Multiple sequence alignment - TraesCS3B01G240200

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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 TraesCS3B01G240200 chr3B 100.000 2925 0 0 1 2925 379171224 379174148 0.000000e+00 5402.0
1 TraesCS3B01G240200 chr3B 82.667 225 36 3 2691 2914 15981293 15981071 2.300000e-46 196.0
2 TraesCS3B01G240200 chr3D 93.656 1655 45 18 425 2073 286189025 286190625 0.000000e+00 2420.0
3 TraesCS3B01G240200 chr3D 93.868 424 17 4 1 422 286187280 286187696 5.320000e-177 630.0
4 TraesCS3B01G240200 chr3D 86.290 248 32 2 2194 2440 159570023 159570269 4.800000e-68 268.0
5 TraesCS3B01G240200 chr3D 85.484 62 9 0 1455 1516 454510031 454510092 6.770000e-07 65.8
6 TraesCS3B01G240200 chr3A 95.622 1462 44 5 413 1871 374445450 374446894 0.000000e+00 2327.0
7 TraesCS3B01G240200 chr3A 88.220 382 43 2 2195 2575 374447051 374447431 3.440000e-124 455.0
8 TraesCS3B01G240200 chr3A 86.455 347 29 6 2591 2922 374447701 374448044 5.960000e-97 364.0
9 TraesCS3B01G240200 chr3A 96.914 162 5 0 1912 2073 374446892 374447053 3.710000e-69 272.0
10 TraesCS3B01G240200 chr3A 93.631 157 9 1 269 425 374445168 374445323 1.750000e-57 233.0
11 TraesCS3B01G240200 chr3A 85.484 62 9 0 1455 1516 596515438 596515499 6.770000e-07 65.8
12 TraesCS3B01G240200 chr1A 81.349 504 67 18 2439 2925 48776992 48776499 4.570000e-103 385.0
13 TraesCS3B01G240200 chr1A 86.939 245 30 2 2197 2440 398055704 398055461 1.030000e-69 274.0
14 TraesCS3B01G240200 chr2D 80.632 506 66 16 2439 2925 2079123 2078631 2.140000e-96 363.0
15 TraesCS3B01G240200 chr2D 79.960 504 73 13 2439 2925 630314891 630315383 2.160000e-91 346.0
16 TraesCS3B01G240200 chr2D 85.656 244 31 4 2194 2436 117214171 117214411 1.350000e-63 254.0
17 TraesCS3B01G240200 chr1D 79.842 506 76 11 2439 2925 297541653 297541155 2.160000e-91 346.0
18 TraesCS3B01G240200 chr1D 79.365 504 74 14 2439 2925 434608176 434607686 7.820000e-86 327.0
19 TraesCS3B01G240200 chr1D 83.240 358 44 4 2583 2925 111952850 111953206 6.080000e-82 315.0
20 TraesCS3B01G240200 chr1D 86.853 251 29 4 2194 2442 401156386 401156634 7.980000e-71 278.0
21 TraesCS3B01G240200 chr4A 78.854 506 76 14 2439 2925 435430608 435430115 2.190000e-81 313.0
22 TraesCS3B01G240200 chr6D 83.239 352 43 4 2589 2925 297307665 297308015 2.830000e-80 309.0
23 TraesCS3B01G240200 chr6D 77.095 358 55 16 2540 2878 47657190 47656841 6.440000e-42 182.0
24 TraesCS3B01G240200 chr4B 82.670 352 45 3 2589 2925 615553758 615553408 6.130000e-77 298.0
25 TraesCS3B01G240200 chr4B 90.977 133 10 2 2066 2197 55925900 55926031 8.330000e-41 178.0
26 TraesCS3B01G240200 chr5A 86.290 248 32 2 2194 2440 144028099 144028345 4.800000e-68 268.0
27 TraesCS3B01G240200 chr5A 85.484 248 34 2 2194 2440 224874992 224875238 1.040000e-64 257.0
28 TraesCS3B01G240200 chr7B 86.235 247 32 2 2197 2442 712736618 712736373 1.730000e-67 267.0
29 TraesCS3B01G240200 chr7B 85.200 250 32 5 2197 2444 595460164 595459918 4.840000e-63 252.0
30 TraesCS3B01G240200 chr7B 83.650 263 38 5 2197 2457 74202600 74202341 2.910000e-60 243.0
31 TraesCS3B01G240200 chr7B 91.603 131 10 1 2071 2200 401136687 401136817 2.320000e-41 180.0
32 TraesCS3B01G240200 chr7A 77.451 510 73 17 2434 2924 316534441 316533955 1.730000e-67 267.0
33 TraesCS3B01G240200 chr7A 91.045 134 10 2 2066 2198 135923271 135923403 2.320000e-41 180.0
34 TraesCS3B01G240200 chr7D 77.183 504 84 13 2439 2924 366453751 366454241 6.220000e-67 265.0
35 TraesCS3B01G240200 chr5B 85.827 254 31 5 2197 2448 464900019 464899769 6.220000e-67 265.0
36 TraesCS3B01G240200 chr5B 77.872 235 37 10 2440 2671 423727888 423728110 6.580000e-27 132.0
37 TraesCS3B01G240200 chr5B 97.619 42 0 1 2585 2626 478396867 478396827 1.450000e-08 71.3
38 TraesCS3B01G240200 chr2A 80.480 333 55 8 2590 2915 82532376 82532047 2.250000e-61 246.0
39 TraesCS3B01G240200 chr4D 92.857 126 9 0 2072 2197 165913357 165913232 1.790000e-42 183.0
40 TraesCS3B01G240200 chr4D 100.000 28 0 0 2468 2495 370362721 370362694 5.000000e-03 52.8
41 TraesCS3B01G240200 chr2B 92.248 129 9 1 2070 2197 571949461 571949589 6.440000e-42 182.0
