Multiple sequence alignment - TraesCS1A01G136300

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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 TraesCS1A01G136300 chr1A 100.000 2267 0 0 1 2267 215665827 215663561 0.000000e+00 4187
1 TraesCS1A01G136300 chr1A 95.161 186 9 0 2082 2267 218862954 218863139 6.120000e-76 294
2 TraesCS1A01G136300 chr5D 89.247 2111 180 21 1 2080 508238290 508240384 0.000000e+00 2597
3 TraesCS1A01G136300 chr5D 90.806 1675 121 22 146 1795 452401407 452399741 0.000000e+00 2209
4 TraesCS1A01G136300 chr5D 90.235 1362 103 12 739 2099 522787896 522789228 0.000000e+00 1751
5 TraesCS1A01G136300 chr5D 92.798 1083 71 4 739 1819 517099710 517100787 0.000000e+00 1561
6 TraesCS1A01G136300 chr5D 86.098 410 55 2 1691 2099 452399877 452399469 7.430000e-120 440
7 TraesCS1A01G136300 chr5D 86.352 403 53 2 1700 2101 517100635 517101036 2.670000e-119 438
8 TraesCS1A01G136300 chr5D 97.740 177 3 1 2092 2267 186963865 186963689 1.020000e-78 303
9 TraesCS1A01G136300 chr1D 91.681 1707 115 6 1 1687 20024038 20022339 0.000000e+00 2340
10 TraesCS1A01G136300 chr1D 90.683 1084 91 7 739 1819 92054998 92056074 0.000000e+00 1434
11 TraesCS1A01G136300 chr1D 92.838 740 51 2 1 739 257421341 257420603 0.000000e+00 1072
12 TraesCS1A01G136300 chr1D 79.897 388 39 21 1723 2101 20009331 20008974 4.840000e-62 248
13 TraesCS1A01G136300 chr7D 93.259 1083 66 4 739 1819 411315048 411313971 0.000000e+00 1589
14 TraesCS1A01G136300 chr7D 93.514 740 47 1 1 739 411315830 411315091 0.000000e+00 1099
15 TraesCS1A01G136300 chr7D 88.973 263 27 2 1700 1961 411314123 411313862 7.810000e-85 324
16 TraesCS1A01G136300 chr3B 91.803 1098 71 11 726 1819 738418552 738419634 0.000000e+00 1511
17 TraesCS1A01G136300 chr3B 81.971 416 66 8 1691 2102 213718466 213718056 6.000000e-91 344
18 TraesCS1A01G136300 chr2D 91.071 1120 86 11 703 1819 314479716 314478608 0.000000e+00 1502
19 TraesCS1A01G136300 chr2D 93.378 740 48 1 1 739 519139743 519140482 0.000000e+00 1094
20 TraesCS1A01G136300 chr2D 93.243 740 49 1 1 739 50978808 50978069 0.000000e+00 1088
21 TraesCS1A01G136300 chr2D 81.818 418 50 16 1691 2101 314478769 314478371 6.040000e-86 327
22 TraesCS1A01G136300 chr5B 90.744 1048 81 5 739 1786 586297249 586296218 0.000000e+00 1384
23 TraesCS1A01G136300 chr5B 81.281 406 67 7 1697 2099 595180637 595180238 1.010000e-83 320
24 TraesCS1A01G136300 chr5A 93.784 740 45 1 1 739 353195980 353196719 0.000000e+00 1110
25 TraesCS1A01G136300 chr3D 93.108 740 50 1 1 739 415997331 415998070 0.000000e+00 1083
26 TraesCS1A01G136300 chr3D 95.213 188 8 1 2080 2267 243803248 243803062 1.700000e-76 296
27 TraesCS1A01G136300 chr3D 79.464 336 47 11 1767 2095 416000235 416000555 3.790000e-53 219
28 TraesCS1A01G136300 chr4D 93.108 740 47 2 1 739 422950324 422949588 0.000000e+00 1081
29 TraesCS1A01G136300 chr6B 92.963 739 51 1 2 739 472599978 472600716 0.000000e+00 1075
30 TraesCS1A01G136300 chr6B 97.207 179 3 1 2091 2267 328004620 328004442 3.660000e-78 302
31 TraesCS1A01G136300 chr6A 97.753 178 3 1 2090 2267 284997607 284997431 2.830000e-79 305
32 TraesCS1A01G136300 chr6A 97.661 171 4 0 2097 2267 291059605 291059435 6.120000e-76 294
33 TraesCS1A01G136300 chrUn 97.727 176 3 1 2092 2267 160200591 160200417 3.660000e-78 302
34 TraesCS1A01G136300 chrUn 95.161 186 9 0 2082 2267 108009068 108009253 6.120000e-76 294
35 TraesCS1A01G136300 chr2A 93.909 197 8 4 2072 2267 328816252 328816059 6.120000e-76 294
36 TraesCS1A01G136300 chr2B 81.749 263 43 4 1691 1952 747524888 747525146 4.900000e-52 215


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 TraesCS1A01G136300 chr1A 215663561 215665827 2266 True 4187.0 4187 100.000000 1 2267 1 chr1A.!!$R1 2266
1 TraesCS1A01G136300 chr5D 508238290 508240384 2094 False 2597.0 2597 89.247000 1 2080 1 chr5D.!!$F1 2079
2 TraesCS1A01G136300 chr5D 522787896 522789228 1332 False 1751.0 1751 90.235000 739 2099 1 chr5D.!!$F2 1360
3 TraesCS1A01G136300 chr5D 452399469 452401407 1938 True 1324.5 2209 88.452000 146 2099 2 chr5D.!!$R2 1953
4 TraesCS1A01G136300 chr5D 517099710 517101036 1326 False 999.5 1561 89.575000 739 2101 2 chr5D.!!$F3 1362
5 TraesCS1A01G136300 chr1D 20022339 20024038 1699 True 2340.0 2340 91.681000 1 1687 1 chr1D.!!$R2 1686
