Multiple sequence alignment - TraesCS6A01G035700

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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 TraesCS6A01G035700 chr6A 100.000 2953 0 0 1 2953 17600502 17603454 0.000000e+00 5454
1 TraesCS6A01G035700 chr6A 94.872 351 17 1 132 482 17587780 17588129 5.560000e-152 547
2 TraesCS6A01G035700 chr6A 87.640 89 11 0 652 740 17543019 17542931 1.450000e-18 104
3 TraesCS6A01G035700 chr6D 95.696 2300 67 12 664 2953 16771872 16774149 0.000000e+00 3670
4 TraesCS6A01G035700 chr6D 93.798 258 11 1 391 643 16771069 16771326 1.660000e-102 383
5 TraesCS6A01G035700 chr6D 93.074 231 7 4 131 352 16770838 16771068 2.190000e-86 329
6 TraesCS6A01G035700 chr6B 90.996 1366 101 5 650 2013 29757905 29756560 0.000000e+00 1821
7 TraesCS6A01G035700 chr6B 95.606 751 30 3 1838 2586 29426378 29427127 0.000000e+00 1201
8 TraesCS6A01G035700 chr6B 89.446 758 56 9 2201 2953 29756449 29755711 0.000000e+00 935
9 TraesCS6A01G035700 chr6B 93.407 637 21 6 649 1264 29418251 29418887 0.000000e+00 924
10 TraesCS6A01G035700 chr6B 93.511 524 18 2 1321 1844 29418908 29419415 0.000000e+00 765
11 TraesCS6A01G035700 chr6B 91.207 489 21 6 163 643 29405806 29406280 0.000000e+00 645
12 TraesCS6A01G035700 chr6B 87.448 478 18 12 156 625 29539497 29539940 2.030000e-141 512
13 TraesCS6A01G035700 chr7A 96.864 287 9 0 2060 2346 721828021 721828307 5.720000e-132 481
14 TraesCS6A01G035700 chr7A 95.455 132 6 0 1 132 35382458 35382327 8.290000e-51 211
15 TraesCS6A01G035700 chr2D 77.213 531 103 12 2429 2951 15518291 15517771 8.000000e-76 294
16 TraesCS6A01G035700 chr2D 93.642 173 11 0 2080 2252 635056366 635056194 2.920000e-65 259
17 TraesCS6A01G035700 chr2D 75.797 533 106 17 2423 2941 15474084 15473561 6.320000e-62 248
18 TraesCS6A01G035700 chr7B 93.642 173 11 0 2080 2252 115173974 115174146 2.920000e-65 259
19 TraesCS6A01G035700 chr4D 93.642 173 11 0 2080 2252 135057796 135057968 2.920000e-65 259
20 TraesCS6A01G035700 chr4D 94.776 134 7 0 1 134 44833893 44834026 2.980000e-50 209
21 TraesCS6A01G035700 chr2B 93.642 173 11 0 2080 2252 526481026 526481198 2.920000e-65 259
22 TraesCS6A01G035700 chr1A 93.642 173 11 0 2080 2252 94698616 94698788 2.920000e-65 259
23 TraesCS6A01G035700 chr3B 93.103 174 12 0 2080 2253 5095631 5095804 3.780000e-64 255
24 TraesCS6A01G035700 chr2A 74.461 603 118 25 2361 2943 17551417 17550831 8.230000e-56 228
25 TraesCS6A01G035700 chr2A 74.043 601 123 21 2361 2943 17536081 17535496 6.410000e-52 215
26 TraesCS6A01G035700 chr2A 95.522 134 6 0 1 134 558943724 558943591 6.410000e-52 215
27 TraesCS6A01G035700 chr5D 95.489 133 6 0 1 133 425853722 425853854 2.310000e-51 213
28 TraesCS6A01G035700 chr4A 95.489 133 6 0 3 135 112727864 112727996 2.310000e-51 213
29 TraesCS6A01G035700 chr4A 95.489 133 6 0 1 133 537287982 537288114 2.310000e-51 213
30 TraesCS6A01G035700 chr3A 95.455 132 6 0 1 132 722233813 722233682 8.290000e-51 211
31 TraesCS6A01G035700 chr3A 95.455 132 6 0 1 132 731003771 731003902 8.290000e-51 211
32 TraesCS6A01G035700 chr7D 94.203 138 7 1 1 137 562059794 562059657 2.980000e-50 209


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 TraesCS6A01G035700 chr6A 17600502 17603454 2952 False 5454.000000 5454 100.000000 1 2953 1 chr6A.!!$F2 2952
1 TraesCS6A01G035700 chr6D 16770838 16774149 3311 False 1460.666667 3670 94.189333 131 2953 3 chr6D.!!$F1 2822
2 TraesCS6A01G035700 chr6B 29755711 29757905 2194 True 1378.000000 1821 90.221000 650 2953 2 chr6B.!!$R1 2303
3 TraesCS6A01G035700 chr6B 29426378 29427127 749 False 1201.000000 1201 95.606000 1838 2586 1 chr6B.!!$F2 748
4 TraesCS6A01G035700 chr6B 29418251 29419415 1164 False 844.500000 924 93.459000 649 1844 2 chr6B.!!$F4 1195
5 TraesCS6A01G035700 chr2D 15517771 15518291 520 True 294.000000 294 77.213000 2429 2951 1 chr2D.!!$R2 522
6 TraesCS6A01G035700 chr2D 15473561 15474084 523 True 248.000000 248 75.797000 2423 2941 1 chr2D.!!$R1 518
7 TraesCS6A01G035700 chr2A 17550831 17551417 586 True 228.000000 228 74.461000 2361 2943 1 chr2A.!!$R2 582
