Multiple sequence alignment - TraesCS3D01G164400

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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 TraesCS3D01G164400 chr3D 100.000 7651 0 0 1 7651 135873780 135866130 0.000000e+00 14129.0
1 TraesCS3D01G164400 chr3D 89.677 310 26 3 29 337 32905001 32905305 2.590000e-104 390.0
2 TraesCS3D01G164400 chr3D 80.473 169 24 4 7007 7169 228193159 228192994 3.750000e-23 121.0
3 TraesCS3D01G164400 chr3A 96.409 4539 115 21 153 4672 151649481 151644972 0.000000e+00 7435.0
4 TraesCS3D01G164400 chr3A 96.129 2790 54 9 4726 7503 151644880 151642133 0.000000e+00 4505.0
5 TraesCS3D01G164400 chr3A 90.850 306 23 4 35 337 151649793 151650096 9.240000e-109 405.0
6 TraesCS3D01G164400 chr3A 90.446 157 10 2 7500 7651 151642078 151641922 1.300000e-47 202.0
7 TraesCS3D01G164400 chr3A 82.955 176 19 6 7002 7169 329500775 329500947 1.720000e-31 148.0
8 TraesCS3D01G164400 chr3A 91.525 59 4 1 4838 4896 495012065 495012122 6.360000e-11 80.5
9 TraesCS3D01G164400 chr3A 97.368 38 1 0 4705 4742 151644972 151644935 1.780000e-06 65.8
10 TraesCS3D01G164400 chr3B 95.223 1884 57 14 320 2181 194079424 194077552 0.000000e+00 2950.0
11 TraesCS3D01G164400 chr3B 95.139 1584 59 7 3556 5131 194076134 194074561 0.000000e+00 2483.0
12 TraesCS3D01G164400 chr3B 97.090 1340 32 2 2180 3513 194077474 194076136 0.000000e+00 2252.0
13 TraesCS3D01G164400 chr3B 97.995 1197 18 3 6001 7193 194073714 194072520 0.000000e+00 2073.0
14 TraesCS3D01G164400 chr3B 98.449 838 12 1 5115 5951 194074547 194073710 0.000000e+00 1474.0
15 TraesCS3D01G164400 chr3B 92.793 333 23 1 1 332 194267162 194266830 1.490000e-131 481.0
16 TraesCS3D01G164400 chr2B 90.323 310 24 3 29 337 146779073 146779377 1.200000e-107 401.0
17 TraesCS3D01G164400 chr4A 90.000 310 25 3 29 337 27552682 27552378 5.560000e-106 396.0
18 TraesCS3D01G164400 chr7A 89.677 310 26 3 29 337 248333211 248333515 2.590000e-104 390.0
19 TraesCS3D01G164400 chr7A 88.924 316 29 3 23 337 570272326 570272636 1.200000e-102 385.0
20 TraesCS3D01G164400 chr7A 88.924 316 29 5 23 337 570283951 570284261 1.200000e-102 385.0
21 TraesCS3D01G164400 chr6D 90.909 88 7 1 4831 4917 211444028 211443941 4.850000e-22 117.0
22 TraesCS3D01G164400 chr6D 91.026 78 7 0 4838 4915 211443945 211444022 1.050000e-18 106.0
23 TraesCS3D01G164400 chr6A 92.308 78 6 0 4838 4915 301951288 301951365 2.260000e-20 111.0
24 TraesCS3D01G164400 chr7B 88.889 81 5 1 4838 4914 450642196 450642116 6.320000e-16 97.1
25 TraesCS3D01G164400 chr1D 88.889 72 5 1 4838 4909 189883096 189883164 1.370000e-12 86.1
26 TraesCS3D01G164400 chr5A 100.000 36 0 0 7135 7170 547382743 547382708 4.950000e-07 67.6
27 TraesCS3D01G164400 chr5A 100.000 28 0 0 1 28 495483896 495483923 1.400000e-02 52.8
28 TraesCS3D01G164400 chr2A 95.122 41 2 0 4874 4914 66844932 66844892 1.780000e-06 65.8


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 TraesCS3D01G164400 chr3D 135866130 135873780 7650 True 14129.00 14129 100.0000 1 7651 1 chr3D.!!$R1 7650
1 TraesCS3D01G164400 chr3A 151641922 151649481 7559 True 3051.95 7435 95.0880 153 7651 4 chr3A.!!$R1 7498
2 TraesCS3D01G164400 chr3B 194072520 194079424 6904 True 2246.40 2950 96.7792 320 7193 5 chr3B.!!$R2 6873

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
399 400 0.033504 CGGTCAATGGCGCCTACTAT 59.966 55.000 29.70 9.98 0.00 2.12 F
517 518 0.179234 TTGGGTGTTTGAGCTCGTCA 59.821 50.000 9.64 5.25 0.00 4.35 F
1511 1541 0.526211 TGTGATCCGAGGAGTTGTCG 59.474 55.000 0.00 0.00 37.17 4.35 F
2178 2287 1.902918 GGTGGCTCATTGGTGCACA 60.903 57.895 20.43 0.00 35.26 4.57 F
2453 2562 3.369546 AGACTTGCCAAAATCAAACCG 57.630 42.857 0.00 0.00 0.00 4.44 F
3803 3918 0.034059 AACACTGGCTCTCTTCGTGG 59.966 55.000 0.00 0.00 0.00 4.94 F
4712 4830 2.663119 CACTTGCTCAATAAAAAGGCGC 59.337 45.455 0.00 0.00 0.00 6.53 F