6 TraesCS1A01G136300 chr1D 92054998 92056074 1076 False 1434.0 1434 90.683000 739 1819 1 chr1D.!!$F1 1080
7 TraesCS1A01G136300 chr1D 257420603 257421341 738 True 1072.0 1072 92.838000 1 739 1 chr1D.!!$R3 738
8 TraesCS1A01G136300 chr7D 411313862 411315830 1968 True 1004.0 1589 91.915333 1 1961 3 chr7D.!!$R1 1960
9 TraesCS1A01G136300 chr3B 738418552 738419634 1082 False 1511.0 1511 91.803000 726 1819 1 chr3B.!!$F1 1093
10 TraesCS1A01G136300 chr2D 519139743 519140482 739 False 1094.0 1094 93.378000 1 739 1 chr2D.!!$F1 738
11 TraesCS1A01G136300 chr2D 50978069 50978808 739 True 1088.0 1088 93.243000 1 739 1 chr2D.!!$R1 738
12 TraesCS1A01G136300 chr2D 314478371 314479716 1345 True 914.5 1502 86.444500 703 2101 2 chr2D.!!$R2 1398
13 TraesCS1A01G136300 chr5B 586296218 586297249 1031 True 1384.0 1384 90.744000 739 1786 1 chr5B.!!$R1 1047
14 TraesCS1A01G136300 chr5A 353195980 353196719 739 False 1110.0 1110 93.784000 1 739 1 chr5A.!!$F1 738
15 TraesCS1A01G136300 chr3D 415997331 416000555 3224 False 651.0 1083 86.286000 1 2095 2 chr3D.!!$F1 2094
16 TraesCS1A01G136300 chr4D 422949588 422950324 736 True 1081.0 1081 93.108000 1 739 1 chr4D.!!$R1 738
17 TraesCS1A01G136300 chr6B 472599978 472600716 738 False 1075.0 1075 92.963000 2 739 1 chr6B.!!$F1 737

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
671 673 1.807165 CGGACCGATGCTGACACTG 60.807 63.158 8.64 0.0 0.0 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2173 3480 0.0982 CTCGCACATTCGTAGTCGGA 59.902 55.0 0.0 0.0 37.69 4.55 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
105 106 5.200483 TCAAAGTTGAGGATTGGTTGAAGT 58.800 37.500 0.00 0.00 32.50 3.01
181 182 4.081420 ACAAATCTACCAAGTCGATGAGCT 60.081 41.667 0.00 0.00 0.00 4.09
213 214 2.769663 ACAAGGGAAGGCATGACGTATA 59.230 45.455 0.00 0.00 0.00 1.47
222 223 4.408276 AGGCATGACGTATAGTGGAGTAT 58.592 43.478 0.00 0.00 0.00 2.12
520 522 4.852697 AGAAAGAAGAGGTTTAGGGGTGAT 59.147 41.667 0.00 0.00 0.00 3.06
545 547 4.093011 GGATGATCTAGCTGGATACACCT 58.907 47.826 13.16 0.00 46.17 4.00
664 666 2.748058 AAAAGCCACGGACCGATGCT 62.748 55.000 23.38 23.13 38.36 3.79
665 667 3.958147 AAGCCACGGACCGATGCTG 62.958 63.158 27.04 13.88 37.33 4.41
671 673 1.807165 CGGACCGATGCTGACACTG 60.807 63.158 8.64 0.00 0.00 3.66
747 792 3.108376 GAGGTAGGAGTGGAATCTTGGT 58.892 50.000 0.00 0.00 0.00 3.67
757 802 3.054361 GTGGAATCTTGGTGGTAGTGGAT 60.054 47.826 0.00 0.00 0.00 3.41
774 819 4.586841 AGTGGATGAGGAGACACTATTAGC 59.413 45.833 0.00 0.00 41.95 3.09
843 888 4.559704 CGTAGGATGAGAAGGGTTGATAGC 60.560 50.000 0.00 0.00 0.00 2.97
1071 2325 1.296715 GCCGGACAAGTGGACAGAT 59.703 57.895 5.05 0.00 0.00 2.90
1163 2417 4.977393 GGTATCCACCAACCGCAT 57.023 55.556 0.00 0.00 45.04 4.73
1212 2466 3.634568 TTTGTTTGTCCCAACTATGCG 57.365 42.857 0.00 0.00 0.00 4.73
1229 2483 0.587285 GCGTATGATCGTCCTCGTCT 59.413 55.000 0.00 0.00 38.33 4.18
1244 2498 0.039978 CGTCTAGCTCACGCCTATGG 60.040 60.000 5.28 0.00 36.60 2.74
1272 2526 2.349155 GCCGGTAAGTTGTTGAAGTTCG 60.349 50.000 1.90 0.00 0.00 3.95
1294 2548 6.631016 TCGAAGAGTATTCAACTGTTGCTAT 58.369 36.000 15.52 12.87 41.53 2.97
1351 2609 5.503662 TCTTTATTCATACGTAGTCGCCA 57.496 39.130 0.08 0.00 43.93 5.69
1454 2712 3.771216 AGGAGGCATCAGTTGTTTGAAT 58.229 40.909 0.00 0.00 0.00 2.57
1509 2767 3.679389 GTGAAAAGGAGAAGATGGAGCA 58.321 45.455 0.00 0.00 0.00 4.26
1717 3010 5.560953 CGATTTGAGAAACCTGTGAAGAACC 60.561 44.000 0.00 0.00 0.00 3.62
1737 3030 7.555087 AGAACCATGTCTTTGATTTGTGAAAA 58.445 30.769 0.00 0.00 0.00 2.29
1738 3031 8.206189 AGAACCATGTCTTTGATTTGTGAAAAT 58.794 29.630 0.00 0.00 0.00 1.82
1739 3032 8.735692 AACCATGTCTTTGATTTGTGAAAATT 57.264 26.923 0.00 0.00 0.00 1.82
1740 3033 8.145316 ACCATGTCTTTGATTTGTGAAAATTG 57.855 30.769 0.00 0.00 0.00 2.32
1741 3034 7.769970 ACCATGTCTTTGATTTGTGAAAATTGT 59.230 29.630 0.00 0.00 0.00 2.71
1742 3035 8.065407 CCATGTCTTTGATTTGTGAAAATTGTG 58.935 33.333 0.00 0.00 0.00 3.33
1743 3036 8.605746 CATGTCTTTGATTTGTGAAAATTGTGT 58.394 29.630 0.00 0.00 0.00 3.72
1744 3037 8.545229 TGTCTTTGATTTGTGAAAATTGTGTT 57.455 26.923 0.00 0.00 0.00 3.32
1745 3038 8.441608 TGTCTTTGATTTGTGAAAATTGTGTTG 58.558 29.630 0.00 0.00 0.00 3.33