8 TraesCS6A01G035700 chr2A 17535496 17536081 585 True 215.000000 215 74.043000 2361 2943 1 chr2A.!!$R1 582

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
389 395 0.032678 CTACCGGCAGCATCGAGAAT 59.967 55.0 0.0 0.0 0.0 2.40 F
1306 1878 0.178301 TGTCACCGCTACCAACAACA 59.822 50.0 0.0 0.0 0.0 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1690 2265 0.038251 TCGTTGAGCTGCAGGTAGTG 60.038 55.0 20.22 9.35 0.0 2.74 R
2918 3517 0.477204 CTCCCATGCCTGATCCACAT 59.523 55.0 0.00 0.00 0.0 3.21 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 22 4.755266 AGTGGTGGATAATTAGAGCGTT 57.245 40.909 0.00 0.00 0.00 4.84
22 23 5.864418 AGTGGTGGATAATTAGAGCGTTA 57.136 39.130 0.00 0.00 0.00 3.18
23 24 6.229936 AGTGGTGGATAATTAGAGCGTTAA 57.770 37.500 0.00 0.00 0.00 2.01
24 25 6.646267 AGTGGTGGATAATTAGAGCGTTAAA 58.354 36.000 0.00 0.00 0.00 1.52
25 26 6.537660 AGTGGTGGATAATTAGAGCGTTAAAC 59.462 38.462 0.00 0.00 0.00 2.01
26 27 5.521010 TGGTGGATAATTAGAGCGTTAAACG 59.479 40.000 0.00 0.00 45.88 3.60
27 28 5.521372 GGTGGATAATTAGAGCGTTAAACGT 59.479 40.000 0.00 0.00 44.73 3.99
28 29 6.408428 GTGGATAATTAGAGCGTTAAACGTG 58.592 40.000 0.00 0.00 44.73 4.49
29 30 6.035327 GTGGATAATTAGAGCGTTAAACGTGT 59.965 38.462 0.00 0.00 44.73 4.49
30 31 6.591062 TGGATAATTAGAGCGTTAAACGTGTT 59.409 34.615 0.00 0.00 44.73 3.32
31 32 7.118101 TGGATAATTAGAGCGTTAAACGTGTTT 59.882 33.333 3.21 3.21 44.73 2.83
32 33 7.424452 GGATAATTAGAGCGTTAAACGTGTTTG 59.576 37.037 8.19 0.00 44.73 2.93
33 34 5.910637 ATTAGAGCGTTAAACGTGTTTGA 57.089 34.783 8.19 0.00 44.73 2.69
34 35 5.910637 TTAGAGCGTTAAACGTGTTTGAT 57.089 34.783 8.19 0.00 44.73 2.57
35 36 4.128554 AGAGCGTTAAACGTGTTTGATG 57.871 40.909 8.19 6.66 44.73 3.07
36 37 2.646250 AGCGTTAAACGTGTTTGATGC 58.354 42.857 20.45 20.45 45.60 3.91
37 38 2.646250 GCGTTAAACGTGTTTGATGCT 58.354 42.857 20.63 0.00 43.44 3.79
38 39 2.650297 GCGTTAAACGTGTTTGATGCTC 59.350 45.455 20.63 1.13 43.44 4.26
39 40 3.846744 GCGTTAAACGTGTTTGATGCTCA 60.847 43.478 20.63 0.00 43.44 4.26
40 41 4.275662 CGTTAAACGTGTTTGATGCTCAA 58.724 39.130 8.19 0.00 36.74 3.02
41 42 4.144051 CGTTAAACGTGTTTGATGCTCAAC 59.856 41.667 8.19 2.43 34.81 3.18
42 43 3.773860 AAACGTGTTTGATGCTCAACA 57.226 38.095 0.00 0.00 35.89 3.33
43 44 3.988379 AACGTGTTTGATGCTCAACAT 57.012 38.095 0.00 0.00 43.54 2.71
44 45 3.988379 ACGTGTTTGATGCTCAACATT 57.012 38.095 0.00 0.00 39.84 2.71
45 46 3.631144 ACGTGTTTGATGCTCAACATTG 58.369 40.909 0.00 0.00 39.84 2.82
46 47 3.314913 ACGTGTTTGATGCTCAACATTGA 59.685 39.130 0.00 0.00 39.84 2.57
47 48 4.202000 ACGTGTTTGATGCTCAACATTGAA 60.202 37.500 0.00 0.00 39.84 2.69
48 49 4.380678 CGTGTTTGATGCTCAACATTGAAG 59.619 41.667 0.00 0.00 39.84 3.02
49 50 4.149396 GTGTTTGATGCTCAACATTGAAGC 59.851 41.667 0.00 3.10 39.84 3.86
50 51 2.905959 TGATGCTCAACATTGAAGCG 57.094 45.000 0.00 0.00 39.84 4.68
51 52 2.425539 TGATGCTCAACATTGAAGCGA 58.574 42.857 0.00 0.00 39.84 4.93
52 53 3.011818 TGATGCTCAACATTGAAGCGAT 58.988 40.909 0.00 0.00 39.84 4.58
53 54 3.441222 TGATGCTCAACATTGAAGCGATT 59.559 39.130 0.00 0.00 39.84 3.34
54 55 3.921119 TGCTCAACATTGAAGCGATTT 57.079 38.095 0.00 0.00 36.64 2.17
55 56 3.567530 TGCTCAACATTGAAGCGATTTG 58.432 40.909 0.00 0.00 36.64 2.32
56 57 3.252944 TGCTCAACATTGAAGCGATTTGA 59.747 39.130 0.00 0.00 36.64 2.69
57 58 4.229096 GCTCAACATTGAAGCGATTTGAA 58.771 39.130 0.00 0.00 36.64 2.69
58 59 4.860907 GCTCAACATTGAAGCGATTTGAAT 59.139 37.500 0.00 0.00 36.64 2.57
59 60 5.004156 GCTCAACATTGAAGCGATTTGAATC 59.996 40.000 0.00 0.00 36.64 2.52
60 61 5.088068 TCAACATTGAAGCGATTTGAATCG 58.912 37.500 18.89 18.89 45.98 3.34
77 78 9.888878 ATTTGAATCGCTAGATAACATGATTTG 57.111 29.630 0.00 0.00 35.74 2.32
78 79 8.661352 TTGAATCGCTAGATAACATGATTTGA 57.339 30.769 0.00 0.00 35.74 2.69
79 80 8.076714 TGAATCGCTAGATAACATGATTTGAC 57.923 34.615 0.00 0.00 35.74 3.18
80 81 6.696825 ATCGCTAGATAACATGATTTGACG 57.303 37.500 0.00 0.00 34.85 4.35
81 82 5.827666 TCGCTAGATAACATGATTTGACGA 58.172 37.500 0.00 0.00 0.00 4.20
82 83 6.447162 TCGCTAGATAACATGATTTGACGAT 58.553 36.000 0.00 0.00 0.00 3.73