5366 5594 1.487558 ACGCGGGGTAATCCAAACTAT 59.512 47.619 12.47 0.00 37.22 2.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1511 1541 1.153369 TCTGCCCGCAGCTCAATAC 60.153 57.895 11.92 0.00 43.31 1.89 R
2178 2287 2.042686 TAAGCATTGCCAGCGAATCT 57.957 45.000 4.70 0.00 37.01 2.40 R
3342 3457 4.159321 TCATTCCAAATGCGGCTGAAAATA 59.841 37.500 0.00 0.00 0.00 1.40 R
3515 3630 4.072131 AGTCATTTGGAAGCGCTTTCTTA 58.928 39.130 28.03 16.44 36.03 2.10 R
4381 4497 2.037136 CAAGCAGGGAAGCTCACGG 61.037 63.158 0.00 0.00 45.89 4.94 R
5099 5296 1.079336 GTGGGCAGGTACCGACTTC 60.079 63.158 6.18 0.00 35.69 3.01 R
5824 6052 0.538057 AACTGACACCCATGCACCAG 60.538 55.000 0.00 0.00 0.00 4.00 R
7171 7404 0.034896 AGTGGATGGGTGACAACGAC 59.965 55.000 0.00 0.00 32.09 4.34 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
25 26 8.530804 CCTTCAAAGATCCTATGAAAATCCTT 57.469 34.615 6.81 0.00 33.08 3.36
26 27 8.628280 CCTTCAAAGATCCTATGAAAATCCTTC 58.372 37.037 6.81 0.00 33.08 3.46
27 28 7.792374 TCAAAGATCCTATGAAAATCCTTCG 57.208 36.000 0.00 0.00 0.00 3.79
28 29 6.767902 TCAAAGATCCTATGAAAATCCTTCGG 59.232 38.462 0.00 0.00 0.00 4.30
29 30 5.234466 AGATCCTATGAAAATCCTTCGGG 57.766 43.478 0.00 0.00 0.00 5.14
30 31 3.857157 TCCTATGAAAATCCTTCGGGG 57.143 47.619 0.00 0.00 35.37 5.73
31 32 2.158667 TCCTATGAAAATCCTTCGGGGC 60.159 50.000 0.00 0.00 35.37 5.80
32 33 2.230660 CTATGAAAATCCTTCGGGGCC 58.769 52.381 0.00 0.00 35.37 5.80
33 34 0.631212 ATGAAAATCCTTCGGGGCCT 59.369 50.000 0.84 0.00 35.37 5.19
34 35 0.034477 TGAAAATCCTTCGGGGCCTC 60.034 55.000 0.84 0.00 35.37 4.70
35 36 0.256177 GAAAATCCTTCGGGGCCTCT 59.744 55.000 0.00 0.00 35.37 3.69
36 37 0.704664 AAAATCCTTCGGGGCCTCTT 59.295 50.000 0.00 0.00 35.37 2.85
37 38 0.704664 AAATCCTTCGGGGCCTCTTT 59.295 50.000 0.00 0.00 35.37 2.52
38 39 0.034089 AATCCTTCGGGGCCTCTTTG 60.034 55.000 0.00 0.00 35.37 2.77
39 40 0.914417 ATCCTTCGGGGCCTCTTTGA 60.914 55.000 0.00 0.00 35.37 2.69
40 41 0.914417 TCCTTCGGGGCCTCTTTGAT 60.914 55.000 0.00 0.00 35.37 2.57
41 42 0.034089 CCTTCGGGGCCTCTTTGATT 60.034 55.000 0.00 0.00 0.00 2.57
42 43 1.383523 CTTCGGGGCCTCTTTGATTC 58.616 55.000 0.00 0.00 0.00 2.52
43 44 0.695924 TTCGGGGCCTCTTTGATTCA 59.304 50.000 0.00 0.00 0.00 2.57
44 45 0.918983 TCGGGGCCTCTTTGATTCAT 59.081 50.000 0.00 0.00 0.00 2.57
45 46 2.123589 TCGGGGCCTCTTTGATTCATA 58.876 47.619 0.00 0.00 0.00 2.15
46 47 2.104792 TCGGGGCCTCTTTGATTCATAG 59.895 50.000 0.00 0.00 0.00 2.23
47 48 2.811873 CGGGGCCTCTTTGATTCATAGG 60.812 54.545 0.00 5.38 0.00 2.57
48 49 2.489802 GGGGCCTCTTTGATTCATAGGG 60.490 54.545 0.84 5.08 0.00 3.53
49 50 2.234143 GGCCTCTTTGATTCATAGGGC 58.766 52.381 19.09 19.09 44.39 5.19
50 51 2.158549 GGCCTCTTTGATTCATAGGGCT 60.159 50.000 22.84 0.00 46.42 5.19
51 52 2.883386 GCCTCTTTGATTCATAGGGCTG 59.117 50.000 19.58 3.86 31.69 4.85
52 53 2.883386 CCTCTTTGATTCATAGGGCTGC 59.117 50.000 4.57 0.00 0.00 5.25
53 54 3.548770 CTCTTTGATTCATAGGGCTGCA 58.451 45.455 0.50 0.00 0.00 4.41
54 55 3.949754 CTCTTTGATTCATAGGGCTGCAA 59.050 43.478 0.50 0.00 0.00 4.08
55 56 4.343231 TCTTTGATTCATAGGGCTGCAAA 58.657 39.130 0.50 0.00 0.00 3.68
56 57 4.771577 TCTTTGATTCATAGGGCTGCAAAA 59.228 37.500 0.50 0.00 0.00 2.44
57 58 5.245751 TCTTTGATTCATAGGGCTGCAAAAA 59.754 36.000 0.50 0.00 0.00 1.94
58 59 4.454728 TGATTCATAGGGCTGCAAAAAC 57.545 40.909 0.50 0.00 0.00 2.43
59 60 3.119531 TGATTCATAGGGCTGCAAAAACG 60.120 43.478 0.50 0.00 0.00 3.60
60 61 0.525761 TCATAGGGCTGCAAAAACGC 59.474 50.000 0.50 0.00 0.00 4.84
61 62 0.243365 CATAGGGCTGCAAAAACGCA 59.757 50.000 0.50 0.00 40.32 5.24
71 72 4.576216 TGCAAAAACGCAGGAATAGAAA 57.424 36.364 0.00 0.00 36.86 2.52
72 73 4.938080 TGCAAAAACGCAGGAATAGAAAA 58.062 34.783 0.00 0.00 36.86 2.29
73 74 5.352284 TGCAAAAACGCAGGAATAGAAAAA 58.648 33.333 0.00 0.00 36.86 1.94
91 92 4.450082 AAAAACGTAGGATTGGAATGGC 57.550 40.909 0.00 0.00 0.00 4.40
