Multiple sequence alignment - TraesCS5B01G498200

Loading Multiple Alignment...

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 TraesCS5B01G498200 chr5B 100.000 2796 0 0 1 2796 664999814 664997019 0.000000e+00 5164.0
1 TraesCS5B01G498200 chr5D 91.978 1284 57 28 742 1995 528230952 528229685 0.000000e+00 1759.0
2 TraesCS5B01G498200 chr5D 89.055 804 69 14 1992 2788 518914888 518915679 0.000000e+00 979.0
3 TraesCS5B01G498200 chr5D 83.923 622 53 16 145 732 528232605 528231997 4.070000e-153 551.0
4 TraesCS5B01G498200 chr5D 75.071 353 72 15 1250 1594 212627456 212627800 1.730000e-32 150.0
5 TraesCS5B01G498200 chr5A 88.889 1215 84 25 729 1900 656211084 656209878 0.000000e+00 1448.0
6 TraesCS5B01G498200 chr5A 95.658 806 33 2 1992 2796 692326455 692327259 0.000000e+00 1293.0
7 TraesCS5B01G498200 chr5A 86.207 145 12 6 362 499 656212550 656212407 1.730000e-32 150.0
8 TraesCS5B01G498200 chr6D 96.406 807 27 2 1992 2796 471903047 471903853 0.000000e+00 1328.0
9 TraesCS5B01G498200 chr3B 95.533 806 33 3 1992 2796 21406849 21407652 0.000000e+00 1286.0
10 TraesCS5B01G498200 chrUn 95.086 814 26 6 1992 2796 74829802 74828994 0.000000e+00 1269.0
11 TraesCS5B01G498200 chr3A 95.155 805 37 2 1992 2796 65547516 65546714 0.000000e+00 1269.0
12 TraesCS5B01G498200 chr7A 95.043 807 32 6 1992 2796 149421478 149420678 0.000000e+00 1262.0
13 TraesCS5B01G498200 chr1B 95.922 613 23 2 1992 2603 133514428 133515039 0.000000e+00 992.0
14 TraesCS5B01G498200 chr6A 94.590 610 29 3 2001 2608 617181840 617181233 0.000000e+00 941.0
15 TraesCS5B01G498200 chr2B 89.291 635 62 3 1075 1709 230594593 230593965 0.000000e+00 791.0
16 TraesCS5B01G498200 chr2B 79.480 346 69 2 1266 1610 449120461 449120117 7.740000e-61 244.0
17 TraesCS5B01G498200 chr2B 80.899 89 12 3 784 867 230594860 230594772 6.460000e-07 65.8
18 TraesCS5B01G498200 chr2D 87.758 678 71 6 1037 1709 167428199 167428869 0.000000e+00 782.0
19 TraesCS5B01G498200 chr2D 79.191 346 70 2 1266 1610 377503398 377503054 3.600000e-59 239.0
20 TraesCS5B01G498200 chr2D 82.022 89 11 3 784 867 167427975 167428063 1.390000e-08 71.3
21 TraesCS5B01G498200 chr2A 87.463 678 73 6 1037 1709 183208122 183207452 0.000000e+00 771.0
22 TraesCS5B01G498200 chr2A 79.769 346 68 2 1266 1610 511922959 511922615 1.660000e-62 250.0
23 TraesCS5B01G498200 chr2A 80.952 84 13 2 784 867 183208338 183208258 2.330000e-06 63.9


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 TraesCS5B01G498200 chr5B 664997019 664999814 2795 True 5164.00 5164 100.0000 1 2796 1 chr5B.!!$R1 2795
1 TraesCS5B01G498200 chr5D 528229685 528232605 2920 True 1155.00 1759 87.9505 145 1995 2 chr5D.!!$R1 1850
2 TraesCS5B01G498200 chr5D 518914888 518915679 791 False 979.00 979 89.0550 1992 2788 1 chr5D.!!$F2 796
3 TraesCS5B01G498200 chr5A 692326455 692327259 804 False 1293.00 1293 95.6580 1992 2796 1 chr5A.!!$F1 804
4 TraesCS5B01G498200 chr5A 656209878 656212550 2672 True 799.00 1448 87.5480 362 1900 2 chr5A.!!$R1 1538
5 TraesCS5B01G498200 chr6D 471903047 471903853 806 False 1328.00 1328 96.4060 1992 2796 1 chr6D.!!$F1 804
6 TraesCS5B01G498200 chr3B 21406849 21407652 803 False 1286.00 1286 95.5330 1992 2796 1 chr3B.!!$F1 804
7 TraesCS5B01G498200 chrUn 74828994 74829802 808 True 1269.00 1269 95.0860 1992 2796 1 chrUn.!!$R1 804
8 TraesCS5B01G498200 chr3A 65546714 65547516 802 True 1269.00 1269 95.1550 1992 2796 1 chr3A.!!$R1 804
9 TraesCS5B01G498200 chr7A 149420678 149421478 800 True 1262.00 1262 95.0430 1992 2796 1 chr7A.!!$R1 804
10 TraesCS5B01G498200 chr1B 133514428 133515039 611 False 992.00 992 95.9220 1992 2603 1 chr1B.!!$F1 611
11 TraesCS5B01G498200 chr6A 617181233 617181840 607 True 941.00 941 94.5900 2001 2608 1 chr6A.!!$R1 607
12 TraesCS5B01G498200 chr2B 230593965 230594860 895 True 428.40 791 85.0950 784 1709 2 chr2B.!!$R2 925
13 TraesCS5B01G498200 chr2D 167427975 167428869 894 False 426.65 782 84.8900 784 1709 2 chr2D.!!$F1 925
14 TraesCS5B01G498200 chr2A 183207452 183208338 886 True 417.45 771 84.2075 784 1709 2 chr2A.!!$R2 925