42 TraesCS3B01G240200 chr2B 91.045 134 11 1 2065 2197 525520824 525520957 2.320000e-41 180.0
43 TraesCS3B01G240200 chr6B 90.000 140 13 1 2065 2203 68120836 68120697 2.320000e-41 180.0
44 TraesCS3B01G240200 chr6B 90.441 136 12 1 2071 2205 604109280 604109145 8.330000e-41 178.0
45 TraesCS3B01G240200 chr5D 88.732 142 14 2 2066 2206 409447953 409448093 3.880000e-39 172.0
46 TraesCS3B01G240200 chr5D 76.177 361 65 7 2582 2925 342612673 342613029 1.390000e-38 171.0


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 TraesCS3B01G240200 chr3B 379171224 379174148 2924 False 5402.0 5402 100.0000 1 2925 1 chr3B.!!$F1 2924
1 TraesCS3B01G240200 chr3D 286187280 286190625 3345 False 1525.0 2420 93.7620 1 2073 2 chr3D.!!$F3 2072
2 TraesCS3B01G240200 chr3A 374445168 374448044 2876 False 730.2 2327 92.1684 269 2922 5 chr3A.!!$F2 2653

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
21 24 0.036022 AAGCAGTGTTCTCCTGAGGC 59.964 55.0 0.0 0.00 31.38 4.70 F
215 218 0.319083 ACCACATGTTGCAAGCATGG 59.681 50.0 29.1 22.71 45.68 3.66 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1361 2697 0.389817 CTGGACAATTCGGCGACAGA 60.390 55.0 10.16 0.0 0.0 3.41 R
2180 3526 0.251297 TGTTACTCCCTTCGTCCGGA 60.251 55.0 0.00 0.0 0.0 5.14 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
21 24 0.036022 AAGCAGTGTTCTCCTGAGGC 59.964 55.000 0.00 0.00 31.38 4.70
22 25 1.739562 GCAGTGTTCTCCTGAGGCG 60.740 63.158 0.00 0.00 31.38 5.52
31 34 2.743928 CCTGAGGCGTGCTTCCAC 60.744 66.667 1.28 0.00 38.62 4.02
33 36 1.376424 CTGAGGCGTGCTTCCACAT 60.376 57.895 1.28 0.00 42.17 3.21
34 37 1.642037 CTGAGGCGTGCTTCCACATG 61.642 60.000 1.28 0.00 42.17 3.21
53 56 3.126001 TGATGGAATCCTCGGCATAAC 57.874 47.619 0.00 0.00 44.73 1.89
95 98 2.223735 ACGTAGCATTAGTCGGGTGATG 60.224 50.000 0.00 0.00 0.00 3.07
142 145 3.125829 CGACACAACTAGATGCTGCAAAT 59.874 43.478 6.36 0.15 0.00 2.32
143 146 4.378770 CGACACAACTAGATGCTGCAAATT 60.379 41.667 6.36 0.00 0.00 1.82
144 147 5.163864 CGACACAACTAGATGCTGCAAATTA 60.164 40.000 6.36 0.00 0.00 1.40
145 148 6.573664 ACACAACTAGATGCTGCAAATTAA 57.426 33.333 6.36 0.00 0.00 1.40
146 149 6.980593 ACACAACTAGATGCTGCAAATTAAA 58.019 32.000 6.36 0.00 0.00 1.52
147 150 6.863126 ACACAACTAGATGCTGCAAATTAAAC 59.137 34.615 6.36 0.00 0.00 2.01
148 151 6.032775 CACAACTAGATGCTGCAAATTAAACG 59.967 38.462 6.36 0.00 0.00 3.60
149 152 5.235305 ACTAGATGCTGCAAATTAAACGG 57.765 39.130 6.36 0.00 0.00 4.44
150 153 2.879826 AGATGCTGCAAATTAAACGGC 58.120 42.857 6.36 0.00 36.21 5.68
152 155 2.515926 TGCTGCAAATTAAACGGCAA 57.484 40.000 0.00 0.00 42.46 4.52
153 156 2.131183 TGCTGCAAATTAAACGGCAAC 58.869 42.857 0.00 0.00 42.46 4.17
154 157 2.131183 GCTGCAAATTAAACGGCAACA 58.869 42.857 0.00 0.00 35.59 3.33
215 218 0.319083 ACCACATGTTGCAAGCATGG 59.681 50.000 29.10 22.71 45.68 3.66
221 224 0.901114 TGTTGCAAGCATGGATGGCT 60.901 50.000 0.00 0.00 45.15 4.75
578 1907 4.600576 TGCCACGCGAACAGAGCA 62.601 61.111 15.93 9.27 34.19 4.26
722 2051 5.702266 TGATACCAGTATACCACTAGCTGT 58.298 41.667 0.00 0.00 34.98 4.40
723 2052 6.134055 TGATACCAGTATACCACTAGCTGTT 58.866 40.000 0.00 0.00 34.98 3.16
812 2141 1.328986 GCAGCGATCTAGTTTTCCAGC 59.671 52.381 0.00 0.00 0.00 4.85
965 2294 1.443194 CCACTTGCGCATGCTCAAC 60.443 57.895 18.74 4.58 43.34 3.18
1032 2361 1.000646 GTCCCTCCTCTCCGTGAGT 60.001 63.158 1.60 0.00 41.11 3.41
1062 2391 0.832135 AGATCGGTGGGTATGCGGAT 60.832 55.000 0.00 0.00 0.00 4.18
1086 2415 2.813908 GACCACGACGACATGGCC 60.814 66.667 0.00 0.00 39.84 5.36
1275 2607 5.977635 TCACAAGGACTCGACAATATCAAT 58.022 37.500 0.00 0.00 0.00 2.57
1329 2661 7.504403 ACTGTCTCCCTTCATTATCATTACTG 58.496 38.462 0.00 0.00 0.00 2.74
1341 2677 1.078426 ATTACTGGTGCGTGGCTCC 60.078 57.895 1.92 1.92 41.88 4.70
1361 2697 3.581332 TCCCAAGTCTGAACCTCGTTATT 59.419 43.478 0.00 0.00 0.00 1.40
1368 2704 2.599082 CTGAACCTCGTTATTCTGTCGC 59.401 50.000 0.00 0.00 0.00 5.19
1370 2706 0.179145 ACCTCGTTATTCTGTCGCCG 60.179 55.000 0.00 0.00 0.00 6.46
1445 2781 0.879765 GTTCAAGACGAGGTCGGAGA 59.120 55.000 4.13 0.00 44.95 3.71