92 93 2.799126 AACGTAGGATTGGAATGGCA 57.201 45.000 0.00 0.00 0.00 4.92
93 94 3.297134 AACGTAGGATTGGAATGGCAT 57.703 42.857 0.00 0.00 0.00 4.40
94 95 2.575532 ACGTAGGATTGGAATGGCATG 58.424 47.619 0.00 0.00 0.00 4.06
95 96 2.092429 ACGTAGGATTGGAATGGCATGT 60.092 45.455 0.00 0.00 0.00 3.21
96 97 2.549754 CGTAGGATTGGAATGGCATGTC 59.450 50.000 0.00 0.82 0.00 3.06
97 98 2.077687 AGGATTGGAATGGCATGTCC 57.922 50.000 16.85 16.85 0.00 4.02
106 107 3.518766 TGGCATGTCCATTGGATCC 57.481 52.632 9.01 4.20 40.72 3.36
107 108 0.106066 TGGCATGTCCATTGGATCCC 60.106 55.000 9.90 7.65 40.72 3.85
108 109 0.186873 GGCATGTCCATTGGATCCCT 59.813 55.000 9.90 0.00 32.73 4.20
109 110 1.425066 GGCATGTCCATTGGATCCCTA 59.575 52.381 9.90 0.00 32.73 3.53
110 111 2.042162 GGCATGTCCATTGGATCCCTAT 59.958 50.000 9.90 0.00 32.73 2.57
111 112 3.266772 GGCATGTCCATTGGATCCCTATA 59.733 47.826 9.90 0.00 32.73 1.31
112 113 4.521146 GCATGTCCATTGGATCCCTATAG 58.479 47.826 9.90 0.00 32.73 1.31
113 114 4.627255 GCATGTCCATTGGATCCCTATAGG 60.627 50.000 12.27 12.27 32.73 2.57
128 129 7.938140 TCCCTATAGGATTTGAGTTTGTTTG 57.062 36.000 21.07 0.00 40.93 2.93
129 130 7.695055 TCCCTATAGGATTTGAGTTTGTTTGA 58.305 34.615 21.07 0.00 40.93 2.69
130 131 8.336235 TCCCTATAGGATTTGAGTTTGTTTGAT 58.664 33.333 21.07 0.00 40.93 2.57
131 132 8.971073 CCCTATAGGATTTGAGTTTGTTTGATT 58.029 33.333 21.07 0.00 38.24 2.57
132 133 9.793252 CCTATAGGATTTGAGTTTGTTTGATTG 57.207 33.333 14.11 0.00 37.39 2.67
133 134 9.793252 CTATAGGATTTGAGTTTGTTTGATTGG 57.207 33.333 0.00 0.00 0.00 3.16
134 135 6.484364 AGGATTTGAGTTTGTTTGATTGGT 57.516 33.333 0.00 0.00 0.00 3.67
135 136 6.888105 AGGATTTGAGTTTGTTTGATTGGTT 58.112 32.000 0.00 0.00 0.00 3.67
136 137 6.762661 AGGATTTGAGTTTGTTTGATTGGTTG 59.237 34.615 0.00 0.00 0.00 3.77
137 138 6.538381 GGATTTGAGTTTGTTTGATTGGTTGT 59.462 34.615 0.00 0.00 0.00 3.32
138 139 6.718454 TTTGAGTTTGTTTGATTGGTTGTG 57.282 33.333 0.00 0.00 0.00 3.33
139 140 5.398603 TGAGTTTGTTTGATTGGTTGTGT 57.601 34.783 0.00 0.00 0.00 3.72
140 141 5.406649 TGAGTTTGTTTGATTGGTTGTGTC 58.593 37.500 0.00 0.00 0.00 3.67
141 142 5.047731 TGAGTTTGTTTGATTGGTTGTGTCA 60.048 36.000 0.00 0.00 0.00 3.58
142 143 5.167845 AGTTTGTTTGATTGGTTGTGTCAC 58.832 37.500 0.00 0.00 0.00 3.67
143 144 3.412981 TGTTTGATTGGTTGTGTCACG 57.587 42.857 0.00 0.00 0.00 4.35
144 145 2.098280 TGTTTGATTGGTTGTGTCACGG 59.902 45.455 0.00 0.00 0.00 4.94
145 146 1.313772 TTGATTGGTTGTGTCACGGG 58.686 50.000 0.00 0.00 0.00 5.28
146 147 0.470341 TGATTGGTTGTGTCACGGGA 59.530 50.000 0.00 0.00 0.00 5.14
147 148 1.134068 TGATTGGTTGTGTCACGGGAA 60.134 47.619 0.00 0.00 0.00 3.97
148 149 1.535462 GATTGGTTGTGTCACGGGAAG 59.465 52.381 0.00 0.00 0.00 3.46
149 150 0.542333 TTGGTTGTGTCACGGGAAGA 59.458 50.000 0.00 0.00 0.00 2.87
150 151 0.542333 TGGTTGTGTCACGGGAAGAA 59.458 50.000 0.00 0.00 0.00 2.52
151 152 0.942252 GGTTGTGTCACGGGAAGAAC 59.058 55.000 0.00 0.00 0.00 3.01
152 153 1.658994 GTTGTGTCACGGGAAGAACA 58.341 50.000 0.00 0.00 0.00 3.18
153 154 2.011222 GTTGTGTCACGGGAAGAACAA 58.989 47.619 7.53 7.53 0.00 2.83
154 155 2.404923 TGTGTCACGGGAAGAACAAA 57.595 45.000 0.00 0.00 0.00 2.83
155 156 2.285083 TGTGTCACGGGAAGAACAAAG 58.715 47.619 0.00 0.00 0.00 2.77
156 157 1.602377 GTGTCACGGGAAGAACAAAGG 59.398 52.381 0.00 0.00 0.00 3.11
157 158 1.487142 TGTCACGGGAAGAACAAAGGA 59.513 47.619 0.00 0.00 0.00 3.36
158 159 2.105821 TGTCACGGGAAGAACAAAGGAT 59.894 45.455 0.00 0.00 0.00 3.24
159 160 3.146847 GTCACGGGAAGAACAAAGGATT 58.853 45.455 0.00 0.00 0.00 3.01
160 161 3.568430 GTCACGGGAAGAACAAAGGATTT 59.432 43.478 0.00 0.00 40.26 2.17
161 162 3.818773 TCACGGGAAGAACAAAGGATTTC 59.181 43.478 0.00 0.00 35.03 2.17
162 163 3.057526 CACGGGAAGAACAAAGGATTTCC 60.058 47.826 0.00 0.00 35.03 3.13
179 180 8.663352 AGGATTTCCTCAAGAGGTTGAAGTGG 62.663 46.154 15.36 0.00 44.77 4.00
192 193 7.725844 AGAGGTTGAAGTGGATGTTAAAATTCT 59.274 33.333 0.00 0.00 0.00 2.40
