Multiple sequence alignment - TraesCS4B01G336200

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 TraesCS4B01G336200 chr4B 100.000 3776 0 0 1 3776 628067947 628071722 0.000000e+00 6974.0
1 TraesCS4B01G336200 chr4B 87.449 1705 158 26 1256 2951 185866228 185864571 0.000000e+00 1912.0
2 TraesCS4B01G336200 chr4B 85.968 563 48 15 674 1210 185866894 185866337 1.180000e-159 573.0
3 TraesCS4B01G336200 chr4B 88.825 349 28 4 331 670 185867286 185866940 5.830000e-113 418.0
4 TraesCS4B01G336200 chr4B 90.667 150 14 0 1256 1405 185222743 185222594 2.300000e-47 200.0
5 TraesCS4B01G336200 chr4B 93.284 134 6 2 185 317 185867653 185867522 1.070000e-45 195.0
6 TraesCS4B01G336200 chr4B 81.395 86 16 0 1689 1774 653683273 653683188 1.880000e-08 71.3
7 TraesCS4B01G336200 chr4D 92.436 2882 134 27 674 3483 489733906 489736775 0.000000e+00 4037.0
8 TraesCS4B01G336200 chr4D 92.346 2430 127 11 674 3056 489728631 489731048 0.000000e+00 3402.0
9 TraesCS4B01G336200 chr4D 88.191 1609 152 19 1256 2861 122256002 122254429 0.000000e+00 1884.0
10 TraesCS4B01G336200 chr4D 92.135 534 25 8 147 670 489733334 489733860 0.000000e+00 737.0
11 TraesCS4B01G336200 chr4D 77.498 1191 253 10 1587 2768 122170694 122169510 0.000000e+00 701.0
12 TraesCS4B01G336200 chr4D 90.556 540 26 12 146 670 489728056 489728585 0.000000e+00 691.0
13 TraesCS4B01G336200 chr4D 85.357 560 54 10 674 1210 122256665 122256111 4.260000e-154 555.0
14 TraesCS4B01G336200 chr4D 95.105 286 13 1 3484 3768 489731768 489732053 2.070000e-122 449.0
15 TraesCS4B01G336200 chr4D 91.419 303 16 3 3162 3462 489731483 489731777 1.260000e-109 407.0
16 TraesCS4B01G336200 chr4D 96.098 205 6 1 3564 3768 489736816 489737018 2.170000e-87 333.0
17 TraesCS4B01G336200 chr4D 95.489 133 4 1 185 317 122257587 122257457 1.060000e-50 211.0
18 TraesCS4B01G336200 chr4D 87.912 182 12 3 498 670 122256891 122256711 4.940000e-49 206.0
19 TraesCS4B01G336200 chr4D 90.667 150 14 0 1256 1405 122170995 122170846 2.300000e-47 200.0
20 TraesCS4B01G336200 chr4D 97.368 38 1 0 3603 3640 489736774 489736811 8.750000e-07 65.8
21 TraesCS4B01G336200 chr5A 93.005 2173 97 22 674 2797 671183298 671185464 0.000000e+00 3120.0
22 TraesCS4B01G336200 chr5A 93.785 1802 99 2 1256 3056 671178601 671180390 0.000000e+00 2695.0
23 TraesCS4B01G336200 chr5A 88.321 685 51 6 2806 3465 671186070 671186750 0.000000e+00 795.0
24 TraesCS4B01G336200 chr5A 93.309 538 32 2 674 1207 671177293 671177830 0.000000e+00 791.0
25 TraesCS4B01G336200 chr5A 92.509 534 25 7 147 670 671182724 671183252 0.000000e+00 750.0
26 TraesCS4B01G336200 chr5A 92.135 534 26 9 146 670 671176721 671177247 0.000000e+00 739.0
27 TraesCS4B01G336200 chr5A 90.526 285 25 2 3484 3768 671181182 671181464 3.560000e-100 375.0
28 TraesCS4B01G336200 chr5A 88.889 306 28 6 3162 3464 671180891 671181193 4.610000e-99 372.0
29 TraesCS4B01G336200 chr5A 91.304 276 17 3 3493 3768 671186913 671187181 1.660000e-98 370.0
30 TraesCS4B01G336200 chr5A 100.000 44 0 0 1218 1261 671178545 671178588 8.690000e-12 82.4
31 TraesCS4B01G336200 chr5A 100.000 34 0 0 1174 1207 671178474 671178507 3.150000e-06 63.9
32 TraesCS4B01G336200 chr5A 92.683 41 3 0 3063 3103 309774026 309774066 4.070000e-05 60.2
33 TraesCS4B01G336200 chr4A 87.050 1722 164 24 1256 2968 448106817 448108488 0.000000e+00 1890.0
34 TraesCS4B01G336200 chr4A 76.946 1336 263 34 1587 2902 448528085 448529395 0.000000e+00 719.0
35 TraesCS4B01G336200 chr4A 86.583 559 45 12 674 1207 448106164 448106717 1.170000e-164 590.0
36 TraesCS4B01G336200 chr4A 86.022 186 12 5 498 670 448105934 448106118 1.790000e-43 187.0
37 TraesCS4B01G336200 chr4A 86.957 161 8 7 164 317 448105275 448105429 6.490000e-38 169.0
38 TraesCS4B01G336200 chr5B 97.521 121 3 0 31 151 403545718 403545838 1.370000e-49 207.0
39 TraesCS4B01G336200 chr3B 96.774 124 3 1 25 147 659785973 659785850 4.940000e-49 206.0
40 TraesCS4B01G336200 chr3B 97.458 118 3 0 30 147 263260849 263260732 6.400000e-48 202.0
41 TraesCS4B01G336200 chr1B 97.479 119 3 0 31 149 357422878 357422996 1.780000e-48 204.0