1521 2857 0.558712 AACAGCCCAAACCCAAGGTA 59.441 50.000 0.00 0.00 33.12 3.08
1522 2858 0.178973 ACAGCCCAAACCCAAGGTAC 60.179 55.000 0.00 0.00 33.12 3.34
1523 2859 1.074248 AGCCCAAACCCAAGGTACG 59.926 57.895 0.00 0.00 33.12 3.67
1524 2860 2.632544 GCCCAAACCCAAGGTACGC 61.633 63.158 0.00 0.00 33.12 4.42
1525 2861 1.228306 CCCAAACCCAAGGTACGCA 60.228 57.895 0.00 0.00 33.12 5.24
1526 2862 1.520600 CCCAAACCCAAGGTACGCAC 61.521 60.000 0.00 0.00 33.12 5.34
1527 2863 1.572447 CAAACCCAAGGTACGCACG 59.428 57.895 0.00 0.00 33.12 5.34
1528 2864 2.255881 AAACCCAAGGTACGCACGC 61.256 57.895 0.00 0.00 33.12 5.34
1593 2937 5.879223 ACGCATTTTGATTCTCTTCTCTGAT 59.121 36.000 0.00 0.00 0.00 2.90
1595 2939 6.496571 GCATTTTGATTCTCTTCTCTGATGG 58.503 40.000 0.00 0.00 0.00 3.51
1596 2940 6.318144 GCATTTTGATTCTCTTCTCTGATGGA 59.682 38.462 0.00 0.00 0.00 3.41
1600 2944 4.706962 TGATTCTCTTCTCTGATGGAACGA 59.293 41.667 0.00 0.00 0.00 3.85
1957 3302 7.730332 ACATGTCCAGGATATTATGTGAGACTA 59.270 37.037 0.00 0.00 0.00 2.59
2060 3406 5.421693 TGGTACGAGGCACCTTATTACTTAA 59.578 40.000 0.00 0.00 36.96 1.85
2073 3419 9.842775 ACCTTATTACTTAAGCCTAATTGGTAC 57.157 33.333 1.29 0.00 36.71 3.34
2078 3424 8.613922 TTACTTAAGCCTAATTGGTACTACCT 57.386 34.615 1.29 0.00 39.58 3.08
2079 3425 7.122138 ACTTAAGCCTAATTGGTACTACCTC 57.878 40.000 1.29 0.00 39.58 3.85
2080 3426 6.099413 ACTTAAGCCTAATTGGTACTACCTCC 59.901 42.308 1.29 0.00 39.58 4.30
2081 3427 2.963782 AGCCTAATTGGTACTACCTCCG 59.036 50.000 6.79 0.00 39.58 4.63
2082 3428 2.697229 GCCTAATTGGTACTACCTCCGT 59.303 50.000 6.79 0.00 39.58 4.69
2083 3429 3.243670 GCCTAATTGGTACTACCTCCGTC 60.244 52.174 6.79 0.00 39.58 4.79
2084 3430 3.320256 CCTAATTGGTACTACCTCCGTCC 59.680 52.174 6.79 0.00 39.58 4.79
2085 3431 1.396653 ATTGGTACTACCTCCGTCCG 58.603 55.000 6.79 0.00 39.58 4.79
2086 3432 0.327924 TTGGTACTACCTCCGTCCGA 59.672 55.000 6.79 0.00 39.58 4.55
2087 3433 0.327924 TGGTACTACCTCCGTCCGAA 59.672 55.000 6.79 0.00 39.58 4.30
2088 3434 1.271871 TGGTACTACCTCCGTCCGAAA 60.272 52.381 6.79 0.00 39.58 3.46
2089 3435 1.818674 GGTACTACCTCCGTCCGAAAA 59.181 52.381 0.00 0.00 34.73 2.29
2090 3436 2.428530 GGTACTACCTCCGTCCGAAAAT 59.571 50.000 0.00 0.00 34.73 1.82
2091 3437 3.632145 GGTACTACCTCCGTCCGAAAATA 59.368 47.826 0.00 0.00 34.73 1.40
2092 3438 3.790152 ACTACCTCCGTCCGAAAATAC 57.210 47.619 0.00 0.00 0.00 1.89
2093 3439 3.359950 ACTACCTCCGTCCGAAAATACT 58.640 45.455 0.00 0.00 0.00 2.12
2094 3440 3.766051 ACTACCTCCGTCCGAAAATACTT 59.234 43.478 0.00 0.00 0.00 2.24
2095 3441 2.968675 ACCTCCGTCCGAAAATACTTG 58.031 47.619 0.00 0.00 0.00 3.16
2096 3442 2.301009 ACCTCCGTCCGAAAATACTTGT 59.699 45.455 0.00 0.00 0.00 3.16
2097 3443 3.244318 ACCTCCGTCCGAAAATACTTGTT 60.244 43.478 0.00 0.00 0.00 2.83
2098 3444 4.021192 ACCTCCGTCCGAAAATACTTGTTA 60.021 41.667 0.00 0.00 0.00 2.41
2099 3445 5.114081 CCTCCGTCCGAAAATACTTGTTAT 58.886 41.667 0.00 0.00 0.00 1.89
2100 3446 5.233689 CCTCCGTCCGAAAATACTTGTTATC 59.766 44.000 0.00 0.00 0.00 1.75
2101 3447 5.722263 TCCGTCCGAAAATACTTGTTATCA 58.278 37.500 0.00 0.00 0.00 2.15
2102 3448 6.164876 TCCGTCCGAAAATACTTGTTATCAA 58.835 36.000 0.00 0.00 0.00 2.57
2103 3449 6.649973 TCCGTCCGAAAATACTTGTTATCAAA 59.350 34.615 0.00 0.00 32.87 2.69
2104 3450 7.172875 TCCGTCCGAAAATACTTGTTATCAAAA 59.827 33.333 0.00 0.00 32.87 2.44
2105 3451 7.480542 CCGTCCGAAAATACTTGTTATCAAAAG 59.519 37.037 0.00 0.00 32.87 2.27
2106 3452 7.480542 CGTCCGAAAATACTTGTTATCAAAAGG 59.519 37.037 0.00 0.00 32.87 3.11
2107 3453 8.508875 GTCCGAAAATACTTGTTATCAAAAGGA 58.491 33.333 0.00 0.00 32.87 3.36
2108 3454 9.069082 TCCGAAAATACTTGTTATCAAAAGGAA 57.931 29.630 0.00 0.00 32.87 3.36
2109 3455 9.855021 CCGAAAATACTTGTTATCAAAAGGAAT 57.145 29.630 0.00 0.00 32.87 3.01
2117 3463 9.996554 ACTTGTTATCAAAAGGAATAAAAAGGG 57.003 29.630 8.93 0.00 31.44 3.95
2124 3470 8.129496 TCAAAAGGAATAAAAAGGGATGTACC 57.871 34.615 0.00 0.00 38.08 3.34
2125 3471 7.953493 TCAAAAGGAATAAAAAGGGATGTACCT 59.047 33.333 0.00 0.00 44.56 3.08
2126 3472 9.250246 CAAAAGGAATAAAAAGGGATGTACCTA 57.750 33.333 0.00 0.00 40.87 3.08
2127 3473 9.475620 AAAAGGAATAAAAAGGGATGTACCTAG 57.524 33.333 0.00 0.00 40.87 3.02