277 278 6.210287 TCAAACAACCAACGTAGGAAAAAT 57.790 33.333 0.00 0.00 0.00 1.82
285 286 7.989416 ACCAACGTAGGAAAAATTTCTATGA 57.011 32.000 10.16 0.00 37.35 2.15
311 312 9.804977 AATTCTAATCCTTCAAAGATCCTATGG 57.195 33.333 0.00 0.00 0.00 2.74
312 313 8.567198 TTCTAATCCTTCAAAGATCCTATGGA 57.433 34.615 0.00 0.00 35.55 3.41
337 338 6.983906 ATCCTTTAAATCAAATAGGCCCTG 57.016 37.500 0.00 0.00 0.00 4.45
342 343 4.591321 AAATCAAATAGGCCCTGAGACA 57.409 40.909 0.00 0.00 0.00 3.41
386 387 1.596934 GTCAGGGAGATGCGGTCAA 59.403 57.895 0.00 0.00 0.00 3.18
387 388 0.179000 GTCAGGGAGATGCGGTCAAT 59.821 55.000 0.00 0.00 0.00 2.57
399 400 0.033504 CGGTCAATGGCGCCTACTAT 59.966 55.000 29.70 9.98 0.00 2.12
445 446 5.188948 TGTGGTCATACACTAAGGTGCTATT 59.811 40.000 0.00 0.00 46.57 1.73
465 466 7.990886 TGCTATTAGGGTTATGGTTTTACTCTG 59.009 37.037 0.00 0.00 0.00 3.35
517 518 0.179234 TTGGGTGTTTGAGCTCGTCA 59.821 50.000 9.64 5.25 0.00 4.35
604 605 6.210078 GGATAATTCTCATCCGTCGGATATC 58.790 44.000 25.96 20.78 40.98 1.63
613 615 3.264947 TCCGTCGGATATCACTATACCG 58.735 50.000 10.71 0.00 44.09 4.02
633 635 3.508793 CCGTATCCACTATCATACCCGTT 59.491 47.826 0.00 0.00 0.00 4.44
640 642 5.186992 TCCACTATCATACCCGTTGGATATG 59.813 44.000 0.00 0.00 34.81 1.78
707 710 4.826733 TGCAAATAATAAGGATGCGGATGT 59.173 37.500 0.00 0.00 39.81 3.06
727 730 6.857964 GGATGTGCAACGAAAATTATCCATAG 59.142 38.462 0.00 0.00 42.39 2.23
777 788 7.801104 TCCATACCATTTACAATCTTAGCAGA 58.199 34.615 0.00 0.00 0.00 4.26
816 846 2.872388 CGGCCTGATAGTCGCCCAT 61.872 63.158 0.00 0.00 39.66 4.00
839 869 2.615493 GGCCCATGGATAATTCGTCGAT 60.615 50.000 15.22 0.00 0.00 3.59
843 873 3.748048 CCATGGATAATTCGTCGATTGCT 59.252 43.478 5.56 0.00 0.00 3.91
849 879 3.455619 AATTCGTCGATTGCTCAACAC 57.544 42.857 0.00 0.00 0.00 3.32
850 880 1.859383 TTCGTCGATTGCTCAACACA 58.141 45.000 0.00 0.00 0.00 3.72
858 888 1.985473 TTGCTCAACACATCTTGCCT 58.015 45.000 0.00 0.00 0.00 4.75
1095 1125 1.754621 CCTCCTCCTCACGCTGCTA 60.755 63.158 0.00 0.00 0.00 3.49
1432 1462 2.668001 CGATCTGATCTGCGCTTAGAGG 60.668 54.545 9.73 0.00 0.00 3.69
1511 1541 0.526211 TGTGATCCGAGGAGTTGTCG 59.474 55.000 0.00 0.00 37.17 4.35
1591 1621 3.573967 GCTTTTGAGATTGTGGGGAAGAA 59.426 43.478 0.00 0.00 0.00 2.52
1598 1628 6.730447 TGAGATTGTGGGGAAGAAATCATAA 58.270 36.000 0.00 0.00 32.58 1.90
1666 1696 5.474578 TGAATAGCTGGCTAATAGACTGG 57.525 43.478 6.39 0.00 31.73 4.00
1679 1709 4.965200 ATAGACTGGCCTTTACTCATCC 57.035 45.455 3.32 0.00 0.00 3.51
1956 1986 8.190784 AGTACAATCTTTTGGTGAACTTTTCAG 58.809 33.333 0.00 0.00 37.00 3.02
2178 2287 1.902918 GGTGGCTCATTGGTGCACA 60.903 57.895 20.43 0.00 35.26 4.57
2253 2362 6.516718 ACTTGCAGTCGCTATAATCTTATGT 58.483 36.000 0.00 0.00 39.64 2.29
2393 2502 7.617041 AGCAAGTTTGAAGAACAGGATATAC 57.383 36.000 0.00 0.00 0.00 1.47
2453 2562 3.369546 AGACTTGCCAAAATCAAACCG 57.630 42.857 0.00 0.00 0.00 4.44
2804 2919 7.489757 GCTGTTACTTCTGTTCTCGAATCTATT 59.510 37.037 0.00 0.00 0.00 1.73
3309 3424 6.545504 ACTTTGCGGATGTATATTCATGAC 57.454 37.500 0.00 0.00 0.00 3.06
3513 3628 4.452455 CCTGACCGCCTATCATTTTGTATC 59.548 45.833 0.00 0.00 0.00 2.24
3515 3630 5.620206 TGACCGCCTATCATTTTGTATCAT 58.380 37.500 0.00 0.00 0.00 2.45
3803 3918 0.034059 AACACTGGCTCTCTTCGTGG 59.966 55.000 0.00 0.00 0.00 4.94
4381 4497 4.266739 CCTTTTGTTTTGCCGTGAGTTTAC 59.733 41.667 0.00 0.00 0.00 2.01
4688 4806 6.156256 AGGTATGCAGACTATTTGTTACTGGA 59.844 38.462 11.87 0.00 33.99 3.86
4696 4814 8.070171 CAGACTATTTGTTACTGGAAACACTTG 58.930 37.037 0.00 0.00 39.02 3.16
4712 4830 2.663119 CACTTGCTCAATAAAAAGGCGC 59.337 45.455 0.00 0.00 0.00 6.53
4951 5148 3.723325 TCCCCGGTTAGGTACTTTGTAT 58.277 45.455 0.00 0.00 41.75 2.29
4952 5149 4.103342 TCCCCGGTTAGGTACTTTGTATT 58.897 43.478 0.00 0.00 41.75 1.89
4953 5150 4.535692 TCCCCGGTTAGGTACTTTGTATTT 59.464 41.667 0.00 0.00 41.75 1.40
