Multiple sequence alignment - TraesCS2B01G002400

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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 TraesCS2B01G002400 chr2B 100.000 2353 0 0 1 2353 1500731 1498379 0.000000e+00 4346
1 TraesCS2B01G002400 chr2B 97.083 240 5 2 2 239 788980523 788980284 1.010000e-108 403
2 TraesCS2B01G002400 chr6B 91.627 1254 63 10 243 1475 684055229 684053997 0.000000e+00 1696
3 TraesCS2B01G002400 chr6B 95.973 894 26 5 1468 2353 684053613 684052722 0.000000e+00 1443
4 TraesCS2B01G002400 chr6B 90.753 465 27 7 2 464 655257240 655257690 7.190000e-170 606
5 TraesCS2B01G002400 chr6B 89.485 466 35 4 2 466 30365887 30365435 5.640000e-161 577
6 TraesCS2B01G002400 chr6B 87.872 470 37 9 2 470 699824062 699823612 3.440000e-148 534
7 TraesCS2B01G002400 chr3B 91.010 1257 65 14 243 1475 752769426 752768194 0.000000e+00 1652
8 TraesCS2B01G002400 chr3B 96.532 894 23 3 1468 2353 752767810 752766917 0.000000e+00 1472
9 TraesCS2B01G002400 chr3B 88.412 466 39 4 2 466 769344315 769344766 4.420000e-152 547
10 TraesCS2B01G002400 chr3B 81.818 187 30 4 1749 1932 3387355 3387170 1.130000e-33 154
11 TraesCS2B01G002400 chr3D 96.644 894 22 3 1468 2353 605101854 605100961 0.000000e+00 1478
12 TraesCS2B01G002400 chr3D 93.734 383 13 2 1101 1472 605102624 605102242 4.390000e-157 564
13 TraesCS2B01G002400 chr7A 96.085 894 27 3 1468 2353 78698126 78699019 0.000000e+00 1450
14 TraesCS2B01G002400 chr7A 95.196 895 34 4 1468 2353 711644191 711645085 0.000000e+00 1406
15 TraesCS2B01G002400 chr7A 95.078 894 36 3 1468 2353 721855359 721856252 0.000000e+00 1400
16 TraesCS2B01G002400 chr7A 90.136 882 57 9 606 1475 78696891 78697754 0.000000e+00 1120
17 TraesCS2B01G002400 chr7A 92.641 462 21 5 1026 1475 721854515 721854975 0.000000e+00 652
18 TraesCS2B01G002400 chr7A 92.399 421 21 4 1066 1475 711643384 711643804 7.240000e-165 590
19 TraesCS2B01G002400 chr7A 91.729 399 29 4 606 1002 721853880 721854276 3.420000e-153 551
20 TraesCS2B01G002400 chr7A 91.089 404 32 4 606 1007 721853430 721853831 5.720000e-151 544
21 TraesCS2B01G002400 chr7A 91.216 148 12 1 606 752 711642941 711643088 1.430000e-47 200
22 TraesCS2B01G002400 chr2A 95.638 894 31 3 1468 2353 63986358 63987251 0.000000e+00 1428
23 TraesCS2B01G002400 chr2A 92.363 419 20 3 1069 1475 63985556 63985974 9.370000e-164 586
24 TraesCS2B01G002400 chr2A 89.524 315 33 0 698 1012 63985243 63985557 1.310000e-107 399
25 TraesCS2B01G002400 chr2A 94.326 141 7 1 613 752 63985117 63985257 5.090000e-52 215
26 TraesCS2B01G002400 chr6A 94.619 892 39 4 1470 2353 2546353 2545463 0.000000e+00 1373
27 TraesCS2B01G002400 chr6A 89.761 586 47 4 903 1475 2547324 2546739 0.000000e+00 737
28 TraesCS2B01G002400 chr1B 89.641 473 33 7 2 471 549466616 549466157 2.600000e-164 588
29 TraesCS2B01G002400 chr1B 84.668 587 59 17 1791 2353 74713192 74713771 7.350000e-155 556
30 TraesCS2B01G002400 chr5D 89.247 465 32 7 11 471 480177572 480177122 1.220000e-157 566
31 TraesCS2B01G002400 chr5D 97.479 238 6 0 2 239 309195390 309195153 7.830000e-110 407
32 TraesCS2B01G002400 chr7B 88.584 473 38 7 2 471 64766163 64765704 5.680000e-156 560
33 TraesCS2B01G002400 chr2D 97.908 239 4 1 2 239 558858640 558858878 1.680000e-111 412
34 TraesCS2B01G002400 chr2D 97.479 238 5 1 2 239 521825313 521825077 2.820000e-109 405
35 TraesCS2B01G002400 chr2D 97.071 239 5 2 2 240 83639198 83638962 3.640000e-108 401
36 TraesCS2B01G002400 chr4D 97.899 238 4 1 2 239 416245438 416245674 6.050000e-111 411
37 TraesCS2B01G002400 chr1D 97.479 238 6 0 2 239 123235986 123236223 7.830000e-110 407
38 TraesCS2B01G002400 chr1D 97.071 239 7 0 2 240 11509679 11509441 1.010000e-108 403
39 TraesCS2B01G002400 chr7D 97.071 239 7 0 2 240 592031989 592032227 1.010000e-108 403
40 TraesCS2B01G002400 chr7D 88.258 264 27 3 1471 1732 553452223 553451962 1.760000e-81 313


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 TraesCS2B01G002400 chr2B 1498379 1500731 2352 True 4346.00 4346 100.00000 1 2353 1 chr2B.!!$R1 2352
