Multiple sequence alignment - TraesCS2D01G096300

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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 TraesCS2D01G096300 chr2D 100.000 2608 0 0 1 2608 48326009 48328616 0.000000e+00 4817
1 TraesCS2D01G096300 chr2D 82.609 989 95 31 115 1051 624778890 624779853 0.000000e+00 802
2 TraesCS2D01G096300 chr2D 87.500 152 16 2 1153 1302 624779852 624780002 3.450000e-39 172
3 TraesCS2D01G096300 chr2D 100.000 58 0 0 1382 1439 48327332 48327389 9.870000e-20 108
4 TraesCS2D01G096300 chr2D 100.000 58 0 0 1324 1381 48327390 48327447 9.870000e-20 108
5 TraesCS2D01G096300 chr7D 93.901 1279 59 8 115 1379 445148705 445147432 0.000000e+00 1912
6 TraesCS2D01G096300 chr7D 96.927 846 23 1 1766 2608 445146852 445146007 0.000000e+00 1415
7 TraesCS2D01G096300 chr7D 94.512 328 18 0 1382 1709 445147487 445147160 8.330000e-140 507
8 TraesCS2D01G096300 chr7D 87.848 395 47 1 1666 2060 450000762 450000369 1.830000e-126 462
9 TraesCS2D01G096300 chr6B 95.909 1149 42 3 1463 2608 27703675 27702529 0.000000e+00 1857
10 TraesCS2D01G096300 chr6B 95.858 507 15 1 2108 2608 701615137 701614631 0.000000e+00 815
11 TraesCS2D01G096300 chr6B 95.464 507 17 1 2108 2608 173811692 173812198 0.000000e+00 804
12 TraesCS2D01G096300 chr4B 94.605 760 41 0 1417 2176 283705732 283704973 0.000000e+00 1177
13 TraesCS2D01G096300 chr4B 92.904 606 35 6 197 798 283752961 283752360 0.000000e+00 874
14 TraesCS2D01G096300 chr4B 95.661 507 16 1 2108 2608 399950448 399949942 0.000000e+00 809
15 TraesCS2D01G096300 chr4B 93.699 492 25 3 873 1361 283727030 283726542 0.000000e+00 732
16 TraesCS2D01G096300 chr4B 93.822 259 14 2 1463 1720 339980643 339980386 3.150000e-104 388
17 TraesCS2D01G096300 chr4B 88.737 293 31 2 1678 1969 538699608 538699317 8.880000e-95 357
18 TraesCS2D01G096300 chrUn 97.089 584 17 0 2025 2608 361525666 361525083 0.000000e+00 985
19 TraesCS2D01G096300 chr2A 84.173 992 97 30 115 1051 755974154 755975140 0.000000e+00 907
20 TraesCS2D01G096300 chr2A 95.661 507 16 1 2108 2608 761489979 761489473 0.000000e+00 809
21 TraesCS2D01G096300 chr2A 87.179 156 18 1 1153 1306 755975139 755975294 2.670000e-40 176
22 TraesCS2D01G096300 chr7B 96.055 507 14 1 2108 2608 68664185 68664691 0.000000e+00 821
23 TraesCS2D01G096300 chr3A 95.464 507 17 2 2108 2608 61560016 61560522 0.000000e+00 804
24 TraesCS2D01G096300 chr3A 90.671 343 28 3 1629 1969 11822259 11821919 1.100000e-123 453
25 TraesCS2D01G096300 chr5A 96.451 479 17 0 1795 2273 685779803 685779325 0.000000e+00 791
26 TraesCS2D01G096300 chr2B 90.711 506 42 4 551 1051 767169686 767170191 0.000000e+00 669
27 TraesCS2D01G096300 chr2B 89.443 341 36 0 1629 1969 106129680 106130020 5.160000e-117 431
28 TraesCS2D01G096300 chr2B 79.598 348 44 13 219 542 767169306 767169650 9.390000e-55 224
29 TraesCS2D01G096300 chr2B 92.806 139 10 0 1920 2058 680008998 680008860 4.400000e-48 202
30 TraesCS2D01G096300 chr2B 94.828 116 4 1 4 117 159889106 159888991 2.060000e-41 180
31 TraesCS2D01G096300 chr1B 95.349 258 12 0 1463 1720 593223187 593223444 6.720000e-111 411
32 TraesCS2D01G096300 chr5B 90.411 292 27 1 1678 1969 696543764 696544054 1.460000e-102 383
33 TraesCS2D01G096300 chr6A 91.810 232 16 1 971 1202 121670052 121670280 1.160000e-83 320
34 TraesCS2D01G096300 chr4D 93.525 139 9 0 1920 2058 421967064 421967202 9.460000e-50 207
35 TraesCS2D01G096300 chr1D 92.806 139 10 0 1920 2058 462044881 462044743 4.400000e-48 202


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 TraesCS2D01G096300 chr2D 48326009 48328616 2607 False 1677.666667 4817 100.000000 1 2608 3 chr2D.!!$F1 2607
1 TraesCS2D01G096300 chr2D 624778890 624780002 1112 False 487.000000 802 85.054500 115 1302 2 chr2D.!!$F2 1187
2 TraesCS2D01G096300 chr7D 445146007 445148705 2698 True 1278.000000 1912 95.113333 115 2608 3 chr7D.!!$R2 2493
3 TraesCS2D01G096300 chr6B 27702529 27703675 1146 True 1857.000000 1857 95.909000 1463 2608 1 chr6B.!!$R1 1145