42 TraesCS4B01G336200 chr2B 97.458 118 3 0 31 148 784741528 784741411 6.400000e-48 202.0
43 TraesCS4B01G336200 chr6B 96.667 120 4 0 31 150 128924887 128924768 2.300000e-47 200.0
44 TraesCS4B01G336200 chr5D 94.574 129 6 1 28 155 439217749 439217621 8.270000e-47 198.0
45 TraesCS4B01G336200 chr5D 95.902 122 4 1 31 152 30459188 30459068 2.980000e-46 196.0
46 TraesCS4B01G336200 chr3D 95.902 122 5 0 27 148 7308177 7308056 8.270000e-47 198.0


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 TraesCS4B01G336200 chr4B 628067947 628071722 3775 False 6974.000000 6974 100.000000 1 3776 1 chr4B.!!$F1 3775
1 TraesCS4B01G336200 chr4B 185864571 185867653 3082 True 774.500000 1912 88.881500 185 2951 4 chr4B.!!$R3 2766
2 TraesCS4B01G336200 chr4D 489728056 489737018 8962 False 1265.225000 4037 93.432875 146 3768 8 chr4D.!!$F1 3622
3 TraesCS4B01G336200 chr4D 122254429 122257587 3158 True 714.000000 1884 89.237250 185 2861 4 chr4D.!!$R2 2676
4 TraesCS4B01G336200 chr4D 122169510 122170995 1485 True 450.500000 701 84.082500 1256 2768 2 chr4D.!!$R1 1512
5 TraesCS4B01G336200 chr5A 671176721 671187181 10460 False 923.027273 3120 93.071182 146 3768 11 chr5A.!!$F2 3622
6 TraesCS4B01G336200 chr4A 448528085 448529395 1310 False 719.000000 719 76.946000 1587 2902 1 chr4A.!!$F1 1315
7 TraesCS4B01G336200 chr4A 448105275 448108488 3213 False 709.000000 1890 86.653000 164 2968 4 chr4A.!!$F2 2804

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
143 144 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.0 13.64 4.95 46.06 4.20 F
144 145 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.0 13.64 0.00 46.06 4.30 F
429 670 0.674895 GCCTACTTGCAGGTGTCCAG 60.675 60.0 12.40 0.27 38.05 3.86 F
659 1078 0.687354 TCAGACAAGGACAGAAGGCC 59.313 55.0 0.00 0.00 0.00 5.19 F
2284 3526 0.461693 GAGCCTCACCTCTGACATGC 60.462 60.0 0.00 0.00 0.00 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1912 3154 0.036388 ACGGCCTTGTAGATGGTGTG 60.036 55.0 0.00 0.0 0.00 3.82 R
2042 3284 0.392998 GGTGTTGATGCCGGTGATCT 60.393 55.0 1.90 0.0 0.00 2.75 R
2284 3526 0.625849 ACCATGTCCCTTGGGCTTAG 59.374 55.0 0.00 0.0 38.64 2.18 R
2433 3675 1.755179 GTGGAATGGTGGTCTCCATG 58.245 55.0 5.46 0.0 46.14 3.66 R
3523 10929 0.183492 GCCACTATTCCCCTGCATCA 59.817 55.0 0.00 0.0 0.00 3.07 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
24 25 7.235935 TCCCTTTTATAAAGAAGAGTCGTCA 57.764 36.000 8.82 0.00 0.00 4.35
25 26 7.095270 TCCCTTTTATAAAGAAGAGTCGTCAC 58.905 38.462 8.82 0.00 0.00 3.67
26 27 6.034683 CCCTTTTATAAAGAAGAGTCGTCACG 59.965 42.308 8.82 0.00 0.00 4.35
27 28 6.805271 CCTTTTATAAAGAAGAGTCGTCACGA 59.195 38.462 8.82 0.00 0.00 4.35
28 29 7.488471 CCTTTTATAAAGAAGAGTCGTCACGAT 59.512 37.037 1.61 0.00 38.42 3.73
29 30 9.499585 CTTTTATAAAGAAGAGTCGTCACGATA 57.500 33.333 1.61 0.00 38.42 2.92
33 34 6.680874 AAAGAAGAGTCGTCACGATATACT 57.319 37.500 1.61 0.00 38.42 2.12
34 35 5.910637 AGAAGAGTCGTCACGATATACTC 57.089 43.478 1.61 5.86 38.42 2.59
35 36 4.751098 AGAAGAGTCGTCACGATATACTCC 59.249 45.833 1.61 0.00 38.42 3.85
36 37 3.401182 AGAGTCGTCACGATATACTCCC 58.599 50.000 1.61 0.00 38.42 4.30
37 38 3.071312 AGAGTCGTCACGATATACTCCCT 59.929 47.826 1.61 0.00 38.42 4.20
38 39 3.401182 AGTCGTCACGATATACTCCCTC 58.599 50.000 1.61 0.00 38.42 4.30
39 40 2.483491 GTCGTCACGATATACTCCCTCC 59.517 54.545 1.61 0.00 38.42 4.30
40 41 1.463831 CGTCACGATATACTCCCTCCG 59.536 57.143 0.00 0.00 0.00 4.63
41 42 2.502295 GTCACGATATACTCCCTCCGT 58.498 52.381 0.00 0.00 0.00 4.69
42 43 2.483491 GTCACGATATACTCCCTCCGTC 59.517 54.545 0.00 0.00 0.00 4.79
43 44 1.811359 CACGATATACTCCCTCCGTCC 59.189 57.143 0.00 0.00 0.00 4.79
44 45 1.422781 ACGATATACTCCCTCCGTCCA 59.577 52.381 0.00 0.00 0.00 4.02
45 46 2.085320 CGATATACTCCCTCCGTCCAG 58.915 57.143 0.00 0.00 0.00 3.86
46 47 2.290134 CGATATACTCCCTCCGTCCAGA 60.290 54.545 0.00 0.00 0.00 3.86
47 48 3.764218 GATATACTCCCTCCGTCCAGAA 58.236 50.000 0.00 0.00 0.00 3.02
48 49 2.544844 ATACTCCCTCCGTCCAGAAA 57.455 50.000 0.00 0.00 0.00 2.52