1 TraesCS2B01G002400 chr6B 684052722 684055229 2507 True 1569.50 1696 93.80000 243 2353 2 chr6B.!!$R3 2110
2 TraesCS2B01G002400 chr3B 752766917 752769426 2509 True 1562.00 1652 93.77100 243 2353 2 chr3B.!!$R2 2110
3 TraesCS2B01G002400 chr3D 605100961 605102624 1663 True 1021.00 1478 95.18900 1101 2353 2 chr3D.!!$R1 1252
4 TraesCS2B01G002400 chr7A 78696891 78699019 2128 False 1285.00 1450 93.11050 606 2353 2 chr7A.!!$F1 1747
5 TraesCS2B01G002400 chr7A 721853430 721856252 2822 False 786.75 1400 92.63425 606 2353 4 chr7A.!!$F3 1747
6 TraesCS2B01G002400 chr7A 711642941 711645085 2144 False 732.00 1406 92.93700 606 2353 3 chr7A.!!$F2 1747
7 TraesCS2B01G002400 chr2A 63985117 63987251 2134 False 657.00 1428 92.96275 613 2353 4 chr2A.!!$F1 1740
8 TraesCS2B01G002400 chr6A 2545463 2547324 1861 True 1055.00 1373 92.19000 903 2353 2 chr6A.!!$R1 1450
9 TraesCS2B01G002400 chr1B 74713192 74713771 579 False 556.00 556 84.66800 1791 2353 1 chr1B.!!$F1 562

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
47 48 0.181587 TTTGACCCGCTTCCAACTGA 59.818 50.0 0.0 0.0 0.0 3.41 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1698 2826 1.002773 ACAAAAGCTACGACGGGGAAT 59.997 47.619 0.0 0.0 0.0 3.01 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
20 21 2.778299 CCAAACTACAAGGCAGCTACA 58.222 47.619 0.00 0.00 0.00 2.74
21 22 2.744202 CCAAACTACAAGGCAGCTACAG 59.256 50.000 0.00 0.00 0.00 2.74
22 23 3.403038 CAAACTACAAGGCAGCTACAGT 58.597 45.455 0.00 0.00 0.00 3.55
23 24 3.771577 AACTACAAGGCAGCTACAGTT 57.228 42.857 0.00 0.00 0.00 3.16
24 25 3.320673 ACTACAAGGCAGCTACAGTTC 57.679 47.619 0.00 0.00 0.00 3.01
25 26 2.632996 ACTACAAGGCAGCTACAGTTCA 59.367 45.455 0.00 0.00 0.00 3.18
26 27 2.638480 ACAAGGCAGCTACAGTTCAA 57.362 45.000 0.00 0.00 0.00 2.69
27 28 2.930950 ACAAGGCAGCTACAGTTCAAA 58.069 42.857 0.00 0.00 0.00 2.69
28 29 3.490348 ACAAGGCAGCTACAGTTCAAAT 58.510 40.909 0.00 0.00 0.00 2.32
29 30 3.891366 ACAAGGCAGCTACAGTTCAAATT 59.109 39.130 0.00 0.00 0.00 1.82
30 31 4.342092 ACAAGGCAGCTACAGTTCAAATTT 59.658 37.500 0.00 0.00 0.00 1.82
31 32 4.510038 AGGCAGCTACAGTTCAAATTTG 57.490 40.909 12.15 12.15 0.00 2.32
32 33 4.144297 AGGCAGCTACAGTTCAAATTTGA 58.856 39.130 16.91 16.91 34.92 2.69
33 34 4.022849 AGGCAGCTACAGTTCAAATTTGAC 60.023 41.667 20.35 14.74 36.83 3.18
34 35 4.229876 GCAGCTACAGTTCAAATTTGACC 58.770 43.478 20.35 13.92 36.83 4.02
35 36 4.798574 CAGCTACAGTTCAAATTTGACCC 58.201 43.478 20.35 13.56 36.83 4.46
36 37 3.502211 AGCTACAGTTCAAATTTGACCCG 59.498 43.478 20.35 8.82 36.83 5.28
37 38 2.793278 ACAGTTCAAATTTGACCCGC 57.207 45.000 20.35 10.85 36.83 6.13
38 39 2.306847 ACAGTTCAAATTTGACCCGCT 58.693 42.857 20.35 12.74 36.83 5.52
39 40 2.693074 ACAGTTCAAATTTGACCCGCTT 59.307 40.909 20.35 0.88 36.83 4.68
40 41 3.243401 ACAGTTCAAATTTGACCCGCTTC 60.243 43.478 20.35 5.78 36.83 3.86
41 42 2.296190 AGTTCAAATTTGACCCGCTTCC 59.704 45.455 20.35 2.19 36.83 3.46
42 43 1.988293 TCAAATTTGACCCGCTTCCA 58.012 45.000 16.91 0.00 31.01 3.53
43 44 2.311463 TCAAATTTGACCCGCTTCCAA 58.689 42.857 16.91 0.00 31.01 3.53
44 45 2.035321 TCAAATTTGACCCGCTTCCAAC 59.965 45.455 16.91 0.00 31.01 3.77
45 46 1.995376 AATTTGACCCGCTTCCAACT 58.005 45.000 0.00 0.00 0.00 3.16
46 47 1.247567 ATTTGACCCGCTTCCAACTG 58.752 50.000 0.00 0.00 0.00 3.16
47 48 0.181587 TTTGACCCGCTTCCAACTGA 59.818 50.000 0.00 0.00 0.00 3.41
48 49 0.181587 TTGACCCGCTTCCAACTGAA 59.818 50.000 0.00 0.00 0.00 3.02
49 50 0.400213 TGACCCGCTTCCAACTGAAT 59.600 50.000 0.00 0.00 31.06 2.57
50 51 1.087501 GACCCGCTTCCAACTGAATC 58.912 55.000 0.00 0.00 31.06 2.52
51 52 0.673644 ACCCGCTTCCAACTGAATCG 60.674 55.000 0.00 0.00 41.13 3.34
52 53 0.391130 CCCGCTTCCAACTGAATCGA 60.391 55.000 0.00 0.00 43.44 3.59
53 54 0.721718 CCGCTTCCAACTGAATCGAC 59.278 55.000 0.00 0.00 43.44 4.20
54 55 0.366871 CGCTTCCAACTGAATCGACG 59.633 55.000 0.00 0.00 43.44 5.12
55 56 0.721718 GCTTCCAACTGAATCGACGG 59.278 55.000 0.00 0.00 31.06 4.79
56 57 1.671850 GCTTCCAACTGAATCGACGGA 60.672 52.381 0.00 0.00 31.06 4.69
