Multiple sequence alignment - TraesCS5A01G536900

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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 TraesCS5A01G536900 chr5A 100.000 2399 0 0 1 2399 693605562 693607960 0.000000e+00 4431.0
1 TraesCS5A01G536900 chr5A 86.693 759 82 10 1573 2324 345751852 345752598 0.000000e+00 824.0
2 TraesCS5A01G536900 chr5A 83.270 526 46 26 593 1094 669593436 669592929 1.690000e-121 446.0
3 TraesCS5A01G536900 chr5A 97.633 169 4 0 274 442 693612501 693612669 8.390000e-75 291.0
4 TraesCS5A01G536900 chr2A 97.460 2126 42 1 274 2399 418808230 418810343 0.000000e+00 3616.0
5 TraesCS5A01G536900 chr2A 96.471 170 5 1 274 443 418814853 418815021 1.820000e-71 279.0
6 TraesCS5A01G536900 chr2A 93.122 189 5 2 274 454 610205172 610205360 1.090000e-68 270.0
7 TraesCS5A01G536900 chr2A 75.517 290 35 20 281 543 762400215 762399935 2.520000e-20 110.0
8 TraesCS5A01G536900 chr3A 98.085 2037 37 2 363 2399 13830805 13828771 0.000000e+00 3544.0
9 TraesCS5A01G536900 chr6A 97.935 2034 42 0 366 2399 14150432 14148399 0.000000e+00 3524.0
10 TraesCS5A01G536900 chr6A 88.252 698 67 12 1699 2388 583032618 583033308 0.000000e+00 821.0
11 TraesCS5A01G536900 chr6A 93.220 177 4 2 274 442 14143833 14143657 1.100000e-63 254.0
12 TraesCS5A01G536900 chr6A 89.286 196 12 3 273 459 524319339 524319534 1.110000e-58 237.0
13 TraesCS5A01G536900 chr6A 87.500 104 3 6 274 374 14157576 14157480 7.010000e-21 111.0
14 TraesCS5A01G536900 chr6B 95.122 1599 64 4 812 2399 342808014 342806419 0.000000e+00 2508.0
15 TraesCS5A01G536900 chr6B 90.050 201 12 2 273 465 259645480 259645280 1.100000e-63 254.0
16 TraesCS5A01G536900 chr5B 95.116 1597 66 3 812 2399 271155262 271156855 0.000000e+00 2507.0
17 TraesCS5A01G536900 chr5B 87.324 213 14 6 273 475 682243901 682244110 5.160000e-57 231.0
18 TraesCS5A01G536900 chr2B 93.780 836 50 2 665 1498 299000704 298999869 0.000000e+00 1254.0
19 TraesCS5A01G536900 chr2B 92.467 823 53 6 1577 2399 155140268 155139455 0.000000e+00 1168.0
20 TraesCS5A01G536900 chr2B 84.786 631 61 19 273 881 155156111 155155494 3.410000e-168 601.0
21 TraesCS5A01G536900 chr2B 83.302 527 45 27 592 1094 728615511 728616018 1.690000e-121 446.0
22 TraesCS5A01G536900 chr2B 95.349 43 2 0 1177 1219 728616013 728616055 4.280000e-08 69.4
23 TraesCS5A01G536900 chr1D 88.517 688 71 8 1705 2388 386796666 386795983 0.000000e+00 826.0
24 TraesCS5A01G536900 chr1D 98.413 63 1 0 273 335 425540845 425540783 7.010000e-21 111.0
25 TraesCS5A01G536900 chr7B 83.491 527 44 27 592 1094 93325760 93325253 3.640000e-123 451.0
26 TraesCS5A01G536900 chr7B 83.270 526 46 26 593 1094 517843254 517843761 1.690000e-121 446.0
27 TraesCS5A01G536900 chr7B 83.080 526 47 26 593 1094 107641091 107640584 7.870000e-120 440.0
28 TraesCS5A01G536900 chr7B 95.349 43 2 0 1177 1219 93325258 93325216 4.280000e-08 69.4
29 TraesCS5A01G536900 chr4B 82.922 527 46 28 593 1094 175557662 175557155 3.660000e-118 435.0
30 TraesCS5A01G536900 chr4B 93.333 45 3 0 104 148 659602392 659602348 1.540000e-07 67.6
31 TraesCS5A01G536900 chr7A 89.394 198 12 2 274 462 119771412 119771215 8.570000e-60 241.0
32 TraesCS5A01G536900 chr7A 89.286 140 11 4 349 487 688669898 688670034 3.170000e-39 172.0
33 TraesCS5A01G536900 chr4D 94.792 96 5 0 48 143 508233176 508233271 1.490000e-32 150.0
34 TraesCS5A01G536900 chr3B 84.270 89 3 6 1132 1220 745725636 745725713 2.560000e-10 76.8
35 TraesCS5A01G536900 chr6D 89.831 59 2 2 429 487 408158315 408158369 3.310000e-09 73.1


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 TraesCS5A01G536900 chr5A 693605562 693607960 2398 False 4431.0 4431 100.0000 1 2399 1 chr5A.!!$F2 2398
1 TraesCS5A01G536900 chr5A 345751852 345752598 746 False 824.0 824 86.6930 1573 2324 1 chr5A.!!$F1 751
2 TraesCS5A01G536900 chr5A 669592929 669593436 507 True 446.0 446 83.2700 593 1094 1 chr5A.!!$R1 501
3 TraesCS5A01G536900 chr2A 418808230 418810343 2113 False 3616.0 3616 97.4600 274 2399 1 chr2A.!!$F1 2125
4 TraesCS5A01G536900 chr3A 13828771 13830805 2034 True 3544.0 3544 98.0850 363 2399 1 chr3A.!!$R1 2036
5 TraesCS5A01G536900 chr6A 14148399 14150432 2033 True 3524.0 3524 97.9350 366 2399 1 chr6A.!!$R2 2033
6 TraesCS5A01G536900 chr6A 583032618 583033308 690 False 821.0 821 88.2520 1699 2388 1 chr6A.!!$F2 689
7 TraesCS5A01G536900 chr6B 342806419 342808014 1595 True 2508.0 2508 95.1220 812 2399 1 chr6B.!!$R2 1587