49 50 2.544844 TACTCCCTCCGTCCAGAAAT 57.455 50.000 0.00 0.00 0.00 2.17
50 51 2.544844 ACTCCCTCCGTCCAGAAATA 57.455 50.000 0.00 0.00 0.00 1.40
51 52 2.108970 ACTCCCTCCGTCCAGAAATAC 58.891 52.381 0.00 0.00 0.00 1.89
52 53 2.292323 ACTCCCTCCGTCCAGAAATACT 60.292 50.000 0.00 0.00 0.00 2.12
53 54 2.766828 CTCCCTCCGTCCAGAAATACTT 59.233 50.000 0.00 0.00 0.00 2.24
54 55 2.500098 TCCCTCCGTCCAGAAATACTTG 59.500 50.000 0.00 0.00 0.00 3.16
55 56 2.236395 CCCTCCGTCCAGAAATACTTGT 59.764 50.000 0.00 0.00 0.00 3.16
56 57 3.522553 CCTCCGTCCAGAAATACTTGTC 58.477 50.000 0.00 0.00 0.00 3.18
57 58 3.179830 CTCCGTCCAGAAATACTTGTCG 58.820 50.000 0.00 0.00 0.00 4.35
58 59 2.094390 TCCGTCCAGAAATACTTGTCGG 60.094 50.000 0.00 0.00 41.47 4.79
59 60 2.094390 CCGTCCAGAAATACTTGTCGGA 60.094 50.000 0.00 0.00 42.19 4.55
60 61 3.179830 CGTCCAGAAATACTTGTCGGAG 58.820 50.000 0.00 0.00 0.00 4.63
61 62 3.522553 GTCCAGAAATACTTGTCGGAGG 58.477 50.000 0.00 0.00 0.00 4.30
62 63 3.194968 GTCCAGAAATACTTGTCGGAGGA 59.805 47.826 0.00 0.00 0.00 3.71
63 64 3.835978 TCCAGAAATACTTGTCGGAGGAA 59.164 43.478 0.00 0.00 0.00 3.36
64 65 4.469945 TCCAGAAATACTTGTCGGAGGAAT 59.530 41.667 0.00 0.00 0.00 3.01
65 66 4.572389 CCAGAAATACTTGTCGGAGGAATG 59.428 45.833 0.00 0.00 0.00 2.67
66 67 5.419542 CAGAAATACTTGTCGGAGGAATGA 58.580 41.667 0.00 0.00 0.00 2.57
67 68 5.874810 CAGAAATACTTGTCGGAGGAATGAA 59.125 40.000 0.00 0.00 0.00 2.57
68 69 6.540189 CAGAAATACTTGTCGGAGGAATGAAT 59.460 38.462 0.00 0.00 0.00 2.57
69 70 6.540189 AGAAATACTTGTCGGAGGAATGAATG 59.460 38.462 0.00 0.00 0.00 2.67
70 71 2.359900 ACTTGTCGGAGGAATGAATGC 58.640 47.619 0.00 0.00 0.00 3.56
71 72 2.290260 ACTTGTCGGAGGAATGAATGCA 60.290 45.455 0.00 0.00 0.00 3.96
72 73 2.715749 TGTCGGAGGAATGAATGCAT 57.284 45.000 0.00 0.00 35.92 3.96
73 74 2.564771 TGTCGGAGGAATGAATGCATC 58.435 47.619 0.00 0.00 32.35 3.91
74 75 2.171237 TGTCGGAGGAATGAATGCATCT 59.829 45.455 0.00 0.00 32.35 2.90
75 76 3.387699 TGTCGGAGGAATGAATGCATCTA 59.612 43.478 0.00 0.00 32.35 1.98
76 77 3.993081 GTCGGAGGAATGAATGCATCTAG 59.007 47.826 0.00 0.00 32.35 2.43
77 78 3.897505 TCGGAGGAATGAATGCATCTAGA 59.102 43.478 0.00 0.00 32.35 2.43
78 79 4.529769 TCGGAGGAATGAATGCATCTAGAT 59.470 41.667 0.00 0.00 32.35 1.98
79 80 4.630505 CGGAGGAATGAATGCATCTAGATG 59.369 45.833 25.64 25.64 41.60 2.90
80 81 5.558818 GGAGGAATGAATGCATCTAGATGT 58.441 41.667 28.92 13.41 40.80 3.06
81 82 6.573094 CGGAGGAATGAATGCATCTAGATGTA 60.573 42.308 28.92 26.27 40.80 2.29
82 83 7.337167 GGAGGAATGAATGCATCTAGATGTAT 58.663 38.462 28.92 27.17 44.22 2.29
120 121 7.760131 ACATTCATTTTTATGCATTTCTCCG 57.240 32.000 3.54 0.00 0.00 4.63
121 122 7.546358 ACATTCATTTTTATGCATTTCTCCGA 58.454 30.769 3.54 0.00 0.00 4.55
122 123 7.489113 ACATTCATTTTTATGCATTTCTCCGAC 59.511 33.333 3.54 0.00 0.00 4.79
123 124 6.507958 TCATTTTTATGCATTTCTCCGACA 57.492 33.333 3.54 0.00 0.00 4.35
124 125 6.918626 TCATTTTTATGCATTTCTCCGACAA 58.081 32.000 3.54 0.00 0.00 3.18
125 126 7.028962 TCATTTTTATGCATTTCTCCGACAAG 58.971 34.615 3.54 0.00 0.00 3.16
126 127 5.957842 TTTTATGCATTTCTCCGACAAGT 57.042 34.783 3.54 0.00 0.00 3.16
127 128 7.441890 TTTTTATGCATTTCTCCGACAAGTA 57.558 32.000 3.54 0.00 0.00 2.24
128 129 7.624360 TTTTATGCATTTCTCCGACAAGTAT 57.376 32.000 3.54 0.00 0.00 2.12
129 130 7.624360 TTTATGCATTTCTCCGACAAGTATT 57.376 32.000 3.54 0.00 0.00 1.89
130 131 7.624360 TTATGCATTTCTCCGACAAGTATTT 57.376 32.000 3.54 0.00 0.00 1.40
131 132 5.545658 TGCATTTCTCCGACAAGTATTTC 57.454 39.130 0.00 0.00 0.00 2.17
132 133 4.394920 TGCATTTCTCCGACAAGTATTTCC 59.605 41.667 0.00 0.00 0.00 3.13
133 134 4.494199 GCATTTCTCCGACAAGTATTTCCG 60.494 45.833 0.00 0.00 0.00 4.30
134 135 2.953466 TCTCCGACAAGTATTTCCGG 57.047 50.000 0.00 0.00 41.36 5.14
135 136 2.449464 TCTCCGACAAGTATTTCCGGA 58.551 47.619 0.00 0.00 45.74 5.14
136 137 2.165030 TCTCCGACAAGTATTTCCGGAC 59.835 50.000 1.83 0.00 43.47 4.79
137 138 1.135315 TCCGACAAGTATTTCCGGACG 60.135 52.381 1.83 0.00 43.47 4.79
138 139 1.274596 CGACAAGTATTTCCGGACGG 58.725 55.000 1.83 3.96 0.00 4.79