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
53 54 0.031721 ACGAAAAAGACTCGACGCCT 59.968 50.0 0.0 0.0 39.6 5.52 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2050 3344 0.319727 ACCGTATTTGCACGTCCGAA 60.32 50.0 0.0 0.0 40.31 4.3 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
21 22 3.353836 CCACCACGTCCCGCTTTG 61.354 66.667 0.00 0.00 0.00 2.77
22 23 3.353836 CACCACGTCCCGCTTTGG 61.354 66.667 0.00 0.00 35.06 3.28
25 26 2.978010 CACGTCCCGCTTTGGCTT 60.978 61.111 0.00 0.00 35.87 4.35
26 27 2.203294 ACGTCCCGCTTTGGCTTT 60.203 55.556 0.00 0.00 35.87 3.51
27 28 2.255252 CGTCCCGCTTTGGCTTTG 59.745 61.111 0.00 0.00 35.87 2.77
28 29 2.650778 GTCCCGCTTTGGCTTTGG 59.349 61.111 0.00 0.00 35.87 3.28
29 30 2.197324 TCCCGCTTTGGCTTTGGT 59.803 55.556 0.00 0.00 35.87 3.67
30 31 1.456705 TCCCGCTTTGGCTTTGGTT 60.457 52.632 0.00 0.00 35.87 3.67
31 32 1.006220 CCCGCTTTGGCTTTGGTTC 60.006 57.895 0.00 0.00 35.87 3.62
32 33 1.006220 CCGCTTTGGCTTTGGTTCC 60.006 57.895 0.00 0.00 36.09 3.62
33 34 1.371635 CGCTTTGGCTTTGGTTCCG 60.372 57.895 0.00 0.00 36.09 4.30
34 35 1.791103 CGCTTTGGCTTTGGTTCCGA 61.791 55.000 0.00 0.00 36.09 4.55
35 36 0.318699 GCTTTGGCTTTGGTTCCGAC 60.319 55.000 0.00 0.00 35.22 4.79
36 37 0.040425 CTTTGGCTTTGGTTCCGACG 60.040 55.000 0.00 0.00 0.00 5.12
37 38 0.464013 TTTGGCTTTGGTTCCGACGA 60.464 50.000 0.00 0.00 0.00 4.20
38 39 0.464013 TTGGCTTTGGTTCCGACGAA 60.464 50.000 0.00 0.00 0.00 3.85
39 40 0.464013 TGGCTTTGGTTCCGACGAAA 60.464 50.000 0.00 0.00 33.32 3.46
40 41 0.664224 GGCTTTGGTTCCGACGAAAA 59.336 50.000 0.00 0.00 33.87 2.29
41 42 1.065851 GGCTTTGGTTCCGACGAAAAA 59.934 47.619 0.00 0.00 33.87 1.94
42 43 2.381589 GCTTTGGTTCCGACGAAAAAG 58.618 47.619 0.00 0.34 33.87 2.27
43 44 2.032426 GCTTTGGTTCCGACGAAAAAGA 59.968 45.455 0.00 0.00 33.87 2.52
44 45 3.614588 CTTTGGTTCCGACGAAAAAGAC 58.385 45.455 0.00 0.00 33.87 3.01
45 46 2.607631 TGGTTCCGACGAAAAAGACT 57.392 45.000 0.00 0.00 0.00 3.24
46 47 2.476821 TGGTTCCGACGAAAAAGACTC 58.523 47.619 0.00 0.00 0.00 3.36
47 48 1.454653 GGTTCCGACGAAAAAGACTCG 59.545 52.381 0.00 0.00 42.06 4.18
48 49 2.388121 GTTCCGACGAAAAAGACTCGA 58.612 47.619 0.00 0.00 39.60 4.04
49 50 2.042104 TCCGACGAAAAAGACTCGAC 57.958 50.000 0.00 0.00 39.60 4.20
51 52 0.089186 CGACGAAAAAGACTCGACGC 59.911 55.000 4.44 0.00 44.44 5.19
52 53 0.433871 GACGAAAAAGACTCGACGCC 59.566 55.000 0.00 0.00 39.60 5.68
53 54 0.031721 ACGAAAAAGACTCGACGCCT 59.968 50.000 0.00 0.00 39.60 5.52
54 55 0.708918 CGAAAAAGACTCGACGCCTC 59.291 55.000 0.00 0.00 38.61 4.70
55 56 1.666311 CGAAAAAGACTCGACGCCTCT 60.666 52.381 0.00 0.00 38.61 3.69
56 57 2.405172 GAAAAAGACTCGACGCCTCTT 58.595 47.619 0.00 0.00 0.00 2.85
57 58 2.067414 AAAAGACTCGACGCCTCTTC 57.933 50.000 7.15 0.00 0.00 2.87
58 59 0.244178 AAAGACTCGACGCCTCTTCC 59.756 55.000 7.15 0.00 0.00 3.46
59 60 0.609681 AAGACTCGACGCCTCTTCCT 60.610 55.000 0.00 0.00 0.00 3.36
60 61 1.027792 AGACTCGACGCCTCTTCCTC 61.028 60.000 0.00 0.00 0.00 3.71
61 62 2.312398 GACTCGACGCCTCTTCCTCG 62.312 65.000 0.00 0.00 0.00 4.63
62 63 2.046604 TCGACGCCTCTTCCTCGA 60.047 61.111 0.00 0.00 32.89 4.04
63 64 2.100603 CGACGCCTCTTCCTCGAC 59.899 66.667 0.00 0.00 0.00 4.20
64 65 2.490685 GACGCCTCTTCCTCGACC 59.509 66.667 0.00 0.00 0.00 4.79
65 66 2.035940 ACGCCTCTTCCTCGACCT 59.964 61.111 0.00 0.00 0.00 3.85
66 67 1.995646 GACGCCTCTTCCTCGACCTC 61.996 65.000 0.00 0.00 0.00 3.85
67 68 2.046864 CGCCTCTTCCTCGACCTCA 61.047 63.158 0.00 0.00 0.00 3.86
68 69 1.388065 CGCCTCTTCCTCGACCTCAT 61.388 60.000 0.00 0.00 0.00 2.90
69 70 1.693627 GCCTCTTCCTCGACCTCATA 58.306 55.000 0.00 0.00 0.00 2.15
70 71 1.611491 GCCTCTTCCTCGACCTCATAG 59.389 57.143 0.00 0.00 0.00 2.23
71 72 2.750135 GCCTCTTCCTCGACCTCATAGA 60.750 54.545 0.00 0.00 0.00 1.98
72 73 3.146066 CCTCTTCCTCGACCTCATAGAG 58.854 54.545 0.00 0.00 0.00 2.43
73 74 2.552315 CTCTTCCTCGACCTCATAGAGC 59.448 54.545 0.00 0.00 0.00 4.09
74 75 2.173782 TCTTCCTCGACCTCATAGAGCT 59.826 50.000 0.00 0.00 0.00 4.09
75 76 2.264005 TCCTCGACCTCATAGAGCTC 57.736 55.000 5.27 5.27 0.00 4.09
76 77 1.771854 TCCTCGACCTCATAGAGCTCT 59.228 52.381 22.17 22.17 0.00 4.09
