Multiple sequence alignment - TraesCS7B01G044700

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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 TraesCS7B01G044700 chr7B 100.000 2388 0 0 1 2388 44259653 44257266 0.000000e+00 4410
1 TraesCS7B01G044700 chr7B 86.360 1195 114 25 576 1731 44272422 44271238 0.000000e+00 1258
2 TraesCS7B01G044700 chr7B 82.789 1255 131 50 567 1766 44294034 44292810 0.000000e+00 1042
3 TraesCS7B01G044700 chr7B 93.617 141 8 1 20 159 557185942 557185802 2.410000e-50 209
4 TraesCS7B01G044700 chr7B 94.792 96 4 1 231 326 433881588 433881682 5.320000e-32 148
5 TraesCS7B01G044700 chr7B 83.077 130 11 2 197 326 725603682 725603564 9.030000e-20 108
6 TraesCS7B01G044700 chr7A 93.070 1443 80 15 339 1770 94385067 94383634 0.000000e+00 2093
7 TraesCS7B01G044700 chr7A 83.786 1215 100 48 567 1731 94400730 94399563 0.000000e+00 1062
8 TraesCS7B01G044700 chr7A 84.878 615 51 15 1812 2388 94383542 94382932 1.230000e-162 582
9 TraesCS7B01G044700 chr7A 95.376 173 8 0 154 326 94386979 94386807 2.340000e-70 276
10 TraesCS7B01G044700 chr7A 87.500 128 12 2 199 326 731748517 731748394 6.880000e-31 145
11 TraesCS7B01G044700 chr7D 92.153 548 37 6 1227 1770 92229912 92229367 0.000000e+00 769
12 TraesCS7B01G044700 chr7D 89.771 567 41 7 1822 2388 92229089 92228540 0.000000e+00 710
13 TraesCS7B01G044700 chr7D 83.378 746 67 28 567 1264 92238471 92237735 2.590000e-179 638
14 TraesCS7B01G044700 chr7D 84.389 679 48 24 576 1234 92235509 92234869 4.360000e-172 614
15 TraesCS7B01G044700 chr7D 84.308 650 66 12 668 1281 92230561 92229912 9.440000e-169 603
16 TraesCS7B01G044700 chr7D 85.558 547 55 19 1229 1770 92237734 92237207 3.470000e-153 551
17 TraesCS7B01G044700 chr7D 85.081 248 27 3 339 576 418628052 418628299 6.590000e-61 244
18 TraesCS7B01G044700 chr7D 91.538 130 10 1 197 326 418627175 418627303 6.780000e-41 178
19 TraesCS7B01G044700 chr7D 91.406 128 10 1 197 324 417938267 417938393 8.770000e-40 174
20 TraesCS7B01G044700 chr7D 87.943 141 14 1 1226 1366 92234689 92234552 1.900000e-36 163
21 TraesCS7B01G044700 chr3B 96.923 130 4 0 21 150 72893895 72894024 4.000000e-53 219
22 TraesCS7B01G044700 chr3B 94.891 137 5 2 21 155 579675208 579675072 1.860000e-51 213
23 TraesCS7B01G044700 chr1B 96.923 130 4 0 21 150 183031923 183031794 4.000000e-53 219
24 TraesCS7B01G044700 chr1B 96.212 132 4 1 21 152 300081328 300081198 5.170000e-52 215
25 TraesCS7B01G044700 chrUn 94.964 139 5 2 21 158 316708649 316708512 1.440000e-52 217
26 TraesCS7B01G044700 chr6D 95.588 136 5 1 21 155 356648640 356648505 1.440000e-52 217
27 TraesCS7B01G044700 chr4D 93.662 142 8 1 21 161 492600643 492600784 6.690000e-51 211
28 TraesCS7B01G044700 chr1D 91.333 150 11 2 21 169 490849746 490849598 1.120000e-48 204
29 TraesCS7B01G044700 chr4B 81.496 254 28 9 339 576 569627451 569627701 8.710000e-45 191
30 TraesCS7B01G044700 chr5D 90.840 131 11 1 197 326 123450970 123450840 8.770000e-40 174
31 TraesCS7B01G044700 chr2A 93.878 98 6 0 229 326 747258981 747258884 5.320000e-32 148
32 TraesCS7B01G044700 chr2A 87.356 87 9 1 240 324 208581857 208581943 5.430000e-17 99


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 TraesCS7B01G044700 chr7B 44257266 44259653 2387 True 4410.000000 4410 100.000000 1 2388 1 chr7B.!!$R1 2387
1 TraesCS7B01G044700 chr7B 44271238 44272422 1184 True 1258.000000 1258 86.360000 576 1731 1 chr7B.!!$R2 1155
2 TraesCS7B01G044700 chr7B 44292810 44294034 1224 True 1042.000000 1042 82.789000 567 1766 1 chr7B.!!$R3 1199
3 TraesCS7B01G044700 chr7A 94399563 94400730 1167 True 1062.000000 1062 83.786000 567 1731 1 chr7A.!!$R1 1164
4 TraesCS7B01G044700 chr7A 94382932 94386979 4047 True 983.666667 2093 91.108000 154 2388 3 chr7A.!!$R3 2234
5 TraesCS7B01G044700 chr7D 92228540 92238471 9931 True 578.285714 769 86.785714 567 2388 7 chr7D.!!$R1 1821
6 TraesCS7B01G044700 chr7D 418627175 418628299 1124 False 211.000000 244 88.309500 197 576 2 chr7D.!!$F2 379