83 84 6.582672 TCGCTAGATAACATGATTTGACGATC 59.417 38.462 0.00 0.00 0.00 3.69
84 85 6.451700 CGCTAGATAACATGATTTGACGATCG 60.452 42.308 14.88 14.88 0.00 3.69
85 86 6.582672 GCTAGATAACATGATTTGACGATCGA 59.417 38.462 24.34 0.00 0.00 3.59
86 87 6.999956 AGATAACATGATTTGACGATCGAG 57.000 37.500 24.34 0.00 0.00 4.04
87 88 6.739112 AGATAACATGATTTGACGATCGAGA 58.261 36.000 24.34 4.22 0.00 4.04
88 89 7.374272 AGATAACATGATTTGACGATCGAGAT 58.626 34.615 24.34 9.38 0.00 2.75
89 90 5.648033 AACATGATTTGACGATCGAGATG 57.352 39.130 24.34 13.48 0.00 2.90
90 91 4.053983 ACATGATTTGACGATCGAGATGG 58.946 43.478 24.34 4.39 0.00 3.51
91 92 3.801114 TGATTTGACGATCGAGATGGT 57.199 42.857 24.34 0.00 32.33 3.55
92 93 4.123497 TGATTTGACGATCGAGATGGTT 57.877 40.909 24.34 0.00 29.74 3.67
93 94 4.503910 TGATTTGACGATCGAGATGGTTT 58.496 39.130 24.34 0.00 29.74 3.27
94 95 4.329801 TGATTTGACGATCGAGATGGTTTG 59.670 41.667 24.34 0.00 29.74 2.93
95 96 2.293677 TGACGATCGAGATGGTTTGG 57.706 50.000 24.34 0.00 29.74 3.28
96 97 1.822371 TGACGATCGAGATGGTTTGGA 59.178 47.619 24.34 0.00 29.74 3.53
97 98 2.430694 TGACGATCGAGATGGTTTGGAT 59.569 45.455 24.34 0.00 29.74 3.41
98 99 3.053455 GACGATCGAGATGGTTTGGATC 58.947 50.000 24.34 0.00 29.74 3.36
99 100 2.695666 ACGATCGAGATGGTTTGGATCT 59.304 45.455 24.34 0.00 33.15 2.75
100 101 3.055591 CGATCGAGATGGTTTGGATCTG 58.944 50.000 10.26 0.00 33.15 2.90
101 102 2.315925 TCGAGATGGTTTGGATCTGC 57.684 50.000 0.00 0.00 29.97 4.26
102 103 1.134401 TCGAGATGGTTTGGATCTGCC 60.134 52.381 0.00 0.00 29.97 4.85
103 104 1.685148 GAGATGGTTTGGATCTGCCC 58.315 55.000 0.00 0.00 34.97 5.36
104 105 1.002069 AGATGGTTTGGATCTGCCCA 58.998 50.000 0.00 0.00 34.97 5.36
105 106 1.572415 AGATGGTTTGGATCTGCCCAT 59.428 47.619 6.49 6.49 38.58 4.00
106 107 2.023695 AGATGGTTTGGATCTGCCCATT 60.024 45.455 7.74 0.00 36.08 3.16
107 108 2.323999 TGGTTTGGATCTGCCCATTT 57.676 45.000 0.00 0.00 35.87 2.32
108 109 1.901159 TGGTTTGGATCTGCCCATTTG 59.099 47.619 0.00 0.00 35.87 2.32
109 110 1.207811 GGTTTGGATCTGCCCATTTGG 59.792 52.381 0.00 0.00 35.87 3.28
110 111 2.178580 GTTTGGATCTGCCCATTTGGA 58.821 47.619 0.00 0.00 35.87 3.53
111 112 2.767960 GTTTGGATCTGCCCATTTGGAT 59.232 45.455 0.00 0.00 35.87 3.41
112 113 2.369983 TGGATCTGCCCATTTGGATC 57.630 50.000 0.00 0.00 37.39 3.36
113 114 1.854939 TGGATCTGCCCATTTGGATCT 59.145 47.619 0.00 0.00 37.39 2.75
114 115 2.245546 TGGATCTGCCCATTTGGATCTT 59.754 45.455 0.00 0.00 37.39 2.40
115 116 3.303049 GGATCTGCCCATTTGGATCTTT 58.697 45.455 0.00 0.00 37.39 2.52
116 117 3.708121 GGATCTGCCCATTTGGATCTTTT 59.292 43.478 0.00 0.00 37.39 2.27
117 118 4.162888 GGATCTGCCCATTTGGATCTTTTT 59.837 41.667 0.00 0.00 37.39 1.94
118 119 5.363580 GGATCTGCCCATTTGGATCTTTTTA 59.636 40.000 0.00 0.00 37.39 1.52
119 120 6.042437 GGATCTGCCCATTTGGATCTTTTTAT 59.958 38.462 0.00 0.00 37.39 1.40
120 121 7.233348 GGATCTGCCCATTTGGATCTTTTTATA 59.767 37.037 0.00 0.00 37.39 0.98
121 122 8.731591 ATCTGCCCATTTGGATCTTTTTATAT 57.268 30.769 0.00 0.00 37.39 0.86
122 123 8.551682 TCTGCCCATTTGGATCTTTTTATATT 57.448 30.769 0.00 0.00 37.39 1.28
123 124 8.423349 TCTGCCCATTTGGATCTTTTTATATTG 58.577 33.333 0.00 0.00 37.39 1.90
124 125 7.507829 TGCCCATTTGGATCTTTTTATATTGG 58.492 34.615 0.00 0.00 37.39 3.16
125 126 7.127032 TGCCCATTTGGATCTTTTTATATTGGT 59.873 33.333 0.00 0.00 37.39 3.67
126 127 8.646900 GCCCATTTGGATCTTTTTATATTGGTA 58.353 33.333 0.00 0.00 37.39 3.25
162 163 0.108804 GATCCGTCCACGAAGAAGCA 60.109 55.000 0.00 0.00 43.02 3.91
274 277 9.958180 TCTCTTATCCATGAATTACTTCACAAA 57.042 29.630 0.00 0.00 43.92 2.83
307 310 8.034804 AGAAAAATATGGGTTATCAACAACTGC 58.965 33.333 0.00 0.00 0.00 4.40
335 341 5.046735 AGGCTGGTATATATGACTTCTGCTG 60.047 44.000 0.00 0.00 0.00 4.41
349 355 8.534954 TGACTTCTGCTGGTTAATACTAGTAT 57.465 34.615 9.71 9.71 35.46 2.12
350 356 8.630917 TGACTTCTGCTGGTTAATACTAGTATC 58.369 37.037 15.72 4.32 35.46 2.24
352 358 8.414778 ACTTCTGCTGGTTAATACTAGTATCAC 58.585 37.037 15.72 14.35 35.46 3.06
353 359 8.534954 TTCTGCTGGTTAATACTAGTATCACT 57.465 34.615 15.72 3.50 35.46 3.41