2128 3474 8.401955 AAGGAATAAAAAGGGATGTACCTAGA 57.598 34.615 0.00 0.00 40.87 2.43
2129 3475 8.401955 AGGAATAAAAAGGGATGTACCTAGAA 57.598 34.615 0.00 0.00 40.87 2.10
2130 3476 8.272889 AGGAATAAAAAGGGATGTACCTAGAAC 58.727 37.037 0.00 0.00 40.87 3.01
2131 3477 8.272889 GGAATAAAAAGGGATGTACCTAGAACT 58.727 37.037 0.00 0.00 40.87 3.01
2139 3485 7.949434 AGGGATGTACCTAGAACTAAAATACG 58.051 38.462 0.00 0.00 39.65 3.06
2140 3486 7.562821 AGGGATGTACCTAGAACTAAAATACGT 59.437 37.037 0.00 0.00 39.65 3.57
2141 3487 8.200120 GGGATGTACCTAGAACTAAAATACGTT 58.800 37.037 0.00 0.00 38.98 3.99
2142 3488 9.591792 GGATGTACCTAGAACTAAAATACGTTT 57.408 33.333 0.00 0.00 35.41 3.60
2183 3529 8.915871 ATTCATTTTGATGACAAGTATTTCCG 57.084 30.769 0.00 0.00 37.32 4.30
2184 3530 6.851609 TCATTTTGATGACAAGTATTTCCGG 58.148 36.000 0.00 0.00 37.32 5.14
2185 3531 6.657117 TCATTTTGATGACAAGTATTTCCGGA 59.343 34.615 0.00 0.00 37.32 5.14
2186 3532 5.873179 TTTGATGACAAGTATTTCCGGAC 57.127 39.130 1.83 0.00 37.32 4.79
2187 3533 3.517602 TGATGACAAGTATTTCCGGACG 58.482 45.455 1.83 0.00 0.00 4.79
2188 3534 3.193903 TGATGACAAGTATTTCCGGACGA 59.806 43.478 1.83 0.00 0.00 4.20
2189 3535 3.663995 TGACAAGTATTTCCGGACGAA 57.336 42.857 1.83 0.00 0.00 3.85
2190 3536 3.581755 TGACAAGTATTTCCGGACGAAG 58.418 45.455 1.83 0.00 0.00 3.79
2191 3537 2.928116 GACAAGTATTTCCGGACGAAGG 59.072 50.000 1.83 0.00 0.00 3.46
2192 3538 2.277084 CAAGTATTTCCGGACGAAGGG 58.723 52.381 1.83 0.00 0.00 3.95
2193 3539 1.856629 AGTATTTCCGGACGAAGGGA 58.143 50.000 1.83 0.00 0.00 4.20
2194 3540 1.755380 AGTATTTCCGGACGAAGGGAG 59.245 52.381 1.83 0.00 33.01 4.30
2195 3541 1.479730 GTATTTCCGGACGAAGGGAGT 59.520 52.381 1.83 0.00 33.01 3.85
2196 3542 1.856629 ATTTCCGGACGAAGGGAGTA 58.143 50.000 1.83 0.00 33.01 2.59
2203 3549 1.897802 GGACGAAGGGAGTAACAAGGA 59.102 52.381 0.00 0.00 0.00 3.36
2204 3550 2.301009 GGACGAAGGGAGTAACAAGGAA 59.699 50.000 0.00 0.00 0.00 3.36
2209 3555 4.384208 CGAAGGGAGTAACAAGGAATCCAT 60.384 45.833 0.61 0.00 0.00 3.41
2216 3562 7.116736 GGAGTAACAAGGAATCCATAGGAAAA 58.883 38.462 0.61 0.00 34.34 2.29
2217 3563 7.614192 GGAGTAACAAGGAATCCATAGGAAAAA 59.386 37.037 0.61 0.00 34.34 1.94
2241 3587 9.956640 AAATTTCCTATAAATGCATTTGGTTCA 57.043 25.926 30.43 13.70 0.00 3.18
2245 3591 9.639563 TTCCTATAAATGCATTTGGTTCATAGA 57.360 29.630 30.43 16.14 0.00 1.98
2266 3612 9.454585 CATAGAAAATGCGTACATGAATTTCAT 57.545 29.630 6.06 6.06 37.65 2.57
2306 3652 7.455641 TTTCTGTGTTTTTGAGGAAACTACA 57.544 32.000 2.68 4.64 44.43 2.74
2311 3657 6.601613 TGTGTTTTTGAGGAAACTACACATCT 59.398 34.615 0.00 0.00 44.43 2.90
2319 3665 7.378966 TGAGGAAACTACACATCTACTCAAAG 58.621 38.462 0.00 0.00 44.43 2.77
2342 3688 9.941664 AAAGATCATTTTATGCGTAGAAATGAG 57.058 29.630 24.32 7.25 46.67 2.90
2351 3697 2.742053 GCGTAGAAATGAGGCAAGTCAA 59.258 45.455 0.00 0.00 0.00 3.18
2363 3709 7.572523 TGAGGCAAGTCAATTCCTTATAATG 57.427 36.000 0.00 0.00 0.00 1.90
2374 3720 7.560991 TCAATTCCTTATAATGGCAAGTGTCAT 59.439 33.333 0.00 0.00 43.07 3.06
2375 3721 6.942532 TTCCTTATAATGGCAAGTGTCATC 57.057 37.500 0.00 0.00 39.84 2.92
2376 3722 5.376625 TCCTTATAATGGCAAGTGTCATCC 58.623 41.667 0.00 0.00 39.84 3.51
2438 3785 1.485066 TCCTCTAAACCGAATGAGGCC 59.515 52.381 0.00 0.00 44.09 5.19
2446 3793 3.434940 ACCGAATGAGGCCTTAAAAGT 57.565 42.857 6.77 0.00 33.69 2.66
2454 3801 7.218204 CGAATGAGGCCTTAAAAGTTTTAATCG 59.782 37.037 18.65 17.13 0.00 3.34
2460 3807 8.799367 AGGCCTTAAAAGTTTTAATCGTTACAT 58.201 29.630 18.65 3.48 0.00 2.29
2461 3808 9.414295 GGCCTTAAAAGTTTTAATCGTTACATT 57.586 29.630 18.65 0.00 0.00 2.71
2466 3813 5.225899 AGTTTTAATCGTTACATTCGGCC 57.774 39.130 0.00 0.00 0.00 6.13
2474 3821 1.599542 GTTACATTCGGCCTCTGCATC 59.400 52.381 0.00 0.00 40.13 3.91
2478 3825 1.123077 ATTCGGCCTCTGCATCACTA 58.877 50.000 0.00 0.00 40.13 2.74
2480 3827 0.901827 TCGGCCTCTGCATCACTAAA 59.098 50.000 0.00 0.00 40.13 1.85
2495 3842 4.930963 TCACTAAAATGCACACAACCAAG 58.069 39.130 0.00 0.00 0.00 3.61
2497 3844 1.569708 AAAATGCACACAACCAAGCG 58.430 45.000 0.00 0.00 0.00 4.68
2566 3913 8.954350 AGTAAACATGTAGAGTCTGTATAACGT 58.046 33.333 1.86 0.00 0.00 3.99