4954 5151 4.637091 CCCCGGTTAGGTACTTTGTATTTG 59.363 45.833 0.00 0.00 41.75 2.32
4955 5152 5.247862 CCCGGTTAGGTACTTTGTATTTGT 58.752 41.667 0.00 0.00 41.75 2.83
5099 5296 4.337763 GCAAATACTCGAGTGATGCAAAG 58.662 43.478 30.52 15.57 34.54 2.77
5366 5594 1.487558 ACGCGGGGTAATCCAAACTAT 59.512 47.619 12.47 0.00 37.22 2.12
5648 5876 6.540551 TGCATTACACTTACACAAAGTTCTCA 59.459 34.615 0.00 0.00 46.61 3.27
5802 6030 3.213506 TGTTGGTCACCTGATCAAACAG 58.786 45.455 2.49 0.00 45.62 3.16
5824 6052 6.073112 ACAGCATGCATTTTTGTTTATTGGAC 60.073 34.615 21.98 0.00 42.53 4.02
5904 6133 4.130118 ACACAGAACAAACCAGCTCTTAG 58.870 43.478 0.00 0.00 0.00 2.18
6416 6649 4.863548 TCAAGGAATCTGGCATCTTCATT 58.136 39.130 10.26 7.20 0.00 2.57
7160 7393 3.631686 TGACTGGTTTTGACCATTGACTG 59.368 43.478 0.00 0.00 39.34 3.51
7195 7428 3.126858 CGTTGTCACCCATCCACTTAATG 59.873 47.826 0.00 0.00 0.00 1.90
7196 7429 4.331968 GTTGTCACCCATCCACTTAATGA 58.668 43.478 0.00 0.00 0.00 2.57
7239 7472 9.681692 TTCAAAACTACAATGTGATTCAATCTG 57.318 29.630 0.00 0.00 0.00 2.90
7241 7474 5.824904 ACTACAATGTGATTCAATCTGGC 57.175 39.130 0.00 0.00 0.00 4.85
7248 7481 5.125100 TGTGATTCAATCTGGCAAAGTTC 57.875 39.130 0.00 0.00 0.00 3.01
7252 7485 4.589216 TTCAATCTGGCAAAGTTCCAAG 57.411 40.909 0.00 0.00 32.41 3.61
7326 7559 5.767168 CCATTTTAGGTGAAAATTTGGCCAA 59.233 36.000 16.05 16.05 43.83 4.52
7327 7560 6.293900 CCATTTTAGGTGAAAATTTGGCCAAC 60.294 38.462 20.35 6.91 43.83 3.77
7418 7652 5.068234 TGAACACTACCCTCGTATTCAAG 57.932 43.478 0.00 0.00 0.00 3.02
7503 7737 4.271590 GTCAACATTGGCCAAAACAAAC 57.728 40.909 24.71 14.41 0.00 2.93
7505 7739 5.112686 GTCAACATTGGCCAAAACAAACTA 58.887 37.500 24.71 0.00 0.00 2.24
7570 7866 8.943594 AAAAGGTAAATACACATTCAGGGTTA 57.056 30.769 0.00 0.00 34.16 2.85
7573 7869 7.924541 AGGTAAATACACATTCAGGGTTAAGA 58.075 34.615 0.00 0.00 34.16 2.10
7574 7870 8.047310 AGGTAAATACACATTCAGGGTTAAGAG 58.953 37.037 0.00 0.00 34.16 2.85
7600 7897 1.218316 GACTTGCGGGTGACTAGGG 59.782 63.158 0.00 0.00 0.00 3.53
7622 7919 0.811616 CTGACTAGGCGGTCAATGGC 60.812 60.000 14.88 0.00 44.24 4.40
7642 7939 6.716934 TGGCCAAAACTAGTCAAAATTGTA 57.283 33.333 0.61 0.00 0.00 2.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 8.530804 AAGGATTTTCATAGGATCTTTGAAGG 57.469 34.615 0.00 0.00 34.19 3.46
1 2 8.341173 CGAAGGATTTTCATAGGATCTTTGAAG 58.659 37.037 0.00 0.00 34.19 3.02
2 3 8.213518 CGAAGGATTTTCATAGGATCTTTGAA 57.786 34.615 0.00 0.00 31.64 2.69
3 4 7.792374 CGAAGGATTTTCATAGGATCTTTGA 57.208 36.000 0.00 0.00 0.00 2.69
23 24 1.340017 TGAATCAAAGAGGCCCCGAAG 60.340 52.381 0.00 0.00 0.00 3.79
24 25 0.695924 TGAATCAAAGAGGCCCCGAA 59.304 50.000 0.00 0.00 0.00 4.30
25 26 0.918983 ATGAATCAAAGAGGCCCCGA 59.081 50.000 0.00 0.00 0.00 5.14
26 27 2.498167 CTATGAATCAAAGAGGCCCCG 58.502 52.381 0.00 0.00 0.00 5.73
27 28 2.489802 CCCTATGAATCAAAGAGGCCCC 60.490 54.545 0.00 0.00 0.00 5.80
28 29 2.868899 CCCTATGAATCAAAGAGGCCC 58.131 52.381 0.00 0.00 0.00 5.80
29 30 2.158549 AGCCCTATGAATCAAAGAGGCC 60.159 50.000 11.60 0.00 40.06 5.19
30 31 2.883386 CAGCCCTATGAATCAAAGAGGC 59.117 50.000 8.35 8.35 39.49 4.70
31 32 2.883386 GCAGCCCTATGAATCAAAGAGG 59.117 50.000 0.00 0.00 0.00 3.69
32 33 3.548770 TGCAGCCCTATGAATCAAAGAG 58.451 45.455 0.00 0.00 0.00 2.85
33 34 3.650281 TGCAGCCCTATGAATCAAAGA 57.350 42.857 0.00 0.00 0.00 2.52
34 35 4.724074 TTTGCAGCCCTATGAATCAAAG 57.276 40.909 0.00 0.00 0.00 2.77
35 36 5.237048 GTTTTTGCAGCCCTATGAATCAAA 58.763 37.500 0.00 0.00 0.00 2.69
36 37 4.617995 CGTTTTTGCAGCCCTATGAATCAA 60.618 41.667 0.00 0.00 0.00 2.57
37 38 3.119531 CGTTTTTGCAGCCCTATGAATCA 60.120 43.478 0.00 0.00 0.00 2.57
38 39 3.438360 CGTTTTTGCAGCCCTATGAATC 58.562 45.455 0.00 0.00 0.00 2.52
39 40 2.417243 GCGTTTTTGCAGCCCTATGAAT 60.417 45.455 0.00 0.00 34.15 2.57
40 41 1.067915 GCGTTTTTGCAGCCCTATGAA 60.068 47.619 0.00 0.00 34.15 2.57