57 58 2.683968 CTTCCAACTGAATCGACGGAA 58.316 47.619 0.00 0.00 31.06 4.30
58 59 2.823924 TCCAACTGAATCGACGGAAA 57.176 45.000 0.00 0.00 0.00 3.13
59 60 3.328382 TCCAACTGAATCGACGGAAAT 57.672 42.857 0.00 0.00 0.00 2.17
60 61 3.670625 TCCAACTGAATCGACGGAAATT 58.329 40.909 0.00 0.00 0.00 1.82
61 62 4.069304 TCCAACTGAATCGACGGAAATTT 58.931 39.130 0.00 0.00 0.00 1.82
62 63 4.083537 TCCAACTGAATCGACGGAAATTTG 60.084 41.667 0.00 0.00 0.00 2.32
63 64 4.320202 CCAACTGAATCGACGGAAATTTGT 60.320 41.667 0.00 0.00 0.00 2.83
64 65 4.663636 ACTGAATCGACGGAAATTTGTC 57.336 40.909 0.00 0.00 0.00 3.18
65 66 4.315803 ACTGAATCGACGGAAATTTGTCT 58.684 39.130 0.00 0.00 32.93 3.41
66 67 4.755123 ACTGAATCGACGGAAATTTGTCTT 59.245 37.500 0.00 0.00 32.93 3.01
67 68 5.238650 ACTGAATCGACGGAAATTTGTCTTT 59.761 36.000 0.00 0.00 32.93 2.52
68 69 6.067263 TGAATCGACGGAAATTTGTCTTTT 57.933 33.333 0.00 0.00 32.93 2.27
69 70 6.500041 TGAATCGACGGAAATTTGTCTTTTT 58.500 32.000 0.00 0.00 32.93 1.94
70 71 6.635239 TGAATCGACGGAAATTTGTCTTTTTC 59.365 34.615 0.00 2.72 32.93 2.29
71 72 5.487153 TCGACGGAAATTTGTCTTTTTCA 57.513 34.783 0.00 0.00 34.29 2.69
72 73 5.267776 TCGACGGAAATTTGTCTTTTTCAC 58.732 37.500 0.00 0.00 34.29 3.18
73 74 4.144051 CGACGGAAATTTGTCTTTTTCACG 59.856 41.667 0.00 0.00 34.29 4.35
74 75 5.238006 ACGGAAATTTGTCTTTTTCACGA 57.762 34.783 0.00 0.00 34.29 4.35
75 76 5.270853 ACGGAAATTTGTCTTTTTCACGAG 58.729 37.500 0.00 0.00 34.29 4.18
76 77 5.065474 ACGGAAATTTGTCTTTTTCACGAGA 59.935 36.000 0.00 0.00 34.29 4.04
77 78 5.621228 CGGAAATTTGTCTTTTTCACGAGAG 59.379 40.000 0.00 0.00 34.29 3.20
78 79 6.511121 CGGAAATTTGTCTTTTTCACGAGAGA 60.511 38.462 0.00 0.00 34.29 3.10
79 80 7.363431 GGAAATTTGTCTTTTTCACGAGAGAT 58.637 34.615 0.00 0.00 34.29 2.75
80 81 7.324616 GGAAATTTGTCTTTTTCACGAGAGATG 59.675 37.037 0.00 0.00 34.29 2.90
81 82 5.673337 TTTGTCTTTTTCACGAGAGATGG 57.327 39.130 0.00 0.00 0.00 3.51
82 83 4.600692 TGTCTTTTTCACGAGAGATGGA 57.399 40.909 0.00 0.00 0.00 3.41
83 84 5.152623 TGTCTTTTTCACGAGAGATGGAT 57.847 39.130 0.00 0.00 0.00 3.41
84 85 5.171476 TGTCTTTTTCACGAGAGATGGATC 58.829 41.667 0.00 0.00 0.00 3.36
85 86 5.171476 GTCTTTTTCACGAGAGATGGATCA 58.829 41.667 0.00 0.00 0.00 2.92
86 87 5.639506 GTCTTTTTCACGAGAGATGGATCAA 59.360 40.000 0.00 0.00 0.00 2.57
87 88 6.147821 GTCTTTTTCACGAGAGATGGATCAAA 59.852 38.462 0.00 0.00 0.00 2.69
88 89 6.710295 TCTTTTTCACGAGAGATGGATCAAAA 59.290 34.615 0.00 0.00 0.00 2.44
89 90 5.862924 TTTCACGAGAGATGGATCAAAAC 57.137 39.130 0.00 0.00 0.00 2.43
90 91 4.808414 TCACGAGAGATGGATCAAAACT 57.192 40.909 0.00 0.00 0.00 2.66
91 92 5.152623 TCACGAGAGATGGATCAAAACTT 57.847 39.130 0.00 0.00 0.00 2.66
92 93 5.551233 TCACGAGAGATGGATCAAAACTTT 58.449 37.500 0.00 0.00 0.00 2.66
93 94 5.997746 TCACGAGAGATGGATCAAAACTTTT 59.002 36.000 0.00 0.00 0.00 2.27
94 95 6.486657 TCACGAGAGATGGATCAAAACTTTTT 59.513 34.615 0.00 0.00 0.00 1.94
95 96 7.659799 TCACGAGAGATGGATCAAAACTTTTTA 59.340 33.333 0.00 0.00 0.00 1.52
96 97 7.746475 CACGAGAGATGGATCAAAACTTTTTAC 59.254 37.037 0.00 0.00 0.00 2.01
97 98 7.444183 ACGAGAGATGGATCAAAACTTTTTACA 59.556 33.333 0.00 0.00 0.00 2.41
98 99 7.746475 CGAGAGATGGATCAAAACTTTTTACAC 59.254 37.037 0.00 0.00 0.00 2.90
99 100 7.886338 AGAGATGGATCAAAACTTTTTACACC 58.114 34.615 0.00 0.00 0.00 4.16
100 101 6.993079 AGATGGATCAAAACTTTTTACACCC 58.007 36.000 0.00 0.00 0.00 4.61
101 102 6.553100 AGATGGATCAAAACTTTTTACACCCA 59.447 34.615 0.00 0.00 0.00 4.51
102 103 6.546428 TGGATCAAAACTTTTTACACCCAA 57.454 33.333 0.00 0.00 0.00 4.12
103 104 6.342111 TGGATCAAAACTTTTTACACCCAAC 58.658 36.000 0.00 0.00 0.00 3.77
104 105 5.756347 GGATCAAAACTTTTTACACCCAACC 59.244 40.000 0.00 0.00 0.00 3.77
105 106 5.740290 TCAAAACTTTTTACACCCAACCA 57.260 34.783 0.00 0.00 0.00 3.67
106 107 6.301169 TCAAAACTTTTTACACCCAACCAT 57.699 33.333 0.00 0.00 0.00 3.55
107 108 6.712276 TCAAAACTTTTTACACCCAACCATT 58.288 32.000 0.00 0.00 0.00 3.16
108 109 7.168905 TCAAAACTTTTTACACCCAACCATTT 58.831 30.769 0.00 0.00 0.00 2.32