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
97 98 0.242555 ACCGCGCCTAATTGTTTTGG 59.757 50.0 0.00 0.00 0.00 3.28 F
144 145 0.323542 ACACACCTAGACGGAGGGAG 60.324 60.0 5.42 0.78 41.36 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1157 10762 0.110238 ATCATCGCGCAACAACACAC 60.110 50.0 8.75 0.0 0.0 3.82 R
1938 11927 0.398318 ACTGGTCTCTGCAACTTCCC 59.602 55.0 0.00 0.0 0.0 3.97 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
18 19 3.383162 AACCCTGAGATGACCGTCT 57.617 52.632 0.00 0.00 0.00 4.18
19 20 1.645710 AACCCTGAGATGACCGTCTT 58.354 50.000 0.00 0.00 0.00 3.01
20 21 1.187087 ACCCTGAGATGACCGTCTTC 58.813 55.000 6.35 6.35 0.00 2.87
21 22 0.461961 CCCTGAGATGACCGTCTTCC 59.538 60.000 10.10 4.18 0.00 3.46
22 23 0.461961 CCTGAGATGACCGTCTTCCC 59.538 60.000 10.10 0.68 0.00 3.97
23 24 1.479709 CTGAGATGACCGTCTTCCCT 58.520 55.000 10.10 0.00 0.00 4.20
24 25 1.407258 CTGAGATGACCGTCTTCCCTC 59.593 57.143 10.10 6.86 0.00 4.30
25 26 1.272480 TGAGATGACCGTCTTCCCTCA 60.272 52.381 10.10 8.87 0.00 3.86
26 27 2.035632 GAGATGACCGTCTTCCCTCAT 58.964 52.381 10.10 0.00 0.00 2.90
27 28 2.432510 GAGATGACCGTCTTCCCTCATT 59.567 50.000 10.10 0.00 0.00 2.57
28 29 2.840651 AGATGACCGTCTTCCCTCATTT 59.159 45.455 10.10 0.00 0.00 2.32
29 30 2.762535 TGACCGTCTTCCCTCATTTC 57.237 50.000 0.00 0.00 0.00 2.17
30 31 2.257207 TGACCGTCTTCCCTCATTTCT 58.743 47.619 0.00 0.00 0.00 2.52
31 32 2.637872 TGACCGTCTTCCCTCATTTCTT 59.362 45.455 0.00 0.00 0.00 2.52
32 33 3.835978 TGACCGTCTTCCCTCATTTCTTA 59.164 43.478 0.00 0.00 0.00 2.10
33 34 4.469945 TGACCGTCTTCCCTCATTTCTTAT 59.530 41.667 0.00 0.00 0.00 1.73
34 35 5.045869 TGACCGTCTTCCCTCATTTCTTATT 60.046 40.000 0.00 0.00 0.00 1.40
35 36 5.186198 ACCGTCTTCCCTCATTTCTTATTG 58.814 41.667 0.00 0.00 0.00 1.90
36 37 4.576463 CCGTCTTCCCTCATTTCTTATTGG 59.424 45.833 0.00 0.00 0.00 3.16
37 38 5.186198 CGTCTTCCCTCATTTCTTATTGGT 58.814 41.667 0.00 0.00 0.00 3.67
38 39 5.648092 CGTCTTCCCTCATTTCTTATTGGTT 59.352 40.000 0.00 0.00 0.00 3.67
39 40 6.403636 CGTCTTCCCTCATTTCTTATTGGTTG 60.404 42.308 0.00 0.00 0.00 3.77
40 41 6.659242 GTCTTCCCTCATTTCTTATTGGTTGA 59.341 38.462 0.00 0.00 0.00 3.18
41 42 7.340487 GTCTTCCCTCATTTCTTATTGGTTGAT 59.660 37.037 0.00 0.00 0.00 2.57
42 43 8.556589 TCTTCCCTCATTTCTTATTGGTTGATA 58.443 33.333 0.00 0.00 0.00 2.15
43 44 9.359653 CTTCCCTCATTTCTTATTGGTTGATAT 57.640 33.333 0.00 0.00 0.00 1.63
44 45 8.696043 TCCCTCATTTCTTATTGGTTGATATG 57.304 34.615 0.00 0.00 0.00 1.78
45 46 8.281531 TCCCTCATTTCTTATTGGTTGATATGT 58.718 33.333 0.00 0.00 0.00 2.29
46 47 8.571336 CCCTCATTTCTTATTGGTTGATATGTC 58.429 37.037 0.00 0.00 0.00 3.06
47 48 9.123902 CCTCATTTCTTATTGGTTGATATGTCA 57.876 33.333 0.00 0.00 0.00 3.58
54 55 9.513906 TCTTATTGGTTGATATGTCAAGAAACA 57.486 29.630 4.98 0.63 44.58 2.83
57 58 7.815840 TTGGTTGATATGTCAAGAAACAAGA 57.184 32.000 4.98 0.00 44.58 3.02
58 59 7.815840 TGGTTGATATGTCAAGAAACAAGAA 57.184 32.000 4.98 0.00 44.58 2.52
59 60 8.231692 TGGTTGATATGTCAAGAAACAAGAAA 57.768 30.769 4.98 0.00 44.58 2.52
60 61 8.134895 TGGTTGATATGTCAAGAAACAAGAAAC 58.865 33.333 4.98 0.00 44.58 2.78
61 62 7.323656 GGTTGATATGTCAAGAAACAAGAAACG 59.676 37.037 4.98 0.00 44.58 3.60
62 63 7.722795 TGATATGTCAAGAAACAAGAAACGA 57.277 32.000 0.00 0.00 31.81 3.85
63 64 7.796838 TGATATGTCAAGAAACAAGAAACGAG 58.203 34.615 0.00 0.00 31.81 4.18
64 65 4.875544 TGTCAAGAAACAAGAAACGAGG 57.124 40.909 0.00 0.00 0.00 4.63
65 66 4.258543 TGTCAAGAAACAAGAAACGAGGT 58.741 39.130 0.00 0.00 0.00 3.85
66 67 5.421277 TGTCAAGAAACAAGAAACGAGGTA 58.579 37.500 0.00 0.00 0.00 3.08
67 68 5.522460 TGTCAAGAAACAAGAAACGAGGTAG 59.478 40.000 0.00 0.00 0.00 3.18
68 69 5.751990 GTCAAGAAACAAGAAACGAGGTAGA 59.248 40.000 0.00 0.00 0.00 2.59
69 70 6.257193 GTCAAGAAACAAGAAACGAGGTAGAA 59.743 38.462 0.00 0.00 0.00 2.10
70 71 6.479001 TCAAGAAACAAGAAACGAGGTAGAAG 59.521 38.462 0.00 0.00 0.00 2.85