77 78 2.151202 CCTCGACCTCATAGAGCTCTC 58.849 57.143 22.17 2.85 0.00 3.20
78 79 2.151202 CTCGACCTCATAGAGCTCTCC 58.849 57.143 22.17 1.25 0.00 3.71
79 80 0.871722 CGACCTCATAGAGCTCTCCG 59.128 60.000 22.17 12.83 0.00 4.63
80 81 1.541452 CGACCTCATAGAGCTCTCCGA 60.541 57.143 22.17 16.55 0.00 4.55
81 82 2.790433 GACCTCATAGAGCTCTCCGAT 58.210 52.381 22.17 5.45 0.00 4.18
82 83 2.747446 GACCTCATAGAGCTCTCCGATC 59.253 54.545 22.17 9.50 0.00 3.69
83 84 1.737236 CCTCATAGAGCTCTCCGATCG 59.263 57.143 22.17 8.51 32.02 3.69
84 85 1.737236 CTCATAGAGCTCTCCGATCGG 59.263 57.143 28.62 28.62 32.02 4.18
85 86 1.348036 TCATAGAGCTCTCCGATCGGA 59.652 52.381 33.55 33.55 42.90 4.55
86 87 1.466950 CATAGAGCTCTCCGATCGGAC 59.533 57.143 32.59 22.46 39.76 4.79
87 88 0.250381 TAGAGCTCTCCGATCGGACC 60.250 60.000 32.59 21.86 39.76 4.46
88 89 2.899044 GAGCTCTCCGATCGGACCG 61.899 68.421 32.59 24.66 39.76 4.79
89 90 4.632458 GCTCTCCGATCGGACCGC 62.632 72.222 32.59 29.46 39.76 5.68
90 91 2.902846 CTCTCCGATCGGACCGCT 60.903 66.667 32.59 0.00 39.76 5.52
91 92 2.899044 CTCTCCGATCGGACCGCTC 61.899 68.421 32.59 8.56 39.76 5.03
92 93 3.967335 CTCCGATCGGACCGCTCC 61.967 72.222 32.59 0.00 39.76 4.70
93 94 4.501285 TCCGATCGGACCGCTCCT 62.501 66.667 32.59 0.00 39.76 3.69
94 95 3.528370 CCGATCGGACCGCTCCTT 61.528 66.667 30.62 0.00 37.50 3.36
95 96 2.026301 CGATCGGACCGCTCCTTC 59.974 66.667 9.66 0.05 33.79 3.46
96 97 2.482333 CGATCGGACCGCTCCTTCT 61.482 63.158 9.66 0.00 33.79 2.85
97 98 1.360911 GATCGGACCGCTCCTTCTC 59.639 63.158 9.66 0.00 33.79 2.87
98 99 1.076632 ATCGGACCGCTCCTTCTCT 60.077 57.895 9.66 0.00 33.79 3.10
99 100 0.183014 ATCGGACCGCTCCTTCTCTA 59.817 55.000 9.66 0.00 33.79 2.43
100 101 0.464013 TCGGACCGCTCCTTCTCTAG 60.464 60.000 9.66 0.00 33.79 2.43
101 102 0.748729 CGGACCGCTCCTTCTCTAGT 60.749 60.000 0.00 0.00 33.79 2.57
102 103 1.026584 GGACCGCTCCTTCTCTAGTC 58.973 60.000 0.00 0.00 33.07 2.59
103 104 1.026584 GACCGCTCCTTCTCTAGTCC 58.973 60.000 0.00 0.00 0.00 3.85
104 105 0.396001 ACCGCTCCTTCTCTAGTCCC 60.396 60.000 0.00 0.00 0.00 4.46
105 106 1.110518 CCGCTCCTTCTCTAGTCCCC 61.111 65.000 0.00 0.00 0.00 4.81
106 107 1.448922 CGCTCCTTCTCTAGTCCCCG 61.449 65.000 0.00 0.00 0.00 5.73
107 108 0.396001 GCTCCTTCTCTAGTCCCCGT 60.396 60.000 0.00 0.00 0.00 5.28
108 109 1.960953 GCTCCTTCTCTAGTCCCCGTT 60.961 57.143 0.00 0.00 0.00 4.44
109 110 1.751924 CTCCTTCTCTAGTCCCCGTTG 59.248 57.143 0.00 0.00 0.00 4.10
110 111 0.175989 CCTTCTCTAGTCCCCGTTGC 59.824 60.000 0.00 0.00 0.00 4.17
111 112 1.187087 CTTCTCTAGTCCCCGTTGCT 58.813 55.000 0.00 0.00 0.00 3.91
112 113 1.550976 CTTCTCTAGTCCCCGTTGCTT 59.449 52.381 0.00 0.00 0.00 3.91
113 114 1.640917 TCTCTAGTCCCCGTTGCTTT 58.359 50.000 0.00 0.00 0.00 3.51
114 115 1.549170 TCTCTAGTCCCCGTTGCTTTC 59.451 52.381 0.00 0.00 0.00 2.62
115 116 1.275291 CTCTAGTCCCCGTTGCTTTCA 59.725 52.381 0.00 0.00 0.00 2.69
116 117 1.001633 TCTAGTCCCCGTTGCTTTCAC 59.998 52.381 0.00 0.00 0.00 3.18
117 118 0.320073 TAGTCCCCGTTGCTTTCACG 60.320 55.000 0.00 0.00 0.00 4.35
118 119 2.281208 TCCCCGTTGCTTTCACGG 60.281 61.111 4.47 4.47 45.65 4.94
121 122 2.281208 CCGTTGCTTTCACGGGGA 60.281 61.111 3.49 0.00 42.70 4.81
122 123 1.894756 CCGTTGCTTTCACGGGGAA 60.895 57.895 3.49 0.00 42.70 3.97
123 124 1.574428 CGTTGCTTTCACGGGGAAG 59.426 57.895 0.00 0.00 36.72 3.46
124 125 1.285950 GTTGCTTTCACGGGGAAGC 59.714 57.895 24.41 24.41 36.72 3.86
125 126 1.152860 TTGCTTTCACGGGGAAGCA 60.153 52.632 29.63 29.63 37.65 3.91
126 127 1.172180 TTGCTTTCACGGGGAAGCAG 61.172 55.000 31.03 9.47 39.27 4.24
127 128 2.982744 GCTTTCACGGGGAAGCAGC 61.983 63.158 26.10 12.06 36.72 5.25
128 129 2.668212 TTTCACGGGGAAGCAGCG 60.668 61.111 0.00 0.00 36.72 5.18
129 130 4.697756 TTCACGGGGAAGCAGCGG 62.698 66.667 0.00 0.00 0.00 5.52
134 135 4.021925 GGGGAAGCAGCGGACAGT 62.022 66.667 0.00 0.00 0.00 3.55
135 136 2.743928 GGGAAGCAGCGGACAGTG 60.744 66.667 0.00 0.00 0.00 3.66
136 137 2.343758 GGAAGCAGCGGACAGTGA 59.656 61.111 0.00 0.00 0.00 3.41
137 138 2.029844 GGAAGCAGCGGACAGTGAC 61.030 63.158 0.00 0.00 0.00 3.67
