00 3.95
2878 4870 6.546403 AGGAATACATAACTAAGCTCAGACGA 59.454 38.462 0.00 0.00 0.00 4.20
2895 4887 4.287067 AGAAAGGAAGTGCAGAGGAATACA 59.713 41.667 0.00 0.00 0.00 2.29
2958 4955 6.156519 TGAACGATCGTATGGAAATGATAGG 58.843 40.000 23.04 0.00 0.00 2.57
3069 5078 1.696063 AATTATGCAAGGGCGATGCT 58.304 45.000 13.24 3.45 45.35 3.79
3070 5079 3.441572 AGATAATTATGCAAGGGCGATGC 59.558 43.478 1.78 6.22 45.35 3.91
3071 5080 6.741992 TTAGATAATTATGCAAGGGCGATG 57.258 37.500 1.78 0.00 45.35 3.84
3072 5081 9.060347 CATATTAGATAATTATGCAAGGGCGAT 57.940 33.333 1.78 0.00 45.35 4.58
3074 5083 8.213518 ACATATTAGATAATTATGCAAGGGCG 57.786 34.615 1.78 0.00 45.35 6.13
3075 5084 9.401058 AGACATATTAGATAATTATGCAAGGGC 57.599 33.333 1.78 0.00 41.68 5.19
3159 5185 1.366319 AGGAGCTCCACAGGACAAAT 58.634 50.000 33.90 6.77 38.89 2.32
3165 5191 1.208293 GGACTAAAGGAGCTCCACAGG 59.792 57.143 33.90 21.69 38.89 4.00
3166 5192 1.208293 GGGACTAAAGGAGCTCCACAG 59.792 57.143 33.90 26.33 38.89 3.66
3167 5193 1.276622 GGGACTAAAGGAGCTCCACA 58.723 55.000 33.90 17.06 38.89 4.17
3168 5194 1.208293 CTGGGACTAAAGGAGCTCCAC 59.792 57.143 33.90 16.38 38.89 4.02
3169 5195 1.203313 ACTGGGACTAAAGGAGCTCCA 60.203 52.381 33.90 13.39 38.89 3.86
3170 5196 1.574263 ACTGGGACTAAAGGAGCTCC 58.426 55.000 26.22 26.22 0.00 4.70
3171 5197 2.567615 TGAACTGGGACTAAAGGAGCTC 59.432 50.000 4.71 4.71 0.00 4.09
3172 5198 2.621070 TGAACTGGGACTAAAGGAGCT 58.379 47.619 0.00 0.00 0.00 4.09
3173 5199 3.636153 ATGAACTGGGACTAAAGGAGC 57.364 47.619 0.00 0.00 0.00 4.70
3174 5200 5.119694 GCTTATGAACTGGGACTAAAGGAG 58.880 45.833 0.00 0.00 0.00 3.69
3175 5201 4.080526 GGCTTATGAACTGGGACTAAAGGA 60.081 45.833 0.00 0.00 0.00 3.36
3176 5202 4.200092 GGCTTATGAACTGGGACTAAAGG 58.800 47.826 0.00 0.00 0.00 3.11
3177 5203 4.843728 TGGCTTATGAACTGGGACTAAAG 58.156 43.478 0.00 0.00 0.00 1.85
3178 5204 4.919774 TGGCTTATGAACTGGGACTAAA 57.080 40.909 0.00 0.00 0.00 1.85
3179 5205 4.566907 GGTTGGCTTATGAACTGGGACTAA 60.567 45.833 0.00 0.00 0.00 2.24
3180 5206 3.054655 GGTTGGCTTATGAACTGGGACTA 60.055 47.826 0.00 0.00 0.00 2.59
3181 5207 2.290960 GGTTGGCTTATGAACTGGGACT 60.291 50.000 0.00 0.00 0.00 3.85
3182 5208 2.092323 GGTTGGCTTATGAACTGGGAC 58.908 52.381 0.00 0.00 0.00 4.46
3183 5209 1.339631 CGGTTGGCTTATGAACTGGGA 60.340 52.381 0.00 0.00 0.00 4.37
3184 5210 1.094785 CGGTTGGCTTATGAACTGGG 58.905 55.000 0.00 0.00 0.00 4.45
3185 5211 1.094785 CCGGTTGGCTTATGAACTGG 58.905 55.000 0.00 0.00 41.18 4.00
3186 5212 1.094785 CCCGGTTGGCTTATGAACTG 58.905 55.000 0.00 0.00 0.00 3.16
3187 5213 0.988832 TCCCGGTTGGCTTATGAACT 59.011 50.000 0.00 0.00 0.00 3.01
3188 5214 1.092348 GTCCCGGTTGGCTTATGAAC 58.908 55.000 0.00 0.00 0.00 3.18