139 140 1.135315 CGACAAGTATTTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
140 141 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
141 142 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
142 143 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
143 144 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
144 145 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
165 166 8.820831 AGGGAGTATTATCCTTCTGATACATTG 58.179 37.037 0.00 0.00 39.50 2.82
222 230 2.563179 AGTATAAGATACAGCTGGGGCG 59.437 50.000 19.93 0.00 44.37 6.13
286 294 5.297547 AGACACGAATATGAATAACGCCAT 58.702 37.500 0.00 0.00 0.00 4.40
335 576 2.746362 CTCTCCTGTTTCCTGCATTGTC 59.254 50.000 0.00 0.00 0.00 3.18
390 631 7.679659 ATTTGTAGTTTCTTTCTTTGCGTTC 57.320 32.000 0.00 0.00 0.00 3.95
429 670 0.674895 GCCTACTTGCAGGTGTCCAG 60.675 60.000 12.40 0.27 38.05 3.86
485 726 6.995511 TGGTTACAGGTTAAATGCATCTAC 57.004 37.500 0.00 0.00 0.00 2.59
569 974 6.207810 GTGATCTTACCTGCTAGTGCTACTAT 59.792 42.308 0.00 0.00 40.48 2.12
629 1040 9.846248 ATAAATTGATGTCTACAAGAAAGTTGC 57.154 29.630 0.00 0.00 0.00 4.17
659 1078 0.687354 TCAGACAAGGACAGAAGGCC 59.313 55.000 0.00 0.00 0.00 5.19
680 1141 2.029518 TGCGACAGTGGTGCAGAG 59.970 61.111 7.38 0.00 34.03 3.35
756 1217 4.189231 GGTTCCAATAGACAGCAACGTAT 58.811 43.478 0.00 0.00 0.00 3.06
785 1255 3.550820 TGTACTTGTTGGCTTCACATGT 58.449 40.909 0.00 0.00 0.00 3.21
815 1289 7.037586 GGGTGGAGTAGGAAATGATATATCCAA 60.038 40.741 10.25 0.00 36.16 3.53
818 1292 9.566331 TGGAGTAGGAAATGATATATCCAATCT 57.434 33.333 10.25 4.58 35.62 2.40
849 1324 1.171308 ATTGTCACTGCACCATCAGC 58.829 50.000 0.00 0.00 37.59 4.26
975 1468 3.559811 CCCATGGTGACTCACAGAATGAA 60.560 47.826 11.73 0.00 39.69 2.57
976 1469 4.074259 CCATGGTGACTCACAGAATGAAA 58.926 43.478 11.34 0.00 39.69 2.69
1041 1534 2.978489 CGTCGACAAGTTCTTCTACCAC 59.022 50.000 17.16 0.00 0.00 4.16
1108 1604 0.741221 GATCCTCGCCAACACCTCAC 60.741 60.000 0.00 0.00 0.00 3.51
1136 1635 1.827399 GACCAGGAGTCCTTTGCCGA 61.827 60.000 9.68 0.00 39.84 5.54
1207 1706 3.000819 CCGGGTGCCAGGTACAGA 61.001 66.667 10.22 0.00 0.00 3.41
1210 1709 0.744414 CGGGTGCCAGGTACAGAATG 60.744 60.000 10.22 0.00 46.00 2.67
1344 2571 1.687368 GGTAGGGGGCGTAAGAAGAGA 60.687 57.143 0.00 0.00 43.02 3.10
1371 2601 2.359169 GGATGGTGAGACGGAGGCA 61.359 63.158 0.00 0.00 0.00 4.75
1405 2635 2.273557 GCAGCAAGCAAATAATGGTGG 58.726 47.619 6.36 0.00 44.79 4.61
1448 2678 2.123033 GGAGGAGGAGGAGGAGGC 60.123 72.222 0.00 0.00 0.00 4.70
1496 2726 1.817099 GGCTCATCCTCAACGGCTG 60.817 63.158 0.00 0.00 0.00 4.85
1639 2878 2.023673 CTGACCTAGAGACTCTGCTGG 58.976 57.143 15.55 15.33 0.00 4.85
1675 2914 4.539083 TGGCCAGCAACGACGTGT 62.539 61.111 0.00 0.00 0.00 4.49
1716 2955 2.362397 GGAGCGGATCAAGTATCACTCA 59.638 50.000 0.00 0.00 39.42 3.41
1912 3154 1.002011 GGGTTGCTCTTCTCCACCC 60.002 63.158 0.00 0.00 0.00 4.61
2123 3365 0.963355 GGGCACCGGCTCAACAATTA 60.963 55.000 0.00 0.00 41.45 1.40
2175 3417 2.475466 CGCCATCGCATCCAAGCTT 61.475 57.895 0.00 0.00 34.03 3.74
2276 3518 1.040339 ATGGACGAGAGCCTCACCTC 61.040 60.000 0.00 0.00 31.45 3.85
2284 3526 0.461693 GAGCCTCACCTCTGACATGC 60.462 60.000 0.00 0.00 0.00 4.06
2433 3675 1.129809 CACGGCGTTGTTCGATGTC 59.870 57.895 11.19 0.00 42.86 3.06
2513 3755 1.977594 GCACGGTCCGCCATAAACAG 61.978 60.000 12.28 0.00 34.09 3.16
2520 3762 0.813610 CCGCCATAAACAGGATCGCA 60.814 55.000 0.00 0.00 0.00 5.10
2523 3765 1.335324 GCCATAAACAGGATCGCATGC 60.335 52.381 7.91 7.91 0.00 4.06
2572 3814 2.300152 CAGAACTACAAGGAGTGGCAGA 59.700 50.000 0.00 0.00 30.71 4.26
2573 3815 3.055530 CAGAACTACAAGGAGTGGCAGAT 60.056 47.826 0.00 0.00 30.71 2.90
2622 9253 2.787994 CTGCCATTGGACCCTGATATC 58.212 52.381 6.95 0.00 0.00 1.63
2748 9379 3.129502 CACTCCACATGGGCAGCG 61.130 66.667 0.00 0.00 36.21 5.18
2755 9386 2.903855 CATGGGCAGCGGGTGATC 60.904 66.667 12.03 2.44 0.00 2.92
2779 9418 2.834549 ACTGGTTCTCTAGTGTGATGGG 59.165 50.000 0.00 0.00 34.17 4.00