2575 3922 5.065731 AGAGTCTGTATAACGTCTAAACCGG 59.934 44.000 0.00 0.00 0.00 5.28
2577 3924 5.065731 AGTCTGTATAACGTCTAAACCGGAG 59.934 44.000 9.46 0.00 0.00 4.63
2616 4217 6.293698 TCCTAAGATCATGTTGTCATCCATG 58.706 40.000 0.00 6.65 39.82 3.66
2617 4218 6.060136 CCTAAGATCATGTTGTCATCCATGT 58.940 40.000 10.95 2.37 39.53 3.21
2622 4223 2.673775 TGTTGTCATCCATGTTGGGT 57.326 45.000 0.00 0.00 38.32 4.51
2629 4230 4.522405 TGTCATCCATGTTGGGTAAAGTTG 59.478 41.667 0.00 0.00 38.32 3.16
2631 4232 4.764823 TCATCCATGTTGGGTAAAGTTGTC 59.235 41.667 0.00 0.00 38.32 3.18
2638 4239 2.414612 TGGGTAAAGTTGTCCCTCACT 58.585 47.619 14.27 0.00 41.58 3.41
2647 4248 3.031736 GTTGTCCCTCACTATAGCCTGA 58.968 50.000 0.00 0.00 0.00 3.86
2664 4265 3.802685 GCCTGAAATCGTGTACATACCTC 59.197 47.826 0.00 0.00 0.00 3.85
2672 4273 3.755905 TCGTGTACATACCTCCGTAAACA 59.244 43.478 0.00 0.00 0.00 2.83
2673 4274 4.217334 TCGTGTACATACCTCCGTAAACAA 59.783 41.667 0.00 0.00 0.00 2.83
2674 4275 4.922692 CGTGTACATACCTCCGTAAACAAA 59.077 41.667 0.00 0.00 0.00 2.83
2677 4278 6.424812 GTGTACATACCTCCGTAAACAAAGTT 59.575 38.462 0.00 0.00 0.00 2.66
2688 4289 6.822676 TCCGTAAACAAAGTTTTAGTTCTCCA 59.177 34.615 0.03 0.00 0.00 3.86
2698 4313 7.506328 AGTTTTAGTTCTCCACACCATAAAC 57.494 36.000 0.00 0.00 0.00 2.01
2699 4314 6.204108 AGTTTTAGTTCTCCACACCATAAACG 59.796 38.462 0.00 0.00 0.00 3.60
2707 4322 2.482721 CCACACCATAAACGAAGTGTCC 59.517 50.000 0.00 0.00 45.00 4.02
2708 4323 3.399330 CACACCATAAACGAAGTGTCCT 58.601 45.455 0.00 0.00 45.00 3.85
2731 4346 4.959839 TGGTACATCTGTAGATAACCTGCA 59.040 41.667 18.74 0.00 39.06 4.41
2796 4411 2.004583 CCAAAGCGACCAGATAACGA 57.995 50.000 0.00 0.00 0.00 3.85
2807 4422 0.179108 AGATAACGACAAGCGCTCCC 60.179 55.000 12.06 1.42 46.04 4.30
2808 4423 0.459585 GATAACGACAAGCGCTCCCA 60.460 55.000 12.06 0.00 46.04 4.37
2809 4424 0.739813 ATAACGACAAGCGCTCCCAC 60.740 55.000 12.06 1.77 46.04 4.61
2813 4428 4.335647 ACAAGCGCTCCCACCCTG 62.336 66.667 12.06 5.80 0.00 4.45
2818 4433 3.036429 GCGCTCCCACCCTGAGAAT 62.036 63.158 0.00 0.00 31.26 2.40
2833 4448 7.066284 CACCCTGAGAATAATTCTAAACCTGTG 59.934 40.741 0.00 0.00 40.87 3.66
2836 4451 9.050601 CCTGAGAATAATTCTAAACCTGTGATC 57.949 37.037 0.00 0.00 40.87 2.92
2840 4455 9.566432 AGAATAATTCTAAACCTGTGATCCATC 57.434 33.333 0.00 0.00 38.49 3.51
2841 4456 9.342308 GAATAATTCTAAACCTGTGATCCATCA 57.658 33.333 0.00 0.00 0.00 3.07
2913 4528 4.946157 AGCCAGAAACTATTTGGATGACTG 59.054 41.667 0.00 0.00 33.76 3.51
2915 4530 5.591877 GCCAGAAACTATTTGGATGACTGAT 59.408 40.000 0.00 0.00 33.76 2.90
2916 4531 6.238593 GCCAGAAACTATTTGGATGACTGATC 60.239 42.308 0.00 0.00 33.76 2.92
2917 4532 6.825213 CCAGAAACTATTTGGATGACTGATCA 59.175 38.462 0.00 0.00 39.83 2.92
2919 4534 9.551734 CAGAAACTATTTGGATGACTGATCATA 57.448 33.333 0.00 0.00 46.01 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
9 12 1.004440 AAGCACGCCTCAGGAGAAC 60.004 57.895 0.00 0.00 0.00 3.01
31 34 2.195741 ATGCCGAGGATTCCATCATG 57.804 50.000 5.29 0.00 0.00 3.07
33 36 2.224523 GGTTATGCCGAGGATTCCATCA 60.225 50.000 5.29 0.00 0.00 3.07
34 37 2.427506 GGTTATGCCGAGGATTCCATC 58.572 52.381 5.29 0.00 0.00 3.51
64 67 4.683832 ACTAATGCTACGTTAAGCTCCTG 58.316 43.478 11.40 3.07 43.19 3.86
95 98 6.510638 GCTTGTAACACCACAACTACACTAAC 60.511 42.308 0.00 0.00 34.75 2.34
142 145 3.001736 GCAGCATTTTTGTTGCCGTTTAA 59.998 39.130 3.75 0.00 41.06 1.52
143 146 2.541762 GCAGCATTTTTGTTGCCGTTTA 59.458 40.909 3.75 0.00 41.06 2.01
144 147 1.330213 GCAGCATTTTTGTTGCCGTTT 59.670 42.857 3.75 0.00 41.06 3.60
145 148 0.936600 GCAGCATTTTTGTTGCCGTT 59.063 45.000 3.75 0.00 41.06 4.44
146 149 1.214373 CGCAGCATTTTTGTTGCCGT 61.214 50.000 8.83 0.00 41.90 5.68
147 150 0.938637 TCGCAGCATTTTTGTTGCCG 60.939 50.000 8.83 5.20 41.90 5.69
148 151 0.785979 CTCGCAGCATTTTTGTTGCC 59.214 50.000 8.83 0.00 41.90 4.52
149 152 0.162294 GCTCGCAGCATTTTTGTTGC 59.838 50.000 4.92 4.92 41.89 4.17
171 174 1.891919 GGTTGTGGCGTCTCTTGCA 60.892 57.895 0.00 0.00 0.00 4.08
215 218 1.354506 GCTCGCAACATCAGCCATC 59.645 57.895 0.00 0.00 0.00 3.51