1746 3039 8.655092 GTCTTTGATTTGTGAAAATTGTGTTGA 58.345 29.630 0.00 0.00 0.00 3.18
1747 3040 9.212641 TCTTTGATTTGTGAAAATTGTGTTGAA 57.787 25.926 0.00 0.00 0.00 2.69
1748 3041 9.264782 CTTTGATTTGTGAAAATTGTGTTGAAC 57.735 29.630 0.00 0.00 0.00 3.18
1749 3042 8.545229 TTGATTTGTGAAAATTGTGTTGAACT 57.455 26.923 0.00 0.00 0.00 3.01
1750 3043 9.645059 TTGATTTGTGAAAATTGTGTTGAACTA 57.355 25.926 0.00 0.00 0.00 2.24
1751 3044 9.814899 TGATTTGTGAAAATTGTGTTGAACTAT 57.185 25.926 0.00 0.00 0.00 2.12
1753 3046 8.994429 TTTGTGAAAATTGTGTTGAACTATGT 57.006 26.923 0.00 0.00 0.00 2.29
1755 3048 9.509855 TTGTGAAAATTGTGTTGAACTATGTAC 57.490 29.630 0.00 0.00 0.00 2.90
1756 3049 8.898761 TGTGAAAATTGTGTTGAACTATGTACT 58.101 29.630 0.00 0.00 0.00 2.73
1757 3050 9.730420 GTGAAAATTGTGTTGAACTATGTACTT 57.270 29.630 0.00 0.00 0.00 2.24
1764 3057 9.672086 TTGTGTTGAACTATGTACTTTATTTGC 57.328 29.630 0.00 0.00 0.00 3.68
1765 3058 8.012809 TGTGTTGAACTATGTACTTTATTTGCG 58.987 33.333 0.00 0.00 0.00 4.85
1766 3059 8.225107 GTGTTGAACTATGTACTTTATTTGCGA 58.775 33.333 0.00 0.00 0.00 5.10
1767 3060 8.775527 TGTTGAACTATGTACTTTATTTGCGAA 58.224 29.630 0.00 0.00 0.00 4.70
1768 3061 9.601971 GTTGAACTATGTACTTTATTTGCGAAA 57.398 29.630 0.00 0.00 0.00 3.46
1769 3062 9.820229 TTGAACTATGTACTTTATTTGCGAAAG 57.180 29.630 0.00 0.00 39.38 2.62
1812 3105 1.588674 TTGCGAAACCTGTCGTGAAT 58.411 45.000 0.00 0.00 43.06 2.57
1878 3179 5.424121 ACTACATTTGTTCTGCTGTTGTC 57.576 39.130 0.00 0.00 0.00 3.18
1882 3183 1.378531 TTGTTCTGCTGTTGTCGCTT 58.621 45.000 0.00 0.00 0.00 4.68
1956 3263 2.887151 ACTCTGCTTTGCACCCTATT 57.113 45.000 0.00 0.00 33.79 1.73
1964 3271 1.544724 TTGCACCCTATTGCCAGAAC 58.455 50.000 0.00 0.00 42.25 3.01
2048 3355 0.544697 GGAACGGAAATGCTCCCCTA 59.455 55.000 0.00 0.00 41.87 3.53
2075 3382 1.508256 GTAGGGTTGGCCATCCTACT 58.492 55.000 35.26 26.10 45.70 2.57
2081 3388 4.242602 GGCCATCCTACTGCCAAC 57.757 61.111 0.00 0.00 44.70 3.77
2101 3408 3.087906 GGATGGCGGTAGGGTGGT 61.088 66.667 0.00 0.00 0.00 4.16
2102 3409 2.189521 GATGGCGGTAGGGTGGTG 59.810 66.667 0.00 0.00 0.00 4.17
2103 3410 2.285069 ATGGCGGTAGGGTGGTGA 60.285 61.111 0.00 0.00 0.00 4.02
2104 3411 1.692749 ATGGCGGTAGGGTGGTGAT 60.693 57.895 0.00 0.00 0.00 3.06
2105 3412 0.399376 ATGGCGGTAGGGTGGTGATA 60.399 55.000 0.00 0.00 0.00 2.15
2106 3413 1.046472 TGGCGGTAGGGTGGTGATAG 61.046 60.000 0.00 0.00 0.00 2.08
2107 3414 0.757935 GGCGGTAGGGTGGTGATAGA 60.758 60.000 0.00 0.00 0.00 1.98
2108 3415 0.674534 GCGGTAGGGTGGTGATAGAG 59.325 60.000 0.00 0.00 0.00 2.43
2109 3416 1.329256 CGGTAGGGTGGTGATAGAGG 58.671 60.000 0.00 0.00 0.00 3.69
2110 3417 1.049402 GGTAGGGTGGTGATAGAGGC 58.951 60.000 0.00 0.00 0.00 4.70
2111 3418 1.691482 GGTAGGGTGGTGATAGAGGCA 60.691 57.143 0.00 0.00 0.00 4.75
2112 3419 2.116238 GTAGGGTGGTGATAGAGGCAA 58.884 52.381 0.00 0.00 0.00 4.52
2113 3420 1.668826 AGGGTGGTGATAGAGGCAAA 58.331 50.000 0.00 0.00 0.00 3.68
2114 3421 1.561542 AGGGTGGTGATAGAGGCAAAG 59.438 52.381 0.00 0.00 0.00 2.77
2115 3422 1.282157 GGGTGGTGATAGAGGCAAAGT 59.718 52.381 0.00 0.00 0.00 2.66
2116 3423 2.290960 GGGTGGTGATAGAGGCAAAGTT 60.291 50.000 0.00 0.00 0.00 2.66
2117 3424 2.749621 GGTGGTGATAGAGGCAAAGTTG 59.250 50.000 0.00 0.00 0.00 3.16
2118 3425 3.412386 GTGGTGATAGAGGCAAAGTTGT 58.588 45.455 0.00 0.00 0.00 3.32
2119 3426 3.437049 GTGGTGATAGAGGCAAAGTTGTC 59.563 47.826 0.00 0.00 0.00 3.18
2120 3427 3.010420 GGTGATAGAGGCAAAGTTGTCC 58.990 50.000 0.00 0.00 31.90 4.02
2121 3428 3.010420 GTGATAGAGGCAAAGTTGTCCC 58.990 50.000 0.00 0.00 31.90 4.46
2122 3429 2.280628 GATAGAGGCAAAGTTGTCCCG 58.719 52.381 0.00 0.00 31.90 5.14
2123 3430 1.053424 TAGAGGCAAAGTTGTCCCGT 58.947 50.000 0.00 0.00 31.90 5.28
2124 3431 0.250338 AGAGGCAAAGTTGTCCCGTC 60.250 55.000 0.00 0.00 31.90 4.79
2125 3432 0.250338 GAGGCAAAGTTGTCCCGTCT 60.250 55.000 0.00 0.00 31.90 4.18
2126 3433 0.182775 AGGCAAAGTTGTCCCGTCTT 59.817 50.000 0.00 0.00 31.90 3.01
2127 3434 1.029681 GGCAAAGTTGTCCCGTCTTT 58.970 50.000 0.00 0.00 32.60 2.52
2128 3435 1.001706 GGCAAAGTTGTCCCGTCTTTC 60.002 52.381 0.00 0.00 30.41 2.62
2129 3436 1.333791 GCAAAGTTGTCCCGTCTTTCG 60.334 52.381 0.00 0.00 39.52 3.46
2130 3437 2.206750 CAAAGTTGTCCCGTCTTTCGA 58.793 47.619 0.00 0.00 42.86 3.71