8 TraesCS5A01G536900 chr5B 271155262 271156855 1593 False 2507.0 2507 95.1160 812 2399 1 chr5B.!!$F1 1587
9 TraesCS5A01G536900 chr2B 298999869 299000704 835 True 1254.0 1254 93.7800 665 1498 1 chr2B.!!$R3 833
10 TraesCS5A01G536900 chr2B 155139455 155140268 813 True 1168.0 1168 92.4670 1577 2399 1 chr2B.!!$R1 822
11 TraesCS5A01G536900 chr2B 155155494 155156111 617 True 601.0 601 84.7860 273 881 1 chr2B.!!$R2 608
12 TraesCS5A01G536900 chr2B 728615511 728616055 544 False 257.7 446 89.3255 592 1219 2 chr2B.!!$F1 627
13 TraesCS5A01G536900 chr1D 386795983 386796666 683 True 826.0 826 88.5170 1705 2388 1 chr1D.!!$R1 683
14 TraesCS5A01G536900 chr7B 517843254 517843761 507 False 446.0 446 83.2700 593 1094 1 chr7B.!!$F1 501
15 TraesCS5A01G536900 chr7B 107640584 107641091 507 True 440.0 440 83.0800 593 1094 1 chr7B.!!$R1 501
16 TraesCS5A01G536900 chr7B 93325216 93325760 544 True 260.2 451 89.4200 592 1219 2 chr7B.!!$R2 627
17 TraesCS5A01G536900 chr4B 175557155 175557662 507 True 435.0 435 82.9220 593 1094 1 chr4B.!!$R1 501

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
180 181 0.031111 AAGATGAGGGATCCACCGGA 60.031 55.0 15.23 0.00 40.11 5.14 F
209 210 0.037232 AAAGTAGCCGTCCAGCTGAC 60.037 55.0 17.39 10.62 44.67 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1380 1439 0.249447 CTTATCCCATGCGAGCGTCA 60.249 55.000 0.00 0.0 0.0 4.35 R
1516 1584 6.150976 CAGAAATCTGGGTACTAAAACATGCA 59.849 38.462 2.38 0.0 40.2 3.96 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
23 24 6.490877 CAAGACGAACAATACCAACAAAAC 57.509 37.500 0.00 0.00 0.00 2.43
24 25 5.821516 AGACGAACAATACCAACAAAACA 57.178 34.783 0.00 0.00 0.00 2.83
25 26 5.575019 AGACGAACAATACCAACAAAACAC 58.425 37.500 0.00 0.00 0.00 3.32
26 27 5.124138 AGACGAACAATACCAACAAAACACA 59.876 36.000 0.00 0.00 0.00 3.72
27 28 5.710984 ACGAACAATACCAACAAAACACAA 58.289 33.333 0.00 0.00 0.00 3.33
28 29 5.802956 ACGAACAATACCAACAAAACACAAG 59.197 36.000 0.00 0.00 0.00 3.16
29 30 6.030849 CGAACAATACCAACAAAACACAAGA 58.969 36.000 0.00 0.00 0.00 3.02
30 31 6.528423 CGAACAATACCAACAAAACACAAGAA 59.472 34.615 0.00 0.00 0.00 2.52
31 32 7.221838 CGAACAATACCAACAAAACACAAGAAT 59.778 33.333 0.00 0.00 0.00 2.40
32 33 7.769272 ACAATACCAACAAAACACAAGAATG 57.231 32.000 0.00 0.00 0.00 2.67
33 34 6.257630 ACAATACCAACAAAACACAAGAATGC 59.742 34.615 0.00 0.00 0.00 3.56
34 35 4.199432 ACCAACAAAACACAAGAATGCA 57.801 36.364 0.00 0.00 0.00 3.96
35 36 4.573900 ACCAACAAAACACAAGAATGCAA 58.426 34.783 0.00 0.00 0.00 4.08
36 37 4.630940 ACCAACAAAACACAAGAATGCAAG 59.369 37.500 0.00 0.00 0.00 4.01
37 38 4.034279 CCAACAAAACACAAGAATGCAAGG 59.966 41.667 0.00 0.00 0.00 3.61
38 39 4.470334 ACAAAACACAAGAATGCAAGGT 57.530 36.364 0.00 0.00 0.00 3.50
39 40 4.831107 ACAAAACACAAGAATGCAAGGTT 58.169 34.783 0.00 0.00 0.00 3.50
40 41 4.630940 ACAAAACACAAGAATGCAAGGTTG 59.369 37.500 0.00 0.00 0.00 3.77
41 42 3.457610 AACACAAGAATGCAAGGTTGG 57.542 42.857 0.00 0.00 0.00 3.77
42 43 2.665165 ACACAAGAATGCAAGGTTGGA 58.335 42.857 0.00 0.00 0.00 3.53
43 44 2.362077 ACACAAGAATGCAAGGTTGGAC 59.638 45.455 0.00 0.00 0.00 4.02
44 45 2.361757 CACAAGAATGCAAGGTTGGACA 59.638 45.455 0.00 0.00 0.00 4.02
45 46 2.362077 ACAAGAATGCAAGGTTGGACAC 59.638 45.455 0.00 0.00 0.00 3.67
46 47 2.624838 CAAGAATGCAAGGTTGGACACT 59.375 45.455 0.00 0.00 0.00 3.55
47 48 3.788227 AGAATGCAAGGTTGGACACTA 57.212 42.857 0.00 0.00 0.00 2.74
48 49 3.412386 AGAATGCAAGGTTGGACACTAC 58.588 45.455 0.00 0.00 0.00 2.73
49 50 2.200373 ATGCAAGGTTGGACACTACC 57.800 50.000 0.00 0.00 41.98 3.18
50 51 0.840617 TGCAAGGTTGGACACTACCA 59.159 50.000 0.00 0.00 43.77 3.25
51 52 1.202758 TGCAAGGTTGGACACTACCAG 60.203 52.381 0.00 0.00 43.77 4.00
52 53 1.882352 GCAAGGTTGGACACTACCAGG 60.882 57.143 0.00 0.00 43.77 4.45
53 54 0.400594 AAGGTTGGACACTACCAGGC 59.599 55.000 0.00 0.00 43.77 4.85
54 55 1.375523 GGTTGGACACTACCAGGCG 60.376 63.158 0.00 0.00 41.41 5.52
55 56 1.669440 GTTGGACACTACCAGGCGA 59.331 57.895 0.00 0.00 41.19 5.54
56 57 0.034337 GTTGGACACTACCAGGCGAA 59.966 55.000 0.00 0.00 41.19 4.70
57 58 0.759959 TTGGACACTACCAGGCGAAA 59.240 50.000 0.00 0.00 41.19 3.46
58 59 0.320374 TGGACACTACCAGGCGAAAG 59.680 55.000 0.00 0.00 34.77 2.62
59 60 3.640200 TGGACACTACCAGGCGAAAGC 62.640 57.143 0.00 0.00 45.71 3.51
71 72 1.493311 CGAAAGCACAAGAGCGACC 59.507 57.895 0.00 0.00 40.15 4.79