41 42 0.525761 GCGTTTTTGCAGCCCTATGA 59.474 50.000 0.00 0.00 34.15 2.15
42 43 0.243365 TGCGTTTTTGCAGCCCTATG 59.757 50.000 0.00 0.00 40.62 2.23
43 44 2.652313 TGCGTTTTTGCAGCCCTAT 58.348 47.368 0.00 0.00 40.62 2.57
44 45 4.165926 TGCGTTTTTGCAGCCCTA 57.834 50.000 0.00 0.00 40.62 3.53
50 51 4.576216 TTTCTATTCCTGCGTTTTTGCA 57.424 36.364 0.00 0.00 43.95 4.08
51 52 5.898630 TTTTTCTATTCCTGCGTTTTTGC 57.101 34.783 0.00 0.00 0.00 3.68
70 71 3.829601 TGCCATTCCAATCCTACGTTTTT 59.170 39.130 0.00 0.00 0.00 1.94
71 72 3.426615 TGCCATTCCAATCCTACGTTTT 58.573 40.909 0.00 0.00 0.00 2.43
72 73 3.080300 TGCCATTCCAATCCTACGTTT 57.920 42.857 0.00 0.00 0.00 3.60
73 74 2.799126 TGCCATTCCAATCCTACGTT 57.201 45.000 0.00 0.00 0.00 3.99
74 75 2.092429 ACATGCCATTCCAATCCTACGT 60.092 45.455 0.00 0.00 0.00 3.57
75 76 2.549754 GACATGCCATTCCAATCCTACG 59.450 50.000 0.00 0.00 0.00 3.51
76 77 2.887152 GGACATGCCATTCCAATCCTAC 59.113 50.000 0.00 0.00 36.34 3.18
77 78 2.513317 TGGACATGCCATTCCAATCCTA 59.487 45.455 4.93 0.00 43.33 2.94
78 79 1.288633 TGGACATGCCATTCCAATCCT 59.711 47.619 4.93 0.00 43.33 3.24
79 80 1.779221 TGGACATGCCATTCCAATCC 58.221 50.000 4.93 0.00 43.33 3.01
89 90 0.186873 AGGGATCCAATGGACATGCC 59.813 55.000 15.23 4.48 32.98 4.40
90 91 2.957402 TAGGGATCCAATGGACATGC 57.043 50.000 15.23 0.00 32.98 4.06
91 92 4.784838 TCCTATAGGGATCCAATGGACATG 59.215 45.833 18.97 0.00 39.58 3.21
92 93 5.041695 TCCTATAGGGATCCAATGGACAT 57.958 43.478 18.97 0.00 39.58 3.06
93 94 4.502036 TCCTATAGGGATCCAATGGACA 57.498 45.455 18.97 0.00 39.58 4.02
105 106 7.938140 TCAAACAAACTCAAATCCTATAGGG 57.062 36.000 18.97 4.00 35.41 3.53
106 107 9.793252 CAATCAAACAAACTCAAATCCTATAGG 57.207 33.333 13.07 13.07 0.00 2.57
107 108 9.793252 CCAATCAAACAAACTCAAATCCTATAG 57.207 33.333 0.00 0.00 0.00 1.31
108 109 9.308000 ACCAATCAAACAAACTCAAATCCTATA 57.692 29.630 0.00 0.00 0.00 1.31
109 110 8.193953 ACCAATCAAACAAACTCAAATCCTAT 57.806 30.769 0.00 0.00 0.00 2.57
110 111 7.595819 ACCAATCAAACAAACTCAAATCCTA 57.404 32.000 0.00 0.00 0.00 2.94
111 112 6.484364 ACCAATCAAACAAACTCAAATCCT 57.516 33.333 0.00 0.00 0.00 3.24
112 113 6.538381 ACAACCAATCAAACAAACTCAAATCC 59.462 34.615 0.00 0.00 0.00 3.01
113 114 7.064490 ACACAACCAATCAAACAAACTCAAATC 59.936 33.333 0.00 0.00 0.00 2.17
114 115 6.878389 ACACAACCAATCAAACAAACTCAAAT 59.122 30.769 0.00 0.00 0.00 2.32
115 116 6.226787 ACACAACCAATCAAACAAACTCAAA 58.773 32.000 0.00 0.00 0.00 2.69
116 117 5.788450 ACACAACCAATCAAACAAACTCAA 58.212 33.333 0.00 0.00 0.00 3.02
117 118 5.047731 TGACACAACCAATCAAACAAACTCA 60.048 36.000 0.00 0.00 0.00 3.41
118 119 5.288472 GTGACACAACCAATCAAACAAACTC 59.712 40.000 0.00 0.00 0.00 3.01
119 120 5.167845 GTGACACAACCAATCAAACAAACT 58.832 37.500 0.00 0.00 0.00 2.66
120 121 4.031201 CGTGACACAACCAATCAAACAAAC 59.969 41.667 6.37 0.00 0.00 2.93
121 122 4.169508 CGTGACACAACCAATCAAACAAA 58.830 39.130 6.37 0.00 0.00 2.83
122 123 3.428180 CCGTGACACAACCAATCAAACAA 60.428 43.478 6.37 0.00 0.00 2.83
123 124 2.098280 CCGTGACACAACCAATCAAACA 59.902 45.455 6.37 0.00 0.00 2.83
124 125 2.542824 CCCGTGACACAACCAATCAAAC 60.543 50.000 6.37 0.00 0.00 2.93
125 126 1.678627 CCCGTGACACAACCAATCAAA 59.321 47.619 6.37 0.00 0.00 2.69
126 127 1.134068 TCCCGTGACACAACCAATCAA 60.134 47.619 6.37 0.00 0.00 2.57
127 128 0.470341 TCCCGTGACACAACCAATCA 59.530 50.000 6.37 0.00 0.00 2.57
128 129 1.535462 CTTCCCGTGACACAACCAATC 59.465 52.381 6.37 0.00 0.00 2.67
129 130 1.142060 TCTTCCCGTGACACAACCAAT 59.858 47.619 6.37 0.00 0.00 3.16
130 131 0.542333 TCTTCCCGTGACACAACCAA 59.458 50.000 6.37 0.00 0.00 3.67
131 132 0.542333 TTCTTCCCGTGACACAACCA 59.458 50.000 6.37 0.00 0.00 3.67
132 133 0.942252 GTTCTTCCCGTGACACAACC 59.058 55.000 6.37 0.00 0.00 3.77
133 134 1.658994 TGTTCTTCCCGTGACACAAC 58.341 50.000 6.37 2.07 0.00 3.32
134 135 2.404923 TTGTTCTTCCCGTGACACAA 57.595 45.000 6.37 0.00 0.00 3.33