2131 3438 2.806244 CAAAGTTGTCCCGTCTTTCGAT 59.194 45.455 0.00 0.00 42.86 3.59
2132 3439 2.080286 AGTTGTCCCGTCTTTCGATG 57.920 50.000 0.00 0.00 42.86 3.84
2133 3440 1.616865 AGTTGTCCCGTCTTTCGATGA 59.383 47.619 0.00 0.00 42.86 2.92
2134 3441 1.993370 GTTGTCCCGTCTTTCGATGAG 59.007 52.381 0.00 0.00 42.86 2.90
2135 3442 1.541379 TGTCCCGTCTTTCGATGAGA 58.459 50.000 0.00 0.00 42.86 3.27
2136 3443 2.100197 TGTCCCGTCTTTCGATGAGAT 58.900 47.619 2.78 0.00 42.86 2.75
2137 3444 2.159240 TGTCCCGTCTTTCGATGAGATG 60.159 50.000 10.18 10.18 42.86 2.90
2138 3445 2.099263 GTCCCGTCTTTCGATGAGATGA 59.901 50.000 16.11 6.25 42.86 2.92
2139 3446 2.959030 TCCCGTCTTTCGATGAGATGAT 59.041 45.455 16.11 0.00 42.86 2.45
2140 3447 3.055591 CCCGTCTTTCGATGAGATGATG 58.944 50.000 16.11 6.78 42.86 3.07
2141 3448 3.055591 CCGTCTTTCGATGAGATGATGG 58.944 50.000 16.11 7.16 42.86 3.51
2142 3449 3.243535 CCGTCTTTCGATGAGATGATGGA 60.244 47.826 16.11 0.00 39.30 3.41
2143 3450 4.554292 CGTCTTTCGATGAGATGATGGAT 58.446 43.478 11.24 0.00 42.86 3.41
2144 3451 5.335976 CCGTCTTTCGATGAGATGATGGATA 60.336 44.000 16.11 0.00 39.30 2.59
2145 3452 6.328714 CGTCTTTCGATGAGATGATGGATAT 58.671 40.000 11.24 0.00 42.86 1.63
2146 3453 6.471841 CGTCTTTCGATGAGATGATGGATATC 59.528 42.308 11.24 0.00 42.86 1.63
2147 3454 6.471841 GTCTTTCGATGAGATGATGGATATCG 59.528 42.308 0.00 0.00 38.86 2.92
2148 3455 4.298744 TCGATGAGATGATGGATATCGC 57.701 45.455 0.00 0.00 37.79 4.58
2149 3456 3.950395 TCGATGAGATGATGGATATCGCT 59.050 43.478 0.00 0.00 37.79 4.93
2150 3457 4.400567 TCGATGAGATGATGGATATCGCTT 59.599 41.667 0.00 0.00 37.79 4.68
2151 3458 5.105595 TCGATGAGATGATGGATATCGCTTT 60.106 40.000 0.00 0.00 37.79 3.51
2152 3459 5.005490 CGATGAGATGATGGATATCGCTTTG 59.995 44.000 0.00 0.00 36.04 2.77
2153 3460 4.572909 TGAGATGATGGATATCGCTTTGG 58.427 43.478 0.00 0.00 36.04 3.28
2154 3461 4.040829 TGAGATGATGGATATCGCTTTGGT 59.959 41.667 0.00 0.00 36.04 3.67
2155 3462 4.321718 AGATGATGGATATCGCTTTGGTG 58.678 43.478 0.00 0.00 36.04 4.17
2156 3463 2.849942 TGATGGATATCGCTTTGGTGG 58.150 47.619 0.00 0.00 36.04 4.61
2157 3464 2.437651 TGATGGATATCGCTTTGGTGGA 59.562 45.455 0.00 0.00 36.04 4.02
2158 3465 3.118075 TGATGGATATCGCTTTGGTGGAA 60.118 43.478 0.00 0.00 36.04 3.53
2159 3466 2.917933 TGGATATCGCTTTGGTGGAAG 58.082 47.619 0.00 0.00 0.00 3.46
2160 3467 2.238646 TGGATATCGCTTTGGTGGAAGT 59.761 45.455 0.00 0.00 0.00 3.01
2161 3468 2.872858 GGATATCGCTTTGGTGGAAGTC 59.127 50.000 0.00 0.00 0.00 3.01
2162 3469 2.004583 TATCGCTTTGGTGGAAGTCG 57.995 50.000 0.00 0.00 0.00 4.18
2163 3470 0.320374 ATCGCTTTGGTGGAAGTCGA 59.680 50.000 0.00 0.00 38.50 4.20
2164 3471 0.599204 TCGCTTTGGTGGAAGTCGAC 60.599 55.000 7.70 7.70 33.54 4.20
2165 3472 0.600255 CGCTTTGGTGGAAGTCGACT 60.600 55.000 13.58 13.58 32.09 4.18
2166 3473 1.594331 GCTTTGGTGGAAGTCGACTT 58.406 50.000 30.12 30.12 39.23 3.01
2167 3474 1.947456 GCTTTGGTGGAAGTCGACTTT 59.053 47.619 30.22 15.20 36.11 2.66
2168 3475 2.287009 GCTTTGGTGGAAGTCGACTTTG 60.287 50.000 30.22 14.11 36.11 2.77
2169 3476 2.992124 TTGGTGGAAGTCGACTTTGA 57.008 45.000 30.22 17.54 36.11 2.69
2170 3477 2.234300 TGGTGGAAGTCGACTTTGAC 57.766 50.000 30.22 25.94 36.11 3.18
2171 3478 1.137513 GGTGGAAGTCGACTTTGACG 58.862 55.000 30.22 0.00 43.70 4.35
2172 3479 1.269413 GGTGGAAGTCGACTTTGACGA 60.269 52.381 30.22 13.41 43.70 4.20
2173 3480 2.609737 GGTGGAAGTCGACTTTGACGAT 60.610 50.000 30.22 7.88 43.70 3.73
2174 3481 2.662156 GTGGAAGTCGACTTTGACGATC 59.338 50.000 30.22 16.32 43.70 3.69
2175 3482 2.260481 GGAAGTCGACTTTGACGATCC 58.740 52.381 30.22 21.09 43.70 3.36
2176 3483 1.912110 GAAGTCGACTTTGACGATCCG 59.088 52.381 30.22 0.00 43.70 4.18
2177 3484 1.162698 AGTCGACTTTGACGATCCGA 58.837 50.000 13.58 0.00 43.70 4.55
2178 3485 1.135746 AGTCGACTTTGACGATCCGAC 60.136 52.381 13.58 0.00 43.70 4.79
2179 3486 1.135746 GTCGACTTTGACGATCCGACT 60.136 52.381 8.70 0.00 41.88 4.18
2180 3487 2.094894 GTCGACTTTGACGATCCGACTA 59.905 50.000 8.70 0.00 41.88 2.59
2181 3488 2.094894 TCGACTTTGACGATCCGACTAC 59.905 50.000 0.00 0.00 34.85 2.73
2182 3489 2.438583 GACTTTGACGATCCGACTACG 58.561 52.381 0.00 0.00 39.43 3.51
2183 3490 2.079158 ACTTTGACGATCCGACTACGA 58.921 47.619 0.00 0.00 42.66 3.43