2782 9421 2.159028 GGTTCTCTAGTGTGATGGGCTC 60.159 54.545 0.00 0.00 0.00 4.70
2996 10242 2.359981 ATGTGGAATCCCTGCATGAG 57.640 50.000 0.00 0.00 31.28 2.90
3010 10256 4.694509 CCTGCATGAGAACATCCTAATAGC 59.305 45.833 0.00 0.00 34.15 2.97
3011 10257 5.294734 TGCATGAGAACATCCTAATAGCA 57.705 39.130 0.00 0.00 34.15 3.49
3057 10303 5.244851 TGCAAAACAACATCCTAATAGCCAA 59.755 36.000 0.00 0.00 0.00 4.52
3061 10307 6.949352 AACAACATCCTAATAGCCAATCAG 57.051 37.500 0.00 0.00 0.00 2.90
3208 10477 4.756642 TGTCAGGTTGCAGATTCAGTTTAG 59.243 41.667 0.00 0.00 0.00 1.85
3275 10544 1.140052 CGGGGTAATGTGTCTGGCATA 59.860 52.381 0.00 0.00 0.00 3.14
3370 10639 6.398918 TCAGTTCTAGGCAGATTCAGTTTAC 58.601 40.000 0.00 0.00 0.00 2.01
3411 10681 9.905713 AGGACATTCAGTGTATGTATTGTTATT 57.094 29.630 14.56 0.00 42.36 1.40
3426 10696 9.066892 TGTATTGTTATTTTCTTTCTCAGCAGT 57.933 29.630 0.00 0.00 0.00 4.40
3431 10701 7.387948 TGTTATTTTCTTTCTCAGCAGTAGTCC 59.612 37.037 0.00 0.00 0.00 3.85
3432 10702 5.552870 TTTTCTTTCTCAGCAGTAGTCCT 57.447 39.130 0.00 0.00 0.00 3.85
3444 10714 3.431486 GCAGTAGTCCTGGAGAATTCCTG 60.431 52.174 0.65 0.00 44.36 3.86
3523 10929 2.526046 AAGCAGTAACGCAGGGGGT 61.526 57.895 0.00 0.00 0.00 4.95
3532 10938 4.828296 GCAGGGGGTGATGCAGGG 62.828 72.222 0.00 0.00 42.11 4.45
3723 11131 1.337260 GCAGGACACGAAGATGTCTGT 60.337 52.381 5.92 0.00 46.85 3.41
3768 11176 3.565482 TGCAGTGTCCTCTGAATGTTTTC 59.435 43.478 0.78 0.00 37.61 2.29
3769 11177 3.057946 GCAGTGTCCTCTGAATGTTTTCC 60.058 47.826 0.78 0.00 37.61 3.13
3770 11178 3.503748 CAGTGTCCTCTGAATGTTTTCCC 59.496 47.826 0.00 0.00 37.61 3.97
3771 11179 3.395941 AGTGTCCTCTGAATGTTTTCCCT 59.604 43.478 0.00 0.00 0.00 4.20
3772 11180 3.503748 GTGTCCTCTGAATGTTTTCCCTG 59.496 47.826 0.00 0.00 0.00 4.45
3773 11181 3.138283 TGTCCTCTGAATGTTTTCCCTGT 59.862 43.478 0.00 0.00 0.00 4.00
3774 11182 3.503748 GTCCTCTGAATGTTTTCCCTGTG 59.496 47.826 0.00 0.00 0.00 3.66
3775 11183 3.394274 TCCTCTGAATGTTTTCCCTGTGA 59.606 43.478 0.00 0.00 0.00 3.58
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.095270 GTGACGACTCTTCTTTATAAAAGGGA 58.905 38.462 4.16 0.00 0.00 4.20
1 2 6.034683 CGTGACGACTCTTCTTTATAAAAGGG 59.965 42.308 0.00 0.00 0.00 3.95
2 3 6.805271 TCGTGACGACTCTTCTTTATAAAAGG 59.195 38.462 2.39 0.00 0.00 3.11
3 4 7.792383 TCGTGACGACTCTTCTTTATAAAAG 57.208 36.000 2.39 0.00 0.00 2.27
7 8 9.486497 AGTATATCGTGACGACTCTTCTTTATA 57.514 33.333 10.91 3.23 39.18 0.98
8 9 8.380743 AGTATATCGTGACGACTCTTCTTTAT 57.619 34.615 10.91 4.26 39.18 1.40
9 10 7.042187 GGAGTATATCGTGACGACTCTTCTTTA 60.042 40.741 10.91 0.00 39.18 1.85
10 11 6.238429 GGAGTATATCGTGACGACTCTTCTTT 60.238 42.308 10.91 0.00 39.18 2.52
11 12 5.236911 GGAGTATATCGTGACGACTCTTCTT 59.763 44.000 10.91 0.00 39.18 2.52
12 13 4.751098 GGAGTATATCGTGACGACTCTTCT 59.249 45.833 10.91 5.55 39.18 2.85
13 14 4.083908 GGGAGTATATCGTGACGACTCTTC 60.084 50.000 10.91 5.15 39.18 2.87
14 15 3.814283 GGGAGTATATCGTGACGACTCTT 59.186 47.826 10.91 0.00 39.18 2.85
15 16 3.071312 AGGGAGTATATCGTGACGACTCT 59.929 47.826 10.91 6.30 39.18 3.24
16 17 3.401182 AGGGAGTATATCGTGACGACTC 58.599 50.000 10.91 12.83 39.18 3.36
17 18 3.401182 GAGGGAGTATATCGTGACGACT 58.599 50.000 10.91 2.71 39.18 4.18
18 19 2.483491 GGAGGGAGTATATCGTGACGAC 59.517 54.545 10.91 0.00 39.18 4.34
19 20 2.775890 GGAGGGAGTATATCGTGACGA 58.224 52.381 11.14 11.14 41.13 4.20
20 21 1.463831 CGGAGGGAGTATATCGTGACG 59.536 57.143 0.00 0.00 0.00 4.35
21 22 2.483491 GACGGAGGGAGTATATCGTGAC 59.517 54.545 0.00 0.00 0.00 3.67
22 23 2.551721 GGACGGAGGGAGTATATCGTGA 60.552 54.545 0.00 0.00 0.00 4.35
23 24 1.811359 GGACGGAGGGAGTATATCGTG 59.189 57.143 0.00 0.00 0.00 4.35
24 25 1.422781 TGGACGGAGGGAGTATATCGT 59.577 52.381 0.00 0.00 0.00 3.73
25 26 2.085320 CTGGACGGAGGGAGTATATCG 58.915 57.143 0.00 0.00 0.00 2.92
26 27 3.436577 TCTGGACGGAGGGAGTATATC 57.563 52.381 0.00 0.00 0.00 1.63
27 28 3.897657 TTCTGGACGGAGGGAGTATAT 57.102 47.619 0.00 0.00 0.00 0.86
28 29 3.675348 TTTCTGGACGGAGGGAGTATA 57.325 47.619 0.00 0.00 0.00 1.47
29 30 2.544844 TTTCTGGACGGAGGGAGTAT 57.455 50.000 0.00 0.00 0.00 2.12