72 73 1.493311 GAAAGCACAAGAGCGACCG 59.507 57.895 0.00 0.00 40.15 4.79
73 74 0.944311 GAAAGCACAAGAGCGACCGA 60.944 55.000 0.00 0.00 40.15 4.69
74 75 0.531974 AAAGCACAAGAGCGACCGAA 60.532 50.000 0.00 0.00 40.15 4.30
75 76 1.222115 AAGCACAAGAGCGACCGAAC 61.222 55.000 0.00 0.00 40.15 3.95
76 77 2.668280 GCACAAGAGCGACCGAACC 61.668 63.158 0.00 0.00 0.00 3.62
77 78 1.300620 CACAAGAGCGACCGAACCA 60.301 57.895 0.00 0.00 0.00 3.67
78 79 1.300697 ACAAGAGCGACCGAACCAC 60.301 57.895 0.00 0.00 0.00 4.16
79 80 2.027625 CAAGAGCGACCGAACCACC 61.028 63.158 0.00 0.00 0.00 4.61
80 81 2.207924 AAGAGCGACCGAACCACCT 61.208 57.895 0.00 0.00 0.00 4.00
81 82 2.126031 GAGCGACCGAACCACCTC 60.126 66.667 0.00 0.00 0.00 3.85
82 83 2.915659 AGCGACCGAACCACCTCA 60.916 61.111 0.00 0.00 0.00 3.86
83 84 2.029964 GCGACCGAACCACCTCAA 59.970 61.111 0.00 0.00 0.00 3.02
84 85 2.027625 GCGACCGAACCACCTCAAG 61.028 63.158 0.00 0.00 0.00 3.02
85 86 1.663739 CGACCGAACCACCTCAAGA 59.336 57.895 0.00 0.00 0.00 3.02
86 87 0.032952 CGACCGAACCACCTCAAGAA 59.967 55.000 0.00 0.00 0.00 2.52
87 88 1.797025 GACCGAACCACCTCAAGAAG 58.203 55.000 0.00 0.00 0.00 2.85
88 89 1.343465 GACCGAACCACCTCAAGAAGA 59.657 52.381 0.00 0.00 0.00 2.87
89 90 1.344763 ACCGAACCACCTCAAGAAGAG 59.655 52.381 0.00 0.00 44.31 2.85
98 99 2.377136 TCAAGAAGAGACCCCTGGC 58.623 57.895 0.00 0.00 0.00 4.85
99 100 0.473694 TCAAGAAGAGACCCCTGGCA 60.474 55.000 0.00 0.00 0.00 4.92
100 101 0.322008 CAAGAAGAGACCCCTGGCAC 60.322 60.000 0.00 0.00 0.00 5.01
101 102 1.492993 AAGAAGAGACCCCTGGCACC 61.493 60.000 0.00 0.00 0.00 5.01
102 103 2.936032 AAGAGACCCCTGGCACCC 60.936 66.667 0.00 0.00 0.00 4.61
103 104 3.810687 AAGAGACCCCTGGCACCCA 62.811 63.158 0.00 0.00 0.00 4.51
104 105 4.035102 GAGACCCCTGGCACCCAC 62.035 72.222 0.00 0.00 0.00 4.61
110 111 4.802051 CCTGGCACCCACCCGATG 62.802 72.222 0.00 0.00 0.00 3.84
111 112 3.716195 CTGGCACCCACCCGATGA 61.716 66.667 0.00 0.00 0.00 2.92
112 113 3.253061 TGGCACCCACCCGATGAA 61.253 61.111 0.00 0.00 0.00 2.57
113 114 2.750237 GGCACCCACCCGATGAAC 60.750 66.667 0.00 0.00 0.00 3.18
114 115 2.033448 GCACCCACCCGATGAACA 59.967 61.111 0.00 0.00 0.00 3.18
115 116 1.602323 GCACCCACCCGATGAACAA 60.602 57.895 0.00 0.00 0.00 2.83
116 117 1.862602 GCACCCACCCGATGAACAAC 61.863 60.000 0.00 0.00 0.00 3.32
117 118 1.302192 ACCCACCCGATGAACAACG 60.302 57.895 0.00 0.00 0.00 4.10
118 119 1.004320 CCCACCCGATGAACAACGA 60.004 57.895 6.08 0.00 0.00 3.85
119 120 0.604243 CCCACCCGATGAACAACGAA 60.604 55.000 6.08 0.00 0.00 3.85
120 121 1.231221 CCACCCGATGAACAACGAAA 58.769 50.000 6.08 0.00 0.00 3.46
121 122 1.069500 CCACCCGATGAACAACGAAAC 60.069 52.381 6.08 0.00 0.00 2.78
122 123 1.069500 CACCCGATGAACAACGAAACC 60.069 52.381 6.08 0.00 0.00 3.27
123 124 1.202722 ACCCGATGAACAACGAAACCT 60.203 47.619 6.08 0.00 0.00 3.50
124 125 1.196808 CCCGATGAACAACGAAACCTG 59.803 52.381 6.08 0.00 0.00 4.00
125 126 1.399727 CCGATGAACAACGAAACCTGC 60.400 52.381 6.08 0.00 0.00 4.85
126 127 1.721489 CGATGAACAACGAAACCTGCG 60.721 52.381 0.00 0.00 0.00 5.18
127 128 0.040425 ATGAACAACGAAACCTGCGC 60.040 50.000 0.00 0.00 0.00 6.09
128 129 1.370051 GAACAACGAAACCTGCGCC 60.370 57.895 4.18 0.00 0.00 6.53
129 130 2.054140 GAACAACGAAACCTGCGCCA 62.054 55.000 4.18 0.00 0.00 5.69
130 131 2.051345 CAACGAAACCTGCGCCAC 60.051 61.111 4.18 0.00 0.00 5.01
131 132 3.284449 AACGAAACCTGCGCCACC 61.284 61.111 4.18 0.00 0.00 4.61
132 133 4.555709 ACGAAACCTGCGCCACCA 62.556 61.111 4.18 0.00 0.00 4.17
133 134 3.283684 CGAAACCTGCGCCACCAA 61.284 61.111 4.18 0.00 0.00 3.67
134 135 2.644992 GAAACCTGCGCCACCAAG 59.355 61.111 4.18 0.00 0.00 3.61
135 136 1.896660 GAAACCTGCGCCACCAAGA 60.897 57.895 4.18 0.00 0.00 3.02
136 137 1.228552 AAACCTGCGCCACCAAGAT 60.229 52.632 4.18 0.00 0.00 2.40
137 138 1.526575 AAACCTGCGCCACCAAGATG 61.527 55.000 4.18 0.00 0.00 2.90
138 139 2.046023 CCTGCGCCACCAAGATGA 60.046 61.111 4.18 0.00 0.00 2.92
139 140 1.675310 CCTGCGCCACCAAGATGAA 60.675 57.895 4.18 0.00 0.00 2.57
140 141 1.651240 CCTGCGCCACCAAGATGAAG 61.651 60.000 4.18 0.00 0.00 3.02
141 142 1.651240 CTGCGCCACCAAGATGAAGG 61.651 60.000 4.18 0.00 0.00 3.46
142 143 1.377202 GCGCCACCAAGATGAAGGA 60.377 57.895 0.00 0.00 0.00 3.36
143 144 0.749454 GCGCCACCAAGATGAAGGAT 60.749 55.000 0.00 0.00 0.00 3.24
144 145 1.303309 CGCCACCAAGATGAAGGATC 58.697 55.000 0.00 0.00 0.00 3.36
145 146 1.685148 GCCACCAAGATGAAGGATCC 58.315 55.000 2.48 2.48 0.00 3.36