138 139 2.029844 GAAGCAGCGGACAGTGACC 61.030 63.158 0.00 0.00 0.00 4.02
139 140 3.537206 AAGCAGCGGACAGTGACCC 62.537 63.158 6.04 1.44 0.00 4.46
141 142 4.394712 CAGCGGACAGTGACCCCC 62.395 72.222 6.04 0.00 0.00 5.40
164 165 3.414700 GGACGCGGCAACACTCAG 61.415 66.667 17.00 0.00 0.00 3.35
167 168 4.988598 CGCGGCAACACTCAGGGT 62.989 66.667 0.00 0.00 0.00 4.34
181 182 3.945647 GGGTCTACCTACCACGGG 58.054 66.667 0.00 0.00 41.67 5.28
302 304 2.158813 AGCATCCCGAATAACGACCATT 60.159 45.455 0.00 0.00 45.77 3.16
304 306 3.810941 GCATCCCGAATAACGACCATTAA 59.189 43.478 0.00 0.00 45.77 1.40
307 309 6.514376 GCATCCCGAATAACGACCATTAATTT 60.514 38.462 0.00 0.00 45.77 1.82
333 335 4.701956 ATTTTAGAGCACCATCGGTTTG 57.298 40.909 0.00 0.00 31.02 2.93
368 370 5.615289 CCCCCACATCACAATTAAAACAAA 58.385 37.500 0.00 0.00 0.00 2.83
400 418 4.030529 GCAAACGACCATCAATTCAAATCG 59.969 41.667 0.00 0.00 0.00 3.34
409 427 5.125417 CCATCAATTCAAATCGGGTACTTGT 59.875 40.000 0.00 0.00 0.00 3.16
412 430 6.231951 TCAATTCAAATCGGGTACTTGTGTA 58.768 36.000 0.00 0.00 0.00 2.90
421 446 2.101415 GGGTACTTGTGTATACCGGGTC 59.899 54.545 6.32 0.00 41.65 4.46
446 471 3.933332 CTGGTCGATCTGAAAAACTACCC 59.067 47.826 0.00 0.00 0.00 3.69
449 474 3.933332 GTCGATCTGAAAAACTACCCCAG 59.067 47.826 0.00 0.00 0.00 4.45
480 505 9.158233 CATCAATCAAAACATAAAAGGCTCATT 57.842 29.630 0.00 0.00 0.00 2.57
491 516 5.717119 AAAAGGCTCATTACACTATCCCT 57.283 39.130 0.00 0.00 0.00 4.20
555 607 4.038763 TGTTTTCAGGTATCTCACACGTCT 59.961 41.667 0.00 0.00 0.00 4.18
556 608 5.242171 TGTTTTCAGGTATCTCACACGTCTA 59.758 40.000 0.00 0.00 0.00 2.59
557 609 4.959596 TTCAGGTATCTCACACGTCTAC 57.040 45.455 0.00 0.00 0.00 2.59
558 610 3.946606 TCAGGTATCTCACACGTCTACA 58.053 45.455 0.00 0.00 0.00 2.74
559 611 3.939592 TCAGGTATCTCACACGTCTACAG 59.060 47.826 0.00 0.00 0.00 2.74
560 612 3.065510 CAGGTATCTCACACGTCTACAGG 59.934 52.174 0.00 0.00 0.00 4.00
561 613 2.223525 GGTATCTCACACGTCTACAGGC 60.224 54.545 0.00 0.00 0.00 4.85
562 614 0.818296 ATCTCACACGTCTACAGGCC 59.182 55.000 0.00 0.00 0.00 5.19
582 634 0.600057 ACAGAAAGGACGACGTACCC 59.400 55.000 6.59 1.59 0.00 3.69
623 675 6.198403 GGTTGGTTTCGAAAATTTCTCAAGAC 59.802 38.462 13.10 0.00 0.00 3.01
627 679 5.728351 TTCGAAAATTTCTCAAGACGTGT 57.272 34.783 0.00 0.00 0.00 4.49
628 680 5.324739 TCGAAAATTTCTCAAGACGTGTC 57.675 39.130 0.00 0.00 0.00 3.67
641 693 3.591442 CGTGTCGCGTGTGTATAGA 57.409 52.632 5.77 0.00 35.54 1.98
651 703 3.736252 GCGTGTGTATAGATTGTAGGCAG 59.264 47.826 0.00 0.00 0.00 4.85
653 705 4.058817 GTGTGTATAGATTGTAGGCAGGC 58.941 47.826 0.00 0.00 0.00 4.85
654 706 3.243737 TGTGTATAGATTGTAGGCAGGCG 60.244 47.826 0.00 0.00 0.00 5.52
655 707 2.288825 TGTATAGATTGTAGGCAGGCGC 60.289 50.000 0.00 0.00 37.44 6.53
658 710 1.153369 GATTGTAGGCAGGCGCAGA 60.153 57.895 10.83 0.00 41.24 4.26
659 711 0.533755 GATTGTAGGCAGGCGCAGAT 60.534 55.000 10.83 0.00 41.24 2.90
662 724 3.473647 TAGGCAGGCGCAGATGCT 61.474 61.111 24.48 15.69 40.76 3.79
675 737 0.540365 AGATGCTTGGGTTGTGGTGG 60.540 55.000 0.00 0.00 0.00 4.61
714 776 3.877559 TGCATCTGATTGGGTTCTACAG 58.122 45.455 0.00 0.00 0.00 2.74
737 799 9.319143 ACAGCTTTGTATCTGTATAATTGAGAC 57.681 33.333 0.00 0.00 41.32 3.36
738 800 9.539825 CAGCTTTGTATCTGTATAATTGAGACT 57.460 33.333 0.00 0.00 0.00 3.24
835 2029 4.977126 GGTACGCGCCGATCGAGG 62.977 72.222 18.66 8.90 42.42 4.63
876 2102 1.264288 GTTGAGACGTTGCTTTCCCTG 59.736 52.381 0.00 0.00 0.00 4.45
927 2154 2.009774 GATGCACTGTAATCGTTGGCT 58.990 47.619 0.00 0.00 0.00 4.75
928 2155 1.438651 TGCACTGTAATCGTTGGCTC 58.561 50.000 0.00 0.00 0.00 4.70
929 2156 0.370273 GCACTGTAATCGTTGGCTCG 59.630 55.000 0.00 0.00 0.00 5.03
951 2185 2.073816 ACCTACCGTTGCTTGATTTCG 58.926 47.619 0.00 0.00 0.00 3.46
964 2198 1.151777 GATTTCGAAGCGCCCGATCA 61.152 55.000 20.50 12.33 35.84 2.92
977 2223 1.133982 CCCGATCACTCACTCACTCAG 59.866 57.143 0.00 0.00 0.00 3.35
1022 2269 1.454104 CTAAGCCACACACCCACCA 59.546 57.895 0.00 0.00 0.00 4.17
1028 2275 1.223211 CACACACCCACCACACAGA 59.777 57.895 0.00 0.00 0.00 3.41
1030 2277 1.887242 CACACCCACCACACAGACG 60.887 63.158 0.00 0.00 0.00 4.18