30 31 2.544844 ATTTCTGGACGGAGGGAGTA 57.455 50.000 0.00 0.00 0.00 2.59
31 32 2.108970 GTATTTCTGGACGGAGGGAGT 58.891 52.381 0.00 0.00 0.00 3.85
32 33 2.389715 AGTATTTCTGGACGGAGGGAG 58.610 52.381 0.00 0.00 0.00 4.30
33 34 2.500098 CAAGTATTTCTGGACGGAGGGA 59.500 50.000 0.00 0.00 0.00 4.20
34 35 2.236395 ACAAGTATTTCTGGACGGAGGG 59.764 50.000 0.00 0.00 0.00 4.30
35 36 3.522553 GACAAGTATTTCTGGACGGAGG 58.477 50.000 0.00 0.00 0.00 4.30
36 37 3.179830 CGACAAGTATTTCTGGACGGAG 58.820 50.000 0.00 0.00 33.12 4.63
37 38 3.226346 CGACAAGTATTTCTGGACGGA 57.774 47.619 0.00 0.00 33.12 4.69
38 39 2.268298 CCGACAAGTATTTCTGGACGG 58.732 52.381 0.00 0.00 45.37 4.79
39 40 3.179830 CTCCGACAAGTATTTCTGGACG 58.820 50.000 0.00 0.00 35.64 4.79
40 41 3.194968 TCCTCCGACAAGTATTTCTGGAC 59.805 47.826 0.00 0.00 0.00 4.02
41 42 3.437213 TCCTCCGACAAGTATTTCTGGA 58.563 45.455 0.00 0.00 0.00 3.86
42 43 3.887621 TCCTCCGACAAGTATTTCTGG 57.112 47.619 0.00 0.00 0.00 3.86
43 44 5.419542 TCATTCCTCCGACAAGTATTTCTG 58.580 41.667 0.00 0.00 0.00 3.02
44 45 5.677319 TCATTCCTCCGACAAGTATTTCT 57.323 39.130 0.00 0.00 0.00 2.52
45 46 6.719365 CATTCATTCCTCCGACAAGTATTTC 58.281 40.000 0.00 0.00 0.00 2.17
46 47 5.066505 GCATTCATTCCTCCGACAAGTATTT 59.933 40.000 0.00 0.00 0.00 1.40
47 48 4.576463 GCATTCATTCCTCCGACAAGTATT 59.424 41.667 0.00 0.00 0.00 1.89
48 49 4.130118 GCATTCATTCCTCCGACAAGTAT 58.870 43.478 0.00 0.00 0.00 2.12
49 50 3.055458 TGCATTCATTCCTCCGACAAGTA 60.055 43.478 0.00 0.00 0.00 2.24
50 51 2.290260 TGCATTCATTCCTCCGACAAGT 60.290 45.455 0.00 0.00 0.00 3.16
51 52 2.358957 TGCATTCATTCCTCCGACAAG 58.641 47.619 0.00 0.00 0.00 3.16
52 53 2.488204 TGCATTCATTCCTCCGACAA 57.512 45.000 0.00 0.00 0.00 3.18
53 54 2.171237 AGATGCATTCATTCCTCCGACA 59.829 45.455 0.00 0.00 31.96 4.35
54 55 2.843701 AGATGCATTCATTCCTCCGAC 58.156 47.619 0.00 0.00 31.96 4.79
55 56 3.897505 TCTAGATGCATTCATTCCTCCGA 59.102 43.478 0.00 0.00 31.96 4.55
56 57 4.263018 TCTAGATGCATTCATTCCTCCG 57.737 45.455 0.00 0.00 31.96 4.63
57 58 5.558818 ACATCTAGATGCATTCATTCCTCC 58.441 41.667 28.86 0.00 42.39 4.30
58 59 8.789825 AATACATCTAGATGCATTCATTCCTC 57.210 34.615 28.86 0.00 42.39 3.71
59 60 9.584008 AAAATACATCTAGATGCATTCATTCCT 57.416 29.630 28.86 11.44 42.39 3.36
94 95 9.467258 CGGAGAAATGCATAAAAATGAATGTAT 57.533 29.630 0.00 0.00 30.86 2.29
95 96 8.681806 TCGGAGAAATGCATAAAAATGAATGTA 58.318 29.630 0.00 0.00 0.00 2.29
96 97 7.489113 GTCGGAGAAATGCATAAAAATGAATGT 59.511 33.333 0.00 0.00 39.69 2.71
97 98 7.488792 TGTCGGAGAAATGCATAAAAATGAATG 59.511 33.333 0.00 0.00 39.69 2.67
98 99 7.546358 TGTCGGAGAAATGCATAAAAATGAAT 58.454 30.769 0.00 0.00 39.69 2.57
99 100 6.918626 TGTCGGAGAAATGCATAAAAATGAA 58.081 32.000 0.00 0.00 39.69 2.57
100 101 6.507958 TGTCGGAGAAATGCATAAAAATGA 57.492 33.333 0.00 0.00 39.69 2.57
101 102 6.808212 ACTTGTCGGAGAAATGCATAAAAATG 59.192 34.615 0.00 0.00 39.69 2.32
102 103 6.924111 ACTTGTCGGAGAAATGCATAAAAAT 58.076 32.000 0.00 0.00 39.69 1.82
103 104 6.325919 ACTTGTCGGAGAAATGCATAAAAA 57.674 33.333 0.00 0.00 39.69 1.94
104 105 5.957842 ACTTGTCGGAGAAATGCATAAAA 57.042 34.783 0.00 0.00 39.69 1.52
105 106 7.624360 AATACTTGTCGGAGAAATGCATAAA 57.376 32.000 0.00 0.00 39.69 1.40
106 107 7.201696 GGAAATACTTGTCGGAGAAATGCATAA 60.202 37.037 0.00 0.00 39.69 1.90
107 108 6.260050 GGAAATACTTGTCGGAGAAATGCATA 59.740 38.462 0.00 0.00 39.69 3.14
108 109 5.066505 GGAAATACTTGTCGGAGAAATGCAT 59.933 40.000 0.00 0.00 39.69 3.96
109 110 4.394920 GGAAATACTTGTCGGAGAAATGCA 59.605 41.667 0.00 0.00 39.69 3.96
110 111 4.494199 CGGAAATACTTGTCGGAGAAATGC 60.494 45.833 0.00 0.00 39.69 3.56
111 112 4.034048 CCGGAAATACTTGTCGGAGAAATG 59.966 45.833 0.00 0.00 42.94 2.32
112 113 4.081309 TCCGGAAATACTTGTCGGAGAAAT 60.081 41.667 0.00 0.00 43.84 2.17
113 114 3.258872 TCCGGAAATACTTGTCGGAGAAA 59.741 43.478 0.00 0.00 43.84 2.52
114 115 2.827322 TCCGGAAATACTTGTCGGAGAA 59.173 45.455 0.00 0.00 43.84 2.87
115 116 2.449464 TCCGGAAATACTTGTCGGAGA 58.551 47.619 0.00 0.00 43.84 3.71