4 TraesCS2D01G096300 chr6B 701614631 701615137 506 True 815.000000 815 95.858000 2108 2608 1 chr6B.!!$R2 500
5 TraesCS2D01G096300 chr6B 173811692 173812198 506 False 804.000000 804 95.464000 2108 2608 1 chr6B.!!$F1 500
6 TraesCS2D01G096300 chr4B 283704973 283705732 759 True 1177.000000 1177 94.605000 1417 2176 1 chr4B.!!$R1 759
7 TraesCS2D01G096300 chr4B 283752360 283752961 601 True 874.000000 874 92.904000 197 798 1 chr4B.!!$R3 601
8 TraesCS2D01G096300 chr4B 399949942 399950448 506 True 809.000000 809 95.661000 2108 2608 1 chr4B.!!$R5 500
9 TraesCS2D01G096300 chrUn 361525083 361525666 583 True 985.000000 985 97.089000 2025 2608 1 chrUn.!!$R1 583
10 TraesCS2D01G096300 chr2A 761489473 761489979 506 True 809.000000 809 95.661000 2108 2608 1 chr2A.!!$R1 500
11 TraesCS2D01G096300 chr2A 755974154 755975294 1140 False 541.500000 907 85.676000 115 1306 2 chr2A.!!$F1 1191
12 TraesCS2D01G096300 chr7B 68664185 68664691 506 False 821.000000 821 96.055000 2108 2608 1 chr7B.!!$F1 500
13 TraesCS2D01G096300 chr3A 61560016 61560522 506 False 804.000000 804 95.464000 2108 2608 1 chr3A.!!$F1 500
14 TraesCS2D01G096300 chr2B 767169306 767170191 885 False 446.500000 669 85.154500 219 1051 2 chr2B.!!$F2 832

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
22 23 0.178992 CCTCATGTGTGTGGTTGGGT 60.179 55.0 0.0 0.0 34.91 4.51 F
1357 1431 0.034670 GCCAGGAGGAAAGTGCAGAT 60.035 55.0 0.0 0.0 36.89 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1396 1470 0.034670 ATCTGCACTTTCCTCCTGGC 60.035 55.000 0.0 0.0 0.0 4.85 R
2583 2919 3.146066 TCACAAAGCCAACCAGTACATC 58.854 45.455 0.0 0.0 0.0 3.06 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
17 18 2.032528 CCGCCTCATGTGTGTGGT 59.967 61.111 0.00 0.00 40.37 4.16
18 19 1.600636 CCGCCTCATGTGTGTGGTT 60.601 57.895 0.00 0.00 40.37 3.67
19 20 1.575922 CGCCTCATGTGTGTGGTTG 59.424 57.895 0.00 0.00 40.37 3.77
20 21 1.855213 CGCCTCATGTGTGTGGTTGG 61.855 60.000 0.00 0.00 40.37 3.77
21 22 1.526575 GCCTCATGTGTGTGGTTGGG 61.527 60.000 0.00 0.00 40.37 4.12
22 23 0.178992 CCTCATGTGTGTGGTTGGGT 60.179 55.000 0.00 0.00 34.91 4.51
23 24 0.953727 CTCATGTGTGTGGTTGGGTG 59.046 55.000 0.00 0.00 0.00 4.61
24 25 0.548510 TCATGTGTGTGGTTGGGTGA 59.451 50.000 0.00 0.00 0.00 4.02
25 26 1.144708 TCATGTGTGTGGTTGGGTGAT 59.855 47.619 0.00 0.00 0.00 3.06
26 27 2.373502 TCATGTGTGTGGTTGGGTGATA 59.626 45.455 0.00 0.00 0.00 2.15
27 28 3.010027 TCATGTGTGTGGTTGGGTGATAT 59.990 43.478 0.00 0.00 0.00 1.63
28 29 3.066291 TGTGTGTGGTTGGGTGATATC 57.934 47.619 0.00 0.00 0.00 1.63
29 30 2.642311 TGTGTGTGGTTGGGTGATATCT 59.358 45.455 3.98 0.00 0.00 1.98
30 31 3.270877 GTGTGTGGTTGGGTGATATCTC 58.729 50.000 3.98 0.00 0.00 2.75
31 32 3.055094 GTGTGTGGTTGGGTGATATCTCT 60.055 47.826 3.98 0.00 0.00 3.10
32 33 3.055167 TGTGTGGTTGGGTGATATCTCTG 60.055 47.826 3.98 0.00 0.00 3.35
33 34 2.092968 TGTGGTTGGGTGATATCTCTGC 60.093 50.000 3.98 0.00 0.00 4.26
34 35 2.171448 GTGGTTGGGTGATATCTCTGCT 59.829 50.000 3.98 0.00 0.00 4.24
35 36 2.846206 TGGTTGGGTGATATCTCTGCTT 59.154 45.455 3.98 0.00 0.00 3.91
36 37 3.266772 TGGTTGGGTGATATCTCTGCTTT 59.733 43.478 3.98 0.00 0.00 3.51
37 38 3.879892 GGTTGGGTGATATCTCTGCTTTC 59.120 47.826 3.98 0.00 0.00 2.62
38 39 3.845781 TGGGTGATATCTCTGCTTTCC 57.154 47.619 3.98 0.00 0.00 3.13
39 40 2.439507 TGGGTGATATCTCTGCTTTCCC 59.560 50.000 3.98 0.00 0.00 3.97
40 41 2.708325 GGGTGATATCTCTGCTTTCCCT 59.292 50.000 3.98 0.00 0.00 4.20
41 42 3.137360 GGGTGATATCTCTGCTTTCCCTT 59.863 47.826 3.98 0.00 0.00 3.95
42 43 4.133078 GGTGATATCTCTGCTTTCCCTTG 58.867 47.826 3.98 0.00 0.00 3.61
43 44 4.141620 GGTGATATCTCTGCTTTCCCTTGA 60.142 45.833 3.98 0.00 0.00 3.02
44 45 5.055812 GTGATATCTCTGCTTTCCCTTGAG 58.944 45.833 3.98 0.00 0.00 3.02
45 46 4.102210 TGATATCTCTGCTTTCCCTTGAGG 59.898 45.833 3.98 0.00 0.00 3.86
46 47 1.734655 TCTCTGCTTTCCCTTGAGGT 58.265 50.000 0.00 0.00 36.75 3.85
47 48 1.625818 TCTCTGCTTTCCCTTGAGGTC 59.374 52.381 0.00 0.00 36.75 3.85
48 49 1.349026 CTCTGCTTTCCCTTGAGGTCA 59.651 52.381 0.00 0.00 36.75 4.02