146 147 1.064463 GCCACCAAGATGAAGGATCCA 60.064 52.381 15.82 0.00 0.00 3.41
147 148 2.648059 CCACCAAGATGAAGGATCCAC 58.352 52.381 15.82 8.27 0.00 4.02
148 149 2.025981 CCACCAAGATGAAGGATCCACA 60.026 50.000 15.82 14.02 0.00 4.17
149 150 3.012518 CACCAAGATGAAGGATCCACAC 58.987 50.000 15.82 5.22 0.00 3.82
150 151 2.915604 ACCAAGATGAAGGATCCACACT 59.084 45.455 15.82 10.42 0.00 3.55
151 152 3.331889 ACCAAGATGAAGGATCCACACTT 59.668 43.478 15.82 14.87 0.00 3.16
152 153 4.202609 ACCAAGATGAAGGATCCACACTTT 60.203 41.667 15.82 8.78 0.00 2.66
153 154 4.397417 CCAAGATGAAGGATCCACACTTTC 59.603 45.833 15.82 9.08 0.00 2.62
154 155 4.916041 AGATGAAGGATCCACACTTTCA 57.084 40.909 15.82 14.68 0.00 2.69
155 156 5.246981 AGATGAAGGATCCACACTTTCAA 57.753 39.130 15.82 0.60 0.00 2.69
156 157 5.634118 AGATGAAGGATCCACACTTTCAAA 58.366 37.500 15.82 0.00 0.00 2.69
157 158 6.070656 AGATGAAGGATCCACACTTTCAAAA 58.929 36.000 15.82 0.00 0.00 2.44
158 159 6.550854 AGATGAAGGATCCACACTTTCAAAAA 59.449 34.615 15.82 0.00 0.00 1.94
178 179 2.717639 AAAAGATGAGGGATCCACCG 57.282 50.000 15.23 0.00 40.11 4.94
179 180 0.839946 AAAGATGAGGGATCCACCGG 59.160 55.000 15.23 0.00 40.11 5.28
180 181 0.031111 AAGATGAGGGATCCACCGGA 60.031 55.000 15.23 0.00 40.11 5.14
181 182 0.760945 AGATGAGGGATCCACCGGAC 60.761 60.000 15.23 0.06 40.11 4.79
182 183 2.088674 GATGAGGGATCCACCGGACG 62.089 65.000 15.23 0.00 40.11 4.79
183 184 2.758737 GAGGGATCCACCGGACGT 60.759 66.667 15.23 0.00 40.11 4.34
184 185 2.284405 AGGGATCCACCGGACGTT 60.284 61.111 15.23 0.00 40.11 3.99
185 186 2.125269 GGGATCCACCGGACGTTG 60.125 66.667 15.23 0.00 40.11 4.10
186 187 2.660802 GGATCCACCGGACGTTGT 59.339 61.111 9.46 0.00 32.98 3.32
187 188 1.447314 GGATCCACCGGACGTTGTC 60.447 63.158 9.46 0.00 32.98 3.18
188 189 1.804326 GATCCACCGGACGTTGTCG 60.804 63.158 9.46 0.00 43.34 4.35
189 190 3.927163 ATCCACCGGACGTTGTCGC 62.927 63.158 9.46 0.00 41.18 5.19
190 191 4.953868 CCACCGGACGTTGTCGCA 62.954 66.667 9.46 0.00 41.18 5.10
191 192 2.962786 CACCGGACGTTGTCGCAA 60.963 61.111 9.46 0.00 41.18 4.85
192 193 2.202905 ACCGGACGTTGTCGCAAA 60.203 55.556 9.46 0.00 41.18 3.68
193 194 2.241880 ACCGGACGTTGTCGCAAAG 61.242 57.895 9.46 4.56 41.18 2.77
194 195 2.241880 CCGGACGTTGTCGCAAAGT 61.242 57.895 0.00 9.89 41.18 2.66
195 196 0.940519 CCGGACGTTGTCGCAAAGTA 60.941 55.000 0.00 0.00 41.18 2.24
196 197 0.433492 CGGACGTTGTCGCAAAGTAG 59.567 55.000 10.03 5.63 41.18 2.57
197 198 0.163146 GGACGTTGTCGCAAAGTAGC 59.837 55.000 10.03 1.84 41.18 3.58
198 199 0.163146 GACGTTGTCGCAAAGTAGCC 59.837 55.000 10.03 0.00 41.18 3.93
199 200 1.129809 CGTTGTCGCAAAGTAGCCG 59.870 57.895 0.00 0.00 0.00 5.52
200 201 1.554042 CGTTGTCGCAAAGTAGCCGT 61.554 55.000 0.00 0.00 0.00 5.68
201 202 0.163146 GTTGTCGCAAAGTAGCCGTC 59.837 55.000 0.00 0.00 0.00 4.79
202 203 0.947180 TTGTCGCAAAGTAGCCGTCC 60.947 55.000 0.00 0.00 0.00 4.79
203 204 1.373748 GTCGCAAAGTAGCCGTCCA 60.374 57.895 0.00 0.00 0.00 4.02
204 205 1.080093 TCGCAAAGTAGCCGTCCAG 60.080 57.895 0.00 0.00 0.00 3.86
205 206 2.740714 CGCAAAGTAGCCGTCCAGC 61.741 63.158 0.00 0.00 0.00 4.85
207 208 1.639298 GCAAAGTAGCCGTCCAGCTG 61.639 60.000 6.78 6.78 44.67 4.24
208 209 0.037326 CAAAGTAGCCGTCCAGCTGA 60.037 55.000 17.39 0.00 44.67 4.26
209 210 0.037232 AAAGTAGCCGTCCAGCTGAC 60.037 55.000 17.39 10.62 44.67 3.51
210 211 1.185618 AAGTAGCCGTCCAGCTGACA 61.186 55.000 17.39 0.00 44.67 3.58
211 212 1.446272 GTAGCCGTCCAGCTGACAC 60.446 63.158 17.39 10.50 44.67 3.67
212 213 2.646175 TAGCCGTCCAGCTGACACC 61.646 63.158 17.39 5.37 44.67 4.16
213 214 4.008933 GCCGTCCAGCTGACACCT 62.009 66.667 17.39 0.00 44.71 4.00
214 215 2.743718 CCGTCCAGCTGACACCTT 59.256 61.111 17.39 0.00 44.71 3.50
215 216 1.071471 CCGTCCAGCTGACACCTTT 59.929 57.895 17.39 0.00 44.71 3.11
216 217 0.535102 CCGTCCAGCTGACACCTTTT 60.535 55.000 17.39 0.00 44.71 2.27
217 218 1.308998 CGTCCAGCTGACACCTTTTT 58.691 50.000 17.39 0.00 44.71 1.94
237 238 2.169832 TTTTTGAGACGCCTGAGAGG 57.830 50.000 0.00 0.00 38.80 3.69
238 239 1.338107 TTTTGAGACGCCTGAGAGGA 58.662 50.000 0.00 0.00 37.67 3.71
239 240 0.603569 TTTGAGACGCCTGAGAGGAC 59.396 55.000 0.00 0.00 37.67 3.85
240 241 1.251527 TTGAGACGCCTGAGAGGACC 61.252 60.000 0.00 0.00 37.67 4.46
241 242 2.363147 AGACGCCTGAGAGGACCC 60.363 66.667 0.00 0.00 37.67 4.46
242 243 3.462678 GACGCCTGAGAGGACCCC 61.463 72.222 0.00 0.00 37.67 4.95