116 117 2.953466 TCCGGAAATACTTGTCGGAG 57.047 50.000 0.00 0.00 43.84 4.63
117 118 1.135315 CGTCCGGAAATACTTGTCGGA 60.135 52.381 5.23 0.00 46.06 4.55
118 119 1.274596 CGTCCGGAAATACTTGTCGG 58.725 55.000 5.23 0.00 41.80 4.79
119 120 1.135315 TCCGTCCGGAAATACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
120 121 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
121 122 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
122 123 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
123 124 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
124 125 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
125 126 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
126 127 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
127 128 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
128 129 0.032813 ATACTCCCTCCGTCCGGAAA 60.033 55.000 5.23 0.00 44.66 3.13
129 130 0.032813 AATACTCCCTCCGTCCGGAA 60.033 55.000 5.23 0.00 44.66 4.30
130 131 0.846015 TAATACTCCCTCCGTCCGGA 59.154 55.000 0.00 0.00 42.90 5.14
131 132 1.817447 GATAATACTCCCTCCGTCCGG 59.183 57.143 0.00 0.00 0.00 5.14
132 133 1.817447 GGATAATACTCCCTCCGTCCG 59.183 57.143 0.00 0.00 0.00 4.79
133 134 3.172471 AGGATAATACTCCCTCCGTCC 57.828 52.381 0.00 0.00 35.79 4.79
134 135 4.218852 CAGAAGGATAATACTCCCTCCGTC 59.781 50.000 0.00 0.00 36.78 4.79
135 136 4.140994 TCAGAAGGATAATACTCCCTCCGT 60.141 45.833 0.00 0.00 35.79 4.69
136 137 4.408276 TCAGAAGGATAATACTCCCTCCG 58.592 47.826 0.00 0.00 35.79 4.63
137 138 6.954684 TGTATCAGAAGGATAATACTCCCTCC 59.045 42.308 0.00 0.00 40.11 4.30
138 139 8.602472 ATGTATCAGAAGGATAATACTCCCTC 57.398 38.462 0.00 0.00 40.11 4.30
139 140 8.820831 CAATGTATCAGAAGGATAATACTCCCT 58.179 37.037 0.00 0.00 40.11 4.20
140 141 8.598041 ACAATGTATCAGAAGGATAATACTCCC 58.402 37.037 0.00 0.00 40.11 4.30
141 142 9.646427 GACAATGTATCAGAAGGATAATACTCC 57.354 37.037 0.00 0.00 40.11 3.85
144 145 8.930760 GCAGACAATGTATCAGAAGGATAATAC 58.069 37.037 0.00 0.00 40.11 1.89
165 166 8.813643 ACATTAATAACCTCTTATACGCAGAC 57.186 34.615 0.00 0.00 0.00 3.51
222 230 1.064825 TGAAGGAAACAGGAGGGGAC 58.935 55.000 0.00 0.00 0.00 4.46
335 576 9.196552 GACATTTCAGTTATCCTTTTTCTTTGG 57.803 33.333 0.00 0.00 0.00 3.28
373 614 5.752712 AGATGAGAACGCAAAGAAAGAAAC 58.247 37.500 0.00 0.00 0.00 2.78
383 624 5.000591 TGGATTTGTAAGATGAGAACGCAA 58.999 37.500 0.00 0.00 0.00 4.85
390 631 6.461110 AGGCAAATGGATTTGTAAGATGAG 57.539 37.500 12.51 0.00 46.63 2.90
429 670 2.731691 TTCTTGTCCTGCTCCACGCC 62.732 60.000 0.00 0.00 38.05 5.68
443 684 5.633830 ACCATGTTCAGTTATGCTTCTTG 57.366 39.130 0.00 0.00 0.00 3.02
485 726 6.545504 AGTTCACATGTAGTAGCAAGTTTG 57.454 37.500 0.00 0.00 0.00 2.93
542 947 4.537751 AGCACTAGCAGGTAAGATCACTA 58.462 43.478 0.00 0.00 45.49 2.74
544 949 3.810310 AGCACTAGCAGGTAAGATCAC 57.190 47.619 0.00 0.00 45.49 3.06
629 1040 2.235650 TCCTTGTCTGATCAGAAGCAGG 59.764 50.000 26.70 26.65 39.44 4.85
756 1217 3.997762 AGCCAACAAGTACATCGTACAA 58.002 40.909 7.02 0.00 0.00 2.41
785 1255 7.888514 ATATCATTTCCTACTCCACCCATTA 57.111 36.000 0.00 0.00 0.00 1.90
791 1261 9.606631 GATTGGATATATCATTTCCTACTCCAC 57.393 37.037 14.60 0.00 32.38 4.02
815 1289 6.989169 GCAGTGACAATATCTTGGAGTTAGAT 59.011 38.462 0.00 0.00 36.64 1.98
818 1292 5.874810 GTGCAGTGACAATATCTTGGAGTTA 59.125 40.000 0.00 0.00 36.64 2.24
821 1295 3.624861 GGTGCAGTGACAATATCTTGGAG 59.375 47.826 0.00 0.00 36.64 3.86
849 1324 3.873361 CCATAGTGGAGTGTATGCTGTTG 59.127 47.826 0.00 0.00 40.96 3.33
975 1468 2.958355 CGAAATGTATTCCAGGGCCATT 59.042 45.455 6.18 0.00 0.00 3.16
976 1469 2.586425 CGAAATGTATTCCAGGGCCAT 58.414 47.619 6.18 0.00 0.00 4.40
1041 1534 1.898154 CTTCGGGTGGTCAGGGTAG 59.102 63.158 0.00 0.00 0.00 3.18
1117 1616 1.376037 CGGCAAAGGACTCCTGGTC 60.376 63.158 0.00 0.00 43.79 4.02
1120 1619 1.674057 AGTCGGCAAAGGACTCCTG 59.326 57.895 0.00 0.00 40.63 3.86
1121 1620 4.217112 AGTCGGCAAAGGACTCCT 57.783 55.556 0.00 0.00 40.63 3.69
1136 1635 1.211457 GCATCAAGATGGAGGTGGAGT 59.789 52.381 11.66 0.00 39.16 3.85