221 224 2.337583 GTCTAACTGCTCGCAACATCA 58.662 47.619 0.00 0.00 0.00 3.07
243 246 2.190981 GCCTCGTCAATTGTAGTACGG 58.809 52.381 14.96 7.76 36.08 4.02
559 1888 3.782244 CTCTGTTCGCGTGGCAGC 61.782 66.667 5.77 0.00 0.00 5.25
696 2025 6.434340 CAGCTAGTGGTATACTGGTATCATCA 59.566 42.308 2.25 0.00 40.65 3.07
697 2026 6.434652 ACAGCTAGTGGTATACTGGTATCATC 59.565 42.308 2.25 0.00 40.65 2.92
698 2027 6.315714 ACAGCTAGTGGTATACTGGTATCAT 58.684 40.000 2.25 0.00 40.65 2.45
722 2051 2.485677 GCAAGCTGCTATGAGGCAA 58.514 52.632 0.90 0.00 41.94 4.52
723 2052 4.230603 GCAAGCTGCTATGAGGCA 57.769 55.556 0.90 0.00 40.96 4.75
922 2251 0.166814 GCATGGCAACTCGTGTTCTC 59.833 55.000 0.00 0.00 33.52 2.87
965 2294 0.034059 AACCAGACAGACTCGCCTTG 59.966 55.000 0.00 0.00 0.00 3.61
1062 2391 2.203379 TCGTCGTGGTCACCTCCA 60.203 61.111 0.00 0.00 34.85 3.86
1285 2617 9.784680 GAGACAGTTTCGATCTATAGTAACAAA 57.215 33.333 0.00 0.00 0.00 2.83
1288 2620 7.229106 AGGGAGACAGTTTCGATCTATAGTAAC 59.771 40.741 0.00 0.00 0.00 2.50
1289 2621 7.288560 AGGGAGACAGTTTCGATCTATAGTAA 58.711 38.462 0.00 0.00 0.00 2.24
1291 2623 5.697067 AGGGAGACAGTTTCGATCTATAGT 58.303 41.667 0.00 0.00 0.00 2.12
1292 2624 6.263392 TGAAGGGAGACAGTTTCGATCTATAG 59.737 42.308 0.00 0.00 0.00 1.31
1293 2625 6.127101 TGAAGGGAGACAGTTTCGATCTATA 58.873 40.000 0.00 0.00 0.00 1.31
1294 2626 4.956700 TGAAGGGAGACAGTTTCGATCTAT 59.043 41.667 0.00 0.00 0.00 1.98
1329 2661 4.643387 ACTTGGGAGCCACGCACC 62.643 66.667 0.00 0.00 41.04 5.01
1341 2677 4.627467 CAGAATAACGAGGTTCAGACTTGG 59.373 45.833 0.00 0.00 0.00 3.61
1361 2697 0.389817 CTGGACAATTCGGCGACAGA 60.390 55.000 10.16 0.00 0.00 3.41
1368 2704 1.089920 CAAGCTCCTGGACAATTCGG 58.910 55.000 0.00 0.00 0.00 4.30
1370 2706 1.734465 CGTCAAGCTCCTGGACAATTC 59.266 52.381 0.00 0.00 34.28 2.17
1445 2781 2.982130 GTCGTCCAGCACCTCCAT 59.018 61.111 0.00 0.00 0.00 3.41
1471 2807 0.606604 TCTTGCCGTACTTCCTCCAC 59.393 55.000 0.00 0.00 0.00 4.02
1593 2937 2.717044 ATCATCGCCCGTCGTTCCA 61.717 57.895 0.00 0.00 39.67 3.53
1595 2939 2.237751 CCATCATCGCCCGTCGTTC 61.238 63.158 0.00 0.00 39.67 3.95
1596 2940 2.202878 CCATCATCGCCCGTCGTT 60.203 61.111 0.00 0.00 39.67 3.85
1616 2960 2.005560 GCAACGGTAGTAGTTCCTGCC 61.006 57.143 0.00 0.00 34.21 4.85
1724 3068 3.357079 CAGTGGCGCAAGGTGGTC 61.357 66.667 10.83 0.00 38.28 4.02
1756 3100 1.873863 CGATAGCGAGTATCCGGCA 59.126 57.895 0.00 0.00 40.82 5.69
1957 3302 9.265901 CACATAATATCCTGTTCTCGAGAAAAT 57.734 33.333 28.58 19.96 35.58 1.82
2041 3387 3.808174 GGCTTAAGTAATAAGGTGCCTCG 59.192 47.826 4.02 0.00 41.19 4.63
2060 3406 2.963782 CGGAGGTAGTACCAATTAGGCT 59.036 50.000 21.49 0.00 41.95 4.58
2073 3419 4.110482 CAAGTATTTTCGGACGGAGGTAG 58.890 47.826 0.00 0.00 0.00 3.18
2074 3420 3.511146 ACAAGTATTTTCGGACGGAGGTA 59.489 43.478 0.00 0.00 0.00 3.08
2075 3421 2.301009 ACAAGTATTTTCGGACGGAGGT 59.699 45.455 0.00 0.00 0.00 3.85
2076 3422 2.968675 ACAAGTATTTTCGGACGGAGG 58.031 47.619 0.00 0.00 0.00 4.30
2077 3423 5.808540 TGATAACAAGTATTTTCGGACGGAG 59.191 40.000 0.00 0.00 0.00 4.63
2078 3424 5.722263 TGATAACAAGTATTTTCGGACGGA 58.278 37.500 0.00 0.00 0.00 4.69
2079 3425 6.411630 TTGATAACAAGTATTTTCGGACGG 57.588 37.500 0.00 0.00 0.00 4.79
2080 3426 7.480542 CCTTTTGATAACAAGTATTTTCGGACG 59.519 37.037 0.00 0.00 37.32 4.79
2081 3427 8.508875 TCCTTTTGATAACAAGTATTTTCGGAC 58.491 33.333 0.00 0.00 37.32 4.79
2082 3428 8.624367 TCCTTTTGATAACAAGTATTTTCGGA 57.376 30.769 0.00 0.00 37.32 4.55
2083 3429 9.855021 ATTCCTTTTGATAACAAGTATTTTCGG 57.145 29.630 0.00 0.00 37.32 4.30
2091 3437 9.996554 CCCTTTTTATTCCTTTTGATAACAAGT 57.003 29.630 0.00 0.00 37.32 3.16
2098 3444 8.758829 GGTACATCCCTTTTTATTCCTTTTGAT 58.241 33.333 0.00 0.00 0.00 2.57
2099 3445 7.953493 AGGTACATCCCTTTTTATTCCTTTTGA 59.047 33.333 0.00 0.00 36.75 2.69
2100 3446 8.134202 AGGTACATCCCTTTTTATTCCTTTTG 57.866 34.615 0.00 0.00 36.75 2.44
2101 3447 9.475620 CTAGGTACATCCCTTTTTATTCCTTTT 57.524 33.333 0.00 0.00 35.97 2.27
2102 3448 8.842764 TCTAGGTACATCCCTTTTTATTCCTTT 58.157 33.333 0.00 0.00 35.97 3.11
2103 3449 8.401955 TCTAGGTACATCCCTTTTTATTCCTT 57.598 34.615 0.00 0.00 35.97 3.36