3189 5215 0.988832 AGTCCCGGTTGGCTTATGAA 59.011 50.000 0.00 0.00 0.00 2.57
3190 5216 1.868713 TAGTCCCGGTTGGCTTATGA 58.131 50.000 0.00 0.00 0.00 2.15
3191 5217 2.702592 TTAGTCCCGGTTGGCTTATG 57.297 50.000 0.00 0.00 0.00 1.90
3192 5218 3.009805 ACTTTTAGTCCCGGTTGGCTTAT 59.990 43.478 0.00 0.00 0.00 1.73
3193 5219 2.372837 ACTTTTAGTCCCGGTTGGCTTA 59.627 45.455 0.00 0.00 0.00 3.09
3194 5220 1.144298 ACTTTTAGTCCCGGTTGGCTT 59.856 47.619 0.00 0.00 0.00 4.35
3195 5221 0.769247 ACTTTTAGTCCCGGTTGGCT 59.231 50.000 0.00 0.00 0.00 4.75
3196 5222 1.612676 AACTTTTAGTCCCGGTTGGC 58.387 50.000 0.00 0.00 0.00 4.52
3197 5223 3.243602 CCAAAACTTTTAGTCCCGGTTGG 60.244 47.826 0.00 0.00 0.00 3.77
3198 5224 3.243602 CCCAAAACTTTTAGTCCCGGTTG 60.244 47.826 0.00 0.00 0.00 3.77
3199 5225 2.960384 CCCAAAACTTTTAGTCCCGGTT 59.040 45.455 0.00 0.00 0.00 4.44
3200 5226 2.589720 CCCAAAACTTTTAGTCCCGGT 58.410 47.619 0.00 0.00 0.00 5.28
3201 5227 1.271379 GCCCAAAACTTTTAGTCCCGG 59.729 52.381 0.00 0.00 0.00 5.73
3202 5228 1.957877 TGCCCAAAACTTTTAGTCCCG 59.042 47.619 0.00 0.00 0.00 5.14
3203 5229 4.617253 AATGCCCAAAACTTTTAGTCCC 57.383 40.909 0.00 0.00 0.00 4.46
3204 5230 6.816640 GGATTAATGCCCAAAACTTTTAGTCC 59.183 38.462 0.00 0.00 0.00 3.85
3205 5231 6.816640 GGGATTAATGCCCAAAACTTTTAGTC 59.183 38.462 14.83 0.00 45.31 2.59
3206 5232 6.573485 CGGGATTAATGCCCAAAACTTTTAGT 60.573 38.462 19.28 0.00 46.36 2.24
3207 5233 5.810074 CGGGATTAATGCCCAAAACTTTTAG 59.190 40.000 19.28 0.00 46.36 1.85
3208 5234 5.246429 ACGGGATTAATGCCCAAAACTTTTA 59.754 36.000 19.28 0.00 46.36 1.52
3209 5235 4.041075 ACGGGATTAATGCCCAAAACTTTT 59.959 37.500 19.28 0.00 46.36 2.27
3210 5236 3.580895 ACGGGATTAATGCCCAAAACTTT 59.419 39.130 19.28 0.00 46.36 2.66
3211 5237 3.169908 ACGGGATTAATGCCCAAAACTT 58.830 40.909 19.28 0.00 46.36 2.66
3212 5238 2.815158 ACGGGATTAATGCCCAAAACT 58.185 42.857 19.28 0.00 46.36 2.66
3213 5239 3.603158 AACGGGATTAATGCCCAAAAC 57.397 42.857 19.28 0.00 46.36 2.43
3214 5240 3.325135 ACAAACGGGATTAATGCCCAAAA 59.675 39.130 19.28 0.00 46.36 2.44
3215 5241 2.900546 ACAAACGGGATTAATGCCCAAA 59.099 40.909 19.28 0.00 46.36 3.28
3216 5242 2.530701 ACAAACGGGATTAATGCCCAA 58.469 42.857 19.28 0.00 46.36 4.12
3217 5243 2.223803 ACAAACGGGATTAATGCCCA 57.776 45.000 19.28 0.00 46.36 5.36
3218 5244 3.603158 AAACAAACGGGATTAATGCCC 57.397 42.857 19.28 14.70 42.41 5.36
3219 5245 4.311606 ACAAAACAAACGGGATTAATGCC 58.688 39.130 15.68 15.68 34.56 4.40
3220 5246 4.387559 GGACAAAACAAACGGGATTAATGC 59.612 41.667 0.00 0.00 0.00 3.56
3221 5247 4.926832 GGGACAAAACAAACGGGATTAATG 59.073 41.667 0.00 0.00 0.00 1.90
3222 5248 4.321378 CGGGACAAAACAAACGGGATTAAT 60.321 41.667 0.00 0.00 0.00 1.40
3223 5249 3.004524 CGGGACAAAACAAACGGGATTAA 59.995 43.478 0.00 0.00 0.00 1.40