109 110 6.993786 AAACTTTTTACACCCAACCATTTG 57.006 33.333 0.00 0.00 0.00 2.32
126 127 6.798315 CCATTTGGTCAATTGTGCATTAAA 57.202 33.333 5.13 1.34 0.00 1.52
127 128 7.380431 CCATTTGGTCAATTGTGCATTAAAT 57.620 32.000 5.13 3.42 0.00 1.40
128 129 8.489990 CCATTTGGTCAATTGTGCATTAAATA 57.510 30.769 5.13 0.00 0.00 1.40
129 130 9.111613 CCATTTGGTCAATTGTGCATTAAATAT 57.888 29.630 5.13 0.00 0.00 1.28
130 131 9.923786 CATTTGGTCAATTGTGCATTAAATATG 57.076 29.630 5.13 0.00 0.00 1.78
131 132 8.489990 TTTGGTCAATTGTGCATTAAATATGG 57.510 30.769 5.13 0.00 0.00 2.74
132 133 6.047870 TGGTCAATTGTGCATTAAATATGGC 58.952 36.000 5.13 0.00 0.00 4.40
133 134 5.466393 GGTCAATTGTGCATTAAATATGGCC 59.534 40.000 5.13 0.00 0.00 5.36
134 135 6.282930 GTCAATTGTGCATTAAATATGGCCT 58.717 36.000 3.32 0.00 0.00 5.19
135 136 7.432869 GTCAATTGTGCATTAAATATGGCCTA 58.567 34.615 3.32 0.00 0.00 3.93
136 137 7.596248 GTCAATTGTGCATTAAATATGGCCTAG 59.404 37.037 3.32 0.00 0.00 3.02
137 138 7.287466 TCAATTGTGCATTAAATATGGCCTAGT 59.713 33.333 3.32 0.00 0.00 2.57
138 139 8.575589 CAATTGTGCATTAAATATGGCCTAGTA 58.424 33.333 3.32 0.00 0.00 1.82
139 140 8.884124 ATTGTGCATTAAATATGGCCTAGTAT 57.116 30.769 3.32 0.00 0.00 2.12
140 141 8.704849 TTGTGCATTAAATATGGCCTAGTATT 57.295 30.769 3.32 3.55 0.00 1.89
141 142 8.704849 TGTGCATTAAATATGGCCTAGTATTT 57.295 30.769 18.61 18.61 35.39 1.40
142 143 9.142014 TGTGCATTAAATATGGCCTAGTATTTT 57.858 29.630 19.34 8.46 33.75 1.82
168 169 7.650890 AGAAAAATGATTTGGTCCAATTTTGC 58.349 30.769 14.67 12.16 0.00 3.68
169 170 6.956202 AAAATGATTTGGTCCAATTTTGCA 57.044 29.167 4.80 0.42 0.00 4.08
170 171 6.956202 AAATGATTTGGTCCAATTTTGCAA 57.044 29.167 4.80 0.00 0.00 4.08
171 172 5.945466 ATGATTTGGTCCAATTTTGCAAC 57.055 34.783 4.80 0.00 0.00 4.17
172 173 4.774124 TGATTTGGTCCAATTTTGCAACA 58.226 34.783 4.80 0.00 0.00 3.33
173 174 5.188434 TGATTTGGTCCAATTTTGCAACAA 58.812 33.333 4.80 0.00 0.00 2.83
174 175 5.826737 TGATTTGGTCCAATTTTGCAACAAT 59.173 32.000 4.80 0.00 0.00 2.71
175 176 6.320672 TGATTTGGTCCAATTTTGCAACAATT 59.679 30.769 4.80 6.23 0.00 2.32
176 177 7.500227 TGATTTGGTCCAATTTTGCAACAATTA 59.500 29.630 4.80 3.77 0.00 1.40
177 178 7.814264 TTTGGTCCAATTTTGCAACAATTAT 57.186 28.000 4.80 0.00 0.00 1.28
178 179 7.814264 TTGGTCCAATTTTGCAACAATTATT 57.186 28.000 14.85 3.06 0.00 1.40
179 180 7.814264 TGGTCCAATTTTGCAACAATTATTT 57.186 28.000 14.85 0.00 0.00 1.40
180 181 7.646314 TGGTCCAATTTTGCAACAATTATTTG 58.354 30.769 14.85 7.22 38.86 2.32
181 182 7.083230 GGTCCAATTTTGCAACAATTATTTGG 58.917 34.615 14.85 13.67 37.15 3.28
182 183 7.255416 GGTCCAATTTTGCAACAATTATTTGGT 60.255 33.333 15.92 0.00 37.15 3.67
183 184 8.778358 GTCCAATTTTGCAACAATTATTTGGTA 58.222 29.630 15.92 6.05 37.15 3.25
184 185 8.997323 TCCAATTTTGCAACAATTATTTGGTAG 58.003 29.630 15.92 6.07 37.15 3.18
185 186 8.235905 CCAATTTTGCAACAATTATTTGGTAGG 58.764 33.333 14.85 8.87 37.15 3.18
186 187 8.782144 CAATTTTGCAACAATTATTTGGTAGGT 58.218 29.630 14.85 0.00 37.15 3.08
187 188 8.916628 ATTTTGCAACAATTATTTGGTAGGTT 57.083 26.923 0.00 0.00 37.15 3.50
188 189 7.954788 TTTGCAACAATTATTTGGTAGGTTC 57.045 32.000 0.00 0.00 37.15 3.62
189 190 6.909550 TGCAACAATTATTTGGTAGGTTCT 57.090 33.333 2.66 0.00 37.15 3.01
190 191 7.296628 TGCAACAATTATTTGGTAGGTTCTT 57.703 32.000 2.66 0.00 37.15 2.52
191 192 7.375053 TGCAACAATTATTTGGTAGGTTCTTC 58.625 34.615 2.66 0.00 37.15 2.87
192 193 7.014711 TGCAACAATTATTTGGTAGGTTCTTCA 59.985 33.333 2.66 0.00 37.15 3.02
193 194 7.328493 GCAACAATTATTTGGTAGGTTCTTCAC 59.672 37.037 2.66 0.00 37.15 3.18
194 195 8.356657 CAACAATTATTTGGTAGGTTCTTCACA 58.643 33.333 2.66 0.00 37.15 3.58
195 196 8.472007 ACAATTATTTGGTAGGTTCTTCACAA 57.528 30.769 2.66 0.00 37.15 3.33
196 197 8.919145 ACAATTATTTGGTAGGTTCTTCACAAA 58.081 29.630 2.66 0.00 37.15 2.83
197 198 9.757227 CAATTATTTGGTAGGTTCTTCACAAAA 57.243 29.630 0.00 0.00 32.44 2.44
217 218 4.423231 CCCTCCTTTTGGGCACTC 57.577 61.111 0.00 0.00 40.87 3.51
218 219 1.675641 CCCTCCTTTTGGGCACTCG 60.676 63.158 0.00 0.00 40.87 4.18