135 136 2.285083 CTTTGTTCTTCCCGTGACACA 58.715 47.619 6.37 0.00 0.00 3.72
136 137 1.602377 CCTTTGTTCTTCCCGTGACAC 59.398 52.381 0.00 0.00 0.00 3.67
137 138 1.487142 TCCTTTGTTCTTCCCGTGACA 59.513 47.619 0.00 0.00 0.00 3.58
138 139 2.249844 TCCTTTGTTCTTCCCGTGAC 57.750 50.000 0.00 0.00 0.00 3.67
139 140 3.502123 AATCCTTTGTTCTTCCCGTGA 57.498 42.857 0.00 0.00 0.00 4.35
140 141 3.057526 GGAAATCCTTTGTTCTTCCCGTG 60.058 47.826 0.00 0.00 31.19 4.94
141 142 3.154710 GGAAATCCTTTGTTCTTCCCGT 58.845 45.455 0.00 0.00 31.19 5.28
142 143 3.421844 AGGAAATCCTTTGTTCTTCCCG 58.578 45.455 0.00 0.00 46.09 5.14
155 156 4.457257 CACTTCAACCTCTTGAGGAAATCC 59.543 45.833 22.10 0.00 37.70 3.01
156 157 4.457257 CCACTTCAACCTCTTGAGGAAATC 59.543 45.833 22.10 0.00 37.70 2.17
157 158 4.104738 TCCACTTCAACCTCTTGAGGAAAT 59.895 41.667 22.10 6.19 37.70 2.17
158 159 3.458118 TCCACTTCAACCTCTTGAGGAAA 59.542 43.478 22.10 11.98 37.70 3.13
159 160 3.045634 TCCACTTCAACCTCTTGAGGAA 58.954 45.455 22.10 6.42 37.70 3.36
160 161 2.689658 TCCACTTCAACCTCTTGAGGA 58.310 47.619 22.10 0.79 37.70 3.71
161 162 3.244700 ACATCCACTTCAACCTCTTGAGG 60.245 47.826 14.58 14.58 37.70 3.86
162 163 4.013267 ACATCCACTTCAACCTCTTGAG 57.987 45.455 0.00 0.00 37.70 3.02
163 164 4.437682 AACATCCACTTCAACCTCTTGA 57.562 40.909 0.00 0.00 34.39 3.02
192 193 9.906660 GGATTCATTTTGTACTACATTTCACAA 57.093 29.630 0.00 0.00 0.00 3.33
247 248 6.370442 TCCTACGTTGGTTGTTTGATTCATAG 59.630 38.462 15.74 0.00 0.00 2.23
260 261 8.398878 TCATAGAAATTTTTCCTACGTTGGTT 57.601 30.769 15.74 1.55 37.92 3.67
285 286 9.804977 CCATAGGATCTTTGAAGGATTAGAATT 57.195 33.333 0.00 0.00 0.00 2.17
294 295 6.608922 AGGATTTCCATAGGATCTTTGAAGG 58.391 40.000 0.00 0.00 38.89 3.46
310 311 7.071196 AGGGCCTATTTGATTTAAAGGATTTCC 59.929 37.037 2.82 0.00 40.09 3.13
311 312 7.928167 CAGGGCCTATTTGATTTAAAGGATTTC 59.072 37.037 5.28 0.00 40.09 2.17
312 313 7.623278 TCAGGGCCTATTTGATTTAAAGGATTT 59.377 33.333 5.28 0.00 43.42 2.17
329 330 2.514160 TCACTCTATGTCTCAGGGCCTA 59.486 50.000 5.28 0.00 0.00 3.93
337 338 4.710423 TGCACTCTTCACTCTATGTCTC 57.290 45.455 0.00 0.00 0.00 3.36
386 387 0.396811 GTCCCAATAGTAGGCGCCAT 59.603 55.000 31.54 16.84 0.00 4.40
387 388 1.827394 GTCCCAATAGTAGGCGCCA 59.173 57.895 31.54 12.31 0.00 5.69
413 414 7.103641 CCTTAGTGTATGACCACAATTACAGT 58.896 38.462 0.00 0.00 37.82 3.55
604 605 7.013083 GGGTATGATAGTGGATACGGTATAGTG 59.987 44.444 0.00 0.00 42.51 2.74
613 615 4.525487 TCCAACGGGTATGATAGTGGATAC 59.475 45.833 0.00 0.00 34.93 2.24
633 635 3.565307 GATTTTGGTCAGCCCATATCCA 58.435 45.455 0.00 0.00 44.74 3.41
640 642 2.031870 GGTATGGATTTTGGTCAGCCC 58.968 52.381 0.00 0.00 0.00 5.19
682 685 3.568007 TCCGCATCCTTATTATTTGCACC 59.432 43.478 0.00 0.00 32.94 5.01
707 710 5.826601 TGCTATGGATAATTTTCGTTGCA 57.173 34.783 0.00 0.00 0.00 4.08
765 776 3.982701 CAGATCGCTCTCTGCTAAGATTG 59.017 47.826 0.15 0.00 36.53 2.67
766 777 4.241590 CAGATCGCTCTCTGCTAAGATT 57.758 45.455 0.15 0.00 36.53 2.40
767 778 3.921119 CAGATCGCTCTCTGCTAAGAT 57.079 47.619 0.15 0.00 36.53 2.40
777 788 0.032678 CCCATTACGCAGATCGCTCT 59.967 55.000 7.71 0.00 43.23 4.09
789 800 0.321653 CTATCAGGCCGGCCCATTAC 60.322 60.000 41.72 16.57 36.58 1.89
816 846 0.762418 ACGAATTATCCATGGGCCGA 59.238 50.000 13.02 0.00 0.00 5.54
839 869 1.881973 GAGGCAAGATGTGTTGAGCAA 59.118 47.619 0.00 0.00 0.00 3.91
843 873 2.936919 AGTGAGGCAAGATGTGTTGA 57.063 45.000 0.00 0.00 0.00 3.18
849 879 1.081892 CGGTGAAGTGAGGCAAGATG 58.918 55.000 0.00 0.00 0.00 2.90
850 880 0.036010 CCGGTGAAGTGAGGCAAGAT 60.036 55.000 0.00 0.00 0.00 2.40
858 888 0.541063 TGAGTAGGCCGGTGAAGTGA 60.541 55.000 1.90 0.00 0.00 3.41
1432 1462 2.075979 ACCGCTCTAAAAACGAGGAC 57.924 50.000 0.00 0.00 0.00 3.85
1511 1541 1.153369 TCTGCCCGCAGCTCAATAC 60.153 57.895 11.92 0.00 43.31 1.89
1666 1696 3.421844 ACAACCTTGGATGAGTAAAGGC 58.578 45.455 3.92 0.00 43.62 4.35