3224 5250 2.553172 CGGGACAAAACAAACGGGATTA 59.447 45.455 0.00 0.00 0.00 1.75
3225 5251 1.338655 CGGGACAAAACAAACGGGATT 59.661 47.619 0.00 0.00 0.00 3.01
3226 5252 0.955905 CGGGACAAAACAAACGGGAT 59.044 50.000 0.00 0.00 0.00 3.85
3227 5253 1.102222 CCGGGACAAAACAAACGGGA 61.102 55.000 0.00 0.00 37.80 5.14
3228 5254 1.360911 CCGGGACAAAACAAACGGG 59.639 57.895 0.00 0.00 37.80 5.28
3229 5255 0.456628 AACCGGGACAAAACAAACGG 59.543 50.000 6.32 0.00 46.16 4.44
3230 5256 1.534385 GGAACCGGGACAAAACAAACG 60.534 52.381 6.32 0.00 0.00 3.60
3231 5257 1.477295 TGGAACCGGGACAAAACAAAC 59.523 47.619 6.32 0.00 0.00 2.93
3232 5258 1.751924 CTGGAACCGGGACAAAACAAA 59.248 47.619 6.32 0.00 0.00 2.83
3233 5259 1.064611 TCTGGAACCGGGACAAAACAA 60.065 47.619 6.32 0.00 0.00 2.83
3234 5260 0.547075 TCTGGAACCGGGACAAAACA 59.453 50.000 6.32 0.00 0.00 2.83
3235 5261 1.335810 GTTCTGGAACCGGGACAAAAC 59.664 52.381 6.32 0.71 35.36 2.43
3236 5262 1.682740 GTTCTGGAACCGGGACAAAA 58.317 50.000 6.32 0.00 35.36 2.44
3237 5263 3.407443 GTTCTGGAACCGGGACAAA 57.593 52.632 6.32 0.00 35.36 2.83
3246 5272 2.629051 CATTAGTCCCGGTTCTGGAAC 58.371 52.381 0.00 5.02 40.45 3.62
3247 5273 1.557832 CCATTAGTCCCGGTTCTGGAA 59.442 52.381 0.00 0.00 32.59 3.53
3248 5274 1.200519 CCATTAGTCCCGGTTCTGGA 58.799 55.000 0.00 0.00 0.00 3.86
3249 5275 0.463833 GCCATTAGTCCCGGTTCTGG 60.464 60.000 0.00 0.00 0.00 3.86
3250 5276 0.463833 GGCCATTAGTCCCGGTTCTG 60.464 60.000 0.00 0.00 0.00 3.02
3251 5277 1.632965 GGGCCATTAGTCCCGGTTCT 61.633 60.000 4.39 0.15 32.00 3.01
3252 5278 1.153025 GGGCCATTAGTCCCGGTTC 60.153 63.158 4.39 0.00 32.00 3.62
3253 5279 3.004090 GGGCCATTAGTCCCGGTT 58.996 61.111 4.39 0.00 32.00 4.44
3257 5283 0.759436 TCGAGAGGGCCATTAGTCCC 60.759 60.000 6.18 0.00 42.94 4.46
3258 5284 1.120530 TTCGAGAGGGCCATTAGTCC 58.879 55.000 6.18 0.00 0.00 3.85
3259 5285 1.202545 GGTTCGAGAGGGCCATTAGTC 60.203 57.143 6.18 0.00 0.00 2.59
3260 5286 0.831307 GGTTCGAGAGGGCCATTAGT 59.169 55.000 6.18 0.00 0.00 2.24
3261 5287 0.830648 TGGTTCGAGAGGGCCATTAG 59.169 55.000 6.18 0.00 32.19 1.73
3262 5288 0.830648 CTGGTTCGAGAGGGCCATTA 59.169 55.000 6.18 0.00 35.48 1.90
3263 5289 0.909610 TCTGGTTCGAGAGGGCCATT 60.910 55.000 6.18 0.00 35.48 3.16
3264 5290 0.909610 TTCTGGTTCGAGAGGGCCAT 60.910 55.000 6.18 0.00 35.48 4.40
3265 5291 1.535444 TTCTGGTTCGAGAGGGCCA 60.535 57.895 6.18 0.00 34.96 5.36
3266 5292 1.079057 GTTCTGGTTCGAGAGGGCC 60.079 63.158 0.00 0.00 0.00 5.80
3267 5293 1.183549 TAGTTCTGGTTCGAGAGGGC 58.816 55.000 0.00 0.00 0.00 5.19
3268 5294 3.368531 CCTTTAGTTCTGGTTCGAGAGGG 60.369 52.174 0.00 0.00 0.00 4.30
3269 5295 3.851098 CCTTTAGTTCTGGTTCGAGAGG 58.149 50.000 0.00 0.00 0.00 3.69