49 50 1.988107 TCTGCTTTCCCTTGAGGTCAT 59.012 47.619 0.00 0.00 36.75 3.06
50 51 2.089980 CTGCTTTCCCTTGAGGTCATG 58.910 52.381 0.00 0.00 36.75 3.07
51 52 1.425066 TGCTTTCCCTTGAGGTCATGT 59.575 47.619 0.00 0.00 36.75 3.21
52 53 2.642311 TGCTTTCCCTTGAGGTCATGTA 59.358 45.455 0.00 0.00 36.75 2.29
53 54 3.010420 GCTTTCCCTTGAGGTCATGTAC 58.990 50.000 0.00 0.00 36.75 2.90
54 55 3.559171 GCTTTCCCTTGAGGTCATGTACA 60.559 47.826 0.00 0.00 36.75 2.90
55 56 4.651778 CTTTCCCTTGAGGTCATGTACAA 58.348 43.478 0.00 0.00 36.75 2.41
56 57 3.981071 TCCCTTGAGGTCATGTACAAG 57.019 47.619 0.00 0.00 39.24 3.16
59 60 3.057969 CTTGAGGTCATGTACAAGGCA 57.942 47.619 4.94 0.00 36.92 4.75
60 61 3.614092 CTTGAGGTCATGTACAAGGCAT 58.386 45.455 4.94 0.00 36.92 4.40
61 62 2.989909 TGAGGTCATGTACAAGGCATG 58.010 47.619 4.94 0.00 43.55 4.06
62 63 1.672881 GAGGTCATGTACAAGGCATGC 59.327 52.381 9.90 9.90 42.34 4.06
63 64 1.283029 AGGTCATGTACAAGGCATGCT 59.717 47.619 18.92 0.00 42.34 3.79
64 65 1.402968 GGTCATGTACAAGGCATGCTG 59.597 52.381 18.92 11.66 42.34 4.41
65 66 2.358957 GTCATGTACAAGGCATGCTGA 58.641 47.619 18.92 7.80 42.34 4.26
66 67 2.749076 GTCATGTACAAGGCATGCTGAA 59.251 45.455 18.92 1.35 42.34 3.02
67 68 3.379372 GTCATGTACAAGGCATGCTGAAT 59.621 43.478 18.92 3.99 42.34 2.57
68 69 4.018490 TCATGTACAAGGCATGCTGAATT 58.982 39.130 18.92 4.96 42.34 2.17
69 70 3.853831 TGTACAAGGCATGCTGAATTG 57.146 42.857 18.92 18.15 0.00 2.32
70 71 3.156293 TGTACAAGGCATGCTGAATTGT 58.844 40.909 23.88 23.88 37.77 2.71
71 72 2.736144 ACAAGGCATGCTGAATTGTG 57.264 45.000 18.92 7.76 33.09 3.33
72 73 1.965643 ACAAGGCATGCTGAATTGTGT 59.034 42.857 18.92 8.36 33.09 3.72
73 74 2.029649 ACAAGGCATGCTGAATTGTGTC 60.030 45.455 18.92 0.00 33.09 3.67
74 75 1.180029 AGGCATGCTGAATTGTGTCC 58.820 50.000 18.92 0.00 0.00 4.02
75 76 1.180029 GGCATGCTGAATTGTGTCCT 58.820 50.000 18.92 0.00 0.00 3.85
76 77 2.025981 AGGCATGCTGAATTGTGTCCTA 60.026 45.455 18.92 0.00 0.00 2.94
77 78 2.754552 GGCATGCTGAATTGTGTCCTAA 59.245 45.455 18.92 0.00 0.00 2.69
78 79 3.382546 GGCATGCTGAATTGTGTCCTAAT 59.617 43.478 18.92 0.00 0.00 1.73
79 80 4.142093 GGCATGCTGAATTGTGTCCTAATT 60.142 41.667 18.92 0.00 0.00 1.40
80 81 5.413499 GCATGCTGAATTGTGTCCTAATTT 58.587 37.500 11.37 0.00 0.00 1.82
81 82 5.870978 GCATGCTGAATTGTGTCCTAATTTT 59.129 36.000 11.37 0.00 0.00 1.82
82 83 6.369615 GCATGCTGAATTGTGTCCTAATTTTT 59.630 34.615 11.37 0.00 0.00 1.94
83 84 7.622672 GCATGCTGAATTGTGTCCTAATTTTTG 60.623 37.037 11.37 0.00 0.00 2.44
84 85 6.815089 TGCTGAATTGTGTCCTAATTTTTGT 58.185 32.000 0.00 0.00 0.00 2.83
85 86 6.922957 TGCTGAATTGTGTCCTAATTTTTGTC 59.077 34.615 0.00 0.00 0.00 3.18
86 87 6.922957 GCTGAATTGTGTCCTAATTTTTGTCA 59.077 34.615 0.00 0.00 0.00 3.58
87 88 7.437862 GCTGAATTGTGTCCTAATTTTTGTCAA 59.562 33.333 0.00 0.00 0.00 3.18
88 89 9.311916 CTGAATTGTGTCCTAATTTTTGTCAAA 57.688 29.630 0.00 0.00 0.00 2.69
89 90 9.829507 TGAATTGTGTCCTAATTTTTGTCAAAT 57.170 25.926 0.00 0.00 0.00 2.32
92 93 9.829507 ATTGTGTCCTAATTTTTGTCAAATTCA 57.170 25.926 0.00 0.00 32.64 2.57
93 94 8.870160 TGTGTCCTAATTTTTGTCAAATTCAG 57.130 30.769 0.00 0.00 32.64 3.02
94 95 8.474025 TGTGTCCTAATTTTTGTCAAATTCAGT 58.526 29.630 0.00 0.00 32.64 3.41
95 96 8.968242 GTGTCCTAATTTTTGTCAAATTCAGTC 58.032 33.333 0.00 0.00 32.64 3.51
96 97 8.690884 TGTCCTAATTTTTGTCAAATTCAGTCA 58.309 29.630 0.00 0.00 32.64 3.41
97 98 9.696917 GTCCTAATTTTTGTCAAATTCAGTCAT 57.303 29.630 0.00 0.00 32.64 3.06
98 99 9.695526 TCCTAATTTTTGTCAAATTCAGTCATG 57.304 29.630 0.00 0.00 32.64 3.07
99 100 9.480053 CCTAATTTTTGTCAAATTCAGTCATGT 57.520 29.630 0.00 0.00 32.64 3.21
102 103 6.586868 TTTTGTCAAATTCAGTCATGTTGC 57.413 33.333 0.00 0.00 0.00 4.17
103 104 4.915158 TGTCAAATTCAGTCATGTTGCA 57.085 36.364 0.00 0.00 0.00 4.08
104 105 5.456548 TGTCAAATTCAGTCATGTTGCAT 57.543 34.783 0.00 0.00 0.00 3.96
105 106 5.224135 TGTCAAATTCAGTCATGTTGCATG 58.776 37.500 2.93 2.93 0.00 4.06
106 107 5.009811 TGTCAAATTCAGTCATGTTGCATGA 59.990 36.000 7.63 7.63 0.00 3.07
107 108 6.097356 GTCAAATTCAGTCATGTTGCATGAT 58.903 36.000 13.88 2.71 0.00 2.45