219 220 1.374947 CCTCCTTTTGGGCACTCGA 59.625 57.895 0.00 0.00 40.87 4.04
220 221 0.250727 CCTCCTTTTGGGCACTCGAA 60.251 55.000 0.00 0.00 40.87 3.71
221 222 1.604604 CTCCTTTTGGGCACTCGAAA 58.395 50.000 0.00 0.00 40.87 3.46
222 223 1.953686 CTCCTTTTGGGCACTCGAAAA 59.046 47.619 0.00 0.00 40.87 2.29
223 224 2.360801 CTCCTTTTGGGCACTCGAAAAA 59.639 45.455 0.00 0.00 40.87 1.94
224 225 2.962421 TCCTTTTGGGCACTCGAAAAAT 59.038 40.909 0.00 0.00 40.87 1.82
225 226 3.059166 CCTTTTGGGCACTCGAAAAATG 58.941 45.455 0.00 0.00 33.73 2.32
226 227 2.810439 TTTGGGCACTCGAAAAATGG 57.190 45.000 0.00 0.00 0.00 3.16
227 228 1.988293 TTGGGCACTCGAAAAATGGA 58.012 45.000 0.00 0.00 0.00 3.41
228 229 1.988293 TGGGCACTCGAAAAATGGAA 58.012 45.000 0.00 0.00 0.00 3.53
229 230 2.311463 TGGGCACTCGAAAAATGGAAA 58.689 42.857 0.00 0.00 0.00 3.13
230 231 2.695666 TGGGCACTCGAAAAATGGAAAA 59.304 40.909 0.00 0.00 0.00 2.29
231 232 3.323403 TGGGCACTCGAAAAATGGAAAAT 59.677 39.130 0.00 0.00 0.00 1.82
232 233 3.679502 GGGCACTCGAAAAATGGAAAATG 59.320 43.478 0.00 0.00 0.00 2.32
233 234 3.679502 GGCACTCGAAAAATGGAAAATGG 59.320 43.478 0.00 0.00 0.00 3.16
234 235 4.306600 GCACTCGAAAAATGGAAAATGGT 58.693 39.130 0.00 0.00 0.00 3.55
235 236 4.749598 GCACTCGAAAAATGGAAAATGGTT 59.250 37.500 0.00 0.00 0.00 3.67
236 237 5.236263 GCACTCGAAAAATGGAAAATGGTTT 59.764 36.000 0.00 0.00 0.00 3.27
237 238 6.238347 GCACTCGAAAAATGGAAAATGGTTTT 60.238 34.615 0.00 0.00 35.12 2.43
238 239 7.678454 GCACTCGAAAAATGGAAAATGGTTTTT 60.678 33.333 0.00 0.00 37.75 1.94
239 240 7.850492 CACTCGAAAAATGGAAAATGGTTTTTC 59.150 33.333 10.50 10.50 46.58 2.29
494 505 4.742201 CCCGCACACCACTCCTCG 62.742 72.222 0.00 0.00 0.00 4.63
496 507 2.632544 CCGCACACCACTCCTCGTA 61.633 63.158 0.00 0.00 0.00 3.43
516 527 2.695970 CCTCCTCTCTCTCCCCCGT 61.696 68.421 0.00 0.00 0.00 5.28
537 548 3.374402 CCGCACACCCTCTCTCGT 61.374 66.667 0.00 0.00 0.00 4.18
539 550 2.262915 GCACACCCTCTCTCGTGG 59.737 66.667 0.00 0.00 34.18 4.94
548 559 0.605589 CTCTCTCGTGGAGCAAACCT 59.394 55.000 3.90 0.00 41.60 3.50
640 651 3.578272 CTCCTCGTCGAGCCTCGG 61.578 72.222 17.02 3.87 40.88 4.63
722 774 4.309950 GTCACCAGGACGGCGGTT 62.310 66.667 13.24 0.00 39.03 4.44
739 791 0.313043 GTTGGAACAGACCTCGACGA 59.687 55.000 0.00 0.00 42.39 4.20
812 1314 2.668632 GGGCTTGACGGATCACCA 59.331 61.111 0.00 0.00 33.38 4.17
930 1432 1.077265 CAACTCCAATGGCCCTGGT 59.923 57.895 18.14 0.31 35.30 4.00
932 1434 2.757099 CTCCAATGGCCCTGGTGC 60.757 66.667 18.14 0.00 35.30 5.01
933 1435 3.267233 TCCAATGGCCCTGGTGCT 61.267 61.111 18.14 0.00 35.30 4.40
935 1437 3.766691 CAATGGCCCTGGTGCTGC 61.767 66.667 0.00 0.00 0.00 5.25
1094 1816 3.550431 CGTCCGGGCCATCCTCAT 61.550 66.667 4.39 0.00 0.00 2.90
1150 1872 7.708752 GTCAGTCTCTTTCTTTTCTTTCTGAGA 59.291 37.037 0.00 0.00 0.00 3.27
1257 1979 2.033141 GCTCTGAAGGTGCCAGCA 59.967 61.111 0.00 0.00 0.00 4.41
1294 2016 3.866703 TCAATGGTGGGTTCAGTACAA 57.133 42.857 0.00 0.00 0.00 2.41
1477 2605 7.239271 CGTAATTATGCCTGAACATGATGATC 58.761 38.462 0.00 0.00 0.00 2.92
1698 2826 5.854010 ACTCTTTATATGTCGCTCAAGGA 57.146 39.130 0.00 0.00 0.00 3.36
2052 3183 7.447545 CACTATCCAGGTTGTATGCTACTACTA 59.552 40.741 0.00 0.00 35.29 1.82
2216 3348 4.130118 AGGCTAAAGAAACATGCTATCCG 58.870 43.478 0.00 0.00 0.00 4.18
2277 3419 4.471386 CCAAGACTCTTCTGGGAGGATTAA 59.529 45.833 0.00 0.00 45.38 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.744202 CTGTAGCTGCCTTGTAGTTTGG 59.256 50.000 0.00 0.00 0.00 3.28
1 2 3.403038 ACTGTAGCTGCCTTGTAGTTTG 58.597 45.455 0.00 0.00 0.00 2.93
2 3 3.771577 ACTGTAGCTGCCTTGTAGTTT 57.228 42.857 0.00 0.00 0.00 2.66
3 4 3.071023 TGAACTGTAGCTGCCTTGTAGTT 59.929 43.478 0.00 0.00 0.00 2.24
4 5 2.632996 TGAACTGTAGCTGCCTTGTAGT 59.367 45.455 0.00 0.00 0.00 2.73
5 6 3.319137 TGAACTGTAGCTGCCTTGTAG 57.681 47.619 0.00 0.00 0.00 2.74
6 7 3.762407 TTGAACTGTAGCTGCCTTGTA 57.238 42.857 0.00 0.00 0.00 2.41
7 8 2.638480 TTGAACTGTAGCTGCCTTGT 57.362 45.000 0.00 0.00 0.00 3.16
8 9 4.510038 AATTTGAACTGTAGCTGCCTTG 57.490 40.909 0.00 0.00 0.00 3.61