1048 2295 4.798433 TGCCAAGCACAGTACAGG 57.202 55.556 0.00 0.00 31.71 4.00
1725 3008 5.870978 GCACCTGAAGGAAATTACGTACTAA 59.129 40.000 2.62 0.00 38.94 2.24
1742 3032 8.980143 ACGTACTAAGTAGCGGTTTAATTTTA 57.020 30.769 0.00 0.00 0.00 1.52
1761 3051 8.718102 AATTTTATGCTTATGTCTCGTGTAGT 57.282 30.769 0.00 0.00 0.00 2.73
1762 3052 7.751047 TTTTATGCTTATGTCTCGTGTAGTC 57.249 36.000 0.00 0.00 0.00 2.59
1763 3053 3.400505 TGCTTATGTCTCGTGTAGTCG 57.599 47.619 0.00 0.00 0.00 4.18
1764 3054 2.745821 TGCTTATGTCTCGTGTAGTCGT 59.254 45.455 0.00 0.00 0.00 4.34
1765 3055 3.099362 GCTTATGTCTCGTGTAGTCGTG 58.901 50.000 0.00 0.00 0.00 4.35
1766 3056 3.425892 GCTTATGTCTCGTGTAGTCGTGT 60.426 47.826 0.00 0.00 0.00 4.49
1767 3057 4.201753 GCTTATGTCTCGTGTAGTCGTGTA 60.202 45.833 0.00 0.00 0.00 2.90
1768 3058 5.672073 GCTTATGTCTCGTGTAGTCGTGTAA 60.672 44.000 0.00 0.00 0.00 2.41
1769 3059 3.526385 TGTCTCGTGTAGTCGTGTAAC 57.474 47.619 0.00 0.00 0.00 2.50
1806 3100 9.553064 AAATGTACTTCAATTTTGGCATTAACA 57.447 25.926 0.00 0.00 0.00 2.41
1840 3134 1.164411 TTCTTTGCCGTCGCATCATT 58.836 45.000 0.00 0.00 46.67 2.57
1841 3135 1.164411 TCTTTGCCGTCGCATCATTT 58.836 45.000 0.00 0.00 46.67 2.32
1854 3148 6.529477 CGTCGCATCATTTGATCTATCTATGT 59.471 38.462 0.00 0.00 31.21 2.29
1856 3150 7.330454 GTCGCATCATTTGATCTATCTATGTGT 59.670 37.037 0.00 0.00 31.21 3.72
1915 3209 6.589454 GTTTAAAATGTAAATGGTGCAGCAC 58.411 36.000 22.79 17.97 0.00 4.40
1922 3216 6.765915 TGTAAATGGTGCAGCACATATAAA 57.234 33.333 26.78 6.74 35.86 1.40
1940 3234 9.635404 ACATATAAATTCTCCCGAATGGTTTAA 57.365 29.630 0.00 0.00 39.72 1.52
1946 3240 5.429681 TCTCCCGAATGGTTTAATCTTCA 57.570 39.130 0.00 0.00 34.77 3.02
1948 3242 6.055588 TCTCCCGAATGGTTTAATCTTCATC 58.944 40.000 0.00 0.00 34.77 2.92
1950 3244 6.423182 TCCCGAATGGTTTAATCTTCATCTT 58.577 36.000 0.00 0.00 34.77 2.40
1966 3260 7.597386 TCTTCATCTTATGTCTCATGTATCGG 58.403 38.462 0.00 0.00 0.00 4.18
1974 3268 5.966742 TGTCTCATGTATCGGGAGAATAG 57.033 43.478 0.00 0.00 45.37 1.73
2050 3344 1.480545 GAGGTGGTGCAAAAACTTGGT 59.519 47.619 0.00 0.00 0.00 3.67
2130 3424 2.903357 CAGCATGGCGTAGGACCT 59.097 61.111 0.00 0.00 0.00 3.85
2146 3440 2.213499 GACCTGTTGTCTGTGACCAAG 58.787 52.381 0.00 0.00 41.03 3.61
2147 3441 1.559682 ACCTGTTGTCTGTGACCAAGT 59.440 47.619 0.00 0.00 0.00 3.16
2207 3503 6.827251 CCTAGAAACCCCCTTGTCTTTTATAC 59.173 42.308 0.00 0.00 0.00 1.47
2357 3657 6.027749 CCACCTAACAAAAATTATGCTCGTC 58.972 40.000 0.00 0.00 0.00 4.20
2389 3689 9.838339 AAGAGGATACACAACCTTATATTCTTG 57.162 33.333 0.00 0.00 36.57 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 1.744320 AACCAAAGCCAAAGCGGGAC 61.744 55.000 0.00 0.00 46.67 4.46
12 13 1.456705 AACCAAAGCCAAAGCGGGA 60.457 52.632 0.00 0.00 46.67 5.14
13 14 1.006220 GAACCAAAGCCAAAGCGGG 60.006 57.895 0.00 0.00 46.67 6.13
14 15 1.006220 GGAACCAAAGCCAAAGCGG 60.006 57.895 0.00 0.00 46.67 5.52
15 16 1.371635 CGGAACCAAAGCCAAAGCG 60.372 57.895 0.00 0.00 46.67 4.68
16 17 0.318699 GTCGGAACCAAAGCCAAAGC 60.319 55.000 0.00 0.00 40.32 3.51
17 18 0.040425 CGTCGGAACCAAAGCCAAAG 60.040 55.000 0.00 0.00 0.00 2.77
18 19 0.464013 TCGTCGGAACCAAAGCCAAA 60.464 50.000 0.00 0.00 0.00 3.28
19 20 0.464013 TTCGTCGGAACCAAAGCCAA 60.464 50.000 0.00 0.00 0.00 4.52
20 21 0.464013 TTTCGTCGGAACCAAAGCCA 60.464 50.000 0.00 0.00 0.00 4.75
21 22 0.664224 TTTTCGTCGGAACCAAAGCC 59.336 50.000 0.00 0.00 0.00 4.35
22 23 2.032426 TCTTTTTCGTCGGAACCAAAGC 59.968 45.455 0.00 0.00 33.21 3.51
23 24 3.311596 AGTCTTTTTCGTCGGAACCAAAG 59.688 43.478 0.00 0.00 33.92 2.77
24 25 3.272581 AGTCTTTTTCGTCGGAACCAAA 58.727 40.909 0.00 0.00 0.00 3.28
25 26 2.867975 GAGTCTTTTTCGTCGGAACCAA 59.132 45.455 0.00 0.00 0.00 3.67
26 27 2.476821 GAGTCTTTTTCGTCGGAACCA 58.523 47.619 0.00 0.00 0.00 3.67
27 28 1.454653 CGAGTCTTTTTCGTCGGAACC 59.545 52.381 0.00 0.00 33.57 3.62
28 29 2.152678 GTCGAGTCTTTTTCGTCGGAAC 59.847 50.000 0.00 0.00 39.05 3.62
29 30 2.388121 GTCGAGTCTTTTTCGTCGGAA 58.612 47.619 0.00 0.00 39.05 4.30
30 31 1.661178 CGTCGAGTCTTTTTCGTCGGA 60.661 52.381 6.43 0.00 42.67 4.55