260 261 3.844090 GGCCCTCTCGCTCCAGAC 61.844 72.222 0.00 0.00 0.00 3.51
261 262 3.844090 GCCCTCTCGCTCCAGACC 61.844 72.222 0.00 0.00 0.00 3.85
262 263 3.522731 CCCTCTCGCTCCAGACCG 61.523 72.222 0.00 0.00 0.00 4.79
263 264 3.522731 CCTCTCGCTCCAGACCGG 61.523 72.222 0.00 0.00 0.00 5.28
264 265 4.200283 CTCTCGCTCCAGACCGGC 62.200 72.222 0.00 0.00 33.14 6.13
269 270 4.200283 GCTCCAGACCGGCGAGAG 62.200 72.222 9.30 3.97 33.14 3.20
270 271 3.522731 CTCCAGACCGGCGAGAGG 61.523 72.222 9.30 4.74 33.14 3.69
328 329 5.697633 TGCTTAGGTCGGTTGTTTAGTTTAG 59.302 40.000 0.00 0.00 0.00 1.85
329 330 5.390251 GCTTAGGTCGGTTGTTTAGTTTAGC 60.390 44.000 0.00 0.00 0.00 3.09
330 331 4.075963 AGGTCGGTTGTTTAGTTTAGCA 57.924 40.909 0.00 0.00 0.00 3.49
331 332 4.453751 AGGTCGGTTGTTTAGTTTAGCAA 58.546 39.130 0.00 0.00 0.00 3.91
332 333 4.274214 AGGTCGGTTGTTTAGTTTAGCAAC 59.726 41.667 0.00 0.00 40.08 4.17
337 338 5.159399 GTTGTTTAGTTTAGCAACCGTGA 57.841 39.130 0.00 0.00 36.25 4.35
338 339 4.799419 TGTTTAGTTTAGCAACCGTGAC 57.201 40.909 0.00 0.00 32.70 3.67
339 340 4.444536 TGTTTAGTTTAGCAACCGTGACT 58.555 39.130 0.00 0.00 32.70 3.41
375 394 6.295123 CGCCTCTGTACATGGGTATAAATACT 60.295 42.308 14.44 0.00 33.81 2.12
506 527 0.108377 CCACATCAATCCGTCACCGA 60.108 55.000 0.00 0.00 35.63 4.69
574 603 0.749454 GATGCCCAGCGTTCCTTGAT 60.749 55.000 0.00 0.00 0.00 2.57
709 739 3.474570 GACCTCCCGCATCAGCCT 61.475 66.667 0.00 0.00 37.52 4.58
845 882 4.221482 GCAAGGGGATCAGAAGAAAACATT 59.779 41.667 0.00 0.00 0.00 2.71
903 940 0.877071 ATGCAAAGACCAACTCTGCG 59.123 50.000 0.00 0.00 44.66 5.18
914 958 2.862536 CCAACTCTGCGTCATACATCAG 59.137 50.000 0.00 0.00 0.00 2.90
1380 1439 1.039233 GCAGCAGTTACCATGGCCAT 61.039 55.000 14.09 14.09 0.00 4.40
1459 1527 7.407393 AGTCAACCCTGTACTTAGAGATAAC 57.593 40.000 0.00 0.00 0.00 1.89
1500 1568 7.550906 GCAGTTTCAGATCCAGTAAGACTTAAT 59.449 37.037 0.00 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.020995 GTGTTTTGTTGGTATTGTTCGTCTTG 60.021 38.462 0.00 0.00 0.00 3.02
1 2 6.031471 GTGTTTTGTTGGTATTGTTCGTCTT 58.969 36.000 0.00 0.00 0.00 3.01
2 3 5.124138 TGTGTTTTGTTGGTATTGTTCGTCT 59.876 36.000 0.00 0.00 0.00 4.18
3 4 5.333513 TGTGTTTTGTTGGTATTGTTCGTC 58.666 37.500 0.00 0.00 0.00 4.20
4 5 5.312120 TGTGTTTTGTTGGTATTGTTCGT 57.688 34.783 0.00 0.00 0.00 3.85
5 6 6.030849 TCTTGTGTTTTGTTGGTATTGTTCG 58.969 36.000 0.00 0.00 0.00 3.95
6 7 7.820044 TTCTTGTGTTTTGTTGGTATTGTTC 57.180 32.000 0.00 0.00 0.00 3.18
7 8 7.201600 GCATTCTTGTGTTTTGTTGGTATTGTT 60.202 33.333 0.00 0.00 0.00 2.83
8 9 6.257630 GCATTCTTGTGTTTTGTTGGTATTGT 59.742 34.615 0.00 0.00 0.00 2.71
9 10 6.257411 TGCATTCTTGTGTTTTGTTGGTATTG 59.743 34.615 0.00 0.00 0.00 1.90
10 11 6.344500 TGCATTCTTGTGTTTTGTTGGTATT 58.656 32.000 0.00 0.00 0.00 1.89
11 12 5.911752 TGCATTCTTGTGTTTTGTTGGTAT 58.088 33.333 0.00 0.00 0.00 2.73
12 13 5.330455 TGCATTCTTGTGTTTTGTTGGTA 57.670 34.783 0.00 0.00 0.00 3.25
13 14 4.199432 TGCATTCTTGTGTTTTGTTGGT 57.801 36.364 0.00 0.00 0.00 3.67
14 15 4.034279 CCTTGCATTCTTGTGTTTTGTTGG 59.966 41.667 0.00 0.00 0.00 3.77
15 16 4.630940 ACCTTGCATTCTTGTGTTTTGTTG 59.369 37.500 0.00 0.00 0.00 3.33
16 17 4.831107 ACCTTGCATTCTTGTGTTTTGTT 58.169 34.783 0.00 0.00 0.00 2.83
17 18 4.470334 ACCTTGCATTCTTGTGTTTTGT 57.530 36.364 0.00 0.00 0.00 2.83
18 19 4.034279 CCAACCTTGCATTCTTGTGTTTTG 59.966 41.667 0.00 0.00 0.00 2.44
19 20 4.081198 TCCAACCTTGCATTCTTGTGTTTT 60.081 37.500 0.00 0.00 0.00 2.43
20 21 3.450457 TCCAACCTTGCATTCTTGTGTTT 59.550 39.130 0.00 0.00 0.00 2.83
21 22 3.030291 TCCAACCTTGCATTCTTGTGTT 58.970 40.909 0.00 0.00 0.00 3.32
22 23 2.362077 GTCCAACCTTGCATTCTTGTGT 59.638 45.455 0.00 0.00 0.00 3.72
23 24 2.361757 TGTCCAACCTTGCATTCTTGTG 59.638 45.455 0.00 0.00 0.00 3.33
24 25 2.362077 GTGTCCAACCTTGCATTCTTGT 59.638 45.455 0.00 0.00 0.00 3.16
25 26 2.624838 AGTGTCCAACCTTGCATTCTTG 59.375 45.455 0.00 0.00 0.00 3.02
26 27 2.949447 AGTGTCCAACCTTGCATTCTT 58.051 42.857 0.00 0.00 0.00 2.52
27 28 2.664402 AGTGTCCAACCTTGCATTCT 57.336 45.000 0.00 0.00 0.00 2.40
28 29 2.488153 GGTAGTGTCCAACCTTGCATTC 59.512 50.000 0.00 0.00 32.72 2.67
29 30 2.158534 TGGTAGTGTCCAACCTTGCATT 60.159 45.455 0.00 0.00 36.67 3.56
30 31 1.423541 TGGTAGTGTCCAACCTTGCAT 59.576 47.619 0.00 0.00 36.67 3.96
31 32 0.840617 TGGTAGTGTCCAACCTTGCA 59.159 50.000 0.00 0.00 36.67 4.08
32 33 1.523758 CTGGTAGTGTCCAACCTTGC 58.476 55.000 0.00 0.00 37.01 4.01