108 109 6.034577 GTCAAATTCAGTCATGTTGCATGATG 59.965 38.462 13.88 12.52 0.00 3.07
109 110 3.497297 TTCAGTCATGTTGCATGATGC 57.503 42.857 11.12 11.12 45.29 3.91
158 161 2.802792 CGGAGGTACGGCGATTCA 59.197 61.111 16.62 0.00 0.00 2.57
174 177 4.025396 GCGATTCATGTCCTGTAATGTCAG 60.025 45.833 0.00 0.00 35.45 3.51
229 232 3.023735 GGTGATGGGAAGGGGGCT 61.024 66.667 0.00 0.00 0.00 5.19
236 250 2.851045 GGAAGGGGGCTGGAACAA 59.149 61.111 0.00 0.00 38.70 2.83
270 284 3.695816 TCTAATCACTCAGTTGCGATCG 58.304 45.455 11.69 11.69 0.00 3.69
275 289 3.179048 TCACTCAGTTGCGATCGTAATG 58.821 45.455 21.39 18.30 0.00 1.90
322 336 7.066307 TGCCAAGCTCATAGTAGATTTCATA 57.934 36.000 0.00 0.00 0.00 2.15
323 337 7.683578 TGCCAAGCTCATAGTAGATTTCATAT 58.316 34.615 0.00 0.00 0.00 1.78
327 341 8.538701 CAAGCTCATAGTAGATTTCATATCCCT 58.461 37.037 0.00 0.00 0.00 4.20
328 342 8.076910 AGCTCATAGTAGATTTCATATCCCTG 57.923 38.462 0.00 0.00 0.00 4.45
353 367 2.004583 TTCGGGTGCTGATTACGAAG 57.995 50.000 0.00 0.00 38.46 3.79
404 438 3.726557 TCTGCTTCCAACCATTGAGAT 57.273 42.857 0.00 0.00 0.00 2.75
442 476 2.293399 CCATCTGTCATCGTGATCGGTA 59.707 50.000 0.00 0.00 37.69 4.02
464 498 1.134280 CGGAATCTCAGGGATTGCTGT 60.134 52.381 12.36 0.00 46.24 4.40
581 646 1.546476 GGTGACTGTCCTTGAGTCGAT 59.454 52.381 5.17 0.00 42.46 3.59
659 724 3.186283 TGGGAGCCTCATGGTTAGTTTA 58.814 45.455 0.00 0.00 35.27 2.01
881 951 3.567164 AGGTGATTTCAGCACTTGAACAG 59.433 43.478 11.89 0.00 45.22 3.16
1007 1079 1.064166 CCTTGCAGTCCCAATGGAGAT 60.064 52.381 0.00 0.00 42.85 2.75
1059 1131 8.512966 AGAAAATTCTTAAGGAGGTAGATTGC 57.487 34.615 1.85 0.00 32.55 3.56
1081 1153 5.352293 TGCTGTTATTAACTCACATGAGCTG 59.648 40.000 8.84 0.00 45.79 4.24
1082 1154 5.352569 GCTGTTATTAACTCACATGAGCTGT 59.647 40.000 8.84 0.00 45.79 4.40
1097 1169 5.036117 TGAGCTGTAGTTTTGTCTTCCTT 57.964 39.130 0.00 0.00 0.00 3.36
1113 1185 1.447317 CCTTGTGTGCGTTTCCAGCT 61.447 55.000 0.00 0.00 35.28 4.24
1114 1186 0.317269 CTTGTGTGCGTTTCCAGCTG 60.317 55.000 6.78 6.78 35.28 4.24
1115 1187 0.746204 TTGTGTGCGTTTCCAGCTGA 60.746 50.000 17.39 0.00 35.28 4.26
1155 1227 7.946207 TCTTTAATTTATGGTGTGTTGCAGAA 58.054 30.769 0.00 0.00 0.00 3.02
1341 1415 4.738998 CACCCCTTGCCATCGCCA 62.739 66.667 0.00 0.00 0.00 5.69
1357 1431 0.034670 GCCAGGAGGAAAGTGCAGAT 60.035 55.000 0.00 0.00 36.89 2.90
1358 1432 2.016096 GCCAGGAGGAAAGTGCAGATC 61.016 57.143 0.00 0.00 36.89 2.75
1359 1433 1.649664 CAGGAGGAAAGTGCAGATCG 58.350 55.000 0.00 0.00 0.00 3.69
1360 1434 1.205655 CAGGAGGAAAGTGCAGATCGA 59.794 52.381 0.00 0.00 0.00 3.59
1361 1435 1.205893 AGGAGGAAAGTGCAGATCGAC 59.794 52.381 0.00 0.00 0.00 4.20
1362 1436 1.272781 GAGGAAAGTGCAGATCGACG 58.727 55.000 0.00 0.00 0.00 5.12
1363 1437 0.737715 AGGAAAGTGCAGATCGACGC 60.738 55.000 0.00 0.00 0.00 5.19
1364 1438 0.737715 GGAAAGTGCAGATCGACGCT 60.738 55.000 5.09 2.89 0.00 5.07
1365 1439 0.642800 GAAAGTGCAGATCGACGCTC 59.357 55.000 4.82 0.00 0.00 5.03
1366 1440 1.073216 AAAGTGCAGATCGACGCTCG 61.073 55.000 4.82 1.67 42.10 5.03
1367 1441 3.611792 GTGCAGATCGACGCTCGC 61.612 66.667 8.03 8.03 40.21 5.03
1378 1452 3.918220 CGCTCGCGTCATTGCTCC 61.918 66.667 5.77 0.00 34.35 4.70
1379 1453 3.918220 GCTCGCGTCATTGCTCCG 61.918 66.667 5.77 0.00 0.00 4.63
1380 1454 2.507102 CTCGCGTCATTGCTCCGT 60.507 61.111 5.77 0.00 0.00 4.69
1381 1455 2.048597 TCGCGTCATTGCTCCGTT 60.049 55.556 5.77 0.00 0.00 4.44
1382 1456 2.014093 CTCGCGTCATTGCTCCGTTC 62.014 60.000 5.77 0.00 0.00 3.95
1383 1457 2.379634 CGCGTCATTGCTCCGTTCA 61.380 57.895 0.00 0.00 0.00 3.18
1384 1458 1.132640 GCGTCATTGCTCCGTTCAC 59.867 57.895 0.00 0.00 0.00 3.18
1385 1459 1.787847 CGTCATTGCTCCGTTCACC 59.212 57.895 0.00 0.00 0.00 4.02
1386 1460 1.635663 CGTCATTGCTCCGTTCACCC 61.636 60.000 0.00 0.00 0.00 4.61
1387 1461 1.002624 TCATTGCTCCGTTCACCCC 60.003 57.895 0.00 0.00 0.00 4.95
1388 1462 1.002134 CATTGCTCCGTTCACCCCT 60.002 57.895 0.00 0.00 0.00 4.79
1389 1463 0.609131 CATTGCTCCGTTCACCCCTT 60.609 55.000 0.00 0.00 0.00 3.95