71 72 5.915175 AGAAACAAGAAACGAGGTAGAAGT 58.085 37.500 0.00 0.00 0.00 3.01
72 73 6.346896 AGAAACAAGAAACGAGGTAGAAGTT 58.653 36.000 0.00 0.00 0.00 2.66
73 74 7.495055 AGAAACAAGAAACGAGGTAGAAGTTA 58.505 34.615 0.00 0.00 0.00 2.24
74 75 7.983484 AGAAACAAGAAACGAGGTAGAAGTTAA 59.017 33.333 0.00 0.00 0.00 2.01
75 76 8.672823 AAACAAGAAACGAGGTAGAAGTTAAT 57.327 30.769 0.00 0.00 0.00 1.40
76 77 7.653767 ACAAGAAACGAGGTAGAAGTTAATG 57.346 36.000 0.00 0.00 0.00 1.90
77 78 6.147328 ACAAGAAACGAGGTAGAAGTTAATGC 59.853 38.462 0.00 0.00 0.00 3.56
78 79 5.790593 AGAAACGAGGTAGAAGTTAATGCA 58.209 37.500 0.00 0.00 0.00 3.96
79 80 5.638234 AGAAACGAGGTAGAAGTTAATGCAC 59.362 40.000 0.00 0.00 0.00 4.57
80 81 3.858247 ACGAGGTAGAAGTTAATGCACC 58.142 45.455 0.00 0.00 0.00 5.01
81 82 2.858344 CGAGGTAGAAGTTAATGCACCG 59.142 50.000 0.00 0.00 0.00 4.94
82 83 2.608090 GAGGTAGAAGTTAATGCACCGC 59.392 50.000 0.00 0.00 0.00 5.68
83 84 1.326548 GGTAGAAGTTAATGCACCGCG 59.673 52.381 0.00 0.00 0.00 6.46
84 85 1.003851 TAGAAGTTAATGCACCGCGC 58.996 50.000 0.00 0.00 42.89 6.86
85 86 1.226295 GAAGTTAATGCACCGCGCC 60.226 57.895 0.00 0.00 41.33 6.53
86 87 1.644786 GAAGTTAATGCACCGCGCCT 61.645 55.000 0.00 0.00 41.33 5.52
87 88 0.391927 AAGTTAATGCACCGCGCCTA 60.392 50.000 0.00 0.00 41.33 3.93
88 89 0.391927 AGTTAATGCACCGCGCCTAA 60.392 50.000 0.00 0.00 41.33 2.69
89 90 0.661020 GTTAATGCACCGCGCCTAAT 59.339 50.000 0.00 0.00 41.33 1.73
90 91 1.064952 GTTAATGCACCGCGCCTAATT 59.935 47.619 0.00 0.27 41.33 1.40
91 92 0.660488 TAATGCACCGCGCCTAATTG 59.340 50.000 0.00 0.00 41.33 2.32
92 93 1.312371 AATGCACCGCGCCTAATTGT 61.312 50.000 0.00 0.00 41.33 2.71
93 94 1.312371 ATGCACCGCGCCTAATTGTT 61.312 50.000 0.00 0.00 41.33 2.83
94 95 1.211709 GCACCGCGCCTAATTGTTT 59.788 52.632 0.00 0.00 32.94 2.83
95 96 0.388006 GCACCGCGCCTAATTGTTTT 60.388 50.000 0.00 0.00 32.94 2.43
96 97 1.335935 CACCGCGCCTAATTGTTTTG 58.664 50.000 0.00 0.00 0.00 2.44
97 98 0.242555 ACCGCGCCTAATTGTTTTGG 59.757 50.000 0.00 0.00 0.00 3.28
98 99 0.457681 CCGCGCCTAATTGTTTTGGG 60.458 55.000 0.00 0.00 0.00 4.12
99 100 0.523966 CGCGCCTAATTGTTTTGGGA 59.476 50.000 0.00 0.00 0.00 4.37
100 101 1.134175 CGCGCCTAATTGTTTTGGGAT 59.866 47.619 0.00 0.00 0.00 3.85
101 102 2.416701 CGCGCCTAATTGTTTTGGGATT 60.417 45.455 0.00 0.00 0.00 3.01
102 103 3.181495 CGCGCCTAATTGTTTTGGGATTA 60.181 43.478 0.00 0.00 0.00 1.75
103 104 4.499019 CGCGCCTAATTGTTTTGGGATTAT 60.499 41.667 0.00 0.00 0.00 1.28
104 105 5.356426 GCGCCTAATTGTTTTGGGATTATT 58.644 37.500 0.00 0.00 0.00 1.40
105 106 5.815222 GCGCCTAATTGTTTTGGGATTATTT 59.185 36.000 0.00 0.00 0.00 1.40
106 107 6.238076 GCGCCTAATTGTTTTGGGATTATTTG 60.238 38.462 0.00 0.00 0.00 2.32
107 108 6.257630 CGCCTAATTGTTTTGGGATTATTTGG 59.742 38.462 0.00 0.00 0.00 3.28
108 109 7.109501 GCCTAATTGTTTTGGGATTATTTGGT 58.890 34.615 0.00 0.00 0.00 3.67
109 110 7.609918 GCCTAATTGTTTTGGGATTATTTGGTT 59.390 33.333 0.00 0.00 0.00 3.67
110 111 9.513906 CCTAATTGTTTTGGGATTATTTGGTTT 57.486 29.630 0.00 0.00 0.00 3.27
113 114 8.986929 ATTGTTTTGGGATTATTTGGTTTTCA 57.013 26.923 0.00 0.00 0.00 2.69
114 115 8.986929 TTGTTTTGGGATTATTTGGTTTTCAT 57.013 26.923 0.00 0.00 0.00 2.57
120 121 9.664332 TTGGGATTATTTGGTTTTCATAACATG 57.336 29.630 0.00 0.00 0.00 3.21
121 122 9.040259 TGGGATTATTTGGTTTTCATAACATGA 57.960 29.630 0.00 0.00 37.55 3.07
122 123 9.313118 GGGATTATTTGGTTTTCATAACATGAC 57.687 33.333 0.00 0.00 39.39 3.06
128 129 9.691362 ATTTGGTTTTCATAACATGACTTACAC 57.309 29.630 0.00 0.00 39.39 2.90
129 130 7.809546 TGGTTTTCATAACATGACTTACACA 57.190 32.000 0.00 0.00 39.39 3.72
130 131 7.644490 TGGTTTTCATAACATGACTTACACAC 58.356 34.615 0.00 0.00 39.39 3.82
131 132 7.081976 GGTTTTCATAACATGACTTACACACC 58.918 38.462 0.00 0.00 39.39 4.16
132 133 7.040686 GGTTTTCATAACATGACTTACACACCT 60.041 37.037 0.00 0.00 39.39 4.00
133 134 8.995220 GTTTTCATAACATGACTTACACACCTA 58.005 33.333 0.00 0.00 39.39 3.08