355 361 9.064706 TCTGCTGGTTAATACTAGTATCACTAC 57.935 37.037 15.72 10.75 35.46 2.73
356 362 8.756486 TGCTGGTTAATACTAGTATCACTACA 57.244 34.615 15.72 10.37 35.46 2.74
358 364 8.848182 GCTGGTTAATACTAGTATCACTACAGT 58.152 37.037 15.72 0.67 35.46 3.55
360 366 9.347240 TGGTTAATACTAGTATCACTACAGTCC 57.653 37.037 15.72 8.79 0.00 3.85
361 367 9.571816 GGTTAATACTAGTATCACTACAGTCCT 57.428 37.037 15.72 0.00 0.00 3.85
365 371 9.558396 AATACTAGTATCACTACAGTCCTGTAC 57.442 37.037 15.72 0.00 44.42 2.90
366 372 6.955364 ACTAGTATCACTACAGTCCTGTACA 58.045 40.000 3.06 0.00 44.42 2.90
367 373 7.049133 ACTAGTATCACTACAGTCCTGTACAG 58.951 42.308 16.34 16.34 44.42 2.74
368 374 5.817784 AGTATCACTACAGTCCTGTACAGT 58.182 41.667 21.18 6.05 44.42 3.55
369 375 6.955364 AGTATCACTACAGTCCTGTACAGTA 58.045 40.000 21.18 2.56 44.42 2.74
370 376 6.822676 AGTATCACTACAGTCCTGTACAGTAC 59.177 42.308 21.18 15.94 44.42 2.73
371 377 5.238624 TCACTACAGTCCTGTACAGTACT 57.761 43.478 21.18 18.03 44.42 2.73
372 378 6.364568 TCACTACAGTCCTGTACAGTACTA 57.635 41.667 19.46 5.92 44.42 1.82
373 379 6.169094 TCACTACAGTCCTGTACAGTACTAC 58.831 44.000 19.46 12.38 44.42 2.73
374 380 5.353678 CACTACAGTCCTGTACAGTACTACC 59.646 48.000 19.46 2.39 44.42 3.18
375 381 3.341823 ACAGTCCTGTACAGTACTACCG 58.658 50.000 19.46 10.97 42.90 4.02
376 382 2.681848 CAGTCCTGTACAGTACTACCGG 59.318 54.545 19.46 0.00 0.00 5.28
377 383 1.403323 GTCCTGTACAGTACTACCGGC 59.597 57.143 21.18 2.10 0.00 6.13
378 384 1.004628 TCCTGTACAGTACTACCGGCA 59.995 52.381 21.18 0.00 0.00 5.69
379 385 1.404391 CCTGTACAGTACTACCGGCAG 59.596 57.143 21.18 0.00 0.00 4.85
380 386 0.813184 TGTACAGTACTACCGGCAGC 59.187 55.000 12.07 0.00 0.00 5.25
381 387 0.813184 GTACAGTACTACCGGCAGCA 59.187 55.000 0.00 0.00 0.00 4.41
382 388 1.407979 GTACAGTACTACCGGCAGCAT 59.592 52.381 0.00 0.00 0.00 3.79
383 389 0.460311 ACAGTACTACCGGCAGCATC 59.540 55.000 0.00 0.00 0.00 3.91
384 390 0.595053 CAGTACTACCGGCAGCATCG 60.595 60.000 0.00 0.00 0.00 3.84
385 391 0.750546 AGTACTACCGGCAGCATCGA 60.751 55.000 0.00 0.00 0.00 3.59
386 392 0.317938 GTACTACCGGCAGCATCGAG 60.318 60.000 0.00 0.00 0.00 4.04
387 393 0.464916 TACTACCGGCAGCATCGAGA 60.465 55.000 0.00 0.00 0.00 4.04
388 394 1.320344 ACTACCGGCAGCATCGAGAA 61.320 55.000 0.00 0.00 0.00 2.87
389 395 0.032678 CTACCGGCAGCATCGAGAAT 59.967 55.000 0.00 0.00 0.00 2.40
390 396 0.249447 TACCGGCAGCATCGAGAATG 60.249 55.000 0.00 0.00 38.50 2.67
391 397 1.522355 CCGGCAGCATCGAGAATGT 60.522 57.895 0.00 0.00 37.71 2.71
392 398 1.640069 CGGCAGCATCGAGAATGTG 59.360 57.895 0.00 0.00 37.71 3.21
393 399 0.807275 CGGCAGCATCGAGAATGTGA 60.807 55.000 0.00 0.00 37.71 3.58
394 400 0.654683 GGCAGCATCGAGAATGTGAC 59.345 55.000 0.00 0.00 37.71 3.67
408 414 7.544217 TCGAGAATGTGACGAAATTAAAGATGA 59.456 33.333 0.00 0.00 33.20 2.92
474 480 5.624159 TGAACATGTTGAGGATTCAGAGTT 58.376 37.500 17.58 0.00 34.15 3.01
480 486 6.174720 TGTTGAGGATTCAGAGTTAAGTGT 57.825 37.500 0.00 0.00 34.15 3.55
496 502 7.217200 AGTTAAGTGTACTCTTTGCTCATCAA 58.783 34.615 14.87 0.00 0.00 2.57
502 508 6.150140 GTGTACTCTTTGCTCATCAAGGATTT 59.850 38.462 0.00 0.00 39.59 2.17
503 509 5.640189 ACTCTTTGCTCATCAAGGATTTG 57.360 39.130 0.00 0.00 39.59 2.32
511 517 2.091885 TCATCAAGGATTTGGGGTAGGC 60.092 50.000 0.00 0.00 34.97 3.93
545 551 1.722034 AGTCAGTCAGGACCATGTGT 58.278 50.000 0.00 0.00 38.59 3.72
625 636 5.123227 GCCTAACTATGCCTGTTCAACATA 58.877 41.667 0.00 0.00 0.00 2.29
643 654 4.712476 ACATATGCATCCCTTCTTCACTC 58.288 43.478 0.19 0.00 0.00 3.51
644 655 4.411540 ACATATGCATCCCTTCTTCACTCT 59.588 41.667 0.19 0.00 0.00 3.24
645 656 2.775911 TGCATCCCTTCTTCACTCTG 57.224 50.000 0.00 0.00 0.00 3.35
647 658 2.016096 GCATCCCTTCTTCACTCTGCC 61.016 57.143 0.00 0.00 0.00 4.85
958 1530 6.210584 CACCATAAATCCCCTTGTTACAACTT 59.789 38.462 0.00 0.00 0.00 2.66
1134 1706 1.375268 GAAGAGAGCCAAGCTGCGT 60.375 57.895 0.00 0.00 39.88 5.24
1289 1861 0.891373 CTGGACATCGACCAGTCTGT 59.109 55.000 11.48 0.00 46.71 3.41
1305 1877 0.865769 CTGTCACCGCTACCAACAAC 59.134 55.000 0.00 0.00 0.00 3.32
1306 1878 0.178301 TGTCACCGCTACCAACAACA 59.822 50.000 0.00 0.00 0.00 3.33