1207 1706 5.833131 CCATACTATTGGGCTGGTAAACATT 59.167 40.000 0.00 0.00 32.80 2.71
1210 1709 4.578928 CACCATACTATTGGGCTGGTAAAC 59.421 45.833 0.00 0.00 41.35 2.01
1211 1710 4.228666 ACACCATACTATTGGGCTGGTAAA 59.771 41.667 0.00 0.00 41.35 2.01
1212 1711 3.783642 ACACCATACTATTGGGCTGGTAA 59.216 43.478 0.00 0.00 41.35 2.85
1213 1712 3.389866 ACACCATACTATTGGGCTGGTA 58.610 45.455 0.00 0.00 41.35 3.25
1214 1713 2.205342 ACACCATACTATTGGGCTGGT 58.795 47.619 0.00 0.00 41.35 4.00
1216 1715 3.632145 GGAAACACCATACTATTGGGCTG 59.368 47.826 0.00 0.00 41.35 4.85
1344 2571 0.915872 TCTCACCATCCATGCCAGGT 60.916 55.000 0.00 0.00 33.91 4.00
1371 2601 4.044439 CTGCTCCTGCCCAAGCCT 62.044 66.667 0.00 0.00 37.73 4.58
1462 2692 1.002624 GCCGGTCCAACATCTCCAA 60.003 57.895 1.90 0.00 0.00 3.53
1639 2878 2.666190 TGCTTCTGCACAGCGGAC 60.666 61.111 8.31 0.00 44.15 4.79
1912 3154 0.036388 ACGGCCTTGTAGATGGTGTG 60.036 55.000 0.00 0.00 0.00 3.82
1981 3223 1.675641 GCAAGTCCGGCCACTGAAT 60.676 57.895 2.24 0.00 0.00 2.57
2007 3249 1.003051 ACCCTCCCTATTCGCCAGT 59.997 57.895 0.00 0.00 0.00 4.00
2042 3284 0.392998 GGTGTTGATGCCGGTGATCT 60.393 55.000 1.90 0.00 0.00 2.75
2088 3330 1.056700 GCCCTGCCTCCTCCATTAGA 61.057 60.000 0.00 0.00 0.00 2.10
2175 3417 2.038813 TCAGCCCGGACATCCTCA 59.961 61.111 0.73 0.00 0.00 3.86
2226 3468 1.033574 ACTCGTATAGGCTGCTCACC 58.966 55.000 0.00 0.00 0.00 4.02
2276 3518 1.386533 CCTTGGGCTTAGCATGTCAG 58.613 55.000 6.53 0.00 0.00 3.51
2284 3526 0.625849 ACCATGTCCCTTGGGCTTAG 59.374 55.000 0.00 0.00 38.64 2.18
2433 3675 1.755179 GTGGAATGGTGGTCTCCATG 58.245 55.000 5.46 0.00 46.14 3.66
2748 9379 2.753247 AGAGAACCAGTAGGATCACCC 58.247 52.381 0.00 0.00 39.07 4.61
2755 9386 4.098654 CCATCACACTAGAGAACCAGTAGG 59.901 50.000 0.00 0.00 42.21 3.18
2779 9418 1.065102 TGCGTCTATCGGTACTTGAGC 59.935 52.381 0.00 0.00 40.26 4.26
2782 9421 3.146618 AGTTGCGTCTATCGGTACTTG 57.853 47.619 0.00 0.00 40.26 3.16
2881 10123 3.496130 CACTCGGACAATCTGATAATGGC 59.504 47.826 0.00 0.00 30.24 4.40
3010 10256 6.479331 GCATAGACAGATATGATGCATAGGTG 59.521 42.308 0.00 0.00 41.98 4.00
3011 10257 6.155737 TGCATAGACAGATATGATGCATAGGT 59.844 38.462 10.20 0.00 45.86 3.08
3033 10279 4.769488 TGGCTATTAGGATGTTGTTTTGCA 59.231 37.500 0.00 0.00 0.00 4.08
3034 10280 5.323371 TGGCTATTAGGATGTTGTTTTGC 57.677 39.130 0.00 0.00 0.00 3.68
3057 10303 5.866159 TCTATGCTCAGTTCACATCTGAT 57.134 39.130 0.00 0.00 40.46 2.90
3061 10307 5.840715 TCTGATCTATGCTCAGTTCACATC 58.159 41.667 0.00 0.00 40.79 3.06
3122 10391 2.859165 TCCAGGAAAAGCGATCACTT 57.141 45.000 0.00 0.00 0.00 3.16
3123 10392 3.356529 AATCCAGGAAAAGCGATCACT 57.643 42.857 0.00 0.00 0.00 3.41
3127 10396 6.773976 TGAAATAAATCCAGGAAAAGCGAT 57.226 33.333 0.00 0.00 0.00 4.58
3208 10477 2.102252 AGCACTATGAGCTAAGTCTGCC 59.898 50.000 0.00 0.00 41.32 4.85
3236 10505 5.068591 ACCCCGCTGAATTCAATAATAAACC 59.931 40.000 9.88 0.00 0.00 3.27
3237 10506 6.144078 ACCCCGCTGAATTCAATAATAAAC 57.856 37.500 9.88 0.00 0.00 2.01
3239 10508 7.504238 ACATTACCCCGCTGAATTCAATAATAA 59.496 33.333 9.88 4.66 0.00 1.40
3241 10510 5.833131 ACATTACCCCGCTGAATTCAATAAT 59.167 36.000 9.88 4.73 0.00 1.28
3275 10544 9.107177 CTGAATCAGCATAGAAAACTGACTAAT 57.893 33.333 0.00 0.00 42.83 1.73
3411 10681 4.262635 CCAGGACTACTGCTGAGAAAGAAA 60.263 45.833 0.00 0.00 46.14 2.52
3426 10696 2.832838 TGCAGGAATTCTCCAGGACTA 58.167 47.619 5.23 0.00 45.24 2.59
3431 10701 7.591165 CATAACATATTGCAGGAATTCTCCAG 58.409 38.462 5.23 0.00 45.24 3.86
3432 10702 6.016024 GCATAACATATTGCAGGAATTCTCCA 60.016 38.462 5.23 0.00 45.24 3.86
3523 10929 0.183492 GCCACTATTCCCCTGCATCA 59.817 55.000 0.00 0.00 0.00 3.07
3532 10938 2.103263 AGGATCGTGAAGCCACTATTCC 59.897 50.000 0.00 0.00 41.06 3.01
3682 11090 4.141846 TGCAGCAAACCCATTCTGTAAAAA 60.142 37.500 0.00 0.00 0.00 1.94
3683 11091 3.386078 TGCAGCAAACCCATTCTGTAAAA 59.614 39.130 0.00 0.00 0.00 1.52
3688 11096 0.245539 CCTGCAGCAAACCCATTCTG 59.754 55.000 8.66 0.00 0.00 3.02


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

AutoCloner maintained by Alex Coulton.