134 135 8.771920 TTTCATAACATGACTTACACACCTAG 57.228 34.615 0.00 0.00 39.39 3.02
135 136 7.712204 TCATAACATGACTTACACACCTAGA 57.288 36.000 0.00 0.00 33.59 2.43
136 137 7.544622 TCATAACATGACTTACACACCTAGAC 58.455 38.462 0.00 0.00 33.59 2.59
137 138 4.436242 ACATGACTTACACACCTAGACG 57.564 45.455 0.00 0.00 0.00 4.18
138 139 3.192844 ACATGACTTACACACCTAGACGG 59.807 47.826 0.00 0.00 39.35 4.79
139 140 3.144657 TGACTTACACACCTAGACGGA 57.855 47.619 0.00 0.00 36.31 4.69
140 141 3.079578 TGACTTACACACCTAGACGGAG 58.920 50.000 0.00 0.00 36.31 4.63
141 142 2.422832 GACTTACACACCTAGACGGAGG 59.577 54.545 0.00 0.00 42.89 4.30
142 143 1.749634 CTTACACACCTAGACGGAGGG 59.250 57.143 5.42 0.00 41.36 4.30
143 144 0.994247 TACACACCTAGACGGAGGGA 59.006 55.000 5.42 0.00 41.36 4.20
144 145 0.323542 ACACACCTAGACGGAGGGAG 60.324 60.000 5.42 0.78 41.36 4.30
145 146 0.323542 CACACCTAGACGGAGGGAGT 60.324 60.000 5.42 1.31 41.36 3.85
146 147 1.064906 CACACCTAGACGGAGGGAGTA 60.065 57.143 5.42 0.00 41.36 2.59
147 148 1.064832 ACACCTAGACGGAGGGAGTAC 60.065 57.143 5.42 0.00 41.36 2.73
148 149 1.212441 CACCTAGACGGAGGGAGTACT 59.788 57.143 0.00 0.00 41.36 2.73
149 150 2.437281 CACCTAGACGGAGGGAGTACTA 59.563 54.545 0.00 0.00 41.36 1.82
150 151 3.072768 CACCTAGACGGAGGGAGTACTAT 59.927 52.174 0.00 0.00 41.36 2.12
151 152 3.721050 ACCTAGACGGAGGGAGTACTATT 59.279 47.826 0.00 0.00 41.36 1.73
152 153 4.202451 ACCTAGACGGAGGGAGTACTATTC 60.202 50.000 0.00 0.00 41.36 1.75
227 228 0.659427 TAAGGATCGTAGCGTCGGTG 59.341 55.000 7.30 0.00 0.00 4.94
234 235 1.063027 TCGTAGCGTCGGTGACAATAG 59.937 52.381 7.30 0.00 32.09 1.73
326 327 7.044181 CCAGTTCATGAGCTACTTGATTTCTA 58.956 38.462 12.11 0.00 33.71 2.10
327 328 7.224362 CCAGTTCATGAGCTACTTGATTTCTAG 59.776 40.741 12.11 0.00 33.71 2.43
328 329 7.224362 CAGTTCATGAGCTACTTGATTTCTAGG 59.776 40.741 12.11 0.00 33.71 3.02
329 330 6.166984 TCATGAGCTACTTGATTTCTAGGG 57.833 41.667 0.00 0.00 0.00 3.53
331 332 3.181475 TGAGCTACTTGATTTCTAGGGCG 60.181 47.826 0.00 0.00 31.62 6.13
332 333 2.103263 AGCTACTTGATTTCTAGGGCGG 59.897 50.000 0.00 0.00 31.62 6.13
334 335 2.403252 ACTTGATTTCTAGGGCGGTG 57.597 50.000 0.00 0.00 0.00 4.94
335 336 1.628846 ACTTGATTTCTAGGGCGGTGT 59.371 47.619 0.00 0.00 0.00 4.16
336 337 2.039879 ACTTGATTTCTAGGGCGGTGTT 59.960 45.455 0.00 0.00 0.00 3.32
337 338 2.396590 TGATTTCTAGGGCGGTGTTC 57.603 50.000 0.00 0.00 0.00 3.18
355 2094 4.032786 GTGTTCATGTTTGTTTGCCAGAAC 59.967 41.667 0.00 0.00 35.82 3.01
362 2101 1.008538 GTTTGCCAGAACAGCACGG 60.009 57.895 0.00 0.00 40.69 4.94
405 2144 5.420104 AGTGCCCTCCAAATGAAGATTTTAG 59.580 40.000 0.00 0.00 28.65 1.85
425 2164 4.098914 AGTCTTGGCTGGACATGTTAAA 57.901 40.909 0.00 0.00 36.29 1.52
443 2182 6.074648 TGTTAAATTCCAAACTGAGTCCCAT 58.925 36.000 0.00 0.00 0.00 4.00
472 2217 5.091552 TGTTGGGTTAGAGGACATAGTCTT 58.908 41.667 0.00 0.00 32.47 3.01
504 2252 3.684413 GCCGAATTGGAACTCCCATTCTA 60.684 47.826 16.44 0.00 46.10 2.10
508 2256 5.590259 CGAATTGGAACTCCCATTCTACATT 59.410 40.000 16.44 0.00 46.10 2.71
525 2273 1.526887 CATTATAGGCCGAACGCACTG 59.473 52.381 0.00 0.00 40.31 3.66
558 2306 1.265635 TCTTTGTCAAATTCCACGCCG 59.734 47.619 0.00 0.00 0.00 6.46
585 2334 8.441312 AAAAATTGTCATTTCACTTGCTTGAT 57.559 26.923 0.00 0.00 30.80 2.57
886 10479 1.768275 TCTTCAGGCAACAGAGTCCAA 59.232 47.619 0.00 0.00 41.41 3.53
975 10579 5.019470 TCTCAGCTCAACTCTTTCAGGATA 58.981 41.667 0.00 0.00 0.00 2.59
1007 10612 2.200081 ACTGGAGTACAAGATGGCCAT 58.800 47.619 20.96 20.96 0.00 4.40
1088 10693 2.125552 CATCAGGCTTGACGCGGA 60.126 61.111 12.47 0.00 40.44 5.54
1208 10841 1.876156 CCTTGCGTGCTTTCTTCTCTT 59.124 47.619 0.00 0.00 0.00 2.85
1393 11080 1.375652 CAGGCACCACTGAGCAGAG 60.376 63.158 4.21 0.00 40.97 3.35
1455 11144 4.992951 TGTTTAGATGATCATGATGAGGCG 59.007 41.667 14.30 0.00 0.00 5.52
1589 11280 2.490509 ACACATTGACGACACTCCGATA 59.509 45.455 0.00 0.00 0.00 2.92
1635 11327 2.500098 GGTGTACAGGCTCTTGTATGGA 59.500 50.000 0.00 0.00 36.08 3.41