9 10 4.584325 TCAAATTTGAACTGTAGCTGCCTT 59.416 37.500 18.45 0.00 33.55 4.35
10 11 4.022849 GTCAAATTTGAACTGTAGCTGCCT 60.023 41.667 22.07 0.00 39.21 4.75
11 12 4.229876 GTCAAATTTGAACTGTAGCTGCC 58.770 43.478 22.07 2.16 39.21 4.85
12 13 4.229876 GGTCAAATTTGAACTGTAGCTGC 58.770 43.478 25.71 8.85 41.62 5.25
13 14 4.613622 CGGGTCAAATTTGAACTGTAGCTG 60.614 45.833 29.42 15.25 44.38 4.24
14 15 3.502211 CGGGTCAAATTTGAACTGTAGCT 59.498 43.478 29.42 0.00 44.38 3.32
15 16 3.821841 CGGGTCAAATTTGAACTGTAGC 58.178 45.455 29.42 15.58 44.38 3.58
20 21 2.296190 GGAAGCGGGTCAAATTTGAACT 59.704 45.455 30.02 18.37 44.25 3.01
21 22 2.035321 TGGAAGCGGGTCAAATTTGAAC 59.965 45.455 25.15 25.15 44.09 3.18
22 23 2.311463 TGGAAGCGGGTCAAATTTGAA 58.689 42.857 22.07 4.47 39.21 2.69
23 24 1.988293 TGGAAGCGGGTCAAATTTGA 58.012 45.000 16.91 16.91 34.20 2.69
24 25 2.035832 AGTTGGAAGCGGGTCAAATTTG 59.964 45.455 12.15 12.15 0.00 2.32
25 26 2.035832 CAGTTGGAAGCGGGTCAAATTT 59.964 45.455 0.00 0.00 0.00 1.82
26 27 1.613437 CAGTTGGAAGCGGGTCAAATT 59.387 47.619 0.00 0.00 0.00 1.82
27 28 1.202879 TCAGTTGGAAGCGGGTCAAAT 60.203 47.619 0.00 0.00 0.00 2.32
28 29 0.181587 TCAGTTGGAAGCGGGTCAAA 59.818 50.000 0.00 0.00 0.00 2.69
29 30 0.181587 TTCAGTTGGAAGCGGGTCAA 59.818 50.000 0.00 0.00 0.00 3.18
30 31 0.400213 ATTCAGTTGGAAGCGGGTCA 59.600 50.000 0.00 0.00 39.30 4.02
31 32 1.087501 GATTCAGTTGGAAGCGGGTC 58.912 55.000 0.00 0.00 39.30 4.46
32 33 3.249687 GATTCAGTTGGAAGCGGGT 57.750 52.632 0.00 0.00 39.30 5.28
36 37 0.721718 CCGTCGATTCAGTTGGAAGC 59.278 55.000 0.00 0.00 39.30 3.86
37 38 2.363788 TCCGTCGATTCAGTTGGAAG 57.636 50.000 0.00 0.00 39.30 3.46
38 39 2.823924 TTCCGTCGATTCAGTTGGAA 57.176 45.000 0.00 0.00 40.46 3.53
39 40 2.823924 TTTCCGTCGATTCAGTTGGA 57.176 45.000 0.00 0.00 0.00 3.53
40 41 4.158384 CAAATTTCCGTCGATTCAGTTGG 58.842 43.478 0.00 0.00 0.00 3.77
41 42 4.783242 ACAAATTTCCGTCGATTCAGTTG 58.217 39.130 0.00 0.00 0.00 3.16
42 43 4.755123 AGACAAATTTCCGTCGATTCAGTT 59.245 37.500 0.00 0.00 37.23 3.16
43 44 4.315803 AGACAAATTTCCGTCGATTCAGT 58.684 39.130 0.00 0.00 37.23 3.41
44 45 4.928661 AGACAAATTTCCGTCGATTCAG 57.071 40.909 0.00 0.00 37.23 3.02
45 46 5.682943 AAAGACAAATTTCCGTCGATTCA 57.317 34.783 0.00 0.00 37.23 2.57
46 47 6.635239 TGAAAAAGACAAATTTCCGTCGATTC 59.365 34.615 0.00 8.83 37.23 2.52
47 48 6.416750 GTGAAAAAGACAAATTTCCGTCGATT 59.583 34.615 0.00 1.77 37.23 3.34
48 49 5.912955 GTGAAAAAGACAAATTTCCGTCGAT 59.087 36.000 0.00 0.00 37.23 3.59
49 50 5.267776 GTGAAAAAGACAAATTTCCGTCGA 58.732 37.500 0.00 0.00 37.23 4.20
50 51 4.144051 CGTGAAAAAGACAAATTTCCGTCG 59.856 41.667 3.71 0.00 37.23 5.12
51 52 5.267776 TCGTGAAAAAGACAAATTTCCGTC 58.732 37.500 1.36 1.36 35.23 4.79
52 53 5.065474 TCTCGTGAAAAAGACAAATTTCCGT 59.935 36.000 0.00 0.00 35.23 4.69
53 54 5.507077 TCTCGTGAAAAAGACAAATTTCCG 58.493 37.500 0.00 0.00 35.23 4.30
54 55 6.725246 TCTCTCGTGAAAAAGACAAATTTCC 58.275 36.000 0.00 0.00 35.23 3.13
55 56 7.324616 CCATCTCTCGTGAAAAAGACAAATTTC 59.675 37.037 0.00 0.00 36.35 2.17
56 57 7.013274 TCCATCTCTCGTGAAAAAGACAAATTT 59.987 33.333 0.00 0.00 0.00 1.82
57 58 6.486657 TCCATCTCTCGTGAAAAAGACAAATT 59.513 34.615 0.00 0.00 0.00 1.82
58 59 5.997746 TCCATCTCTCGTGAAAAAGACAAAT 59.002 36.000 0.00 0.00 0.00 2.32
59 60 5.364778 TCCATCTCTCGTGAAAAAGACAAA 58.635 37.500 0.00 0.00 0.00 2.83
60 61 4.956085 TCCATCTCTCGTGAAAAAGACAA 58.044 39.130 0.00 0.00 0.00 3.18
61 62 4.600692 TCCATCTCTCGTGAAAAAGACA 57.399 40.909 0.00 0.00 0.00 3.41
62 63 5.171476 TGATCCATCTCTCGTGAAAAAGAC 58.829 41.667 0.00 0.00 0.00 3.01
63 64 5.405935 TGATCCATCTCTCGTGAAAAAGA 57.594 39.130 0.00 0.00 0.00 2.52
64 65 6.486253 TTTGATCCATCTCTCGTGAAAAAG 57.514 37.500 0.00 0.00 0.00 2.27
65 66 6.486657 AGTTTTGATCCATCTCTCGTGAAAAA 59.513 34.615 0.00 0.00 0.00 1.94
66 67 5.997746 AGTTTTGATCCATCTCTCGTGAAAA 59.002 36.000 0.00 0.00 0.00 2.29
67 68 5.551233 AGTTTTGATCCATCTCTCGTGAAA 58.449 37.500 0.00 0.00 0.00 2.69
68 69 5.152623 AGTTTTGATCCATCTCTCGTGAA 57.847 39.130 0.00 0.00 0.00 3.18
69 70 4.808414 AGTTTTGATCCATCTCTCGTGA 57.192 40.909 0.00 0.00 0.00 4.35