1390 1464 0.609131 ATTGCTCCGTTCACCCCTTG 60.609 55.000 0.00 0.00 0.00 3.61
1391 1465 3.056328 GCTCCGTTCACCCCTTGC 61.056 66.667 0.00 0.00 0.00 4.01
1392 1466 2.359975 CTCCGTTCACCCCTTGCC 60.360 66.667 0.00 0.00 0.00 4.52
1393 1467 3.172106 TCCGTTCACCCCTTGCCA 61.172 61.111 0.00 0.00 0.00 4.92
1394 1468 2.035626 CCGTTCACCCCTTGCCAT 59.964 61.111 0.00 0.00 0.00 4.40
1395 1469 2.046285 CCGTTCACCCCTTGCCATC 61.046 63.158 0.00 0.00 0.00 3.51
1396 1470 2.398554 CGTTCACCCCTTGCCATCG 61.399 63.158 0.00 0.00 0.00 3.84
1397 1471 2.361104 TTCACCCCTTGCCATCGC 60.361 61.111 0.00 0.00 0.00 4.58
1398 1472 3.936772 TTCACCCCTTGCCATCGCC 62.937 63.158 0.00 0.00 0.00 5.54
1399 1473 4.738998 CACCCCTTGCCATCGCCA 62.739 66.667 0.00 0.00 0.00 5.69
1400 1474 4.431131 ACCCCTTGCCATCGCCAG 62.431 66.667 0.00 0.00 0.00 4.85
1404 1478 2.515523 CTTGCCATCGCCAGGAGG 60.516 66.667 0.00 0.00 38.23 4.30
1405 1479 3.008517 TTGCCATCGCCAGGAGGA 61.009 61.111 0.00 0.00 36.89 3.71
1406 1480 2.541547 CTTGCCATCGCCAGGAGGAA 62.542 60.000 0.00 0.00 36.89 3.36
1407 1481 2.135903 TTGCCATCGCCAGGAGGAAA 62.136 55.000 0.00 0.00 36.89 3.13
1408 1482 1.821332 GCCATCGCCAGGAGGAAAG 60.821 63.158 0.00 0.00 36.89 2.62
1409 1483 1.604378 CCATCGCCAGGAGGAAAGT 59.396 57.895 0.00 0.00 36.89 2.66
1410 1484 0.745845 CCATCGCCAGGAGGAAAGTG 60.746 60.000 0.00 0.00 36.89 3.16
1411 1485 1.078143 ATCGCCAGGAGGAAAGTGC 60.078 57.895 0.00 0.00 36.89 4.40
1412 1486 1.841302 ATCGCCAGGAGGAAAGTGCA 61.841 55.000 0.00 0.00 36.89 4.57
1413 1487 2.037136 CGCCAGGAGGAAAGTGCAG 61.037 63.158 0.00 0.00 36.89 4.41
1414 1488 1.376466 GCCAGGAGGAAAGTGCAGA 59.624 57.895 0.00 0.00 36.89 4.26
1415 1489 0.034670 GCCAGGAGGAAAGTGCAGAT 60.035 55.000 0.00 0.00 36.89 2.90
1573 1647 2.425592 CGACAGGTCCAGCAACCA 59.574 61.111 5.83 0.00 42.12 3.67
1589 1663 3.706373 CACCGTGCCCTAGCCTGT 61.706 66.667 0.00 0.00 38.69 4.00
1726 1802 2.817396 GCCTCTCCAGCTCAACGC 60.817 66.667 0.00 0.00 39.57 4.84
1807 2134 2.252072 TACGGGAGGCCACTGATTGC 62.252 60.000 5.01 0.00 0.00 3.56
1889 2216 5.839621 TCCGTAGCTTATAGATTGTGGTTC 58.160 41.667 0.00 0.00 0.00 3.62
2103 2430 2.163390 CACGTGCCAGATCTGAGCG 61.163 63.158 24.62 23.29 32.09 5.03
2160 2493 9.150348 CATCGTTGTAATGGTGAATAGCATATA 57.850 33.333 0.00 0.00 43.81 0.86
2264 2597 3.676324 GCGTTGCTTGTGATCCTACTAGT 60.676 47.826 0.00 0.00 0.00 2.57
2331 2664 6.258727 CCTACATGCACTAACCTGTTTATCTG 59.741 42.308 0.00 0.00 0.00 2.90
2583 2919 5.411361 TGTTCATGTCCTTCTAAAACGATGG 59.589 40.000 0.00 0.00 0.00 3.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.600636 AACCACACACATGAGGCGG 60.601 57.895 0.00 0.00 40.06 6.13
1 2 1.575922 CAACCACACACATGAGGCG 59.424 57.895 0.00 0.00 40.06 5.52
2 3 1.526575 CCCAACCACACACATGAGGC 61.527 60.000 0.00 0.00 40.06 4.70
3 4 0.178992 ACCCAACCACACACATGAGG 60.179 55.000 0.00 0.00 42.02 3.86
4 5 0.953727 CACCCAACCACACACATGAG 59.046 55.000 0.00 0.00 0.00 2.90
5 6 0.548510 TCACCCAACCACACACATGA 59.451 50.000 0.00 0.00 0.00 3.07
6 7 1.619654 ATCACCCAACCACACACATG 58.380 50.000 0.00 0.00 0.00 3.21
7 8 3.266772 AGATATCACCCAACCACACACAT 59.733 43.478 5.32 0.00 0.00 3.21
8 9 2.642311 AGATATCACCCAACCACACACA 59.358 45.455 5.32 0.00 0.00 3.72
9 10 3.055094 AGAGATATCACCCAACCACACAC 60.055 47.826 5.32 0.00 0.00 3.82
10 11 3.055167 CAGAGATATCACCCAACCACACA 60.055 47.826 5.32 0.00 0.00 3.72
11 12 3.535561 CAGAGATATCACCCAACCACAC 58.464 50.000 5.32 0.00 0.00 3.82
12 13 2.092968 GCAGAGATATCACCCAACCACA 60.093 50.000 5.32 0.00 0.00 4.17
13 14 2.171448 AGCAGAGATATCACCCAACCAC 59.829 50.000 5.32 0.00 0.00 4.16
14 15 2.481441 AGCAGAGATATCACCCAACCA 58.519 47.619 5.32 0.00 0.00 3.67
15 16 3.567478 AAGCAGAGATATCACCCAACC 57.433 47.619 5.32 0.00 0.00 3.77
16 17 3.879892 GGAAAGCAGAGATATCACCCAAC 59.120 47.826 5.32 0.00 0.00 3.77
17 18 3.117888 GGGAAAGCAGAGATATCACCCAA 60.118 47.826 5.32 0.00 35.41 4.12
18 19 2.439507 GGGAAAGCAGAGATATCACCCA 59.560 50.000 5.32 0.00 35.41 4.51
19 20 2.708325 AGGGAAAGCAGAGATATCACCC 59.292 50.000 5.32 0.00 35.53 4.61