1708 11401 3.592059 TGTGTCTGGGCTACGAAATTAC 58.408 45.455 0.00 0.00 0.00 1.89
1770 11466 7.309744 CCTTTTGCAGGGACATCAAAATAGTAA 60.310 37.037 0.00 0.00 39.56 2.24
1772 11468 6.698008 TGCAGGGACATCAAAATAGTAATG 57.302 37.500 0.00 0.00 0.00 1.90
1773 11469 6.186957 TGCAGGGACATCAAAATAGTAATGT 58.813 36.000 0.00 0.00 35.15 2.71
1774 11470 7.342581 TGCAGGGACATCAAAATAGTAATGTA 58.657 34.615 0.00 0.00 32.70 2.29
1775 11471 7.831690 TGCAGGGACATCAAAATAGTAATGTAA 59.168 33.333 0.00 0.00 32.70 2.41
1776 11472 8.682710 GCAGGGACATCAAAATAGTAATGTAAA 58.317 33.333 0.00 0.00 32.70 2.01
1820 11779 9.862371 GTGCCTAGTATTATAGTAGTAGTACGA 57.138 37.037 13.30 0.00 33.97 3.43
1852 11841 7.625828 AACTGTAGCATAGTTTATGTTTCCC 57.374 36.000 0.00 0.00 34.91 3.97
1874 11863 3.062639 CGCAAAATCGAACTAGCATCAGT 59.937 43.478 0.00 0.00 0.00 3.41
1876 11865 4.093408 GCAAAATCGAACTAGCATCAGTGA 59.907 41.667 0.00 0.00 0.00 3.41
1889 11878 1.053835 TCAGTGAACACCCTGCTGGA 61.054 55.000 11.88 0.00 38.00 3.86
2024 12035 2.808543 GGTTGCTGAAAGTACAGTCTGG 59.191 50.000 4.53 0.00 39.73 3.86
2036 12047 3.735237 ACAGTCTGGTAAGTCACACAG 57.265 47.619 4.53 0.00 0.00 3.66
2068 12079 3.766691 CCATGCTGGTTGCTGGGC 61.767 66.667 0.00 0.00 43.37 5.36
2112 12123 6.258068 GCTTAAAAAGATACCACAGCTACGAT 59.742 38.462 0.00 0.00 0.00 3.73
2113 12124 7.534085 TTAAAAAGATACCACAGCTACGATG 57.466 36.000 0.00 0.00 0.00 3.84
2121 12132 2.233676 CCACAGCTACGATGCCCATATA 59.766 50.000 0.00 0.00 0.00 0.86
2209 12227 0.527565 GGCTGGCACGTGATTCAAAT 59.472 50.000 22.23 0.00 0.00 2.32
2231 12249 1.340405 GCCACATCCACCAGTGATCTT 60.340 52.381 0.00 0.00 37.97 2.40
2232 12250 2.881403 GCCACATCCACCAGTGATCTTT 60.881 50.000 0.00 0.00 37.97 2.52
2358 12382 3.529634 TGAATGACGCGTTGTTAAAGG 57.470 42.857 15.53 0.00 0.00 3.11
2368 12392 3.488553 GCGTTGTTAAAGGAAACAGCTGT 60.489 43.478 15.25 15.25 40.29 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 1.550976 GAAGACGGTCATCTCAGGGTT 59.449 52.381 11.27 0.00 0.00 4.11
1 2 1.187087 GAAGACGGTCATCTCAGGGT 58.813 55.000 11.27 0.00 0.00 4.34
2 3 0.461961 GGAAGACGGTCATCTCAGGG 59.538 60.000 11.27 0.00 0.00 4.45
5 6 1.272480 TGAGGGAAGACGGTCATCTCA 60.272 52.381 14.94 14.51 31.35 3.27
6 7 1.475403 TGAGGGAAGACGGTCATCTC 58.525 55.000 11.27 8.09 0.00 2.75
7 8 2.166907 ATGAGGGAAGACGGTCATCT 57.833 50.000 11.27 1.89 0.00 2.90
8 9 2.990066 AATGAGGGAAGACGGTCATC 57.010 50.000 11.27 7.91 0.00 2.92
9 10 2.840651 AGAAATGAGGGAAGACGGTCAT 59.159 45.455 11.27 0.00 0.00 3.06
10 11 2.257207 AGAAATGAGGGAAGACGGTCA 58.743 47.619 11.27 0.00 0.00 4.02
11 12 3.336138 AAGAAATGAGGGAAGACGGTC 57.664 47.619 0.00 0.00 0.00 4.79
12 13 5.186198 CAATAAGAAATGAGGGAAGACGGT 58.814 41.667 0.00 0.00 0.00 4.83
13 14 4.576463 CCAATAAGAAATGAGGGAAGACGG 59.424 45.833 0.00 0.00 0.00 4.79
14 15 5.186198 ACCAATAAGAAATGAGGGAAGACG 58.814 41.667 0.00 0.00 0.00 4.18
15 16 6.659242 TCAACCAATAAGAAATGAGGGAAGAC 59.341 38.462 0.00 0.00 0.00 3.01
16 17 6.789268 TCAACCAATAAGAAATGAGGGAAGA 58.211 36.000 0.00 0.00 0.00 2.87
17 18 7.651027 ATCAACCAATAAGAAATGAGGGAAG 57.349 36.000 0.00 0.00 0.00 3.46
18 19 9.135189 CATATCAACCAATAAGAAATGAGGGAA 57.865 33.333 0.00 0.00 0.00 3.97
19 20 8.281531 ACATATCAACCAATAAGAAATGAGGGA 58.718 33.333 0.00 0.00 0.00 4.20
20 21 8.469309 ACATATCAACCAATAAGAAATGAGGG 57.531 34.615 0.00 0.00 0.00 4.30
21 22 9.123902 TGACATATCAACCAATAAGAAATGAGG 57.876 33.333 0.00 0.00 0.00 3.86
28 29 9.513906 TGTTTCTTGACATATCAACCAATAAGA 57.486 29.630 0.00 0.00 40.01 2.10
31 32 9.513906 TCTTGTTTCTTGACATATCAACCAATA 57.486 29.630 0.00 0.00 40.01 1.90
32 33 8.408043 TCTTGTTTCTTGACATATCAACCAAT 57.592 30.769 0.00 0.00 40.01 3.16
33 34 7.815840 TCTTGTTTCTTGACATATCAACCAA 57.184 32.000 0.00 0.00 40.01 3.67
34 35 7.815840 TTCTTGTTTCTTGACATATCAACCA 57.184 32.000 0.00 0.00 40.01 3.67
35 36 7.323656 CGTTTCTTGTTTCTTGACATATCAACC 59.676 37.037 0.00 0.00 40.01 3.77
36 37 8.067784 TCGTTTCTTGTTTCTTGACATATCAAC 58.932 33.333 0.00 0.00 40.01 3.18