70 71 5.869753 AAAGTTTTGATCCATCTCTCGTG 57.130 39.130 0.00 0.00 0.00 4.35
71 72 6.884280 AAAAAGTTTTGATCCATCTCTCGT 57.116 33.333 0.61 0.00 0.00 4.18
72 73 7.746475 GTGTAAAAAGTTTTGATCCATCTCTCG 59.254 37.037 0.61 0.00 0.00 4.04
73 74 8.023706 GGTGTAAAAAGTTTTGATCCATCTCTC 58.976 37.037 0.61 0.00 0.00 3.20
74 75 7.039714 GGGTGTAAAAAGTTTTGATCCATCTCT 60.040 37.037 0.61 0.00 0.00 3.10
75 76 7.090808 GGGTGTAAAAAGTTTTGATCCATCTC 58.909 38.462 0.61 0.00 0.00 2.75
76 77 6.553100 TGGGTGTAAAAAGTTTTGATCCATCT 59.447 34.615 0.61 0.00 0.00 2.90
77 78 6.754193 TGGGTGTAAAAAGTTTTGATCCATC 58.246 36.000 0.61 0.00 0.00 3.51
78 79 6.739331 TGGGTGTAAAAAGTTTTGATCCAT 57.261 33.333 0.61 0.00 0.00 3.41
79 80 6.342111 GTTGGGTGTAAAAAGTTTTGATCCA 58.658 36.000 0.61 2.72 0.00 3.41
80 81 5.756347 GGTTGGGTGTAAAAAGTTTTGATCC 59.244 40.000 0.61 2.02 0.00 3.36
81 82 6.342111 TGGTTGGGTGTAAAAAGTTTTGATC 58.658 36.000 0.61 0.00 0.00 2.92
82 83 6.301169 TGGTTGGGTGTAAAAAGTTTTGAT 57.699 33.333 0.61 0.00 0.00 2.57
83 84 5.740290 TGGTTGGGTGTAAAAAGTTTTGA 57.260 34.783 0.61 0.00 0.00 2.69
84 85 6.993786 AATGGTTGGGTGTAAAAAGTTTTG 57.006 33.333 0.61 0.00 0.00 2.44
85 86 7.384439 CAAATGGTTGGGTGTAAAAAGTTTT 57.616 32.000 0.00 0.00 0.00 2.43
86 87 6.993786 CAAATGGTTGGGTGTAAAAAGTTT 57.006 33.333 0.00 0.00 0.00 2.66
103 104 6.798315 TTTAATGCACAATTGACCAAATGG 57.202 33.333 13.59 0.00 42.17 3.16
104 105 9.923786 CATATTTAATGCACAATTGACCAAATG 57.076 29.630 13.59 0.00 0.00 2.32
105 106 9.111613 CCATATTTAATGCACAATTGACCAAAT 57.888 29.630 13.59 10.36 0.00 2.32
106 107 7.065563 GCCATATTTAATGCACAATTGACCAAA 59.934 33.333 13.59 4.03 0.00 3.28
107 108 6.538021 GCCATATTTAATGCACAATTGACCAA 59.462 34.615 13.59 0.00 0.00 3.67
108 109 6.047870 GCCATATTTAATGCACAATTGACCA 58.952 36.000 13.59 8.76 0.00 4.02
109 110 5.466393 GGCCATATTTAATGCACAATTGACC 59.534 40.000 13.59 2.79 0.00 4.02
110 111 6.282930 AGGCCATATTTAATGCACAATTGAC 58.717 36.000 13.59 4.32 0.00 3.18
111 112 6.482898 AGGCCATATTTAATGCACAATTGA 57.517 33.333 13.59 0.00 0.00 2.57
112 113 7.436118 ACTAGGCCATATTTAATGCACAATTG 58.564 34.615 5.01 3.24 0.00 2.32
113 114 7.601705 ACTAGGCCATATTTAATGCACAATT 57.398 32.000 5.01 0.00 0.00 2.32
114 115 8.884124 ATACTAGGCCATATTTAATGCACAAT 57.116 30.769 5.01 0.00 0.00 2.71
115 116 8.704849 AATACTAGGCCATATTTAATGCACAA 57.295 30.769 5.01 0.00 0.00 3.33
116 117 8.704849 AAATACTAGGCCATATTTAATGCACA 57.295 30.769 5.01 0.00 30.87 4.57
142 143 8.782144 GCAAAATTGGACCAAATCATTTTTCTA 58.218 29.630 11.82 0.00 29.57 2.10
143 144 7.284944 TGCAAAATTGGACCAAATCATTTTTCT 59.715 29.630 11.82 0.00 29.57 2.52
144 145 7.424001 TGCAAAATTGGACCAAATCATTTTTC 58.576 30.769 11.82 8.45 29.57 2.29
145 146 7.344095 TGCAAAATTGGACCAAATCATTTTT 57.656 28.000 11.82 10.03 31.08 1.94
146 147 6.956202 TGCAAAATTGGACCAAATCATTTT 57.044 29.167 11.82 10.40 0.00 1.82
147 148 6.320672 TGTTGCAAAATTGGACCAAATCATTT 59.679 30.769 11.82 4.33 0.00 2.32
148 149 5.826737 TGTTGCAAAATTGGACCAAATCATT 59.173 32.000 11.82 0.00 0.00 2.57
149 150 5.374921 TGTTGCAAAATTGGACCAAATCAT 58.625 33.333 11.82 0.00 0.00 2.45
150 151 4.774124 TGTTGCAAAATTGGACCAAATCA 58.226 34.783 11.82 2.39 0.00 2.57
151 152 5.747951 TTGTTGCAAAATTGGACCAAATC 57.252 34.783 11.82 0.00 28.86 2.17
152 153 6.712179 AATTGTTGCAAAATTGGACCAAAT 57.288 29.167 11.82 0.00 34.92 2.32
153 154 7.814264 ATAATTGTTGCAAAATTGGACCAAA 57.186 28.000 11.82 0.00 34.92 3.28
154 155 7.814264 AATAATTGTTGCAAAATTGGACCAA 57.186 28.000 9.92 9.92 35.63 3.67
155 156 7.255381 CCAAATAATTGTTGCAAAATTGGACCA 60.255 33.333 20.39 0.00 37.56 4.02
156 157 7.083230 CCAAATAATTGTTGCAAAATTGGACC 58.917 34.615 20.39 2.30 37.56 4.46
157 158 7.647228 ACCAAATAATTGTTGCAAAATTGGAC 58.353 30.769 20.81 1.11 38.47 4.02
158 159 7.814264 ACCAAATAATTGTTGCAAAATTGGA 57.186 28.000 20.81 8.25 38.47 3.53
159 160 8.235905 CCTACCAAATAATTGTTGCAAAATTGG 58.764 33.333 14.73 14.73 40.39 3.16
160 161 8.782144 ACCTACCAAATAATTGTTGCAAAATTG 58.218 29.630 20.39 10.02 34.60 2.32