20 21 4.133078 CAAGGGAAAGCAGAGATATCACC 58.867 47.826 5.32 0.00 0.00 4.02
21 22 5.028549 TCAAGGGAAAGCAGAGATATCAC 57.971 43.478 5.32 0.00 0.00 3.06
22 23 4.102210 CCTCAAGGGAAAGCAGAGATATCA 59.898 45.833 5.32 0.00 37.23 2.15
23 24 4.102367 ACCTCAAGGGAAAGCAGAGATATC 59.898 45.833 0.29 0.00 40.27 1.63
24 25 4.043596 ACCTCAAGGGAAAGCAGAGATAT 58.956 43.478 0.29 0.00 40.27 1.63
25 26 3.452627 GACCTCAAGGGAAAGCAGAGATA 59.547 47.826 0.29 0.00 40.27 1.98
26 27 2.238395 GACCTCAAGGGAAAGCAGAGAT 59.762 50.000 0.29 0.00 40.27 2.75
27 28 1.625818 GACCTCAAGGGAAAGCAGAGA 59.374 52.381 0.29 0.00 40.27 3.10
28 29 1.349026 TGACCTCAAGGGAAAGCAGAG 59.651 52.381 0.29 0.00 40.27 3.35
29 30 1.434188 TGACCTCAAGGGAAAGCAGA 58.566 50.000 0.29 0.00 40.27 4.26
30 31 2.089980 CATGACCTCAAGGGAAAGCAG 58.910 52.381 0.29 0.00 40.27 4.24
31 32 1.425066 ACATGACCTCAAGGGAAAGCA 59.575 47.619 0.00 0.00 40.27 3.91
32 33 2.206576 ACATGACCTCAAGGGAAAGC 57.793 50.000 0.00 0.00 40.27 3.51
33 34 4.286297 TGTACATGACCTCAAGGGAAAG 57.714 45.455 0.00 0.00 40.27 2.62
34 35 4.651778 CTTGTACATGACCTCAAGGGAAA 58.348 43.478 0.00 0.00 40.27 3.13
35 36 4.286297 CTTGTACATGACCTCAAGGGAA 57.714 45.455 0.00 0.00 40.27 3.97
36 37 3.981071 CTTGTACATGACCTCAAGGGA 57.019 47.619 0.00 0.00 40.27 4.20
39 40 3.057969 TGCCTTGTACATGACCTCAAG 57.942 47.619 10.20 8.11 37.57 3.02
40 41 3.346315 CATGCCTTGTACATGACCTCAA 58.654 45.455 10.20 0.00 46.33 3.02
41 42 2.940971 GCATGCCTTGTACATGACCTCA 60.941 50.000 6.36 3.63 46.33 3.86
42 43 1.672881 GCATGCCTTGTACATGACCTC 59.327 52.381 6.36 0.00 46.33 3.85
43 44 1.283029 AGCATGCCTTGTACATGACCT 59.717 47.619 15.66 0.00 46.33 3.85
44 45 1.402968 CAGCATGCCTTGTACATGACC 59.597 52.381 15.66 2.16 46.33 4.02
45 46 2.358957 TCAGCATGCCTTGTACATGAC 58.641 47.619 15.66 0.00 46.33 3.06
46 47 2.785540 TCAGCATGCCTTGTACATGA 57.214 45.000 15.66 5.95 46.33 3.07
47 48 4.109766 CAATTCAGCATGCCTTGTACATG 58.890 43.478 15.66 3.26 46.19 3.21
48 49 3.765511 ACAATTCAGCATGCCTTGTACAT 59.234 39.130 15.66 0.00 38.21 2.29
49 50 3.057386 CACAATTCAGCATGCCTTGTACA 60.057 43.478 15.66 0.00 38.01 2.90
50 51 3.057315 ACACAATTCAGCATGCCTTGTAC 60.057 43.478 15.66 0.00 38.01 2.90
51 52 3.156293 ACACAATTCAGCATGCCTTGTA 58.844 40.909 15.66 0.88 38.01 2.41
52 53 1.965643 ACACAATTCAGCATGCCTTGT 59.034 42.857 15.66 15.66 39.77 3.16
53 54 2.602878 GACACAATTCAGCATGCCTTG 58.397 47.619 15.66 15.03 34.76 3.61
54 55 1.547372 GGACACAATTCAGCATGCCTT 59.453 47.619 15.66 0.00 34.76 4.35
55 56 1.180029 GGACACAATTCAGCATGCCT 58.820 50.000 15.66 0.00 34.76 4.75
56 57 1.180029 AGGACACAATTCAGCATGCC 58.820 50.000 15.66 0.00 34.76 4.40
57 58 4.644103 ATTAGGACACAATTCAGCATGC 57.356 40.909 10.51 10.51 34.76 4.06
58 59 7.385752 ACAAAAATTAGGACACAATTCAGCATG 59.614 33.333 0.00 0.00 37.54 4.06
59 60 7.444299 ACAAAAATTAGGACACAATTCAGCAT 58.556 30.769 0.00 0.00 0.00 3.79
60 61 6.815089 ACAAAAATTAGGACACAATTCAGCA 58.185 32.000 0.00 0.00 0.00 4.41
61 62 6.922957 TGACAAAAATTAGGACACAATTCAGC 59.077 34.615 0.00 0.00 0.00 4.26
62 63 8.870160 TTGACAAAAATTAGGACACAATTCAG 57.130 30.769 0.00 0.00 0.00 3.02
63 64 9.829507 ATTTGACAAAAATTAGGACACAATTCA 57.170 25.926 4.41 0.00 0.00 2.57
66 67 9.829507 TGAATTTGACAAAAATTAGGACACAAT 57.170 25.926 4.41 0.00 30.68 2.71
67 68 9.311916 CTGAATTTGACAAAAATTAGGACACAA 57.688 29.630 4.41 0.00 30.68 3.33
68 69 8.474025 ACTGAATTTGACAAAAATTAGGACACA 58.526 29.630 4.41 0.00 30.68 3.72
69 70 8.871686 ACTGAATTTGACAAAAATTAGGACAC 57.128 30.769 4.41 0.00 30.68 3.67
70 71 8.690884 TGACTGAATTTGACAAAAATTAGGACA 58.309 29.630 4.41 6.02 30.68 4.02
71 72 9.696917 ATGACTGAATTTGACAAAAATTAGGAC 57.303 29.630 4.41 3.97 30.68 3.85
72 73 9.695526 CATGACTGAATTTGACAAAAATTAGGA 57.304 29.630 4.41 0.00 30.68 2.94
73 74 9.480053 ACATGACTGAATTTGACAAAAATTAGG 57.520 29.630 4.41 0.00 30.68 2.69
76 77 8.124199 GCAACATGACTGAATTTGACAAAAATT 58.876 29.630 4.41 0.00 32.98 1.82
77 78 7.280428 TGCAACATGACTGAATTTGACAAAAAT 59.720 29.630 4.41 0.00 0.00 1.82
78 79 6.592994 TGCAACATGACTGAATTTGACAAAAA 59.407 30.769 4.41 0.00 0.00 1.94