2184 3491 2.485426 ACTTTGACGATCCGACTACGAA 59.515 45.455 0.00 0.00 42.66 3.85
2185 3492 3.128242 ACTTTGACGATCCGACTACGAAT 59.872 43.478 0.00 0.00 42.66 3.34
2186 3493 2.750301 TGACGATCCGACTACGAATG 57.250 50.000 0.00 0.00 42.66 2.67
2187 3494 2.011947 TGACGATCCGACTACGAATGT 58.988 47.619 0.00 0.00 42.66 2.71
2188 3495 2.223180 TGACGATCCGACTACGAATGTG 60.223 50.000 0.00 0.00 42.66 3.21
2189 3496 1.121240 CGATCCGACTACGAATGTGC 58.879 55.000 0.00 0.00 42.66 4.57
2190 3497 1.121240 GATCCGACTACGAATGTGCG 58.879 55.000 0.00 0.00 42.66 5.34
2191 3498 0.736636 ATCCGACTACGAATGTGCGA 59.263 50.000 0.00 0.00 42.66 5.10
2192 3499 0.098200 TCCGACTACGAATGTGCGAG 59.902 55.000 0.00 0.00 42.66 5.03
2193 3500 0.866061 CCGACTACGAATGTGCGAGG 60.866 60.000 0.00 0.00 42.66 4.63
2194 3501 0.098200 CGACTACGAATGTGCGAGGA 59.902 55.000 0.00 0.00 42.66 3.71
2195 3502 1.546834 GACTACGAATGTGCGAGGAC 58.453 55.000 0.00 0.00 34.83 3.85
2196 3503 0.179171 ACTACGAATGTGCGAGGACG 60.179 55.000 0.00 0.00 42.93 4.79
2197 3504 0.179171 CTACGAATGTGCGAGGACGT 60.179 55.000 0.00 0.00 41.98 4.34
2198 3505 0.179181 TACGAATGTGCGAGGACGTC 60.179 55.000 7.13 7.13 41.98 4.34
2206 3513 4.170062 CGAGGACGTCGCGCCTTA 62.170 66.667 14.88 0.00 43.03 2.69
2207 3514 2.278013 GAGGACGTCGCGCCTTAG 60.278 66.667 9.92 0.00 34.66 2.18
2208 3515 4.493747 AGGACGTCGCGCCTTAGC 62.494 66.667 9.92 0.00 31.65 3.09
2209 3516 4.789075 GGACGTCGCGCCTTAGCA 62.789 66.667 9.92 0.00 39.83 3.49
2210 3517 2.807895 GACGTCGCGCCTTAGCAA 60.808 61.111 0.00 0.00 39.83 3.91
2211 3518 2.125673 ACGTCGCGCCTTAGCAAT 60.126 55.556 0.00 0.00 39.83 3.56
2212 3519 2.078958 GACGTCGCGCCTTAGCAATC 62.079 60.000 0.00 0.00 39.83 2.67
2213 3520 2.621000 GTCGCGCCTTAGCAATCG 59.379 61.111 0.00 0.00 39.83 3.34
2214 3521 3.261951 TCGCGCCTTAGCAATCGC 61.262 61.111 0.00 0.00 43.62 4.58
2226 3533 2.544480 GCAATCGCTAAACCAACTCC 57.456 50.000 0.00 0.00 34.30 3.85
2227 3534 1.202031 GCAATCGCTAAACCAACTCCG 60.202 52.381 0.00 0.00 34.30 4.63
2228 3535 2.343101 CAATCGCTAAACCAACTCCGA 58.657 47.619 0.00 0.00 0.00 4.55
2229 3536 2.295253 ATCGCTAAACCAACTCCGAG 57.705 50.000 0.00 0.00 0.00 4.63
2230 3537 1.250328 TCGCTAAACCAACTCCGAGA 58.750 50.000 1.33 0.00 0.00 4.04
2231 3538 1.201647 TCGCTAAACCAACTCCGAGAG 59.798 52.381 1.33 0.00 35.52 3.20
2249 3556 4.602159 GTTATTGACCACGCCGGA 57.398 55.556 5.05 0.00 38.63 5.14
2250 3557 2.380081 GTTATTGACCACGCCGGAG 58.620 57.895 5.05 3.72 38.63 4.63
2251 3558 1.448893 TTATTGACCACGCCGGAGC 60.449 57.895 5.05 0.00 38.63 4.70
2252 3559 2.173758 TTATTGACCACGCCGGAGCA 62.174 55.000 5.05 0.00 39.83 4.26
2253 3560 2.845752 TATTGACCACGCCGGAGCAC 62.846 60.000 5.05 0.00 39.83 4.40
2265 3572 2.755929 GGAGCACGATCAACCTGAC 58.244 57.895 0.00 0.00 0.00 3.51
2266 3573 0.741221 GGAGCACGATCAACCTGACC 60.741 60.000 0.00 0.00 0.00 4.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
105 106 5.497635 TGCAAAGATTTATGCGCTTGATA 57.502 34.783 9.73 0.00 45.47 2.15
181 182 2.123511 CCCTTGTTGTGCCACCCA 60.124 61.111 0.00 0.00 0.00 4.51
200 201 2.667470 ACTCCACTATACGTCATGCCT 58.333 47.619 0.00 0.00 0.00 4.75
213 214 2.623889 GCACCTCATACGATACTCCACT 59.376 50.000 0.00 0.00 0.00 4.00
244 245 0.465705 CTCACACTGACACCACTGGT 59.534 55.000 0.00 0.00 35.62 4.00
520 522 5.658634 GGTGTATCCAGCTAGATCATCCATA 59.341 44.000 0.00 0.00 36.16 2.74
545 547 4.804108 CCGCTACCAAATTGTTTCATTCA 58.196 39.130 0.00 0.00 0.00 2.57
618 620 5.414454 GTGCATTTCCTAACATTGTGTCCTA 59.586 40.000 0.00 0.00 0.00 2.94
664 666 0.613572 TAGTGGGATCCGCAGTGTCA 60.614 55.000 16.59 1.45 36.32 3.58
665 667 0.103208 CTAGTGGGATCCGCAGTGTC 59.897 60.000 16.59 0.00 36.32 3.67
671 673 1.653151 GTTTGACTAGTGGGATCCGC 58.347 55.000 5.45 0.82 0.00 5.54
705 707 0.548989 TTGTGTGCCACCAGTACCTT 59.451 50.000 0.00 0.00 32.73 3.50
712 714 1.057275 TACCTCCTTGTGTGCCACCA 61.057 55.000 0.00 0.00 32.73 4.17
747 792 2.043115 AGTGTCTCCTCATCCACTACCA 59.957 50.000 0.00 0.00 36.44 3.25
757 802 2.307768 CCCGCTAATAGTGTCTCCTCA 58.692 52.381 0.00 0.00 0.00 3.86
843 888 3.242870 GCAAGATGTCAATAAGCCTTCCG 60.243 47.826 0.00 0.00 0.00 4.30
851 896 4.638421 CCGGGTTAAGCAAGATGTCAATAA 59.362 41.667 7.03 0.00 0.00 1.40
1071 2325 3.307691 CCTTCACCTTATCCAACTCAGCA 60.308 47.826 0.00 0.00 0.00 4.41