33 34 1.882352 GCCTGGTAGTGTCCAACCTTG 60.882 57.143 0.00 0.00 37.01 3.61
34 35 0.400594 GCCTGGTAGTGTCCAACCTT 59.599 55.000 0.00 0.00 37.01 3.50
35 36 1.827399 CGCCTGGTAGTGTCCAACCT 61.827 60.000 0.00 0.00 37.01 3.50
36 37 1.375523 CGCCTGGTAGTGTCCAACC 60.376 63.158 0.00 0.00 37.01 3.77
37 38 0.034337 TTCGCCTGGTAGTGTCCAAC 59.966 55.000 0.00 0.00 37.01 3.77
38 39 0.759959 TTTCGCCTGGTAGTGTCCAA 59.240 50.000 0.00 0.00 37.01 3.53
39 40 0.320374 CTTTCGCCTGGTAGTGTCCA 59.680 55.000 0.00 0.00 36.00 4.02
40 41 1.019805 GCTTTCGCCTGGTAGTGTCC 61.020 60.000 0.00 0.00 0.00 4.02
41 42 0.320421 TGCTTTCGCCTGGTAGTGTC 60.320 55.000 0.00 0.00 34.43 3.67
42 43 0.602905 GTGCTTTCGCCTGGTAGTGT 60.603 55.000 0.00 0.00 34.43 3.55
43 44 0.602638 TGTGCTTTCGCCTGGTAGTG 60.603 55.000 0.00 0.00 34.43 2.74
44 45 0.107831 TTGTGCTTTCGCCTGGTAGT 59.892 50.000 0.00 0.00 34.43 2.73
45 46 0.798776 CTTGTGCTTTCGCCTGGTAG 59.201 55.000 0.00 0.00 34.43 3.18
46 47 0.394938 TCTTGTGCTTTCGCCTGGTA 59.605 50.000 0.00 0.00 34.43 3.25
47 48 0.886490 CTCTTGTGCTTTCGCCTGGT 60.886 55.000 0.00 0.00 34.43 4.00
48 49 1.871772 CTCTTGTGCTTTCGCCTGG 59.128 57.895 0.00 0.00 34.43 4.45
49 50 1.208614 GCTCTTGTGCTTTCGCCTG 59.791 57.895 0.00 0.00 34.43 4.85
50 51 2.320587 CGCTCTTGTGCTTTCGCCT 61.321 57.895 0.00 0.00 34.43 5.52
51 52 2.174349 CGCTCTTGTGCTTTCGCC 59.826 61.111 0.00 0.00 34.43 5.54
52 53 1.154580 GTCGCTCTTGTGCTTTCGC 60.155 57.895 0.00 0.00 0.00 4.70
53 54 1.493311 GGTCGCTCTTGTGCTTTCG 59.507 57.895 0.00 0.00 0.00 3.46
54 55 0.944311 TCGGTCGCTCTTGTGCTTTC 60.944 55.000 0.00 0.00 0.00 2.62
55 56 0.531974 TTCGGTCGCTCTTGTGCTTT 60.532 50.000 0.00 0.00 0.00 3.51
56 57 1.069090 TTCGGTCGCTCTTGTGCTT 59.931 52.632 0.00 0.00 0.00 3.91
57 58 1.664965 GTTCGGTCGCTCTTGTGCT 60.665 57.895 0.00 0.00 0.00 4.40
58 59 2.668280 GGTTCGGTCGCTCTTGTGC 61.668 63.158 0.00 0.00 0.00 4.57
59 60 1.300620 TGGTTCGGTCGCTCTTGTG 60.301 57.895 0.00 0.00 0.00 3.33
60 61 1.300697 GTGGTTCGGTCGCTCTTGT 60.301 57.895 0.00 0.00 0.00 3.16
61 62 2.027625 GGTGGTTCGGTCGCTCTTG 61.028 63.158 0.00 0.00 0.00 3.02
62 63 2.156051 GAGGTGGTTCGGTCGCTCTT 62.156 60.000 0.00 0.00 0.00 2.85
63 64 2.600769 AGGTGGTTCGGTCGCTCT 60.601 61.111 0.00 0.00 0.00 4.09
64 65 2.126031 GAGGTGGTTCGGTCGCTC 60.126 66.667 0.00 0.00 0.00 5.03
65 66 2.436087 CTTGAGGTGGTTCGGTCGCT 62.436 60.000 0.00 0.00 0.00 4.93
66 67 2.027625 CTTGAGGTGGTTCGGTCGC 61.028 63.158 0.00 0.00 0.00 5.19
67 68 0.032952 TTCTTGAGGTGGTTCGGTCG 59.967 55.000 0.00 0.00 0.00 4.79
68 69 1.343465 TCTTCTTGAGGTGGTTCGGTC 59.657 52.381 0.00 0.00 0.00 4.79
69 70 1.344763 CTCTTCTTGAGGTGGTTCGGT 59.655 52.381 0.00 0.00 39.08 4.69
70 71 1.618837 TCTCTTCTTGAGGTGGTTCGG 59.381 52.381 0.00 0.00 42.86 4.30
71 72 2.610727 GGTCTCTTCTTGAGGTGGTTCG 60.611 54.545 0.00 0.00 42.86 3.95
72 73 2.289756 GGGTCTCTTCTTGAGGTGGTTC 60.290 54.545 0.00 0.00 42.86 3.62
73 74 1.700186 GGGTCTCTTCTTGAGGTGGTT 59.300 52.381 0.00 0.00 42.86 3.67
74 75 1.353091 GGGTCTCTTCTTGAGGTGGT 58.647 55.000 0.00 0.00 42.86 4.16
75 76 0.615850 GGGGTCTCTTCTTGAGGTGG 59.384 60.000 0.00 0.00 42.86 4.61
76 77 1.277557 CAGGGGTCTCTTCTTGAGGTG 59.722 57.143 0.00 0.00 42.86 4.00
77 78 1.650528 CAGGGGTCTCTTCTTGAGGT 58.349 55.000 0.00 0.00 42.86 3.85
78 79 0.908198 CCAGGGGTCTCTTCTTGAGG 59.092 60.000 0.00 0.00 42.86 3.86
79 80 0.251634 GCCAGGGGTCTCTTCTTGAG 59.748 60.000 0.00 0.00 43.96 3.02
80 81 0.473694 TGCCAGGGGTCTCTTCTTGA 60.474 55.000 0.00 0.00 0.00 3.02
81 82 0.322008 GTGCCAGGGGTCTCTTCTTG 60.322 60.000 0.00 0.00 0.00 3.02
82 83 1.492993 GGTGCCAGGGGTCTCTTCTT 61.493 60.000 0.00 0.00 0.00 2.52
83 84 1.920835 GGTGCCAGGGGTCTCTTCT 60.921 63.158 0.00 0.00 0.00 2.85
84 85 2.671682 GGTGCCAGGGGTCTCTTC 59.328 66.667 0.00 0.00 0.00 2.87
85 86 2.936032 GGGTGCCAGGGGTCTCTT 60.936 66.667 0.00 0.00 0.00 2.85
86 87 4.270153 TGGGTGCCAGGGGTCTCT 62.270 66.667 0.00 0.00 0.00 3.10
87 88 4.035102 GTGGGTGCCAGGGGTCTC 62.035 72.222 0.00 0.00 32.34 3.36
93 94 4.802051 CATCGGGTGGGTGCCAGG 62.802 72.222 0.00 0.00 32.34 4.45
94 95 3.266686 TTCATCGGGTGGGTGCCAG 62.267 63.158 0.00 0.00 32.34 4.85
95 96 3.253061 TTCATCGGGTGGGTGCCA 61.253 61.111 0.00 0.00 0.00 4.92
96 97 2.750237 GTTCATCGGGTGGGTGCC 60.750 66.667 0.00 0.00 0.00 5.01
97 98 1.602323 TTGTTCATCGGGTGGGTGC 60.602 57.895 0.00 0.00 0.00 5.01
98 99 1.573829 CGTTGTTCATCGGGTGGGTG 61.574 60.000 0.00 0.00 0.00 4.61