1307 1879 1.301423 GTCACCGCTACCAACAACAA 58.699 50.000 0.00 0.00 0.00 2.83
1308 1880 1.003223 GTCACCGCTACCAACAACAAC 60.003 52.381 0.00 0.00 0.00 3.32
1309 1881 1.018148 CACCGCTACCAACAACAACA 58.982 50.000 0.00 0.00 0.00 3.33
1310 1882 1.402259 CACCGCTACCAACAACAACAA 59.598 47.619 0.00 0.00 0.00 2.83
1311 1883 1.402613 ACCGCTACCAACAACAACAAC 59.597 47.619 0.00 0.00 0.00 3.32
1312 1884 1.402259 CCGCTACCAACAACAACAACA 59.598 47.619 0.00 0.00 0.00 3.33
1313 1885 2.159366 CCGCTACCAACAACAACAACAA 60.159 45.455 0.00 0.00 0.00 2.83
1314 1886 2.849473 CGCTACCAACAACAACAACAAC 59.151 45.455 0.00 0.00 0.00 3.32
1315 1887 3.670895 CGCTACCAACAACAACAACAACA 60.671 43.478 0.00 0.00 0.00 3.33
1316 1888 4.238514 GCTACCAACAACAACAACAACAA 58.761 39.130 0.00 0.00 0.00 2.83
1338 1913 1.973281 CAACAACAGCGGAGGCCAT 60.973 57.895 5.01 0.00 41.24 4.40
1413 1988 4.332828 TCTATATCCATGACCGTGACGAT 58.667 43.478 6.54 0.00 0.00 3.73
1420 1995 0.386113 TGACCGTGACGATGACAACA 59.614 50.000 6.54 0.00 0.00 3.33
1431 2006 2.710760 GATGACAACACGCGTTTTTCA 58.289 42.857 10.22 15.96 31.13 2.69
1437 2012 3.242903 ACAACACGCGTTTTTCATCATCA 60.243 39.130 10.22 0.00 31.13 3.07
1483 2058 3.268965 GACGAGACGCAGCTCACCA 62.269 63.158 0.00 0.00 34.56 4.17
1524 2099 3.243569 CGAACTCAGTCAAGGAAGACACT 60.244 47.826 0.00 0.00 40.98 3.55
1585 2160 3.840666 GGCCATAGTCCTATTCTCCATGA 59.159 47.826 0.00 0.00 0.00 3.07
1690 2265 4.221924 ACTTCTTGGAGGAGCTACTCTTTC 59.778 45.833 25.23 9.73 37.63 2.62
1959 2536 5.360591 ACATCTTCCTGTATTGAATCCGAC 58.639 41.667 0.00 0.00 0.00 4.79
2042 2619 6.037940 AGGATTGATTTGATTCGTCATGTCTG 59.962 38.462 0.00 0.00 0.00 3.51
2085 2662 1.388065 CCTCGATCGTCTGCCCTCTT 61.388 60.000 15.94 0.00 0.00 2.85
2087 2664 1.298713 CGATCGTCTGCCCTCTTCG 60.299 63.158 7.03 0.00 0.00 3.79
2154 2731 4.530875 CATCAACTAATTCAGAGGGGCTT 58.469 43.478 0.00 0.00 0.00 4.35
2195 2772 4.566907 TACACTAATGTCCCTTCCAAAGGC 60.567 45.833 0.00 0.00 42.78 4.35
2196 2773 6.991580 TACACTAATGTCCCTTCCAAAGGCA 61.992 44.000 0.00 0.00 42.78 4.75
2262 2843 9.220767 ACCTGTAGTTTTGAAGAGTGATTAATC 57.779 33.333 8.60 8.60 0.00 1.75
2461 3048 4.613925 TTGCAGGATATCAGGATCAGAC 57.386 45.455 4.83 0.00 0.00 3.51
2555 3146 4.241590 TCACAGTTTGCATGGATTTGAC 57.758 40.909 0.00 0.00 0.00 3.18
2714 3311 0.172578 CTCTGTCGTTGACGGCCATA 59.827 55.000 2.24 0.00 44.42 2.74
2882 3481 7.174772 ACAAATACATTGATCTGTACAAGTGCA 59.825 33.333 0.00 0.00 41.85 4.57
2888 3487 3.069443 TGATCTGTACAAGTGCAGTGTCA 59.931 43.478 16.07 16.82 42.71 3.58
2890 3489 1.522676 CTGTACAAGTGCAGTGTCACG 59.477 52.381 9.73 0.00 41.61 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 5.521010 CGTTTAACGCTCTAATTATCCACCA 59.479 40.000 4.11 0.00 33.65 4.17
3 4 5.970879 CGTTTAACGCTCTAATTATCCACC 58.029 41.667 4.11 0.00 33.65 4.61
12 13 9.601364 GAGCATCAAACACGTTTAACGCTCTAA 62.601 40.741 17.81 0.00 39.52 2.10
13 14 8.239637 GAGCATCAAACACGTTTAACGCTCTA 62.240 42.308 17.81 0.00 39.52 2.43
14 15 7.520856 GAGCATCAAACACGTTTAACGCTCT 62.521 44.000 17.81 0.00 39.52 4.09
15 16 5.409802 GAGCATCAAACACGTTTAACGCTC 61.410 45.833 17.81 16.74 39.52 5.03
16 17 3.606153 GAGCATCAAACACGTTTAACGCT 60.606 43.478 17.81 2.75 39.52 5.07
17 18 2.650297 GAGCATCAAACACGTTTAACGC 59.350 45.455 17.81 0.00 39.52 4.84
18 19 3.867665 TGAGCATCAAACACGTTTAACG 58.132 40.909 16.31 16.31 45.97 3.18
32 33 3.687572 ATCGCTTCAATGTTGAGCATC 57.312 42.857 13.55 0.00 38.61 3.91
33 34 4.082625 TCAAATCGCTTCAATGTTGAGCAT 60.083 37.500 13.55 6.92 38.61 3.79
34 35 3.252944 TCAAATCGCTTCAATGTTGAGCA 59.747 39.130 13.55 5.58 38.61 4.26
35 36 3.825308 TCAAATCGCTTCAATGTTGAGC 58.175 40.909 0.00 2.30 38.61 4.26
36 37 6.550371 GATTCAAATCGCTTCAATGTTGAG 57.450 37.500 0.00 0.00 38.61 3.02
51 52 9.888878 CAAATCATGTTATCTAGCGATTCAAAT 57.111 29.630 0.00 0.00 0.00 2.32
52 53 9.108284 TCAAATCATGTTATCTAGCGATTCAAA 57.892 29.630 0.00 0.00 0.00 2.69
53 54 8.551205 GTCAAATCATGTTATCTAGCGATTCAA 58.449 33.333 0.00 0.00 0.00 2.69
54 55 7.096065 CGTCAAATCATGTTATCTAGCGATTCA 60.096 37.037 0.00 0.00 0.00 2.57