1163 2417 5.503634 TCTTCCTTCTGTCCATGATTTCA 57.496 39.130 0.00 0.00 0.00 2.69
1212 2466 3.068560 AGCTAGACGAGGACGATCATAC 58.931 50.000 0.00 0.00 42.66 2.39
1229 2483 3.592051 GGTACACCATAGGCGTGAGCTA 61.592 54.545 0.00 0.00 46.77 3.32
1244 2498 0.319813 ACAACTTACCGGCGGTACAC 60.320 55.000 36.44 0.00 37.97 2.90
1272 2526 9.372369 AGTTATAGCAACAGTTGAATACTCTTC 57.628 33.333 17.99 0.00 33.85 2.87
1351 2609 5.129815 TGTGAAGTACTTACAAAGTGGAGGT 59.870 40.000 8.42 0.00 42.84 3.85
1454 2712 3.264193 TCCAAGCCTCTCTGAAATGCTTA 59.736 43.478 6.82 0.00 40.08 3.09
1509 2767 1.971357 TCTCCTCCTCACGCTTCTTTT 59.029 47.619 0.00 0.00 0.00 2.27
1717 3010 8.605746 ACACAATTTTCACAAATCAAAGACATG 58.394 29.630 0.00 0.00 30.80 3.21
1738 3031 9.672086 GCAAATAAAGTACATAGTTCAACACAA 57.328 29.630 0.00 0.00 0.00 3.33
1739 3032 8.012809 CGCAAATAAAGTACATAGTTCAACACA 58.987 33.333 0.00 0.00 0.00 3.72
1740 3033 8.225107 TCGCAAATAAAGTACATAGTTCAACAC 58.775 33.333 0.00 0.00 0.00 3.32
1741 3034 8.312896 TCGCAAATAAAGTACATAGTTCAACA 57.687 30.769 0.00 0.00 0.00 3.33
1742 3035 9.601971 TTTCGCAAATAAAGTACATAGTTCAAC 57.398 29.630 0.00 0.00 0.00 3.18
1743 3036 9.820229 CTTTCGCAAATAAAGTACATAGTTCAA 57.180 29.630 0.00 0.00 0.00 2.69
1744 3037 8.995220 ACTTTCGCAAATAAAGTACATAGTTCA 58.005 29.630 0.00 0.00 43.54 3.18
1745 3038 9.821662 AACTTTCGCAAATAAAGTACATAGTTC 57.178 29.630 0.00 0.00 44.35 3.01
1746 3039 9.607285 CAACTTTCGCAAATAAAGTACATAGTT 57.393 29.630 0.00 0.00 44.35 2.24
1747 3040 8.780249 ACAACTTTCGCAAATAAAGTACATAGT 58.220 29.630 0.00 0.00 44.35 2.12
1748 3041 9.262472 GACAACTTTCGCAAATAAAGTACATAG 57.738 33.333 0.00 0.00 44.35 2.23
1749 3042 8.775527 TGACAACTTTCGCAAATAAAGTACATA 58.224 29.630 0.00 0.00 44.35 2.29
1750 3043 7.644490 TGACAACTTTCGCAAATAAAGTACAT 58.356 30.769 0.00 0.00 44.35 2.29
1751 3044 7.017498 TGACAACTTTCGCAAATAAAGTACA 57.983 32.000 0.00 1.88 44.35 2.90
1752 3045 7.801315 TCATGACAACTTTCGCAAATAAAGTAC 59.199 33.333 0.00 0.00 44.35 2.73
1753 3046 7.866729 TCATGACAACTTTCGCAAATAAAGTA 58.133 30.769 0.00 0.00 44.35 2.24
1754 3047 6.734137 TCATGACAACTTTCGCAAATAAAGT 58.266 32.000 0.00 0.00 46.45 2.66
1755 3048 7.379529 AGTTCATGACAACTTTCGCAAATAAAG 59.620 33.333 0.00 0.00 39.38 1.85
1756 3049 7.199766 AGTTCATGACAACTTTCGCAAATAAA 58.800 30.769 0.00 0.00 32.34 1.40
1757 3050 6.734137 AGTTCATGACAACTTTCGCAAATAA 58.266 32.000 0.00 0.00 32.34 1.40
1758 3051 6.312399 AGTTCATGACAACTTTCGCAAATA 57.688 33.333 0.00 0.00 32.34 1.40
1759 3052 5.186996 AGTTCATGACAACTTTCGCAAAT 57.813 34.783 0.00 0.00 32.34 2.32
1760 3053 4.630894 AGTTCATGACAACTTTCGCAAA 57.369 36.364 0.00 0.00 32.34 3.68
1761 3054 5.238432 ACATAGTTCATGACAACTTTCGCAA 59.762 36.000 5.40 0.00 37.75 4.85
1762 3055 4.754618 ACATAGTTCATGACAACTTTCGCA 59.245 37.500 5.40 0.00 37.75 5.10
1763 3056 5.283060 ACATAGTTCATGACAACTTTCGC 57.717 39.130 5.40 0.00 37.75 4.70
1764 3057 7.582435 AGTACATAGTTCATGACAACTTTCG 57.418 36.000 5.40 0.00 37.75 3.46
1868 3169 0.940126 AGTGAAAGCGACAACAGCAG 59.060 50.000 0.00 0.00 37.01 4.24
1878 3179 2.029124 GCCAAACAAACAAGTGAAAGCG 59.971 45.455 0.00 0.00 0.00 4.68
1882 3183 2.564947 ACAGGCCAAACAAACAAGTGAA 59.435 40.909 5.01 0.00 0.00 3.18
1964 3271 1.348064 TCATATCCTACCGCCAAGGG 58.652 55.000 0.00 0.00 46.96 3.95
2048 3355 2.587889 CCAACCCTACCGCGGAAT 59.412 61.111 35.90 13.91 0.00 3.01
2081 3388 2.838225 ACCCTACCGCCATCCTCG 60.838 66.667 0.00 0.00 0.00 4.63
2101 3408 2.354704 CGGGACAACTTTGCCTCTATCA 60.355 50.000 0.00 0.00 0.00 2.15
2102 3409 2.280628 CGGGACAACTTTGCCTCTATC 58.719 52.381 0.00 0.00 0.00 2.08
2103 3410 1.628846 ACGGGACAACTTTGCCTCTAT 59.371 47.619 0.00 0.00 0.00 1.98
2104 3411 1.001633 GACGGGACAACTTTGCCTCTA 59.998 52.381 0.00 0.00 0.00 2.43
2105 3412 0.250338 GACGGGACAACTTTGCCTCT 60.250 55.000 0.00 0.00 0.00 3.69
2106 3413 0.250338 AGACGGGACAACTTTGCCTC 60.250 55.000 0.00 0.00 0.00 4.70
2107 3414 0.182775 AAGACGGGACAACTTTGCCT 59.817 50.000 0.00 0.00 0.00 4.75
2108 3415 1.001706 GAAAGACGGGACAACTTTGCC 60.002 52.381 0.00 0.00 34.63 4.52
2109 3416 1.333791 CGAAAGACGGGACAACTTTGC 60.334 52.381 0.00 0.00 34.63 3.68
2110 3417 2.206750 TCGAAAGACGGGACAACTTTG 58.793 47.619 0.00 0.00 42.82 2.77
2111 3418 2.607631 TCGAAAGACGGGACAACTTT 57.392 45.000 0.00 0.00 42.82 2.66