2104 3450 8.272889 GTTCTAGGTACATCCCTTTTTATTCCT 58.727 37.037 0.00 0.00 35.97 3.36
2105 3451 8.272889 AGTTCTAGGTACATCCCTTTTTATTCC 58.727 37.037 0.00 0.00 35.97 3.01
2113 3459 8.419442 CGTATTTTAGTTCTAGGTACATCCCTT 58.581 37.037 0.00 0.00 35.97 3.95
2114 3460 7.562821 ACGTATTTTAGTTCTAGGTACATCCCT 59.437 37.037 0.00 0.00 38.70 4.20
2115 3461 7.720442 ACGTATTTTAGTTCTAGGTACATCCC 58.280 38.462 0.00 0.00 36.75 3.85
2116 3462 9.591792 AAACGTATTTTAGTTCTAGGTACATCC 57.408 33.333 0.00 0.00 0.00 3.51
2158 3504 7.975616 CCGGAAATACTTGTCATCAAAATGAAT 59.024 33.333 0.00 0.00 43.42 2.57
2159 3505 7.175816 TCCGGAAATACTTGTCATCAAAATGAA 59.824 33.333 0.00 0.00 43.42 2.57
2160 3506 6.657117 TCCGGAAATACTTGTCATCAAAATGA 59.343 34.615 0.00 0.00 39.63 2.57
2161 3507 6.747280 GTCCGGAAATACTTGTCATCAAAATG 59.253 38.462 5.23 0.00 32.87 2.32
2162 3508 6.403200 CGTCCGGAAATACTTGTCATCAAAAT 60.403 38.462 5.23 0.00 32.87 1.82
2163 3509 5.106869 CGTCCGGAAATACTTGTCATCAAAA 60.107 40.000 5.23 0.00 32.87 2.44
2164 3510 4.390603 CGTCCGGAAATACTTGTCATCAAA 59.609 41.667 5.23 0.00 32.87 2.69
2165 3511 3.930229 CGTCCGGAAATACTTGTCATCAA 59.070 43.478 5.23 0.00 0.00 2.57
2166 3512 3.193903 TCGTCCGGAAATACTTGTCATCA 59.806 43.478 5.23 0.00 0.00 3.07
2167 3513 3.777478 TCGTCCGGAAATACTTGTCATC 58.223 45.455 5.23 0.00 0.00 2.92
2168 3514 3.880047 TCGTCCGGAAATACTTGTCAT 57.120 42.857 5.23 0.00 0.00 3.06
2169 3515 3.581755 CTTCGTCCGGAAATACTTGTCA 58.418 45.455 5.23 0.00 33.34 3.58
2170 3516 2.928116 CCTTCGTCCGGAAATACTTGTC 59.072 50.000 5.23 0.00 33.34 3.18
2171 3517 2.354403 CCCTTCGTCCGGAAATACTTGT 60.354 50.000 5.23 0.00 33.34 3.16
2172 3518 2.093869 TCCCTTCGTCCGGAAATACTTG 60.094 50.000 5.23 0.00 33.34 3.16
2173 3519 2.167900 CTCCCTTCGTCCGGAAATACTT 59.832 50.000 5.23 0.00 33.34 2.24
2174 3520 1.755380 CTCCCTTCGTCCGGAAATACT 59.245 52.381 5.23 0.00 33.34 2.12
2175 3521 1.479730 ACTCCCTTCGTCCGGAAATAC 59.520 52.381 5.23 0.00 33.34 1.89
2176 3522 1.856629 ACTCCCTTCGTCCGGAAATA 58.143 50.000 5.23 0.00 33.34 1.40
2177 3523 1.856629 TACTCCCTTCGTCCGGAAAT 58.143 50.000 5.23 0.00 33.34 2.17
2178 3524 1.273327 GTTACTCCCTTCGTCCGGAAA 59.727 52.381 5.23 0.00 33.34 3.13
2179 3525 0.890683 GTTACTCCCTTCGTCCGGAA 59.109 55.000 5.23 0.00 0.00 4.30
2180 3526 0.251297 TGTTACTCCCTTCGTCCGGA 60.251 55.000 0.00 0.00 0.00 5.14
2181 3527 0.604578 TTGTTACTCCCTTCGTCCGG 59.395 55.000 0.00 0.00 0.00 5.14
2182 3528 1.403780 CCTTGTTACTCCCTTCGTCCG 60.404 57.143 0.00 0.00 0.00 4.79
2183 3529 1.897802 TCCTTGTTACTCCCTTCGTCC 59.102 52.381 0.00 0.00 0.00 4.79
2184 3530 3.672767 TTCCTTGTTACTCCCTTCGTC 57.327 47.619 0.00 0.00 0.00 4.20
2185 3531 3.055312 GGATTCCTTGTTACTCCCTTCGT 60.055 47.826 0.00 0.00 0.00 3.85
2186 3532 3.055385 TGGATTCCTTGTTACTCCCTTCG 60.055 47.826 3.95 0.00 0.00 3.79
2187 3533 4.569719 TGGATTCCTTGTTACTCCCTTC 57.430 45.455 3.95 0.00 0.00 3.46
2188 3534 5.132816 CCTATGGATTCCTTGTTACTCCCTT 59.867 44.000 3.95 0.00 0.00 3.95
2189 3535 4.660771 CCTATGGATTCCTTGTTACTCCCT 59.339 45.833 3.95 0.00 0.00 4.20
2190 3536 4.658901 TCCTATGGATTCCTTGTTACTCCC 59.341 45.833 3.95 0.00 0.00 4.30
2191 3537 5.888982 TCCTATGGATTCCTTGTTACTCC 57.111 43.478 3.95 0.00 0.00 3.85
2192 3538 8.575649 TTTTTCCTATGGATTCCTTGTTACTC 57.424 34.615 3.95 0.00 0.00 2.59
2193 3539 9.547279 AATTTTTCCTATGGATTCCTTGTTACT 57.453 29.630 3.95 0.00 0.00 2.24
2235 3581 5.877564 TCATGTACGCATTTTCTATGAACCA 59.122 36.000 0.00 0.00 31.99 3.67
2237 3583 8.841444 AATTCATGTACGCATTTTCTATGAAC 57.159 30.769 0.00 0.00 36.33 3.18
2245 3591 7.995289 TCCTATGAAATTCATGTACGCATTTT 58.005 30.769 17.93 0.00 37.70 1.82
2279 3625 7.832503 AGTTTCCTCAAAAACACAGAAAATG 57.167 32.000 2.73 0.00 40.77 2.32
2284 3630 5.941058 TGTGTAGTTTCCTCAAAAACACAGA 59.059 36.000 10.65 1.77 41.38 3.41
2294 3640 6.911250 TTGAGTAGATGTGTAGTTTCCTCA 57.089 37.500 0.00 0.00 0.00 3.86
2306 3652 8.554528 CGCATAAAATGATCTTTGAGTAGATGT 58.445 33.333 0.00 0.00 35.06 3.06
2311 3657 9.594478 TTCTACGCATAAAATGATCTTTGAGTA 57.406 29.630 0.00 0.00 0.00 2.59
2319 3665 6.798959 GCCTCATTTCTACGCATAAAATGATC 59.201 38.462 13.04 0.00 44.18 2.92