55 56 7.114953 TCGTCAAATCATGTTATCTAGCGATTC 59.885 37.037 0.00 0.00 0.00 2.52
56 57 6.923508 TCGTCAAATCATGTTATCTAGCGATT 59.076 34.615 0.00 0.00 0.00 3.34
57 58 6.447162 TCGTCAAATCATGTTATCTAGCGAT 58.553 36.000 0.00 0.00 0.00 4.58
58 59 5.827666 TCGTCAAATCATGTTATCTAGCGA 58.172 37.500 0.00 0.00 0.00 4.93
59 60 6.451700 CGATCGTCAAATCATGTTATCTAGCG 60.452 42.308 7.03 0.00 0.00 4.26
60 61 6.582672 TCGATCGTCAAATCATGTTATCTAGC 59.417 38.462 15.94 0.00 0.00 3.42
61 62 8.017946 TCTCGATCGTCAAATCATGTTATCTAG 58.982 37.037 15.94 0.00 0.00 2.43
62 63 7.871853 TCTCGATCGTCAAATCATGTTATCTA 58.128 34.615 15.94 0.00 0.00 1.98
63 64 6.739112 TCTCGATCGTCAAATCATGTTATCT 58.261 36.000 15.94 0.00 0.00 1.98
64 65 6.993175 TCTCGATCGTCAAATCATGTTATC 57.007 37.500 15.94 0.00 0.00 1.75
65 66 6.367149 CCATCTCGATCGTCAAATCATGTTAT 59.633 38.462 15.94 0.00 0.00 1.89
66 67 5.691754 CCATCTCGATCGTCAAATCATGTTA 59.308 40.000 15.94 0.00 0.00 2.41
67 68 4.509230 CCATCTCGATCGTCAAATCATGTT 59.491 41.667 15.94 0.00 0.00 2.71
68 69 4.053983 CCATCTCGATCGTCAAATCATGT 58.946 43.478 15.94 0.00 0.00 3.21
69 70 4.053983 ACCATCTCGATCGTCAAATCATG 58.946 43.478 15.94 7.61 0.00 3.07
70 71 4.327982 ACCATCTCGATCGTCAAATCAT 57.672 40.909 15.94 0.00 0.00 2.45
71 72 3.801114 ACCATCTCGATCGTCAAATCA 57.199 42.857 15.94 0.00 0.00 2.57
72 73 4.260375 CCAAACCATCTCGATCGTCAAATC 60.260 45.833 15.94 0.00 0.00 2.17
73 74 3.623060 CCAAACCATCTCGATCGTCAAAT 59.377 43.478 15.94 1.96 0.00 2.32
74 75 3.000041 CCAAACCATCTCGATCGTCAAA 59.000 45.455 15.94 0.00 0.00 2.69
75 76 2.232696 TCCAAACCATCTCGATCGTCAA 59.767 45.455 15.94 2.07 0.00 3.18
76 77 1.822371 TCCAAACCATCTCGATCGTCA 59.178 47.619 15.94 2.92 0.00 4.35
77 78 2.579207 TCCAAACCATCTCGATCGTC 57.421 50.000 15.94 0.00 0.00 4.20
78 79 2.695666 AGATCCAAACCATCTCGATCGT 59.304 45.455 15.94 0.00 35.56 3.73
79 80 3.055591 CAGATCCAAACCATCTCGATCG 58.944 50.000 9.36 9.36 35.56 3.69
80 81 2.805099 GCAGATCCAAACCATCTCGATC 59.195 50.000 0.00 0.00 0.00 3.69
81 82 2.486191 GGCAGATCCAAACCATCTCGAT 60.486 50.000 0.00 0.00 34.01 3.59
82 83 1.134401 GGCAGATCCAAACCATCTCGA 60.134 52.381 0.00 0.00 34.01 4.04
83 84 1.303309 GGCAGATCCAAACCATCTCG 58.697 55.000 0.00 0.00 34.01 4.04
84 85 1.064463 TGGGCAGATCCAAACCATCTC 60.064 52.381 0.00 0.00 36.21 2.75
85 86 1.002069 TGGGCAGATCCAAACCATCT 58.998 50.000 0.00 0.00 36.21 2.90
86 87 2.077687 ATGGGCAGATCCAAACCATC 57.922 50.000 3.70 0.00 37.35 3.51
87 88 2.502538 CAAATGGGCAGATCCAAACCAT 59.497 45.455 3.70 3.70 43.39 3.55
88 89 1.901159 CAAATGGGCAGATCCAAACCA 59.099 47.619 0.00 0.00 40.62 3.67
89 90 1.207811 CCAAATGGGCAGATCCAAACC 59.792 52.381 0.00 0.00 40.62 3.27
90 91 2.178580 TCCAAATGGGCAGATCCAAAC 58.821 47.619 0.00 0.00 40.62 2.93
91 92 2.619697 TCCAAATGGGCAGATCCAAA 57.380 45.000 0.00 0.00 40.62 3.28
92 93 2.245546 AGATCCAAATGGGCAGATCCAA 59.754 45.455 0.00 0.00 40.62 3.53
93 94 1.854939 AGATCCAAATGGGCAGATCCA 59.145 47.619 0.00 0.00 41.60 3.41
94 95 2.671896 AGATCCAAATGGGCAGATCC 57.328 50.000 0.00 0.00 36.59 3.36
95 96 5.349061 AAAAAGATCCAAATGGGCAGATC 57.651 39.130 0.00 0.00 36.25 2.75
96 97 8.731591 ATATAAAAAGATCCAAATGGGCAGAT 57.268 30.769 0.00 0.00 36.21 2.90
97 98 8.423349 CAATATAAAAAGATCCAAATGGGCAGA 58.577 33.333 0.00 0.00 36.21 4.26
98 99 7.658575 CCAATATAAAAAGATCCAAATGGGCAG 59.341 37.037 0.00 0.00 36.21 4.85
99 100 7.127032 ACCAATATAAAAAGATCCAAATGGGCA 59.873 33.333 0.00 0.00 36.21 5.36
100 101 7.508687 ACCAATATAAAAAGATCCAAATGGGC 58.491 34.615 0.00 0.00 36.21 5.36
120 121 9.236006 GATCCACTTGCAAATATCTATACCAAT 57.764 33.333 0.00 0.00 0.00 3.16
121 122 7.665559 GGATCCACTTGCAAATATCTATACCAA 59.334 37.037 6.95 0.00 0.00 3.67
122 123 7.168219 GGATCCACTTGCAAATATCTATACCA 58.832 38.462 6.95 0.00 0.00 3.25
123 124 6.313905 CGGATCCACTTGCAAATATCTATACC 59.686 42.308 13.41 0.00 0.00 2.73
124 125 6.874134 ACGGATCCACTTGCAAATATCTATAC 59.126 38.462 13.41 0.00 0.00 1.47
125 126 7.004555 ACGGATCCACTTGCAAATATCTATA 57.995 36.000 13.41 0.00 0.00 1.31
126 127 5.869579 ACGGATCCACTTGCAAATATCTAT 58.130 37.500 13.41 0.00 0.00 1.98