31 32 0.701303 CGTCGAGTCTTTTTCGTCGG 59.299 55.000 6.43 0.00 42.67 4.79
32 33 0.089186 GCGTCGAGTCTTTTTCGTCG 59.911 55.000 0.00 9.24 46.67 5.12
33 34 0.433871 GGCGTCGAGTCTTTTTCGTC 59.566 55.000 0.00 0.00 39.05 4.20
34 35 0.031721 AGGCGTCGAGTCTTTTTCGT 59.968 50.000 0.00 0.00 39.05 3.85
35 36 0.708918 GAGGCGTCGAGTCTTTTTCG 59.291 55.000 0.00 0.00 33.03 3.46
36 37 2.067414 AGAGGCGTCGAGTCTTTTTC 57.933 50.000 0.00 0.00 33.03 2.29
37 38 2.405172 GAAGAGGCGTCGAGTCTTTTT 58.595 47.619 9.97 0.00 33.03 1.94
38 39 1.336980 GGAAGAGGCGTCGAGTCTTTT 60.337 52.381 9.97 0.00 33.03 2.27
39 40 0.244178 GGAAGAGGCGTCGAGTCTTT 59.756 55.000 9.97 0.00 33.03 2.52
40 41 0.609681 AGGAAGAGGCGTCGAGTCTT 60.610 55.000 8.74 8.74 33.03 3.01
41 42 1.001887 AGGAAGAGGCGTCGAGTCT 60.002 57.895 0.00 0.00 37.62 3.24
42 43 1.430228 GAGGAAGAGGCGTCGAGTC 59.570 63.158 0.00 0.42 0.00 3.36
43 44 2.400158 CGAGGAAGAGGCGTCGAGT 61.400 63.158 0.00 0.00 45.81 4.18
44 45 2.107292 TCGAGGAAGAGGCGTCGAG 61.107 63.158 0.00 0.00 46.26 4.04
46 47 2.100603 GTCGAGGAAGAGGCGTCG 59.899 66.667 0.00 0.00 44.72 5.12
47 48 1.995646 GAGGTCGAGGAAGAGGCGTC 61.996 65.000 0.00 0.00 0.00 5.19
48 49 2.035940 AGGTCGAGGAAGAGGCGT 59.964 61.111 0.00 0.00 0.00 5.68
49 50 1.388065 ATGAGGTCGAGGAAGAGGCG 61.388 60.000 0.00 0.00 0.00 5.52
50 51 1.611491 CTATGAGGTCGAGGAAGAGGC 59.389 57.143 0.00 0.00 0.00 4.70
51 52 3.146066 CTCTATGAGGTCGAGGAAGAGG 58.854 54.545 0.00 0.00 0.00 3.69
52 53 2.552315 GCTCTATGAGGTCGAGGAAGAG 59.448 54.545 0.00 0.00 33.70 2.85
53 54 2.173782 AGCTCTATGAGGTCGAGGAAGA 59.826 50.000 0.00 0.00 35.30 2.87
54 55 2.552315 GAGCTCTATGAGGTCGAGGAAG 59.448 54.545 6.43 0.00 45.08 3.46
55 56 2.577700 GAGCTCTATGAGGTCGAGGAA 58.422 52.381 6.43 0.00 45.08 3.36
56 57 2.264005 GAGCTCTATGAGGTCGAGGA 57.736 55.000 6.43 0.00 45.08 3.71
62 63 2.790433 GATCGGAGAGCTCTATGAGGT 58.210 52.381 18.25 4.37 43.63 3.85
63 64 1.737236 CGATCGGAGAGCTCTATGAGG 59.263 57.143 18.25 9.69 43.00 3.86
64 65 1.737236 CCGATCGGAGAGCTCTATGAG 59.263 57.143 30.62 8.48 43.00 2.90
65 66 1.348036 TCCGATCGGAGAGCTCTATGA 59.652 52.381 32.59 17.54 43.00 2.15
66 67 1.466950 GTCCGATCGGAGAGCTCTATG 59.533 57.143 36.38 12.34 46.16 2.23
67 68 1.612199 GGTCCGATCGGAGAGCTCTAT 60.612 57.143 36.38 6.72 46.16 1.98
68 69 0.250381 GGTCCGATCGGAGAGCTCTA 60.250 60.000 36.38 10.68 46.16 2.43
69 70 1.527380 GGTCCGATCGGAGAGCTCT 60.527 63.158 36.38 18.28 46.16 4.09
70 71 2.899044 CGGTCCGATCGGAGAGCTC 61.899 68.421 36.38 23.31 46.16 4.09
71 72 2.902846 CGGTCCGATCGGAGAGCT 60.903 66.667 36.38 0.00 46.16 4.09
72 73 4.632458 GCGGTCCGATCGGAGAGC 62.632 72.222 36.38 34.76 46.16 4.09
73 74 2.899044 GAGCGGTCCGATCGGAGAG 61.899 68.421 36.38 30.31 46.16 3.20
74 75 2.900838 GAGCGGTCCGATCGGAGA 60.901 66.667 36.38 14.84 46.16 3.71
75 76 3.967335 GGAGCGGTCCGATCGGAG 61.967 72.222 36.38 25.82 46.16 4.63
83 84 1.026584 GACTAGAGAAGGAGCGGTCC 58.973 60.000 26.17 26.17 44.33 4.46
84 85 1.026584 GGACTAGAGAAGGAGCGGTC 58.973 60.000 5.93 5.93 0.00 4.79
85 86 0.396001 GGGACTAGAGAAGGAGCGGT 60.396 60.000 0.00 0.00 0.00 5.68
86 87 1.110518 GGGGACTAGAGAAGGAGCGG 61.111 65.000 0.00 0.00 0.00 5.52
87 88 1.448922 CGGGGACTAGAGAAGGAGCG 61.449 65.000 0.00 0.00 0.00 5.03
88 89 0.396001 ACGGGGACTAGAGAAGGAGC 60.396 60.000 0.00 0.00 0.00 4.70
89 90 1.751924 CAACGGGGACTAGAGAAGGAG 59.248 57.143 0.00 0.00 0.00 3.69
90 91 1.848652 CAACGGGGACTAGAGAAGGA 58.151 55.000 0.00 0.00 0.00 3.36
91 92 0.175989 GCAACGGGGACTAGAGAAGG 59.824 60.000 0.00 0.00 0.00 3.46
92 93 1.187087 AGCAACGGGGACTAGAGAAG 58.813 55.000 0.00 0.00 0.00 2.85
93 94 1.640917 AAGCAACGGGGACTAGAGAA 58.359 50.000 0.00 0.00 0.00 2.87
94 95 1.549170 GAAAGCAACGGGGACTAGAGA 59.451 52.381 0.00 0.00 0.00 3.10
95 96 1.275291 TGAAAGCAACGGGGACTAGAG 59.725 52.381 0.00 0.00 0.00 2.43
96 97 1.001633 GTGAAAGCAACGGGGACTAGA 59.998 52.381 0.00 0.00 0.00 2.43
97 98 1.439679 GTGAAAGCAACGGGGACTAG 58.560 55.000 0.00 0.00 0.00 2.57
98 99 0.320073 CGTGAAAGCAACGGGGACTA 60.320 55.000 0.00 0.00 0.00 2.59
99 100 1.597027 CGTGAAAGCAACGGGGACT 60.597 57.895 0.00 0.00 0.00 3.85