2112 3419 2.036733 TCATCGAAAGACGGGACAACTT 59.963 45.455 0.00 0.00 46.97 2.66
2113 3420 1.616865 TCATCGAAAGACGGGACAACT 59.383 47.619 0.00 0.00 46.97 3.16
2114 3421 1.993370 CTCATCGAAAGACGGGACAAC 59.007 52.381 0.00 0.00 46.97 3.32
2115 3422 1.890489 TCTCATCGAAAGACGGGACAA 59.110 47.619 0.00 0.00 46.97 3.18
2116 3423 1.541379 TCTCATCGAAAGACGGGACA 58.459 50.000 0.00 0.00 46.97 4.02
2117 3424 2.099263 TCATCTCATCGAAAGACGGGAC 59.901 50.000 3.25 0.00 46.97 4.46
2118 3425 2.375146 TCATCTCATCGAAAGACGGGA 58.625 47.619 3.25 0.58 46.97 5.14
2119 3426 2.871182 TCATCTCATCGAAAGACGGG 57.129 50.000 3.25 0.00 46.97 5.28
2120 3427 3.055591 CCATCATCTCATCGAAAGACGG 58.944 50.000 3.25 0.59 46.97 4.79
2121 3428 3.969899 TCCATCATCTCATCGAAAGACG 58.030 45.455 3.25 0.00 46.97 4.18
2122 3429 6.471841 CGATATCCATCATCTCATCGAAAGAC 59.528 42.308 3.25 0.00 46.97 3.01
2124 3431 5.231779 GCGATATCCATCATCTCATCGAAAG 59.768 44.000 6.01 0.00 37.95 2.62
2125 3432 5.105063 GCGATATCCATCATCTCATCGAAA 58.895 41.667 6.01 0.00 37.95 3.46
2126 3433 4.400567 AGCGATATCCATCATCTCATCGAA 59.599 41.667 6.01 0.00 37.95 3.71
2127 3434 3.950395 AGCGATATCCATCATCTCATCGA 59.050 43.478 6.01 0.00 37.95 3.59
2128 3435 4.304537 AGCGATATCCATCATCTCATCG 57.695 45.455 0.00 0.00 38.56 3.84
2129 3436 5.293814 CCAAAGCGATATCCATCATCTCATC 59.706 44.000 0.00 0.00 0.00 2.92
2130 3437 5.183969 CCAAAGCGATATCCATCATCTCAT 58.816 41.667 0.00 0.00 0.00 2.90
2131 3438 4.040829 ACCAAAGCGATATCCATCATCTCA 59.959 41.667 0.00 0.00 0.00 3.27
2132 3439 4.391216 CACCAAAGCGATATCCATCATCTC 59.609 45.833 0.00 0.00 0.00 2.75
2133 3440 4.321718 CACCAAAGCGATATCCATCATCT 58.678 43.478 0.00 0.00 0.00 2.90
2134 3441 3.438087 CCACCAAAGCGATATCCATCATC 59.562 47.826 0.00 0.00 0.00 2.92
2135 3442 3.072915 TCCACCAAAGCGATATCCATCAT 59.927 43.478 0.00 0.00 0.00 2.45
2136 3443 2.437651 TCCACCAAAGCGATATCCATCA 59.562 45.455 0.00 0.00 0.00 3.07
2137 3444 3.126001 TCCACCAAAGCGATATCCATC 57.874 47.619 0.00 0.00 0.00 3.51
2138 3445 3.117888 ACTTCCACCAAAGCGATATCCAT 60.118 43.478 0.00 0.00 0.00 3.41
2139 3446 2.238646 ACTTCCACCAAAGCGATATCCA 59.761 45.455 0.00 0.00 0.00 3.41
2140 3447 2.872858 GACTTCCACCAAAGCGATATCC 59.127 50.000 0.00 0.00 0.00 2.59
2141 3448 2.540101 CGACTTCCACCAAAGCGATATC 59.460 50.000 0.00 0.00 31.75 1.63
2142 3449 2.167693 TCGACTTCCACCAAAGCGATAT 59.832 45.455 0.00 0.00 33.26 1.63
2143 3450 1.546923 TCGACTTCCACCAAAGCGATA 59.453 47.619 0.00 0.00 33.26 2.92
2144 3451 0.320374 TCGACTTCCACCAAAGCGAT 59.680 50.000 0.00 0.00 33.26 4.58
2145 3452 0.599204 GTCGACTTCCACCAAAGCGA 60.599 55.000 8.70 0.00 34.66 4.93
2146 3453 0.600255 AGTCGACTTCCACCAAAGCG 60.600 55.000 13.58 0.00 0.00 4.68
2147 3454 1.594331 AAGTCGACTTCCACCAAAGC 58.406 50.000 24.93 0.00 0.00 3.51
2148 3455 3.002348 GTCAAAGTCGACTTCCACCAAAG 59.998 47.826 29.82 12.73 34.61 2.77
2149 3456 2.940410 GTCAAAGTCGACTTCCACCAAA 59.060 45.455 29.82 8.78 34.61 3.28
2150 3457 2.557317 GTCAAAGTCGACTTCCACCAA 58.443 47.619 29.82 10.09 34.61 3.67
2151 3458 1.537348 CGTCAAAGTCGACTTCCACCA 60.537 52.381 29.82 10.35 34.61 4.17
2152 3459 1.137513 CGTCAAAGTCGACTTCCACC 58.862 55.000 29.82 16.73 34.61 4.61
2153 3460 2.129823 TCGTCAAAGTCGACTTCCAC 57.870 50.000 29.82 24.94 34.61 4.02
2154 3461 2.352421 GGATCGTCAAAGTCGACTTCCA 60.352 50.000 29.82 16.92 40.07 3.53
2155 3462 2.260481 GGATCGTCAAAGTCGACTTCC 58.740 52.381 29.82 20.81 40.07 3.46
2156 3463 1.912110 CGGATCGTCAAAGTCGACTTC 59.088 52.381 29.82 17.01 40.07 3.01
2157 3464 1.538512 TCGGATCGTCAAAGTCGACTT 59.461 47.619 24.93 24.93 40.07 3.01
2158 3465 1.135746 GTCGGATCGTCAAAGTCGACT 60.136 52.381 13.58 13.58 42.20 4.18
2159 3466 1.135746 AGTCGGATCGTCAAAGTCGAC 60.136 52.381 7.70 7.70 44.69 4.20
2160 3467 1.162698 AGTCGGATCGTCAAAGTCGA 58.837 50.000 0.00 0.00 41.45 4.20
2161 3468 2.438583 GTAGTCGGATCGTCAAAGTCG 58.561 52.381 0.00 0.00 0.00 4.18
2162 3469 2.094894 TCGTAGTCGGATCGTCAAAGTC 59.905 50.000 0.00 0.00 37.69 3.01
2163 3470 2.079158 TCGTAGTCGGATCGTCAAAGT 58.921 47.619 0.00 0.00 37.69 2.66
2164 3471 2.819422 TCGTAGTCGGATCGTCAAAG 57.181 50.000 0.00 0.00 37.69 2.77
2165 3472 3.119743 ACATTCGTAGTCGGATCGTCAAA 60.120 43.478 0.00 0.00 32.34 2.69