79 80 6.104665 TGCAACATGACTGAATTTGACAAAA 58.895 32.000 4.41 0.00 0.00 2.44
80 81 5.658468 TGCAACATGACTGAATTTGACAAA 58.342 33.333 2.48 2.48 0.00 2.83
81 82 5.259832 TGCAACATGACTGAATTTGACAA 57.740 34.783 0.00 0.00 0.00 3.18
82 83 4.915158 TGCAACATGACTGAATTTGACA 57.085 36.364 0.00 0.00 0.00 3.58
83 84 5.463286 TCATGCAACATGACTGAATTTGAC 58.537 37.500 6.17 0.00 0.00 3.18
84 85 5.708877 TCATGCAACATGACTGAATTTGA 57.291 34.783 6.17 0.00 0.00 2.69
85 86 5.220397 GCATCATGCAACATGACTGAATTTG 60.220 40.000 12.18 6.57 44.26 2.32
86 87 4.868171 GCATCATGCAACATGACTGAATTT 59.132 37.500 12.18 0.00 44.26 1.82
87 88 4.430007 GCATCATGCAACATGACTGAATT 58.570 39.130 12.18 0.00 44.26 2.17
88 89 3.488553 CGCATCATGCAACATGACTGAAT 60.489 43.478 11.00 0.00 45.36 2.57
89 90 2.159490 CGCATCATGCAACATGACTGAA 60.159 45.455 11.00 0.00 45.36 3.02
90 91 1.399089 CGCATCATGCAACATGACTGA 59.601 47.619 11.00 0.00 45.36 3.41
91 92 1.822581 CGCATCATGCAACATGACTG 58.177 50.000 11.00 12.07 45.36 3.51
92 93 0.099968 GCGCATCATGCAACATGACT 59.900 50.000 11.00 0.58 45.36 3.41
93 94 1.197988 CGCGCATCATGCAACATGAC 61.198 55.000 11.00 0.94 45.36 3.06
94 95 1.062845 CGCGCATCATGCAACATGA 59.937 52.632 11.00 12.30 45.36 3.07
95 96 1.226463 ACGCGCATCATGCAACATG 60.226 52.632 11.00 1.05 45.36 3.21
96 97 1.226463 CACGCGCATCATGCAACAT 60.226 52.632 11.00 0.00 45.36 2.71
97 98 2.176300 CACGCGCATCATGCAACA 59.824 55.556 11.00 0.00 45.36 3.33
98 99 2.577644 CCACGCGCATCATGCAAC 60.578 61.111 11.00 0.00 45.36 4.17
99 100 4.479542 GCCACGCGCATCATGCAA 62.480 61.111 11.00 0.00 45.36 4.08
102 103 3.588906 ATGGCCACGCGCATCATG 61.589 61.111 8.16 0.00 40.31 3.07
103 104 3.588906 CATGGCCACGCGCATCAT 61.589 61.111 8.16 2.15 40.31 2.45
106 107 4.881440 ATCCATGGCCACGCGCAT 62.881 61.111 8.16 0.00 40.31 4.73
110 111 4.504596 TGGGATCCATGGCCACGC 62.505 66.667 8.16 3.55 0.00 5.34
111 112 2.203252 CTGGGATCCATGGCCACG 60.203 66.667 8.16 0.00 30.82 4.94
112 113 2.520260 GCTGGGATCCATGGCCAC 60.520 66.667 8.16 2.76 30.82 5.01
113 114 3.022497 TGCTGGGATCCATGGCCA 61.022 61.111 8.56 8.56 30.82 5.36
158 161 3.334583 AACGCTGACATTACAGGACAT 57.665 42.857 0.00 0.00 38.22 3.06
174 177 2.535732 CGCAAGATCTAGCAGAAAACGC 60.536 50.000 0.00 0.00 43.02 4.84
261 275 3.441163 TGTACTCCATTACGATCGCAAC 58.559 45.455 16.60 0.00 0.00 4.17
270 284 7.429340 CGAGATTGCAAATTTGTACTCCATTAC 59.571 37.037 19.03 7.36 0.00 1.89
275 289 5.296813 ACGAGATTGCAAATTTGTACTCC 57.703 39.130 19.03 11.01 0.00 3.85
322 336 1.955208 GCACCCGAATCAAACAGGGAT 60.955 52.381 6.36 0.00 46.64 3.85
323 337 0.608035 GCACCCGAATCAAACAGGGA 60.608 55.000 6.36 0.00 46.64 4.20
327 341 2.198827 ATCAGCACCCGAATCAAACA 57.801 45.000 0.00 0.00 0.00 2.83
328 342 3.485216 CGTAATCAGCACCCGAATCAAAC 60.485 47.826 0.00 0.00 0.00 2.93
353 367 2.353889 ACACATCAATGCAGAGCGATTC 59.646 45.455 0.00 0.00 0.00 2.52
442 476 0.179034 GCAATCCCTGAGATTCCGCT 60.179 55.000 0.00 0.00 43.63 5.52
464 498 1.588239 ATTGGAGAGGACATGAGCCA 58.412 50.000 0.00 0.00 0.00 4.75
581 646 3.979911 ACATGGCCACCAATTTGATCTA 58.020 40.909 8.16 0.00 36.95 1.98
587 652 3.119173 CGTATGAACATGGCCACCAATTT 60.119 43.478 8.16 0.00 36.95 1.82
667 732 8.966868 TCTACCAAGAATTGTTCCAATTAATCC 58.033 33.333 2.40 0.00 46.99 3.01
1007 1079 1.001520 TCACGCCAACTTTAGCAGCTA 59.998 47.619 0.00 0.00 0.00 3.32
1059 1131 6.974932 ACAGCTCATGTGAGTTAATAACAG 57.025 37.500 11.35 0.00 41.91 3.16
1081 1153 4.598062 GCACACAAGGAAGACAAAACTAC 58.402 43.478 0.00 0.00 0.00 2.73
1082 1154 3.311322 CGCACACAAGGAAGACAAAACTA 59.689 43.478 0.00 0.00 0.00 2.24
1097 1169 0.534877 ATCAGCTGGAAACGCACACA 60.535 50.000 15.13 0.00 33.30 3.72
1148 1220 0.821711 CGGGGTTTCACCTTCTGCAA 60.822 55.000 0.00 0.00 38.64 4.08
1155 1227 2.046314 CATCGCGGGGTTTCACCT 60.046 61.111 6.13 0.00 38.64 4.00
1264 1336 5.193663 TCTTGGAAAAATCATTGCGTCAA 57.806 34.783 0.00 0.00 0.00 3.18
1341 1415 1.205893 GTCGATCTGCACTTTCCTCCT 59.794 52.381 0.00 0.00 0.00 3.69
1361 1435 3.918220 GGAGCAATGACGCGAGCG 61.918 66.667 15.93 16.38 46.03 5.03