100 101 2.613506 CCGTGAAAGCAACGGGGAC 61.614 63.158 7.10 0.00 42.70 4.46
101 102 2.281208 CCGTGAAAGCAACGGGGA 60.281 61.111 7.10 0.00 42.70 4.81
104 105 1.852067 CTTCCCCGTGAAAGCAACGG 61.852 60.000 8.00 8.00 45.65 4.44
105 106 1.574428 CTTCCCCGTGAAAGCAACG 59.426 57.895 0.00 0.00 31.06 4.10
106 107 1.285950 GCTTCCCCGTGAAAGCAAC 59.714 57.895 7.71 0.00 31.06 4.17
107 108 1.152860 TGCTTCCCCGTGAAAGCAA 60.153 52.632 11.67 0.00 35.56 3.91
108 109 1.600636 CTGCTTCCCCGTGAAAGCA 60.601 57.895 12.96 12.96 36.42 3.91
109 110 2.982744 GCTGCTTCCCCGTGAAAGC 61.983 63.158 6.08 6.08 31.58 3.51
110 111 2.680913 CGCTGCTTCCCCGTGAAAG 61.681 63.158 0.00 0.00 31.06 2.62
111 112 2.668212 CGCTGCTTCCCCGTGAAA 60.668 61.111 0.00 0.00 31.06 2.69
112 113 4.697756 CCGCTGCTTCCCCGTGAA 62.698 66.667 0.00 0.00 0.00 3.18
117 118 4.021925 ACTGTCCGCTGCTTCCCC 62.022 66.667 0.00 0.00 0.00 4.81
118 119 2.743928 CACTGTCCGCTGCTTCCC 60.744 66.667 0.00 0.00 0.00 3.97
119 120 2.029844 GTCACTGTCCGCTGCTTCC 61.030 63.158 0.00 0.00 0.00 3.46
120 121 2.029844 GGTCACTGTCCGCTGCTTC 61.030 63.158 0.00 0.00 0.00 3.86
121 122 2.031163 GGTCACTGTCCGCTGCTT 59.969 61.111 0.00 0.00 0.00 3.91
122 123 4.008933 GGGTCACTGTCCGCTGCT 62.009 66.667 0.00 0.00 0.00 4.24
124 125 4.394712 GGGGGTCACTGTCCGCTG 62.395 72.222 8.83 0.00 37.90 5.18
156 157 2.111255 TGGTAGGTAGACCCTGAGTGTT 59.889 50.000 0.00 0.00 45.81 3.32
157 158 1.714787 TGGTAGGTAGACCCTGAGTGT 59.285 52.381 0.00 0.00 45.81 3.55
158 159 2.100989 GTGGTAGGTAGACCCTGAGTG 58.899 57.143 0.00 0.00 45.81 3.51
164 165 1.759692 CCCCGTGGTAGGTAGACCC 60.760 68.421 0.00 0.00 38.89 4.46
187 188 2.747460 CACCTGCATCACCCGGTG 60.747 66.667 11.73 11.73 40.71 4.94
213 214 9.438228 TCAACTCTATTCTCTATCGTACCTATG 57.562 37.037 0.00 0.00 0.00 2.23
214 215 9.439500 GTCAACTCTATTCTCTATCGTACCTAT 57.561 37.037 0.00 0.00 0.00 2.57
252 254 1.610363 CGTCTCTAGCAGATGCCCTA 58.390 55.000 0.14 0.00 43.38 3.53
304 306 9.131791 ACCGATGGTGCTCTAAAATAATTAAAT 57.868 29.630 0.00 0.00 32.98 1.40
307 309 8.402472 CAAACCGATGGTGCTCTAAAATAATTA 58.598 33.333 0.00 0.00 35.34 1.40
323 325 3.679502 GGCAATCTTTTTCAAACCGATGG 59.320 43.478 0.00 0.00 0.00 3.51
383 401 4.881850 AGTACCCGATTTGAATTGATGGTC 59.118 41.667 0.00 0.00 0.00 4.02
400 418 2.101415 GACCCGGTATACACAAGTACCC 59.899 54.545 5.01 0.00 37.63 3.69
409 427 2.313317 GACCAGATGACCCGGTATACA 58.687 52.381 5.01 0.00 31.63 2.29
412 430 0.106369 TCGACCAGATGACCCGGTAT 60.106 55.000 0.00 0.00 31.63 2.73
421 446 5.292101 GGTAGTTTTTCAGATCGACCAGATG 59.708 44.000 0.00 0.00 40.26 2.90
429 454 3.055385 TCCTGGGGTAGTTTTTCAGATCG 60.055 47.826 0.00 0.00 0.00 3.69
446 471 5.864418 ATGTTTTGATTGATGGATCCTGG 57.136 39.130 14.23 0.00 0.00 4.45
449 474 7.225341 GCCTTTTATGTTTTGATTGATGGATCC 59.775 37.037 4.20 4.20 0.00 3.36
480 505 6.620429 TCATGTTGATCCTAGGGATAGTGTA 58.380 40.000 9.46 0.00 43.27 2.90
531 583 4.056050 ACGTGTGAGATACCTGAAAACAC 58.944 43.478 0.00 0.00 34.52 3.32
534 586 4.866508 AGACGTGTGAGATACCTGAAAA 57.133 40.909 0.00 0.00 0.00 2.29
555 607 0.320374 CGTCCTTTCTGTGGCCTGTA 59.680 55.000 3.32 0.00 0.00 2.74
556 608 1.071471 CGTCCTTTCTGTGGCCTGT 59.929 57.895 3.32 0.00 0.00 4.00
557 609 0.951040 GTCGTCCTTTCTGTGGCCTG 60.951 60.000 3.32 0.00 0.00 4.85
558 610 1.371558 GTCGTCCTTTCTGTGGCCT 59.628 57.895 3.32 0.00 0.00 5.19
559 611 2.027625 CGTCGTCCTTTCTGTGGCC 61.028 63.158 0.00 0.00 0.00 5.36
560 612 0.038892 TACGTCGTCCTTTCTGTGGC 60.039 55.000 0.00 0.00 0.00 5.01
561 613 1.668047 GGTACGTCGTCCTTTCTGTGG 60.668 57.143 0.00 0.00 0.00 4.17
562 614 1.668047 GGGTACGTCGTCCTTTCTGTG 60.668 57.143 0.00 0.00 0.00 3.66
582 634 3.114616 CCAGCTCCGTGAACTGCG 61.115 66.667 0.00 0.00 0.00 5.18
627 679 3.549423 GCCTACAATCTATACACACGCGA 60.549 47.826 15.93 0.00 0.00 5.87
628 680 2.724690 GCCTACAATCTATACACACGCG 59.275 50.000 3.53 3.53 0.00 6.01
641 693 0.816825 CATCTGCGCCTGCCTACAAT 60.817 55.000 4.18 0.00 41.78 2.71
654 706 1.181098 ACCACAACCCAAGCATCTGC 61.181 55.000 0.00 0.00 42.49 4.26
655 707 0.599558 CACCACAACCCAAGCATCTG 59.400 55.000 0.00 0.00 0.00 2.90