127 128 5.290493 ACGGATCCACTTGCAAATATCTA 57.710 39.130 13.41 0.00 0.00 1.98
128 129 4.130118 GACGGATCCACTTGCAAATATCT 58.870 43.478 13.41 0.00 0.00 1.98
129 130 3.251004 GGACGGATCCACTTGCAAATATC 59.749 47.826 13.41 1.29 45.47 1.63
130 131 3.214328 GGACGGATCCACTTGCAAATAT 58.786 45.455 13.41 0.00 45.47 1.28
131 132 2.639065 GGACGGATCCACTTGCAAATA 58.361 47.619 13.41 0.00 45.47 1.40
132 133 1.463674 GGACGGATCCACTTGCAAAT 58.536 50.000 13.41 0.00 45.47 2.32
133 134 2.941210 GGACGGATCCACTTGCAAA 58.059 52.632 13.41 0.00 45.47 3.68
134 135 4.713946 GGACGGATCCACTTGCAA 57.286 55.556 13.41 0.00 45.47 4.08
143 144 0.108804 TGCTTCTTCGTGGACGGATC 60.109 55.000 0.00 0.00 40.29 3.36
162 163 2.140717 GCACGGTGTTAAAGCAGTAGT 58.859 47.619 10.24 0.00 0.00 2.73
296 299 1.962144 GCCTGCAGCAGTTGTTGAT 59.038 52.632 21.26 0.00 42.97 2.57
307 310 4.815533 AGTCATATATACCAGCCTGCAG 57.184 45.455 6.78 6.78 0.00 4.41
335 341 9.571816 AGGACTGTAGTGATACTAGTATTAACC 57.428 37.037 16.46 4.79 30.12 2.85
343 349 7.049133 ACTGTACAGGACTGTAGTGATACTAG 58.951 42.308 26.12 5.85 45.61 2.57
346 352 7.014092 GTACTGTACAGGACTGTAGTGATAC 57.986 44.000 27.94 12.30 45.61 2.24
358 364 1.004628 TGCCGGTAGTACTGTACAGGA 59.995 52.381 26.12 16.51 39.81 3.86
359 365 1.404391 CTGCCGGTAGTACTGTACAGG 59.596 57.143 26.12 15.98 40.24 4.00
360 366 1.202268 GCTGCCGGTAGTACTGTACAG 60.202 57.143 21.44 21.44 32.82 2.74
361 367 0.813184 GCTGCCGGTAGTACTGTACA 59.187 55.000 21.31 0.00 0.00 2.90
362 368 0.813184 TGCTGCCGGTAGTACTGTAC 59.187 55.000 21.31 9.93 0.00 2.90
363 369 1.679680 GATGCTGCCGGTAGTACTGTA 59.320 52.381 21.31 0.00 0.00 2.74
364 370 0.460311 GATGCTGCCGGTAGTACTGT 59.540 55.000 21.31 1.24 0.00 3.55
365 371 0.595053 CGATGCTGCCGGTAGTACTG 60.595 60.000 21.31 8.85 0.00 2.74
366 372 0.750546 TCGATGCTGCCGGTAGTACT 60.751 55.000 21.31 6.83 0.00 2.73
367 373 0.317938 CTCGATGCTGCCGGTAGTAC 60.318 60.000 21.31 11.27 0.00 2.73
368 374 0.464916 TCTCGATGCTGCCGGTAGTA 60.465 55.000 21.31 17.57 0.00 1.82
369 375 1.320344 TTCTCGATGCTGCCGGTAGT 61.320 55.000 21.31 1.27 0.00 2.73
370 376 0.032678 ATTCTCGATGCTGCCGGTAG 59.967 55.000 16.18 16.18 0.00 3.18
371 377 0.249447 CATTCTCGATGCTGCCGGTA 60.249 55.000 1.90 0.00 0.00 4.02
372 378 1.522355 CATTCTCGATGCTGCCGGT 60.522 57.895 1.90 0.00 0.00 5.28
373 379 1.522355 ACATTCTCGATGCTGCCGG 60.522 57.895 0.00 0.00 39.47 6.13
374 380 0.807275 TCACATTCTCGATGCTGCCG 60.807 55.000 0.00 0.00 39.47 5.69
375 381 0.654683 GTCACATTCTCGATGCTGCC 59.345 55.000 0.00 0.00 39.47 4.85
376 382 0.299895 CGTCACATTCTCGATGCTGC 59.700 55.000 0.00 0.00 39.47 5.25
377 383 1.913317 TCGTCACATTCTCGATGCTG 58.087 50.000 0.00 0.00 39.47 4.41
378 384 2.654749 TTCGTCACATTCTCGATGCT 57.345 45.000 0.00 0.00 39.47 3.79
379 385 3.933155 ATTTCGTCACATTCTCGATGC 57.067 42.857 0.00 0.00 39.47 3.91
380 386 7.675478 TCTTTAATTTCGTCACATTCTCGATG 58.325 34.615 0.00 0.00 41.71 3.84
381 387 7.827819 TCTTTAATTTCGTCACATTCTCGAT 57.172 32.000 0.00 0.00 33.72 3.59
382 388 7.544217 TCATCTTTAATTTCGTCACATTCTCGA 59.456 33.333 0.00 0.00 0.00 4.04
383 389 7.632515 GTCATCTTTAATTTCGTCACATTCTCG 59.367 37.037 0.00 0.00 0.00 4.04
384 390 8.660373 AGTCATCTTTAATTTCGTCACATTCTC 58.340 33.333 0.00 0.00 0.00 2.87
385 391 8.446273 CAGTCATCTTTAATTTCGTCACATTCT 58.554 33.333 0.00 0.00 0.00 2.40
386 392 8.443160 TCAGTCATCTTTAATTTCGTCACATTC 58.557 33.333 0.00 0.00 0.00 2.67
387 393 8.230486 GTCAGTCATCTTTAATTTCGTCACATT 58.770 33.333 0.00 0.00 0.00 2.71
388 394 7.387673 TGTCAGTCATCTTTAATTTCGTCACAT 59.612 33.333 0.00 0.00 0.00 3.21
389 395 6.704050 TGTCAGTCATCTTTAATTTCGTCACA 59.296 34.615 0.00 0.00 0.00 3.58
390 396 7.117241 TGTCAGTCATCTTTAATTTCGTCAC 57.883 36.000 0.00 0.00 0.00 3.67
391 397 7.095229 CCTTGTCAGTCATCTTTAATTTCGTCA 60.095 37.037 0.00 0.00 0.00 4.35
392 398 7.095187 ACCTTGTCAGTCATCTTTAATTTCGTC 60.095 37.037 0.00 0.00 0.00 4.20
393 399 6.710744 ACCTTGTCAGTCATCTTTAATTTCGT 59.289 34.615 0.00 0.00 0.00 3.85
394 400 7.133891 ACCTTGTCAGTCATCTTTAATTTCG 57.866 36.000 0.00 0.00 0.00 3.46
408 414 1.279271 GAGGCATGGTACCTTGTCAGT 59.721 52.381 28.31 13.22 37.77 3.41