1362 1436 3.918220 CGGAGCAATGACGCGAGC 61.918 66.667 15.93 8.68 36.85 5.03
1363 1437 2.014093 GAACGGAGCAATGACGCGAG 62.014 60.000 15.93 0.00 36.85 5.03
1364 1438 2.048597 AACGGAGCAATGACGCGA 60.049 55.556 15.93 0.00 36.85 5.87
1365 1439 2.379634 TGAACGGAGCAATGACGCG 61.380 57.895 3.53 3.53 36.85 6.01
1366 1440 1.132640 GTGAACGGAGCAATGACGC 59.867 57.895 0.00 0.00 0.00 5.19
1367 1441 1.635663 GGGTGAACGGAGCAATGACG 61.636 60.000 0.00 0.00 0.00 4.35
1368 1442 1.305930 GGGGTGAACGGAGCAATGAC 61.306 60.000 0.00 0.00 0.00 3.06
1369 1443 1.002624 GGGGTGAACGGAGCAATGA 60.003 57.895 0.00 0.00 0.00 2.57
1370 1444 0.609131 AAGGGGTGAACGGAGCAATG 60.609 55.000 0.00 0.00 0.00 2.82
1371 1445 0.609131 CAAGGGGTGAACGGAGCAAT 60.609 55.000 0.00 0.00 0.00 3.56
1372 1446 1.228124 CAAGGGGTGAACGGAGCAA 60.228 57.895 0.00 0.00 0.00 3.91
1373 1447 2.429930 CAAGGGGTGAACGGAGCA 59.570 61.111 0.00 0.00 0.00 4.26
1374 1448 3.056328 GCAAGGGGTGAACGGAGC 61.056 66.667 0.00 0.00 0.00 4.70
1375 1449 2.359975 GGCAAGGGGTGAACGGAG 60.360 66.667 0.00 0.00 0.00 4.63
1376 1450 2.478335 GATGGCAAGGGGTGAACGGA 62.478 60.000 0.00 0.00 0.00 4.69
1377 1451 2.035626 ATGGCAAGGGGTGAACGG 59.964 61.111 0.00 0.00 0.00 4.44
1378 1452 2.398554 CGATGGCAAGGGGTGAACG 61.399 63.158 0.00 0.00 0.00 3.95
1379 1453 2.700773 GCGATGGCAAGGGGTGAAC 61.701 63.158 0.00 0.00 39.62 3.18
1380 1454 2.361104 GCGATGGCAAGGGGTGAA 60.361 61.111 0.00 0.00 39.62 3.18
1381 1455 4.424711 GGCGATGGCAAGGGGTGA 62.425 66.667 1.01 0.00 42.47 4.02
1382 1456 4.738998 TGGCGATGGCAAGGGGTG 62.739 66.667 1.01 0.00 42.47 4.61
1383 1457 4.431131 CTGGCGATGGCAAGGGGT 62.431 66.667 1.01 0.00 42.47 4.95
1387 1461 2.515523 CCTCCTGGCGATGGCAAG 60.516 66.667 1.01 0.00 42.47 4.01
1388 1462 2.135903 TTTCCTCCTGGCGATGGCAA 62.136 55.000 1.01 0.00 42.47 4.52
1389 1463 2.541547 CTTTCCTCCTGGCGATGGCA 62.542 60.000 1.01 0.00 42.47 4.92
1390 1464 1.821332 CTTTCCTCCTGGCGATGGC 60.821 63.158 0.00 0.00 38.90 4.40
1391 1465 0.745845 CACTTTCCTCCTGGCGATGG 60.746 60.000 0.00 0.00 0.00 3.51
1392 1466 1.372087 GCACTTTCCTCCTGGCGATG 61.372 60.000 0.00 0.00 0.00 3.84
1393 1467 1.078143 GCACTTTCCTCCTGGCGAT 60.078 57.895 0.00 0.00 0.00 4.58
1394 1468 2.347490 GCACTTTCCTCCTGGCGA 59.653 61.111 0.00 0.00 0.00 5.54
1395 1469 2.032528 TGCACTTTCCTCCTGGCG 59.967 61.111 0.00 0.00 0.00 5.69
1396 1470 0.034670 ATCTGCACTTTCCTCCTGGC 60.035 55.000 0.00 0.00 0.00 4.85
1397 1471 1.741732 CGATCTGCACTTTCCTCCTGG 60.742 57.143 0.00 0.00 0.00 4.45
1398 1472 1.205655 TCGATCTGCACTTTCCTCCTG 59.794 52.381 0.00 0.00 0.00 3.86
1399 1473 1.205893 GTCGATCTGCACTTTCCTCCT 59.794 52.381 0.00 0.00 0.00 3.69
1400 1474 1.646189 GTCGATCTGCACTTTCCTCC 58.354 55.000 0.00 0.00 0.00 4.30
1401 1475 1.272781 CGTCGATCTGCACTTTCCTC 58.727 55.000 0.00 0.00 0.00 3.71
1402 1476 0.737715 GCGTCGATCTGCACTTTCCT 60.738 55.000 0.00 0.00 0.00 3.36
1403 1477 0.737715 AGCGTCGATCTGCACTTTCC 60.738 55.000 0.00 0.00 0.00 3.13
1404 1478 0.642800 GAGCGTCGATCTGCACTTTC 59.357 55.000 2.61 0.00 0.00 2.62
1405 1479 1.073216 CGAGCGTCGATCTGCACTTT 61.073 55.000 9.07 0.00 43.74 2.66
1406 1480 1.515088 CGAGCGTCGATCTGCACTT 60.515 57.895 9.07 0.00 43.74 3.16
1407 1481 2.101185 CGAGCGTCGATCTGCACT 59.899 61.111 9.07 0.00 43.74 4.40
1408 1482 3.611792 GCGAGCGTCGATCTGCAC 61.612 66.667 17.82 3.05 43.74 4.57
1573 1647 3.391382 GACAGGCTAGGGCACGGT 61.391 66.667 0.00 0.00 40.87 4.83
1726 1802 3.646715 TCGCCTTGGGTTGGGGAG 61.647 66.667 0.00 0.00 40.82 4.30
1807 2134 2.890808 TCTAATCTGGCCTAGCAACG 57.109 50.000 3.32 0.00 0.00 4.10
1889 2216 4.154918 GCAGTACACTGATCCAAAAAGGAG 59.845 45.833 13.50 0.00 46.38 3.69
2160 2493 3.279434 CCGCTACAAATTAGGAGGCTTT 58.721 45.455 0.00 0.00 0.00 3.51
2264 2597 6.518208 AGTAAACAACCAAAGCACACTAAA 57.482 33.333 0.00 0.00 0.00 1.85
2556 2892 8.664798 CATCGTTTTAGAAGGACATGAACATAA 58.335 33.333 0.00 0.00 32.98 1.90
2583 2919 3.146066 TCACAAAGCCAACCAGTACATC 58.854 45.455 0.00 0.00 0.00 3.06


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

AutoCloner maintained by Alex Coulton.