99 100 1.302192 CGTTGTTCATCGGGTGGGT 60.302 57.895 0.00 0.00 0.00 4.51
100 101 0.604243 TTCGTTGTTCATCGGGTGGG 60.604 55.000 3.96 0.00 0.00 4.61
101 102 1.069500 GTTTCGTTGTTCATCGGGTGG 60.069 52.381 3.96 0.00 0.00 4.61
102 103 1.069500 GGTTTCGTTGTTCATCGGGTG 60.069 52.381 3.96 0.00 0.00 4.61
103 104 1.202722 AGGTTTCGTTGTTCATCGGGT 60.203 47.619 3.96 0.00 0.00 5.28
104 105 1.196808 CAGGTTTCGTTGTTCATCGGG 59.803 52.381 3.96 0.00 0.00 5.14
105 106 1.399727 GCAGGTTTCGTTGTTCATCGG 60.400 52.381 3.96 0.00 0.00 4.18
106 107 1.721489 CGCAGGTTTCGTTGTTCATCG 60.721 52.381 0.00 0.00 0.00 3.84
107 108 1.950472 CGCAGGTTTCGTTGTTCATC 58.050 50.000 0.00 0.00 0.00 2.92
108 109 0.040425 GCGCAGGTTTCGTTGTTCAT 60.040 50.000 0.30 0.00 0.00 2.57
109 110 1.353804 GCGCAGGTTTCGTTGTTCA 59.646 52.632 0.30 0.00 0.00 3.18
110 111 1.370051 GGCGCAGGTTTCGTTGTTC 60.370 57.895 10.83 0.00 0.00 3.18
111 112 2.115911 TGGCGCAGGTTTCGTTGTT 61.116 52.632 10.83 0.00 0.00 2.83
112 113 2.515057 TGGCGCAGGTTTCGTTGT 60.515 55.556 10.83 0.00 0.00 3.32
113 114 2.051345 GTGGCGCAGGTTTCGTTG 60.051 61.111 10.83 0.00 0.00 4.10
114 115 3.284449 GGTGGCGCAGGTTTCGTT 61.284 61.111 10.83 0.00 0.00 3.85
115 116 4.555709 TGGTGGCGCAGGTTTCGT 62.556 61.111 10.83 0.00 0.00 3.85
116 117 3.254014 CTTGGTGGCGCAGGTTTCG 62.254 63.158 10.83 0.00 0.00 3.46
117 118 1.244019 ATCTTGGTGGCGCAGGTTTC 61.244 55.000 10.83 0.00 0.00 2.78
118 119 1.228552 ATCTTGGTGGCGCAGGTTT 60.229 52.632 10.83 0.00 0.00 3.27
119 120 1.973281 CATCTTGGTGGCGCAGGTT 60.973 57.895 10.83 0.00 0.00 3.50
120 121 2.360350 CATCTTGGTGGCGCAGGT 60.360 61.111 10.83 0.00 0.00 4.00
121 122 1.651240 CTTCATCTTGGTGGCGCAGG 61.651 60.000 10.83 0.00 0.00 4.85
122 123 1.651240 CCTTCATCTTGGTGGCGCAG 61.651 60.000 10.83 0.00 0.00 5.18
123 124 1.675310 CCTTCATCTTGGTGGCGCA 60.675 57.895 10.83 0.00 0.00 6.09
124 125 0.749454 ATCCTTCATCTTGGTGGCGC 60.749 55.000 0.00 0.00 0.00 6.53
125 126 1.303309 GATCCTTCATCTTGGTGGCG 58.697 55.000 0.00 0.00 0.00 5.69
126 127 1.064463 TGGATCCTTCATCTTGGTGGC 60.064 52.381 14.23 0.00 0.00 5.01
127 128 2.025981 TGTGGATCCTTCATCTTGGTGG 60.026 50.000 14.23 0.00 0.00 4.61
128 129 3.012518 GTGTGGATCCTTCATCTTGGTG 58.987 50.000 14.23 0.00 0.00 4.17
129 130 2.915604 AGTGTGGATCCTTCATCTTGGT 59.084 45.455 14.23 0.00 0.00 3.67
130 131 3.641434 AGTGTGGATCCTTCATCTTGG 57.359 47.619 14.23 0.00 0.00 3.61
131 132 5.005740 TGAAAGTGTGGATCCTTCATCTTG 58.994 41.667 14.23 0.00 0.00 3.02
132 133 5.246981 TGAAAGTGTGGATCCTTCATCTT 57.753 39.130 14.23 13.72 0.00 2.40
133 134 4.916041 TGAAAGTGTGGATCCTTCATCT 57.084 40.909 14.23 9.29 0.00 2.90
134 135 5.964958 TTTGAAAGTGTGGATCCTTCATC 57.035 39.130 14.23 7.74 0.00 2.92
135 136 6.729690 TTTTTGAAAGTGTGGATCCTTCAT 57.270 33.333 14.23 0.00 0.00 2.57
158 159 2.357154 CCGGTGGATCCCTCATCTTTTT 60.357 50.000 9.90 0.00 0.00 1.94
159 160 1.212935 CCGGTGGATCCCTCATCTTTT 59.787 52.381 9.90 0.00 0.00 2.27
160 161 0.839946 CCGGTGGATCCCTCATCTTT 59.160 55.000 9.90 0.00 0.00 2.52
161 162 0.031111 TCCGGTGGATCCCTCATCTT 60.031 55.000 9.90 0.00 0.00 2.40
162 163 0.760945 GTCCGGTGGATCCCTCATCT 60.761 60.000 9.90 0.00 32.73 2.90
163 164 1.749033 GTCCGGTGGATCCCTCATC 59.251 63.158 9.90 0.00 32.73 2.92
164 165 2.134287 CGTCCGGTGGATCCCTCAT 61.134 63.158 9.90 0.00 32.73 2.90
165 166 2.758327 CGTCCGGTGGATCCCTCA 60.758 66.667 9.90 0.00 32.73 3.86
166 167 2.356780 AACGTCCGGTGGATCCCTC 61.357 63.158 9.90 2.15 32.73 4.30
167 168 2.284405 AACGTCCGGTGGATCCCT 60.284 61.111 9.90 0.00 32.73 4.20
168 169 2.125269 CAACGTCCGGTGGATCCC 60.125 66.667 9.90 0.00 32.73 3.85
169 170 1.447314 GACAACGTCCGGTGGATCC 60.447 63.158 9.78 4.20 37.09 3.36
170 171 1.804326 CGACAACGTCCGGTGGATC 60.804 63.158 9.78 0.00 37.09 3.36
171 172 2.260434 CGACAACGTCCGGTGGAT 59.740 61.111 9.78 0.00 37.09 3.41
172 173 4.651008 GCGACAACGTCCGGTGGA 62.651 66.667 9.78 0.00 41.98 4.02
173 174 4.953868 TGCGACAACGTCCGGTGG 62.954 66.667 9.78 0.00 41.98 4.61
174 175 2.424576 CTTTGCGACAACGTCCGGTG 62.425 60.000 0.00 2.68 41.98 4.94
175 176 2.202905 TTTGCGACAACGTCCGGT 60.203 55.556 0.00 0.00 41.98 5.28
176 177 0.940519 TACTTTGCGACAACGTCCGG 60.941 55.000 0.00 0.00 41.98 5.14
177 178 0.433492 CTACTTTGCGACAACGTCCG 59.567 55.000 5.30 0.00 41.98 4.79
178 179 0.163146 GCTACTTTGCGACAACGTCC 59.837 55.000 5.30 0.00 41.98 4.79
179 180 0.163146 GGCTACTTTGCGACAACGTC 59.837 55.000 5.30 0.00 41.98 4.34