37 38 8.148807 TCGTTTCTTGTTTCTTGACATATCAA 57.851 30.769 0.00 0.00 42.73 2.57
38 39 7.095229 CCTCGTTTCTTGTTTCTTGACATATCA 60.095 37.037 0.00 0.00 0.00 2.15
39 40 7.095187 ACCTCGTTTCTTGTTTCTTGACATATC 60.095 37.037 0.00 0.00 0.00 1.63
40 41 6.710744 ACCTCGTTTCTTGTTTCTTGACATAT 59.289 34.615 0.00 0.00 0.00 1.78
41 42 6.053005 ACCTCGTTTCTTGTTTCTTGACATA 58.947 36.000 0.00 0.00 0.00 2.29
42 43 4.881850 ACCTCGTTTCTTGTTTCTTGACAT 59.118 37.500 0.00 0.00 0.00 3.06
43 44 4.258543 ACCTCGTTTCTTGTTTCTTGACA 58.741 39.130 0.00 0.00 0.00 3.58
44 45 4.877323 ACCTCGTTTCTTGTTTCTTGAC 57.123 40.909 0.00 0.00 0.00 3.18
45 46 5.909477 TCTACCTCGTTTCTTGTTTCTTGA 58.091 37.500 0.00 0.00 0.00 3.02
46 47 6.258068 ACTTCTACCTCGTTTCTTGTTTCTTG 59.742 38.462 0.00 0.00 0.00 3.02
47 48 6.346896 ACTTCTACCTCGTTTCTTGTTTCTT 58.653 36.000 0.00 0.00 0.00 2.52
48 49 5.915175 ACTTCTACCTCGTTTCTTGTTTCT 58.085 37.500 0.00 0.00 0.00 2.52
49 50 6.600246 AACTTCTACCTCGTTTCTTGTTTC 57.400 37.500 0.00 0.00 0.00 2.78
50 51 8.557029 CATTAACTTCTACCTCGTTTCTTGTTT 58.443 33.333 0.00 0.00 0.00 2.83
51 52 7.307811 GCATTAACTTCTACCTCGTTTCTTGTT 60.308 37.037 0.00 0.00 0.00 2.83
52 53 6.147328 GCATTAACTTCTACCTCGTTTCTTGT 59.853 38.462 0.00 0.00 0.00 3.16
53 54 6.147164 TGCATTAACTTCTACCTCGTTTCTTG 59.853 38.462 0.00 0.00 0.00 3.02
54 55 6.147328 GTGCATTAACTTCTACCTCGTTTCTT 59.853 38.462 0.00 0.00 0.00 2.52
55 56 5.638234 GTGCATTAACTTCTACCTCGTTTCT 59.362 40.000 0.00 0.00 0.00 2.52
56 57 5.163884 GGTGCATTAACTTCTACCTCGTTTC 60.164 44.000 0.00 0.00 0.00 2.78
57 58 4.694037 GGTGCATTAACTTCTACCTCGTTT 59.306 41.667 0.00 0.00 0.00 3.60
58 59 4.251268 GGTGCATTAACTTCTACCTCGTT 58.749 43.478 0.00 0.00 0.00 3.85
59 60 3.675228 CGGTGCATTAACTTCTACCTCGT 60.675 47.826 0.00 0.00 0.00 4.18
60 61 2.858344 CGGTGCATTAACTTCTACCTCG 59.142 50.000 0.00 0.00 0.00 4.63
61 62 2.608090 GCGGTGCATTAACTTCTACCTC 59.392 50.000 0.00 0.00 0.00 3.85
62 63 2.629051 GCGGTGCATTAACTTCTACCT 58.371 47.619 0.00 0.00 0.00 3.08
63 64 1.326548 CGCGGTGCATTAACTTCTACC 59.673 52.381 0.00 0.00 0.00 3.18
64 65 1.267383 GCGCGGTGCATTAACTTCTAC 60.267 52.381 8.83 0.00 45.45 2.59
65 66 1.003851 GCGCGGTGCATTAACTTCTA 58.996 50.000 8.83 0.00 45.45 2.10
66 67 1.794222 GCGCGGTGCATTAACTTCT 59.206 52.632 8.83 0.00 45.45 2.85
67 68 4.360101 GCGCGGTGCATTAACTTC 57.640 55.556 8.83 0.00 45.45 3.01
76 77 0.388006 AAAACAATTAGGCGCGGTGC 60.388 50.000 8.83 4.64 45.38 5.01
77 78 1.335935 CAAAACAATTAGGCGCGGTG 58.664 50.000 8.83 0.00 0.00 4.94
78 79 0.242555 CCAAAACAATTAGGCGCGGT 59.757 50.000 8.83 0.00 0.00 5.68
79 80 0.457681 CCCAAAACAATTAGGCGCGG 60.458 55.000 8.83 0.00 0.00 6.46
80 81 0.523966 TCCCAAAACAATTAGGCGCG 59.476 50.000 0.00 0.00 0.00 6.86
81 82 2.959507 ATCCCAAAACAATTAGGCGC 57.040 45.000 0.00 0.00 0.00 6.53
82 83 6.257630 CCAAATAATCCCAAAACAATTAGGCG 59.742 38.462 0.00 0.00 0.00 5.52
83 84 7.109501 ACCAAATAATCCCAAAACAATTAGGC 58.890 34.615 0.00 0.00 0.00 3.93
84 85 9.513906 AAACCAAATAATCCCAAAACAATTAGG 57.486 29.630 0.00 0.00 0.00 2.69
87 88 9.413734 TGAAAACCAAATAATCCCAAAACAATT 57.586 25.926 0.00 0.00 0.00 2.32
88 89 8.986929 TGAAAACCAAATAATCCCAAAACAAT 57.013 26.923 0.00 0.00 0.00 2.71
89 90 8.986929 ATGAAAACCAAATAATCCCAAAACAA 57.013 26.923 0.00 0.00 0.00 2.83
94 95 9.664332 CATGTTATGAAAACCAAATAATCCCAA 57.336 29.630 0.00 0.00 0.00 4.12
95 96 9.040259 TCATGTTATGAAAACCAAATAATCCCA 57.960 29.630 0.00 0.00 36.11 4.37
96 97 9.313118 GTCATGTTATGAAAACCAAATAATCCC 57.687 33.333 0.00 0.00 41.69 3.85
102 103 9.691362 GTGTAAGTCATGTTATGAAAACCAAAT 57.309 29.630 0.00 0.00 41.69 2.32
103 104 8.687242 TGTGTAAGTCATGTTATGAAAACCAAA 58.313 29.630 0.00 0.00 41.69 3.28
104 105 8.132362 GTGTGTAAGTCATGTTATGAAAACCAA 58.868 33.333 0.00 0.00 41.69 3.67
105 106 7.255312 GGTGTGTAAGTCATGTTATGAAAACCA 60.255 37.037 0.00 0.00 41.69 3.67
106 107 7.040686 AGGTGTGTAAGTCATGTTATGAAAACC 60.041 37.037 0.00 0.00 41.69 3.27