658 710 1.533753 CCCACCACAACCCAAGCAT 60.534 57.895 0.00 0.00 0.00 3.79
659 711 2.123511 CCCACCACAACCCAAGCA 60.124 61.111 0.00 0.00 0.00 3.91
662 724 4.130554 ACGCCCACCACAACCCAA 62.131 61.111 0.00 0.00 0.00 4.12
692 754 4.264253 CTGTAGAACCCAATCAGATGCAA 58.736 43.478 0.00 0.00 0.00 4.08
732 794 3.762288 AGCCTTGTACGATTGTAGTCTCA 59.238 43.478 0.00 0.00 0.00 3.27
733 795 4.142447 TGAGCCTTGTACGATTGTAGTCTC 60.142 45.833 0.00 0.00 0.00 3.36
735 797 3.858238 GTGAGCCTTGTACGATTGTAGTC 59.142 47.826 0.00 0.00 0.00 2.59
737 799 3.187700 GGTGAGCCTTGTACGATTGTAG 58.812 50.000 0.00 0.00 0.00 2.74
738 800 2.563620 TGGTGAGCCTTGTACGATTGTA 59.436 45.455 0.00 0.00 35.27 2.41
739 801 1.346395 TGGTGAGCCTTGTACGATTGT 59.654 47.619 0.00 0.00 35.27 2.71
740 802 2.002586 CTGGTGAGCCTTGTACGATTG 58.997 52.381 0.00 0.00 35.27 2.67
741 803 1.676014 GCTGGTGAGCCTTGTACGATT 60.676 52.381 0.00 0.00 39.57 3.34
743 805 1.292223 GCTGGTGAGCCTTGTACGA 59.708 57.895 0.00 0.00 39.57 3.43
748 1936 1.592400 CCATGTGCTGGTGAGCCTTG 61.592 60.000 0.00 0.00 45.57 3.61
808 1997 4.807039 CGCGTACCTCCGTTGGGG 62.807 72.222 0.00 0.00 37.02 4.96
888 2114 0.698238 CTGGGTTGGATCTTGGGACA 59.302 55.000 0.00 0.00 0.00 4.02
889 2115 0.991920 TCTGGGTTGGATCTTGGGAC 59.008 55.000 0.00 0.00 0.00 4.46
927 2154 1.246649 TCAAGCAACGGTAGGTACGA 58.753 50.000 0.00 0.00 34.93 3.43
928 2155 2.288961 ATCAAGCAACGGTAGGTACG 57.711 50.000 0.00 0.00 37.36 3.67
929 2156 3.061697 CGAAATCAAGCAACGGTAGGTAC 59.938 47.826 0.00 0.00 0.00 3.34
951 2185 2.167861 GTGAGTGATCGGGCGCTTC 61.168 63.158 7.64 0.00 0.00 3.86
1032 2279 0.674895 CTCCCTGTACTGTGCTTGGC 60.675 60.000 0.00 0.00 0.00 4.52
1264 2520 3.749064 GAGGCGAGCGTGACCTGA 61.749 66.667 0.00 0.00 32.67 3.86
1705 2964 7.165483 CGCTACTTAGTACGTAATTTCCTTCAG 59.835 40.741 0.00 0.00 0.00 3.02
1725 3008 8.899771 ACATAAGCATAAAATTAAACCGCTACT 58.100 29.630 0.00 0.00 0.00 2.57
1742 3032 3.377485 ACGACTACACGAGACATAAGCAT 59.623 43.478 0.00 0.00 37.03 3.79
1760 3050 3.508744 TTATTCTCCCCGTTACACGAC 57.491 47.619 0.00 0.00 46.05 4.34
1761 3051 4.533919 TTTTATTCTCCCCGTTACACGA 57.466 40.909 0.00 0.00 46.05 4.35
1762 3052 4.632688 ACATTTTATTCTCCCCGTTACACG 59.367 41.667 0.00 0.00 42.11 4.49
1763 3053 6.820152 AGTACATTTTATTCTCCCCGTTACAC 59.180 38.462 0.00 0.00 0.00 2.90
1764 3054 6.949715 AGTACATTTTATTCTCCCCGTTACA 58.050 36.000 0.00 0.00 0.00 2.41
1765 3055 7.550196 TGAAGTACATTTTATTCTCCCCGTTAC 59.450 37.037 0.00 0.00 0.00 2.50
1766 3056 7.622713 TGAAGTACATTTTATTCTCCCCGTTA 58.377 34.615 0.00 0.00 0.00 3.18
1767 3057 6.478129 TGAAGTACATTTTATTCTCCCCGTT 58.522 36.000 0.00 0.00 0.00 4.44
1768 3058 6.057321 TGAAGTACATTTTATTCTCCCCGT 57.943 37.500 0.00 0.00 0.00 5.28
1769 3059 6.995511 TTGAAGTACATTTTATTCTCCCCG 57.004 37.500 0.00 0.00 0.00 5.73
1806 3100 6.204495 ACGGCAAAGAAATACAAATTGCAATT 59.796 30.769 18.99 18.99 46.12 2.32
1840 3134 9.731819 GTTCTTAACGACACATAGATAGATCAA 57.268 33.333 0.00 0.00 0.00 2.57
1890 3184 5.403766 TGCTGCACCATTTACATTTTAAACG 59.596 36.000 0.00 0.00 0.00 3.60
1940 3234 8.249638 CCGATACATGAGACATAAGATGAAGAT 58.750 37.037 0.00 0.00 0.00 2.40
1942 3236 6.810676 CCCGATACATGAGACATAAGATGAAG 59.189 42.308 0.00 0.00 0.00 3.02
1946 3240 6.249192 TCTCCCGATACATGAGACATAAGAT 58.751 40.000 0.00 0.00 30.48 2.40
1948 3242 5.966742 TCTCCCGATACATGAGACATAAG 57.033 43.478 0.00 0.00 30.48 1.73
1950 3244 7.402862 TCTATTCTCCCGATACATGAGACATA 58.597 38.462 0.00 0.00 35.01 2.29
2050 3344 0.319727 ACCGTATTTGCACGTCCGAA 60.320 50.000 0.00 0.00 40.31 4.30
2130 3424 5.029807 TCATTACTTGGTCACAGACAACA 57.970 39.130 0.00 0.00 33.68 3.33
2146 3440 2.159627 CCACACGCCTTGTCTTCATTAC 59.840 50.000 0.00 0.00 35.67 1.89
2147 3441 2.224426 ACCACACGCCTTGTCTTCATTA 60.224 45.455 0.00 0.00 35.67 1.90
2310 3609 0.793861 GCAGCGGACACGTTAATTGA 59.206 50.000 0.00 0.00 43.45 2.57
2357 3657 3.193691 AGGTTGTGTATCCTCTTCAGACG 59.806 47.826 0.00 0.00 0.00 4.18
2635 3948 8.425577 AGACTATTGTTCCTCAAATGAATACG 57.574 34.615 0.00 0.00 39.62 3.06


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

AutoCloner maintained by Alex Coulton.