180 181 1.554042 CGGCTACTTTGCGACAACGT 61.554 55.000 6.86 6.86 41.98 3.99
181 182 1.129809 CGGCTACTTTGCGACAACG 59.870 57.895 0.00 0.00 42.93 4.10
182 183 0.163146 GACGGCTACTTTGCGACAAC 59.837 55.000 0.00 0.00 0.00 3.32
183 184 0.947180 GGACGGCTACTTTGCGACAA 60.947 55.000 0.00 0.00 0.00 3.18
184 185 1.373748 GGACGGCTACTTTGCGACA 60.374 57.895 0.00 0.00 0.00 4.35
185 186 1.352156 CTGGACGGCTACTTTGCGAC 61.352 60.000 0.00 0.00 0.00 5.19
186 187 1.080093 CTGGACGGCTACTTTGCGA 60.080 57.895 0.00 0.00 0.00 5.10
187 188 2.740714 GCTGGACGGCTACTTTGCG 61.741 63.158 0.00 0.00 0.00 4.85
188 189 1.376037 AGCTGGACGGCTACTTTGC 60.376 57.895 3.34 0.00 41.16 3.68
189 190 0.037326 TCAGCTGGACGGCTACTTTG 60.037 55.000 15.13 0.00 41.00 2.77
190 191 0.037232 GTCAGCTGGACGGCTACTTT 60.037 55.000 15.13 0.00 41.00 2.66
191 192 1.592223 GTCAGCTGGACGGCTACTT 59.408 57.895 15.13 0.00 41.00 2.24
192 193 3.289525 GTCAGCTGGACGGCTACT 58.710 61.111 15.13 0.00 41.00 2.57
218 219 1.691976 TCCTCTCAGGCGTCTCAAAAA 59.308 47.619 0.00 0.00 34.61 1.94
219 220 1.000955 GTCCTCTCAGGCGTCTCAAAA 59.999 52.381 0.00 0.00 34.61 2.44
220 221 0.603569 GTCCTCTCAGGCGTCTCAAA 59.396 55.000 0.00 0.00 34.61 2.69
221 222 1.251527 GGTCCTCTCAGGCGTCTCAA 61.252 60.000 0.00 0.00 34.61 3.02
222 223 1.679305 GGTCCTCTCAGGCGTCTCA 60.679 63.158 0.00 0.00 34.61 3.27
223 224 2.419739 GGGTCCTCTCAGGCGTCTC 61.420 68.421 0.00 0.00 34.61 3.36
224 225 2.363147 GGGTCCTCTCAGGCGTCT 60.363 66.667 0.00 0.00 34.61 4.18
225 226 3.462678 GGGGTCCTCTCAGGCGTC 61.463 72.222 0.00 0.00 34.61 5.19
243 244 3.844090 GTCTGGAGCGAGAGGGCC 61.844 72.222 0.00 0.00 0.00 5.80
244 245 3.844090 GGTCTGGAGCGAGAGGGC 61.844 72.222 0.00 0.00 0.00 5.19
252 253 4.200283 CTCTCGCCGGTCTGGAGC 62.200 72.222 1.90 0.00 42.00 4.70
253 254 3.522731 CCTCTCGCCGGTCTGGAG 61.523 72.222 1.90 5.47 42.00 3.86
256 257 3.382832 AACCCTCTCGCCGGTCTG 61.383 66.667 1.90 0.00 0.00 3.51
257 258 3.382832 CAACCCTCTCGCCGGTCT 61.383 66.667 1.90 0.00 0.00 3.85
258 259 1.880819 TAACAACCCTCTCGCCGGTC 61.881 60.000 1.90 0.00 0.00 4.79
259 260 1.474332 TTAACAACCCTCTCGCCGGT 61.474 55.000 1.90 0.00 0.00 5.28
260 261 0.739813 CTTAACAACCCTCTCGCCGG 60.740 60.000 0.00 0.00 0.00 6.13
261 262 0.739813 CCTTAACAACCCTCTCGCCG 60.740 60.000 0.00 0.00 0.00 6.46
262 263 0.611714 TCCTTAACAACCCTCTCGCC 59.388 55.000 0.00 0.00 0.00 5.54
263 264 2.693267 ATCCTTAACAACCCTCTCGC 57.307 50.000 0.00 0.00 0.00 5.03
264 265 8.726870 TTAATTAATCCTTAACAACCCTCTCG 57.273 34.615 0.00 0.00 0.00 4.04
328 329 4.026310 CGGTAATTACATAGTCACGGTTGC 60.026 45.833 17.16 0.00 0.00 4.17
329 330 4.026310 GCGGTAATTACATAGTCACGGTTG 60.026 45.833 17.16 0.00 0.00 3.77
330 331 4.114794 GCGGTAATTACATAGTCACGGTT 58.885 43.478 17.16 0.00 0.00 4.44
331 332 3.491447 GGCGGTAATTACATAGTCACGGT 60.491 47.826 17.16 0.00 0.00 4.83
332 333 3.054878 GGCGGTAATTACATAGTCACGG 58.945 50.000 17.16 0.00 0.00 4.94
333 334 3.973657 AGGCGGTAATTACATAGTCACG 58.026 45.455 17.16 10.20 0.00 4.35
334 335 4.982916 CAGAGGCGGTAATTACATAGTCAC 59.017 45.833 17.16 8.07 0.00 3.67
335 336 4.647853 ACAGAGGCGGTAATTACATAGTCA 59.352 41.667 17.16 0.00 0.00 3.41
336 337 5.197682 ACAGAGGCGGTAATTACATAGTC 57.802 43.478 17.16 9.24 0.00 2.59
337 338 5.595542 TGTACAGAGGCGGTAATTACATAGT 59.404 40.000 17.16 7.79 0.00 2.12
338 339 6.080648 TGTACAGAGGCGGTAATTACATAG 57.919 41.667 17.16 8.86 0.00 2.23
339 340 6.452242 CATGTACAGAGGCGGTAATTACATA 58.548 40.000 17.16 0.00 29.67 2.29
375 394 7.547019 CAGTAACTGCATTGACTGAAGAATAGA 59.453 37.037 15.00 0.00 41.51 1.98
506 527 2.264794 GGGCATCAAGGACGTCGT 59.735 61.111 9.92 7.31 0.00 4.34
574 603 2.264480 CGGGGACAACGAGATGCA 59.736 61.111 0.00 0.00 0.00 3.96
845 882 3.176411 AGATGTGTCACAGGGATCTTGA 58.824 45.455 12.03 0.00 0.00 3.02
903 940 5.664457 TGAATCACCTGACTGATGTATGAC 58.336 41.667 0.00 0.00 30.92 3.06
914 958 5.567138 AAATCGGAATTGAATCACCTGAC 57.433 39.130 0.00 0.00 0.00 3.51
1380 1439 0.249447 CTTATCCCATGCGAGCGTCA 60.249 55.000 0.00 0.00 0.00 4.35
1436 1504 6.154021 TGGTTATCTCTAAGTACAGGGTTGAC 59.846 42.308 0.00 0.00 0.00 3.18
1500 1568 6.909550 AACATGCAGTTTAGTAAATCCCAA 57.090 33.333 0.00 0.00 37.03 4.12
1516 1584 6.150976 CAGAAATCTGGGTACTAAAACATGCA 59.849 38.462 2.38 0.00 40.20 3.96
2219 2303 7.327975 TCAGAGGAGCAAATTTTTACGATAGA 58.672 34.615 0.00 0.00 41.38 1.98


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

AutoCloner maintained by Alex Coulton.