107 108 7.871853 AGGTGTGTAAGTCATGTTATGAAAAC 58.128 34.615 0.00 0.00 41.69 2.43
108 109 9.214957 CTAGGTGTGTAAGTCATGTTATGAAAA 57.785 33.333 0.00 0.00 41.69 2.29
109 110 8.590204 TCTAGGTGTGTAAGTCATGTTATGAAA 58.410 33.333 0.00 0.00 41.69 2.69
110 111 8.033038 GTCTAGGTGTGTAAGTCATGTTATGAA 58.967 37.037 0.00 0.00 41.69 2.57
111 112 7.544622 GTCTAGGTGTGTAAGTCATGTTATGA 58.455 38.462 0.00 0.00 36.84 2.15
112 113 6.472486 CGTCTAGGTGTGTAAGTCATGTTATG 59.528 42.308 0.00 0.00 0.00 1.90
113 114 6.405508 CCGTCTAGGTGTGTAAGTCATGTTAT 60.406 42.308 0.00 0.00 34.51 1.89
114 115 5.106038 CCGTCTAGGTGTGTAAGTCATGTTA 60.106 44.000 0.00 0.00 34.51 2.41
115 116 4.321750 CCGTCTAGGTGTGTAAGTCATGTT 60.322 45.833 0.00 0.00 34.51 2.71
116 117 3.192844 CCGTCTAGGTGTGTAAGTCATGT 59.807 47.826 0.00 0.00 34.51 3.21
117 118 3.442625 TCCGTCTAGGTGTGTAAGTCATG 59.557 47.826 0.00 0.00 41.99 3.07
118 119 3.693807 TCCGTCTAGGTGTGTAAGTCAT 58.306 45.455 0.00 0.00 41.99 3.06
119 120 3.079578 CTCCGTCTAGGTGTGTAAGTCA 58.920 50.000 0.00 0.00 41.99 3.41
120 121 2.422832 CCTCCGTCTAGGTGTGTAAGTC 59.577 54.545 0.00 0.00 41.99 3.01
121 122 2.444421 CCTCCGTCTAGGTGTGTAAGT 58.556 52.381 0.00 0.00 41.99 2.24
122 123 1.749634 CCCTCCGTCTAGGTGTGTAAG 59.250 57.143 0.00 0.00 41.99 2.34
123 124 1.355381 TCCCTCCGTCTAGGTGTGTAA 59.645 52.381 0.00 0.00 41.99 2.41
124 125 0.994247 TCCCTCCGTCTAGGTGTGTA 59.006 55.000 0.00 0.00 41.99 2.90
125 126 0.323542 CTCCCTCCGTCTAGGTGTGT 60.324 60.000 0.00 0.00 41.99 3.72
126 127 0.323542 ACTCCCTCCGTCTAGGTGTG 60.324 60.000 0.00 0.00 41.99 3.82
127 128 1.064832 GTACTCCCTCCGTCTAGGTGT 60.065 57.143 0.00 0.00 41.99 4.16
128 129 1.212441 AGTACTCCCTCCGTCTAGGTG 59.788 57.143 0.00 0.00 41.99 4.00
129 130 1.594129 AGTACTCCCTCCGTCTAGGT 58.406 55.000 0.00 0.00 41.99 3.08
130 131 4.041938 AGAATAGTACTCCCTCCGTCTAGG 59.958 50.000 0.00 0.00 42.97 3.02
131 132 5.231702 AGAATAGTACTCCCTCCGTCTAG 57.768 47.826 0.00 0.00 0.00 2.43
132 133 5.012561 GGTAGAATAGTACTCCCTCCGTCTA 59.987 48.000 0.00 0.00 0.00 2.59
133 134 4.202451 GGTAGAATAGTACTCCCTCCGTCT 60.202 50.000 0.00 0.00 0.00 4.18
134 135 4.071423 GGTAGAATAGTACTCCCTCCGTC 58.929 52.174 0.00 0.00 0.00 4.79
135 136 3.721050 AGGTAGAATAGTACTCCCTCCGT 59.279 47.826 0.00 0.00 0.00 4.69
136 137 4.370094 AGGTAGAATAGTACTCCCTCCG 57.630 50.000 0.00 0.00 0.00 4.63
137 138 5.703310 TGAAGGTAGAATAGTACTCCCTCC 58.297 45.833 0.00 0.00 0.00 4.30
138 139 6.367161 ACTGAAGGTAGAATAGTACTCCCTC 58.633 44.000 0.00 0.00 0.00 4.30
139 140 6.344232 ACTGAAGGTAGAATAGTACTCCCT 57.656 41.667 0.00 0.00 0.00 4.20
140 141 8.709272 ATAACTGAAGGTAGAATAGTACTCCC 57.291 38.462 0.00 0.00 0.00 4.30
141 142 9.968870 CAATAACTGAAGGTAGAATAGTACTCC 57.031 37.037 0.00 0.00 0.00 3.85
142 143 9.465985 GCAATAACTGAAGGTAGAATAGTACTC 57.534 37.037 0.00 0.00 0.00 2.59
143 144 8.978472 TGCAATAACTGAAGGTAGAATAGTACT 58.022 33.333 0.00 0.00 0.00 2.73
144 145 9.595823 TTGCAATAACTGAAGGTAGAATAGTAC 57.404 33.333 0.00 0.00 0.00 2.73
146 147 9.686683 ATTTGCAATAACTGAAGGTAGAATAGT 57.313 29.630 0.00 0.00 0.00 2.12
151 152 9.515226 AGTAAATTTGCAATAACTGAAGGTAGA 57.485 29.630 9.04 0.00 0.00 2.59
219 220 0.527817 CCTCCTATTGTCACCGACGC 60.528 60.000 0.00 0.00 34.95 5.19
227 228 6.708054 CAGATGTGGTTATTCCTCCTATTGTC 59.292 42.308 0.00 0.00 37.07 3.18
234 235 2.158608 CCCCAGATGTGGTTATTCCTCC 60.159 54.545 8.29 0.00 43.23 4.30
326 327 0.467290 ACAAACATGAACACCGCCCT 60.467 50.000 0.00 0.00 0.00 5.19
327 328 0.387565 AACAAACATGAACACCGCCC 59.612 50.000 0.00 0.00 0.00 6.13
328 329 1.857837 CAAACAAACATGAACACCGCC 59.142 47.619 0.00 0.00 0.00 6.13
329 330 1.257675 GCAAACAAACATGAACACCGC 59.742 47.619 0.00 0.00 0.00 5.68
331 332 2.865551 CTGGCAAACAAACATGAACACC 59.134 45.455 0.00 0.00 0.00 4.16
332 333 3.779759 TCTGGCAAACAAACATGAACAC 58.220 40.909 0.00 0.00 0.00 3.32
334 335 4.180057 TGTTCTGGCAAACAAACATGAAC 58.820 39.130 0.00 7.78 36.25 3.18
335 336 4.431809 CTGTTCTGGCAAACAAACATGAA 58.568 39.130 0.00 0.00 38.60 2.57