474 480 6.014584 TCCTTGATGAGCAAAGAGTACACTTA 60.015 38.462 5.96 0.00 35.74 2.24
480 486 5.649395 CCAAATCCTTGATGAGCAAAGAGTA 59.351 40.000 0.00 0.00 35.74 2.59
496 502 0.552615 ACCTGCCTACCCCAAATCCT 60.553 55.000 0.00 0.00 0.00 3.24
502 508 0.548926 TGAATGACCTGCCTACCCCA 60.549 55.000 0.00 0.00 0.00 4.96
503 509 0.107165 GTGAATGACCTGCCTACCCC 60.107 60.000 0.00 0.00 0.00 4.95
511 517 3.470709 ACTGACTTGTGTGAATGACCTG 58.529 45.455 0.00 0.00 0.00 4.00
545 551 6.272090 TGCAATCCCACTAATACCAGATCATA 59.728 38.462 0.00 0.00 0.00 2.15
611 622 2.689471 GGATGCATATGTTGAACAGGCA 59.311 45.455 19.38 19.38 37.76 4.75
625 636 2.683152 GCAGAGTGAAGAAGGGATGCAT 60.683 50.000 0.00 0.00 32.79 3.96
864 1407 5.049405 GCAGTAACTTTGTAACAGCATGACT 60.049 40.000 0.00 0.00 39.69 3.41
865 1408 5.147162 GCAGTAACTTTGTAACAGCATGAC 58.853 41.667 0.00 0.00 39.69 3.06
866 1409 4.819088 TGCAGTAACTTTGTAACAGCATGA 59.181 37.500 0.00 0.00 39.69 3.07
867 1410 5.049474 TCTGCAGTAACTTTGTAACAGCATG 60.049 40.000 14.67 0.00 46.00 4.06
868 1411 5.063204 TCTGCAGTAACTTTGTAACAGCAT 58.937 37.500 14.67 0.00 35.50 3.79
869 1412 4.447290 TCTGCAGTAACTTTGTAACAGCA 58.553 39.130 14.67 0.00 34.91 4.41
870 1413 4.083802 CCTCTGCAGTAACTTTGTAACAGC 60.084 45.833 14.67 0.00 0.00 4.40
871 1414 4.083802 GCCTCTGCAGTAACTTTGTAACAG 60.084 45.833 14.67 0.00 37.47 3.16
958 1530 4.142790 TGGTGTTTTATTGCGTTAAGGGA 58.857 39.130 0.00 0.00 0.00 4.20
1285 1857 0.753867 TTGTTGGTAGCGGTGACAGA 59.246 50.000 0.00 0.00 0.00 3.41
1287 1859 0.178301 TGTTGTTGGTAGCGGTGACA 59.822 50.000 0.00 0.00 0.00 3.58
1289 1861 1.301423 GTTGTTGTTGGTAGCGGTGA 58.699 50.000 0.00 0.00 0.00 4.02
1305 1877 5.395325 TGTTGTTGTTGTTGTTGTTGTTG 57.605 34.783 0.00 0.00 0.00 3.33
1306 1878 4.025313 GCTGTTGTTGTTGTTGTTGTTGTT 60.025 37.500 0.00 0.00 0.00 2.83
1307 1879 3.492756 GCTGTTGTTGTTGTTGTTGTTGT 59.507 39.130 0.00 0.00 0.00 3.32
1308 1880 3.421569 CGCTGTTGTTGTTGTTGTTGTTG 60.422 43.478 0.00 0.00 0.00 3.33
1309 1881 2.728839 CGCTGTTGTTGTTGTTGTTGTT 59.271 40.909 0.00 0.00 0.00 2.83
1310 1882 2.323959 CGCTGTTGTTGTTGTTGTTGT 58.676 42.857 0.00 0.00 0.00 3.32
1311 1883 1.653114 CCGCTGTTGTTGTTGTTGTTG 59.347 47.619 0.00 0.00 0.00 3.33
1312 1884 1.542030 TCCGCTGTTGTTGTTGTTGTT 59.458 42.857 0.00 0.00 0.00 2.83
1313 1885 1.132262 CTCCGCTGTTGTTGTTGTTGT 59.868 47.619 0.00 0.00 0.00 3.32
1314 1886 1.533756 CCTCCGCTGTTGTTGTTGTTG 60.534 52.381 0.00 0.00 0.00 3.33
1315 1887 0.738389 CCTCCGCTGTTGTTGTTGTT 59.262 50.000 0.00 0.00 0.00 2.83
1316 1888 1.724582 GCCTCCGCTGTTGTTGTTGT 61.725 55.000 0.00 0.00 0.00 3.32
1413 1988 2.096013 TGATGAAAAACGCGTGTTGTCA 59.904 40.909 23.07 23.07 38.62 3.58
1420 1995 1.199097 GGGTGATGATGAAAAACGCGT 59.801 47.619 5.58 5.58 0.00 6.01
1431 2006 1.048724 ATGACGTCCCGGGTGATGAT 61.049 55.000 22.86 5.79 0.00 2.45
1483 2058 1.270839 CGACAAGGATGGTGTTCCTGT 60.271 52.381 0.00 0.00 45.63 4.00
1585 2160 1.346722 CCTGAAGTCGGTGTAAGGGTT 59.653 52.381 0.00 0.00 0.00 4.11
1690 2265 0.038251 TCGTTGAGCTGCAGGTAGTG 60.038 55.000 20.22 9.35 0.00 2.74
1959 2536 6.038985 CCCATATATCTGTCTACAGCATTCG 58.961 44.000 5.21 0.00 43.46 3.34
2042 2619 4.641989 TGTGTAATAGACTACCTCCGGTTC 59.358 45.833 0.00 0.00 37.09 3.62
2085 2662 1.672356 GGAAAGCAGAGCAAGGCGA 60.672 57.895 0.00 0.00 34.54 5.54
2087 2664 1.826385 TAAGGAAAGCAGAGCAAGGC 58.174 50.000 0.00 0.00 0.00 4.35
2195 2772 1.229428 TGCCAAAGACGAGAGCTTTG 58.771 50.000 0.00 0.00 45.78 2.77
2196 2773 1.604278 GTTGCCAAAGACGAGAGCTTT 59.396 47.619 0.00 0.00 37.73 3.51
2262 2843 9.546428 AAACAAATTAAGTCAAAAATCTGGAGG 57.454 29.630 0.00 0.00 0.00 4.30
2427 3014 8.467963 TGATATCCTGCAATGTTCAACAATAT 57.532 30.769 0.00 0.00 0.00 1.28
2555 3146 1.284657 CCTTGAGTACTGCTGATGCG 58.715 55.000 0.00 0.00 43.34 4.73
2714 3311 3.127548 GTCAGTCATCGCACCAATTGAAT 59.872 43.478 7.12 0.00 0.00 2.57
2882 3481 7.982761 TTAAAATTGGTATTACCGTGACACT 57.017 32.000 8.32 0.00 42.58 3.55
2918 3517 0.477204 CTCCCATGCCTGATCCACAT 59.523 55.000 0.00 0.00 0.00 3.21


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

AutoCloner maintained by Alex Coulton.