3270 5296 3.254892 GCCTTTAGTTCTGGTTCGAGAG 58.745 50.000 0.00 0.00 0.00 3.20
3271 5297 2.028385 GGCCTTTAGTTCTGGTTCGAGA 60.028 50.000 0.00 0.00 0.00 4.04
3272 5298 2.347731 GGCCTTTAGTTCTGGTTCGAG 58.652 52.381 0.00 0.00 0.00 4.04
3273 5299 1.002773 GGGCCTTTAGTTCTGGTTCGA 59.997 52.381 0.84 0.00 0.00 3.71
3274 5300 1.450025 GGGCCTTTAGTTCTGGTTCG 58.550 55.000 0.84 0.00 0.00 3.95
3275 5301 1.271217 ACGGGCCTTTAGTTCTGGTTC 60.271 52.381 0.84 0.00 0.00 3.62
3276 5302 0.769247 ACGGGCCTTTAGTTCTGGTT 59.231 50.000 0.84 0.00 0.00 3.67
3277 5303 0.769247 AACGGGCCTTTAGTTCTGGT 59.231 50.000 0.84 0.00 0.00 4.00
3278 5304 1.905637 AAACGGGCCTTTAGTTCTGG 58.094 50.000 0.84 0.00 0.00 3.86
3279 5305 3.146847 AGAAAACGGGCCTTTAGTTCTG 58.853 45.455 0.84 0.00 0.00 3.02
3280 5306 3.503800 AGAAAACGGGCCTTTAGTTCT 57.496 42.857 0.84 2.80 0.00 3.01
3281 5307 5.892160 AATAGAAAACGGGCCTTTAGTTC 57.108 39.130 0.84 0.18 0.00 3.01
3282 5308 7.629866 GCATTAATAGAAAACGGGCCTTTAGTT 60.630 37.037 0.84 1.39 0.00 2.24
3283 5309 6.183360 GCATTAATAGAAAACGGGCCTTTAGT 60.183 38.462 0.84 0.00 0.00 2.24
3284 5310 6.183360 TGCATTAATAGAAAACGGGCCTTTAG 60.183 38.462 0.84 0.00 0.00 1.85
3285 5311 5.652891 TGCATTAATAGAAAACGGGCCTTTA 59.347 36.000 0.84 0.00 0.00 1.85
3286 5312 4.464597 TGCATTAATAGAAAACGGGCCTTT 59.535 37.500 0.84 0.00 0.00 3.11
3287 5313 4.020543 TGCATTAATAGAAAACGGGCCTT 58.979 39.130 0.84 0.00 0.00 4.35
3288 5314 3.626930 TGCATTAATAGAAAACGGGCCT 58.373 40.909 0.84 0.00 0.00 5.19
3289 5315 4.584327 ATGCATTAATAGAAAACGGGCC 57.416 40.909 0.00 0.00 0.00 5.80
3290 5316 6.677913 ACATATGCATTAATAGAAAACGGGC 58.322 36.000 3.54 0.00 0.00 6.13
3291 5317 8.999431 AGTACATATGCATTAATAGAAAACGGG 58.001 33.333 3.54 0.00 0.00 5.28
3292 5318 9.811655 CAGTACATATGCATTAATAGAAAACGG 57.188 33.333 3.54 0.00 0.00 4.44
3327 5353 9.691362 GACTGTAAATCATACAAATGGTTGTTT 57.309 29.630 0.00 0.00 46.01 2.83
3328 5354 8.303876 GGACTGTAAATCATACAAATGGTTGTT 58.696 33.333 0.00 0.00 46.01 2.83
3330 5356 7.825681 TGGACTGTAAATCATACAAATGGTTG 58.174 34.615 0.00 0.00 36.53 3.77
3331 5357 8.593945 ATGGACTGTAAATCATACAAATGGTT 57.406 30.769 0.00 0.00 38.09 3.67
3332 5358 9.866655 ATATGGACTGTAAATCATACAAATGGT 57.133 29.630 0.00 0.00 33.61 3.55
3402 6104 7.338710 AGAAAATATTCTCGGGACTTTGATCA 58.661 34.615 0.00 0.00 42.26 2.92
3410 6112 7.091443 ACGATGATAGAAAATATTCTCGGGAC 58.909 38.462 0.00 0.00 44.75 4.46
3468 6173 4.136796 TGCCATGCTAGCTTAAATCGAAT 58.863 39.130 17.23 0.00 0.00 3.34
3516 6223 5.958955 TGATTAGGCGAGTCATCATATCAG 58.041 41.667 0.00 0.00 0.00 2.90
3519 6226 6.997655 TCTTTGATTAGGCGAGTCATCATAT 58.002 36.000 0.00 0.00 0.00 1.78


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

AutoCloner maintained by Alex Coulton.