161 162 8.916628 ACCTACCAAATAATTGTTGCAAAATT 57.083 26.923 17.61 17.61 34.60 1.82
162 163 8.916628 AACCTACCAAATAATTGTTGCAAAAT 57.083 26.923 0.00 0.71 34.60 1.82
163 164 8.207545 AGAACCTACCAAATAATTGTTGCAAAA 58.792 29.630 0.00 0.00 34.60 2.44
164 165 7.731054 AGAACCTACCAAATAATTGTTGCAAA 58.269 30.769 0.00 0.00 34.60 3.68
165 166 7.296628 AGAACCTACCAAATAATTGTTGCAA 57.703 32.000 0.00 0.00 34.60 4.08
166 167 6.909550 AGAACCTACCAAATAATTGTTGCA 57.090 33.333 0.00 0.00 34.60 4.08
167 168 7.328493 GTGAAGAACCTACCAAATAATTGTTGC 59.672 37.037 0.00 0.00 34.60 4.17
168 169 8.356657 TGTGAAGAACCTACCAAATAATTGTTG 58.643 33.333 0.00 0.00 34.60 3.33
169 170 8.472007 TGTGAAGAACCTACCAAATAATTGTT 57.528 30.769 0.00 0.00 34.60 2.83
170 171 8.472007 TTGTGAAGAACCTACCAAATAATTGT 57.528 30.769 0.00 0.00 34.60 2.71
171 172 9.757227 TTTTGTGAAGAACCTACCAAATAATTG 57.243 29.630 0.00 0.00 36.25 2.32
201 202 0.250727 TTCGAGTGCCCAAAAGGAGG 60.251 55.000 0.00 0.00 38.24 4.30
202 203 1.604604 TTTCGAGTGCCCAAAAGGAG 58.395 50.000 0.00 0.00 38.24 3.69
203 204 2.060050 TTTTCGAGTGCCCAAAAGGA 57.940 45.000 0.00 0.00 38.24 3.36
204 205 2.880963 TTTTTCGAGTGCCCAAAAGG 57.119 45.000 0.00 0.00 39.47 3.11
205 206 3.059166 CCATTTTTCGAGTGCCCAAAAG 58.941 45.455 0.00 0.00 0.00 2.27
206 207 2.695666 TCCATTTTTCGAGTGCCCAAAA 59.304 40.909 0.00 0.00 0.00 2.44
207 208 2.311463 TCCATTTTTCGAGTGCCCAAA 58.689 42.857 0.00 0.00 0.00 3.28
208 209 1.988293 TCCATTTTTCGAGTGCCCAA 58.012 45.000 0.00 0.00 0.00 4.12
209 210 1.988293 TTCCATTTTTCGAGTGCCCA 58.012 45.000 0.00 0.00 0.00 5.36
210 211 3.378911 TTTTCCATTTTTCGAGTGCCC 57.621 42.857 0.00 0.00 0.00 5.36
211 212 3.679502 CCATTTTCCATTTTTCGAGTGCC 59.320 43.478 0.00 0.00 0.00 5.01
212 213 4.306600 ACCATTTTCCATTTTTCGAGTGC 58.693 39.130 0.00 0.00 0.00 4.40
213 214 6.843069 AAACCATTTTCCATTTTTCGAGTG 57.157 33.333 0.00 0.00 0.00 3.51
214 215 7.857734 AAAAACCATTTTCCATTTTTCGAGT 57.142 28.000 0.00 0.00 33.48 4.18
494 505 0.186630 GGGGAGAGAGAGGAGGGTAC 59.813 65.000 0.00 0.00 0.00 3.34
496 507 2.329399 GGGGGAGAGAGAGGAGGGT 61.329 68.421 0.00 0.00 0.00 4.34
537 548 0.690192 TGGATCGAAGGTTTGCTCCA 59.310 50.000 0.00 0.00 35.16 3.86
539 550 2.003301 GTCTGGATCGAAGGTTTGCTC 58.997 52.381 0.00 0.00 0.00 4.26
548 559 0.397254 GGGGAGGAGTCTGGATCGAA 60.397 60.000 0.00 0.00 0.00 3.71
609 620 4.825679 GGAGGAGGGGAGGGGGTG 62.826 77.778 0.00 0.00 0.00 4.61
640 651 0.548031 TTGGATGGATCTGGCCAGAC 59.452 55.000 37.39 27.61 42.15 3.51
722 774 1.848932 CGTCGTCGAGGTCTGTTCCA 61.849 60.000 6.77 0.00 39.71 3.53
739 791 2.602568 ACTCTTGGTACCCGCCGT 60.603 61.111 10.07 0.00 0.00 5.68
755 1257 0.939106 GCGGTTGGTGCAACAATGAC 60.939 55.000 22.12 13.06 45.11 3.06
758 1260 2.334653 CGCGGTTGGTGCAACAAT 59.665 55.556 22.12 0.00 45.11 2.71
792 1294 3.000819 TGATCCGTCAAGCCCCGT 61.001 61.111 0.00 0.00 0.00 5.28
844 1346 3.879912 GCACAACATTTGCTGCTCT 57.120 47.368 0.00 0.00 37.00 4.09
902 1404 2.291153 CCATTGGAGTTGACCCAGTCAT 60.291 50.000 0.00 0.00 42.40 3.06
988 1490 1.798735 CACGCATCTCCTTTGCCAG 59.201 57.895 0.00 0.00 36.75 4.85
1081 1803 1.301716 CGGTAATGAGGATGGCCCG 60.302 63.158 0.00 0.00 40.87 6.13
1094 1816 1.340405 ACTCTAAGGCGAGGACGGTAA 60.340 52.381 0.00 0.00 40.15 2.85
1150 1872 4.920640 ACACCTTCATCGATCGATAGTT 57.079 40.909 28.94 10.96 32.93 2.24
1257 1979 6.548622 CACCATTGATAAATTCCCTCACTGAT 59.451 38.462 4.70 0.00 0.00 2.90
1477 2605 2.230025 TCCATTTATTTGCACCCACACG 59.770 45.455 0.00 0.00 0.00 4.49
1614 2742 8.998377 TGATCAAAACAAGAAATATTCGAGTCA 58.002 29.630 0.00 0.00 34.02 3.41
1698 2826 1.002773 ACAAAAGCTACGACGGGGAAT 59.997 47.619 0.00 0.00 0.00 3.01
2012 3143 5.363562 TGGATAGTGTAGACTAACTCCGA 57.636 43.478 12.61 3.07 36.92 4.55
2052 3183 4.414846 AGAGCATTACCTTGATGGGATCTT 59.585 41.667 0.00 0.00 41.11 2.40
2216 3348 2.999355 TGGTTGCAAAACTTCAGTTTGC 59.001 40.909 13.50 13.50 46.47 3.68
2277 3419 8.192110 GCTAACAGCTAGTTACAGAGATAAACT 58.808 37.037 5.10 0.00 41.64 2.66


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

AutoCloner maintained by Alex Coulton.