2166 3473 2.421073 ACATTCGTAGTCGGATCGTCAA 59.579 45.455 0.00 0.00 32.34 3.18
2167 3474 2.011947 ACATTCGTAGTCGGATCGTCA 58.988 47.619 0.00 0.00 32.34 4.35
2168 3475 2.373269 CACATTCGTAGTCGGATCGTC 58.627 52.381 0.00 0.00 32.34 4.20
2169 3476 1.533338 GCACATTCGTAGTCGGATCGT 60.533 52.381 0.00 0.00 32.34 3.73
2170 3477 1.121240 GCACATTCGTAGTCGGATCG 58.879 55.000 0.00 0.00 32.34 3.69
2171 3478 1.121240 CGCACATTCGTAGTCGGATC 58.879 55.000 0.00 0.00 32.34 3.36
2172 3479 0.736636 TCGCACATTCGTAGTCGGAT 59.263 50.000 0.00 0.00 35.42 4.18
2173 3480 0.098200 CTCGCACATTCGTAGTCGGA 59.902 55.000 0.00 0.00 37.69 4.55
2174 3481 0.866061 CCTCGCACATTCGTAGTCGG 60.866 60.000 0.00 0.00 37.69 4.79
2175 3482 0.098200 TCCTCGCACATTCGTAGTCG 59.902 55.000 0.00 0.00 38.55 4.18
2176 3483 1.546834 GTCCTCGCACATTCGTAGTC 58.453 55.000 0.00 0.00 0.00 2.59
2177 3484 0.179171 CGTCCTCGCACATTCGTAGT 60.179 55.000 0.00 0.00 0.00 2.73
2178 3485 0.179171 ACGTCCTCGCACATTCGTAG 60.179 55.000 0.00 0.00 41.18 3.51
2179 3486 0.179181 GACGTCCTCGCACATTCGTA 60.179 55.000 3.51 0.00 41.18 3.43
2180 3487 1.443872 GACGTCCTCGCACATTCGT 60.444 57.895 3.51 0.00 41.18 3.85
2181 3488 2.497092 CGACGTCCTCGCACATTCG 61.497 63.158 10.58 0.00 41.18 3.34
2182 3489 3.374330 CGACGTCCTCGCACATTC 58.626 61.111 10.58 0.00 41.18 2.67
2189 3496 4.170062 TAAGGCGCGACGTCCTCG 62.170 66.667 12.10 17.31 45.97 4.63
2190 3497 2.278013 CTAAGGCGCGACGTCCTC 60.278 66.667 12.10 0.88 33.75 3.71
2191 3498 4.493747 GCTAAGGCGCGACGTCCT 62.494 66.667 12.10 2.98 35.62 3.85
2192 3499 4.789075 TGCTAAGGCGCGACGTCC 62.789 66.667 12.10 0.00 42.25 4.79
2193 3500 2.078958 GATTGCTAAGGCGCGACGTC 62.079 60.000 12.10 5.18 42.25 4.34
2194 3501 2.125673 ATTGCTAAGGCGCGACGT 60.126 55.556 12.10 8.51 42.25 4.34
2195 3502 2.621000 GATTGCTAAGGCGCGACG 59.379 61.111 12.10 0.00 42.25 5.12
2196 3503 2.621000 CGATTGCTAAGGCGCGAC 59.379 61.111 12.10 7.34 42.25 5.19
2197 3504 3.261951 GCGATTGCTAAGGCGCGA 61.262 61.111 12.10 0.00 42.25 5.87
2207 3514 1.202031 CGGAGTTGGTTTAGCGATTGC 60.202 52.381 0.00 0.00 43.24 3.56
2208 3515 2.343101 TCGGAGTTGGTTTAGCGATTG 58.657 47.619 0.00 0.00 0.00 2.67
2209 3516 2.232941 TCTCGGAGTTGGTTTAGCGATT 59.767 45.455 4.69 0.00 0.00 3.34
2210 3517 1.822990 TCTCGGAGTTGGTTTAGCGAT 59.177 47.619 4.69 0.00 0.00 4.58
2211 3518 1.201647 CTCTCGGAGTTGGTTTAGCGA 59.798 52.381 4.69 0.00 0.00 4.93
2212 3519 1.630148 CTCTCGGAGTTGGTTTAGCG 58.370 55.000 4.69 0.00 0.00 4.26
2213 3520 1.275573 ACCTCTCGGAGTTGGTTTAGC 59.724 52.381 15.76 0.00 0.00 3.09
2214 3521 3.679824 AACCTCTCGGAGTTGGTTTAG 57.320 47.619 22.55 6.53 39.48 1.85
2215 3522 5.246656 TCAATAACCTCTCGGAGTTGGTTTA 59.753 40.000 28.34 19.57 42.14 2.01
2216 3523 4.041198 TCAATAACCTCTCGGAGTTGGTTT 59.959 41.667 28.34 19.01 42.14 3.27
2217 3524 3.581332 TCAATAACCTCTCGGAGTTGGTT 59.419 43.478 27.23 27.23 44.03 3.67
2218 3525 3.056035 GTCAATAACCTCTCGGAGTTGGT 60.056 47.826 15.76 15.76 0.00 3.67
2219 3526 3.522553 GTCAATAACCTCTCGGAGTTGG 58.477 50.000 14.76 14.76 0.00 3.77
2220 3527 3.522553 GGTCAATAACCTCTCGGAGTTG 58.477 50.000 4.69 1.44 45.45 3.16
2221 3528 3.889520 GGTCAATAACCTCTCGGAGTT 57.110 47.619 4.69 0.00 45.45 3.01
2232 3539 1.702491 GCTCCGGCGTGGTCAATAAC 61.702 60.000 6.01 0.00 39.52 1.89
2233 3540 1.448893 GCTCCGGCGTGGTCAATAA 60.449 57.895 6.01 0.00 39.52 1.40
2234 3541 2.185867 GCTCCGGCGTGGTCAATA 59.814 61.111 6.01 0.00 39.52 1.90
2235 3542 4.015406 TGCTCCGGCGTGGTCAAT 62.015 61.111 6.01 0.00 42.25 2.57
2236 3543 4.980805 GTGCTCCGGCGTGGTCAA 62.981 66.667 6.01 0.00 42.25 3.18
2241 3548 4.794439 TGATCGTGCTCCGGCGTG 62.794 66.667 6.01 0.00 42.25 5.34
2242 3549 4.063967 TTGATCGTGCTCCGGCGT 62.064 61.111 6.01 0.00 42.25 5.68
2243 3550 3.554692 GTTGATCGTGCTCCGGCG 61.555 66.667 0.00 0.00 42.25 6.46
2244 3551 3.195698 GGTTGATCGTGCTCCGGC 61.196 66.667 0.00 0.00 37.11 6.13
2245 3552 1.811266 CAGGTTGATCGTGCTCCGG 60.811 63.158 0.00 0.00 37.11 5.14
2246 3553 1.078759 GTCAGGTTGATCGTGCTCCG 61.079 60.000 0.00 0.00 38.13 4.63
2247 3554 0.741221 GGTCAGGTTGATCGTGCTCC 60.741 60.000 0.00 0.00 32.68 4.70
2248 3555 2.755929 GGTCAGGTTGATCGTGCTC 58.244 57.895 0.00 0.00 32.68 4.26


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

AutoCloner maintained by Alex Coulton.