1679 1709 6.307800 CACTGTGAAGTAACAAAACAACCTTG 59.692 38.462 0.32 0.00 0.00 3.61
1956 1986 2.508526 ACACAATTTCTCACTGAGCCC 58.491 47.619 0.62 0.00 0.00 5.19
2178 2287 2.042686 TAAGCATTGCCAGCGAATCT 57.957 45.000 4.70 0.00 37.01 2.40
2253 2362 2.238646 CACCAGTACTGCCCCATTTCTA 59.761 50.000 17.86 0.00 0.00 2.10
2393 2502 9.322773 ACATATCTAAAATCCATATGAGCATCG 57.677 33.333 3.65 0.00 38.61 3.84
2453 2562 9.632638 ATTGGGTGATAATATATTATGGTCTGC 57.367 33.333 20.31 7.45 33.37 4.26
2804 2919 6.059484 GGACATGGAGAAATTAATTACCCGA 58.941 40.000 0.01 0.00 0.00 5.14
3293 3408 9.385902 CAATCAAAACGTCATGAATATACATCC 57.614 33.333 0.00 0.00 0.00 3.51
3309 3424 8.504005 ACAAGATAGGTTTAGACAATCAAAACG 58.496 33.333 0.00 0.00 34.63 3.60
3342 3457 4.159321 TCATTCCAAATGCGGCTGAAAATA 59.841 37.500 0.00 0.00 0.00 1.40
3513 3628 4.795278 GTCATTTGGAAGCGCTTTCTTATG 59.205 41.667 28.03 26.31 36.03 1.90
3515 3630 4.072131 AGTCATTTGGAAGCGCTTTCTTA 58.928 39.130 28.03 16.44 36.03 2.10
3803 3918 5.793030 AGGTGGTAGCTGACAATAGATAC 57.207 43.478 0.00 0.00 38.49 2.24
4314 4430 9.435688 AAAAGCATGTAAAATTTCCTCATAACC 57.564 29.630 0.00 0.00 0.00 2.85
4381 4497 2.037136 CAAGCAGGGAAGCTCACGG 61.037 63.158 0.00 0.00 45.89 4.94
4688 4806 4.744631 CGCCTTTTTATTGAGCAAGTGTTT 59.255 37.500 0.00 0.00 0.00 2.83
4696 4814 2.860136 GGATTGCGCCTTTTTATTGAGC 59.140 45.455 4.18 0.00 0.00 4.26
4712 4830 7.174946 AGGATTGGTATTTTATAGCGTGGATTG 59.825 37.037 0.00 0.00 0.00 2.67
4766 4955 2.688958 GCGAGTGAATAGACCACTACCT 59.311 50.000 0.00 0.00 44.14 3.08
4770 4959 2.425312 CTCTGCGAGTGAATAGACCACT 59.575 50.000 0.00 0.00 46.51 4.00
4951 5148 3.221771 ACACATTGAGCAAGGCTACAAA 58.778 40.909 0.00 0.00 39.88 2.83
4952 5149 2.862541 ACACATTGAGCAAGGCTACAA 58.137 42.857 0.00 0.00 39.88 2.41
4953 5150 2.566833 ACACATTGAGCAAGGCTACA 57.433 45.000 0.00 0.00 39.88 2.74
4954 5151 3.568538 CAAACACATTGAGCAAGGCTAC 58.431 45.455 0.00 0.00 41.85 3.58
4955 5152 2.557924 CCAAACACATTGAGCAAGGCTA 59.442 45.455 0.00 0.00 41.85 3.93
5099 5296 1.079336 GTGGGCAGGTACCGACTTC 60.079 63.158 6.18 0.00 35.69 3.01
5366 5594 6.395780 TTCCCATTACCATAAGTGAGGAAA 57.604 37.500 0.00 0.00 0.00 3.13
5648 5876 6.731448 ACCTATCCCTTCTTGAAGTTAAGTCT 59.269 38.462 9.21 0.00 0.00 3.24
5802 6030 6.308675 CAGTCCAATAAACAAAAATGCATGC 58.691 36.000 11.82 11.82 0.00 4.06
5824 6052 0.538057 AACTGACACCCATGCACCAG 60.538 55.000 0.00 0.00 0.00 4.00
5904 6133 5.940470 TCAGAAAAGGTTAGCTTCTCATTCC 59.060 40.000 0.29 0.00 0.00 3.01
7062 7295 8.495148 GTTGTGAAGTTGACAATTTTGAAGTTT 58.505 29.630 11.14 0.00 35.81 2.66
7160 7393 1.000607 TGACAACGACACTGACTAGGC 60.001 52.381 0.00 0.00 0.00 3.93
7170 7403 0.250124 GTGGATGGGTGACAACGACA 60.250 55.000 0.00 0.00 32.21 4.35
7171 7404 0.034896 AGTGGATGGGTGACAACGAC 59.965 55.000 0.00 0.00 32.09 4.34
7237 7470 1.308998 ACGTCTTGGAACTTTGCCAG 58.691 50.000 0.00 0.00 36.64 4.85
7239 7472 2.857748 CAAAACGTCTTGGAACTTTGCC 59.142 45.455 0.00 0.00 0.00 4.52
7241 7474 2.857748 GGCAAAACGTCTTGGAACTTTG 59.142 45.455 3.40 2.40 0.00 2.77
7388 7622 3.684788 CGAGGGTAGTGTTCATTTTGAGG 59.315 47.826 0.00 0.00 0.00 3.86
7487 7721 4.599047 TCCTAGTTTGTTTTGGCCAATG 57.401 40.909 21.26 1.52 0.00 2.82
7543 7835 8.943594 ACCCTGAATGTGTATTTACCTTTTAA 57.056 30.769 0.00 0.00 0.00 1.52
7544 7836 8.943594 AACCCTGAATGTGTATTTACCTTTTA 57.056 30.769 0.00 0.00 0.00 1.52
7551 7847 7.183112 TCCCTCTTAACCCTGAATGTGTATTTA 59.817 37.037 0.00 0.00 0.00 1.40
7564 7860 0.797579 TCACCCTCCCTCTTAACCCT 59.202 55.000 0.00 0.00 0.00 4.34
7570 7866 1.831652 CGCAAGTCACCCTCCCTCTT 61.832 60.000 0.00 0.00 0.00 2.85
7573 7869 3.322466 CCGCAAGTCACCCTCCCT 61.322 66.667 0.00 0.00 0.00 4.20
7574 7870 4.410400 CCCGCAAGTCACCCTCCC 62.410 72.222 0.00 0.00 0.00 4.30
7600 7897 0.108138 ATTGACCGCCTAGTCAGCAC 60.108 55.000 0.00 0.00 46.90 4.40


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

AutoCloner maintained by Alex Coulton.