2329 3675 2.289382 TGACTTGCCTCATTTCTACGCA 60.289 45.455 0.00 0.00 0.00 5.24
2342 3688 5.068987 TGCCATTATAAGGAATTGACTTGCC 59.931 40.000 0.00 0.00 0.00 4.52
2351 3697 6.491403 GGATGACACTTGCCATTATAAGGAAT 59.509 38.462 0.00 0.00 0.00 3.01
2363 3709 5.221126 GGAATTTGATAGGATGACACTTGCC 60.221 44.000 0.00 0.00 0.00 4.52
2446 3793 5.064198 CAGAGGCCGAATGTAACGATTAAAA 59.936 40.000 0.00 0.00 0.00 1.52
2454 3801 1.599542 GATGCAGAGGCCGAATGTAAC 59.400 52.381 0.00 0.00 40.13 2.50
2460 3807 0.901827 TTAGTGATGCAGAGGCCGAA 59.098 50.000 0.00 0.00 40.13 4.30
2461 3808 0.901827 TTTAGTGATGCAGAGGCCGA 59.098 50.000 0.00 0.00 40.13 5.54
2462 3809 1.737838 TTTTAGTGATGCAGAGGCCG 58.262 50.000 0.00 0.00 40.13 6.13
2474 3821 3.490526 GCTTGGTTGTGTGCATTTTAGTG 59.509 43.478 0.00 0.00 0.00 2.74
2478 3825 1.135915 TCGCTTGGTTGTGTGCATTTT 59.864 42.857 0.00 0.00 0.00 1.82
2480 3827 0.961019 ATCGCTTGGTTGTGTGCATT 59.039 45.000 0.00 0.00 0.00 3.56
2488 3835 2.096069 CAGAGTGAACATCGCTTGGTTG 60.096 50.000 0.00 0.00 37.35 3.77
2495 3842 3.878086 TGTTTTCAGAGTGAACATCGC 57.122 42.857 0.00 0.00 35.89 4.58
2533 3880 7.819900 ACAGACTCTACATGTTTACTTTCATCC 59.180 37.037 2.30 0.00 0.00 3.51
2563 3910 1.986210 CCCCCTCCGGTTTAGACGT 60.986 63.158 0.00 0.00 0.00 4.34
2582 3929 2.418669 TGATCTTAGGATTGGACCCCC 58.581 52.381 0.00 0.00 31.46 5.40
2583 3930 3.395941 ACATGATCTTAGGATTGGACCCC 59.604 47.826 0.00 0.00 31.46 4.95
2584 3931 4.713792 ACATGATCTTAGGATTGGACCC 57.286 45.455 0.00 0.00 31.46 4.46
2585 3932 5.440610 ACAACATGATCTTAGGATTGGACC 58.559 41.667 0.00 0.00 31.46 4.46
2586 3933 6.115446 TGACAACATGATCTTAGGATTGGAC 58.885 40.000 0.00 0.00 31.46 4.02
2587 3934 6.312141 TGACAACATGATCTTAGGATTGGA 57.688 37.500 0.00 0.00 31.46 3.53
2588 3935 6.206243 GGATGACAACATGATCTTAGGATTGG 59.794 42.308 0.00 0.00 36.82 3.16
2589 3936 6.769341 TGGATGACAACATGATCTTAGGATTG 59.231 38.462 0.00 0.00 36.82 2.67
2616 4217 2.882761 GTGAGGGACAACTTTACCCAAC 59.117 50.000 0.00 0.00 45.43 3.77
2617 4218 2.781174 AGTGAGGGACAACTTTACCCAA 59.219 45.455 0.00 0.00 45.43 4.12
2622 4223 5.128827 CAGGCTATAGTGAGGGACAACTTTA 59.871 44.000 0.84 0.00 0.00 1.85
2629 4230 4.559704 CGATTTCAGGCTATAGTGAGGGAC 60.560 50.000 0.84 0.00 0.00 4.46
2631 4232 3.322254 ACGATTTCAGGCTATAGTGAGGG 59.678 47.826 0.84 0.00 0.00 4.30
2638 4239 6.492429 AGGTATGTACACGATTTCAGGCTATA 59.508 38.462 0.00 0.00 0.00 1.31
2647 4248 5.581126 TTACGGAGGTATGTACACGATTT 57.419 39.130 0.00 0.00 0.00 2.17
2664 4265 6.908820 GTGGAGAACTAAAACTTTGTTTACGG 59.091 38.462 0.00 0.00 0.00 4.02
2672 4273 8.410912 GTTTATGGTGTGGAGAACTAAAACTTT 58.589 33.333 0.00 0.00 0.00 2.66
2673 4274 7.255001 CGTTTATGGTGTGGAGAACTAAAACTT 60.255 37.037 0.00 0.00 0.00 2.66
2674 4275 6.204108 CGTTTATGGTGTGGAGAACTAAAACT 59.796 38.462 0.00 0.00 0.00 2.66
2677 4278 5.856156 TCGTTTATGGTGTGGAGAACTAAA 58.144 37.500 0.00 0.00 0.00 1.85
2688 4289 3.399330 CAGGACACTTCGTTTATGGTGT 58.601 45.455 0.00 0.00 44.18 4.16
2698 4313 2.231478 ACAGATGTACCAGGACACTTCG 59.769 50.000 0.00 0.00 30.52 3.79
2699 4314 3.963428 ACAGATGTACCAGGACACTTC 57.037 47.619 0.00 0.00 30.52 3.01
2707 4322 5.069119 TGCAGGTTATCTACAGATGTACCAG 59.931 44.000 19.30 15.02 40.25 4.00
2708 4323 4.959839 TGCAGGTTATCTACAGATGTACCA 59.040 41.667 19.30 4.91 40.25 3.25
2769 4384 1.133025 CTGGTCGCTTTGGCTATTTGG 59.867 52.381 0.00 0.00 36.09 3.28
2796 4411 4.335647 CAGGGTGGGAGCGCTTGT 62.336 66.667 13.26 0.00 0.00 3.16
2807 4422 7.066284 CACAGGTTTAGAATTATTCTCAGGGTG 59.934 40.741 11.06 9.55 41.14 4.61
2808 4423 7.037586 TCACAGGTTTAGAATTATTCTCAGGGT 60.038 37.037 11.06 1.65 41.14 4.34
2809 4424 7.338710 TCACAGGTTTAGAATTATTCTCAGGG 58.661 38.462 11.06 0.00 41.14 4.45
2813 4428 8.964476 TGGATCACAGGTTTAGAATTATTCTC 57.036 34.615 11.06 0.00 41.14 2.87
2833 4448 6.545666 TGGTAATTGGTTACATGTGATGGATC 59.454 38.462 9.11 0.00 41.59 3.36
2836 4451 6.522625 TTGGTAATTGGTTACATGTGATGG 57.477 37.500 9.11 0.00 41.59 3.51
2877 4492 5.006386 AGTTTCTGGCTTGTATCCTTCTTG 58.994 41.667 0.00 0.00 0.00 3.02
2881 4496 6.378280 CCAAATAGTTTCTGGCTTGTATCCTT 59.622 38.462 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.