336 337 3.737663 GCTGTTCTGGCAAACAAACATGA 60.738 43.478 0.00 0.00 38.60 3.07
337 338 2.540931 GCTGTTCTGGCAAACAAACATG 59.459 45.455 13.50 0.00 38.60 3.21
355 2094 2.182842 GCTATTCCCTGCCGTGCTG 61.183 63.158 0.00 0.00 0.00 4.41
362 2101 0.321671 TCCATAGCGCTATTCCCTGC 59.678 55.000 27.04 0.00 0.00 4.85
405 2144 5.391312 AATTTAACATGTCCAGCCAAGAC 57.609 39.130 0.00 0.00 34.72 3.01
425 2164 5.192522 AGACATATGGGACTCAGTTTGGAAT 59.807 40.000 7.80 0.00 0.00 3.01
443 2182 4.422057 TGTCCTCTAACCCAACAGACATA 58.578 43.478 0.00 0.00 0.00 2.29
504 2252 1.138266 AGTGCGTTCGGCCTATAATGT 59.862 47.619 0.00 0.00 42.61 2.71
508 2256 1.391577 TACAGTGCGTTCGGCCTATA 58.608 50.000 0.00 0.00 42.61 1.31
525 2273 4.619437 TGACAAAGACCGGTGTTTTTAC 57.381 40.909 25.83 18.82 28.56 2.01
585 2334 7.283127 GGGATTAAGAATTCTGTCAAGTGCATA 59.717 37.037 9.17 0.00 0.00 3.14
803 2553 2.140717 ACTTTTCTTAACGACCAGCCG 58.859 47.619 0.00 0.00 0.00 5.52
886 10479 1.949799 AGTGGCTCAGTGAGGAGATT 58.050 50.000 21.54 0.00 37.05 2.40
975 10579 8.818622 TCTTGTACTCCAGTATATGTGTAAGT 57.181 34.615 0.00 0.00 32.54 2.24
1007 10612 2.036098 CCATTGGCAGGCAGGTCA 59.964 61.111 0.00 0.00 0.00 4.02
1080 10685 4.742201 GCCTTGCTCTCCGCGTCA 62.742 66.667 4.92 0.00 43.27 4.35
1157 10762 0.110238 ATCATCGCGCAACAACACAC 60.110 50.000 8.75 0.00 0.00 3.82
1208 10841 0.609151 TCCGCGGATTTCTGTAACCA 59.391 50.000 27.28 0.00 0.00 3.67
1393 11080 2.004408 ATGGAGAATGCAGGGGGAGC 62.004 60.000 0.00 0.00 42.42 4.70
1421 11108 7.912056 TGATCATCTAAACAAGAAGTGGAAG 57.088 36.000 0.00 0.00 37.89 3.46
1422 11109 8.102676 TCATGATCATCTAAACAAGAAGTGGAA 58.897 33.333 4.86 0.00 37.89 3.53
1426 11113 9.327628 CTCATCATGATCATCTAAACAAGAAGT 57.672 33.333 4.86 0.00 37.89 3.01
1433 11122 4.391216 CCGCCTCATCATGATCATCTAAAC 59.609 45.833 4.86 0.00 0.00 2.01
1527 11216 1.140652 CTCTTCCCCTCTTCATCAGGC 59.859 57.143 0.00 0.00 0.00 4.85
1571 11262 4.862574 TCTTTTATCGGAGTGTCGTCAATG 59.137 41.667 0.00 0.00 0.00 2.82
1620 11312 3.306641 GCTCCTATCCATACAAGAGCCTG 60.307 52.174 0.00 0.00 40.62 4.85
1635 11327 0.773644 ATTTCCGGCCATGCTCCTAT 59.226 50.000 2.24 0.00 0.00 2.57
1708 11401 7.352739 GTGTCATTTTGGTGTAGTAGTTTCAG 58.647 38.462 0.00 0.00 0.00 3.02
1835 11824 4.364415 TTGCGGGAAACATAAACTATGC 57.636 40.909 0.00 0.00 39.79 3.14
1849 11838 1.338294 TGCTAGTTCGATTTTGCGGGA 60.338 47.619 0.00 0.00 0.00 5.14
1851 11840 2.351418 TGATGCTAGTTCGATTTTGCGG 59.649 45.455 0.00 0.00 0.00 5.69
1852 11841 3.062639 ACTGATGCTAGTTCGATTTTGCG 59.937 43.478 0.00 0.00 0.00 4.85
1874 11863 1.133181 TGGATCCAGCAGGGTGTTCA 61.133 55.000 11.44 0.00 38.11 3.18
1876 11865 1.687612 CTGGATCCAGCAGGGTGTT 59.312 57.895 28.45 0.00 37.24 3.32
1914 11903 2.170166 CCAGGCAAAATGCTTCCTACA 58.830 47.619 2.00 0.00 44.28 2.74
1915 11904 1.134995 GCCAGGCAAAATGCTTCCTAC 60.135 52.381 6.55 0.00 44.28 3.18
1917 11906 0.832983 TGCCAGGCAAAATGCTTCCT 60.833 50.000 13.33 0.00 44.28 3.36
1938 11927 0.398318 ACTGGTCTCTGCAACTTCCC 59.602 55.000 0.00 0.00 0.00 3.97
2007 12016 4.884247 ACTTACCAGACTGTACTTTCAGC 58.116 43.478 0.93 0.00 38.84 4.26
2024 12035 4.244425 TGCTCTTCTCTGTGTGACTTAC 57.756 45.455 0.00 0.00 0.00 2.34
2068 12079 4.191662 AGCGTCAGTTTTAAGTTCGTTG 57.808 40.909 0.00 0.00 0.00 4.10
2072 12083 8.831000 TCTTTTTAAGCGTCAGTTTTAAGTTC 57.169 30.769 0.00 0.00 0.00 3.01
2112 12123 8.890472 AGTCTTATCCTATGTTTTATATGGGCA 58.110 33.333 0.00 0.00 0.00 5.36
2113 12124 9.384764 GAGTCTTATCCTATGTTTTATATGGGC 57.615 37.037 0.00 0.00 0.00 5.36
2121 12132 9.793259 TTCAGTTTGAGTCTTATCCTATGTTTT 57.207 29.630 0.00 0.00 0.00 2.43
2209 12227 0.405198 ATCACTGGTGGATGTGGCAA 59.595 50.000 0.00 0.00 35.15 4.52
2320 12344 8.471457 CGTCATTCAATGAAGTGTTTTTGTTAG 58.529 33.333 0.29 0.00 41.69 2.34
2358 12382 2.617274 GGGGCGACACAGCTGTTTC 61.617 63.158 18.94 20.01 37.29 2.78


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

AutoCloner maintained by Alex Coulton.