Multiple sequence alignment - TraesCS6A01G201100

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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 TraesCS6A01G201100 chr6A 100.000 3110 0 0 1 3110 328292060 328295169 0.000000e+00 5744.0
1 TraesCS6A01G201100 chr6A 89.286 140 13 1 2 141 265221982 265221845 1.150000e-39 174.0
2 TraesCS6A01G201100 chr6A 87.671 73 4 4 2796 2864 364069307 364069378 2.570000e-11 80.5
3 TraesCS6A01G201100 chr6D 94.634 3019 121 20 127 3110 255623611 255620599 0.000000e+00 4639.0
4 TraesCS6A01G201100 chr6B 96.875 2336 55 8 787 3110 350827990 350830319 0.000000e+00 3893.0
5 TraesCS6A01G201100 chr6B 82.178 101 12 6 2793 2890 19867256 19867353 7.150000e-12 82.4
6 TraesCS6A01G201100 chr6B 80.198 101 14 6 2783 2882 19898193 19898288 1.550000e-08 71.3
7 TraesCS6A01G201100 chr6B 80.198 101 14 6 2783 2882 19918594 19918689 1.550000e-08 71.3
8 TraesCS6A01G201100 chr4B 79.422 277 41 13 127 389 317764421 317764147 6.850000e-42 182.0
9 TraesCS6A01G201100 chr1D 92.683 123 9 0 7 129 133358765 133358643 8.860000e-41 178.0
10 TraesCS6A01G201100 chr1D 87.662 154 13 5 14 164 145745788 145745938 1.150000e-39 174.0
11 TraesCS6A01G201100 chr1D 92.500 120 9 0 7 126 101924095 101924214 4.120000e-39 172.0
12 TraesCS6A01G201100 chr1D 88.235 68 8 0 1826 1893 41565556 41565489 7.150000e-12 82.4
13 TraesCS6A01G201100 chr7D 92.500 120 7 1 7 126 454128375 454128492 1.480000e-38 171.0
14 TraesCS6A01G201100 chr7D 88.148 135 14 2 13 146 456500072 456499939 3.210000e-35 159.0
15 TraesCS6A01G201100 chr7D 84.472 161 17 5 7 164 375504545 375504700 5.370000e-33 152.0
16 TraesCS6A01G201100 chr5A 92.500 120 7 1 7 126 97827085 97827202 1.480000e-38 171.0
17 TraesCS6A01G201100 chr2B 85.093 161 13 8 7 161 470618977 470619132 1.490000e-33 154.0
18 TraesCS6A01G201100 chr4D 80.838 167 22 7 127 285 212152727 212152891 4.210000e-24 122.0
19 TraesCS6A01G201100 chr3B 72.868 387 84 14 132 505 659085393 659085771 2.530000e-21 113.0
20 TraesCS6A01G201100 chr1A 89.706 68 7 0 1826 1893 41367403 41367336 1.540000e-13 87.9
21 TraesCS6A01G201100 chr2A 85.542 83 9 3 2796 2876 768454527 768454446 1.990000e-12 84.2
22 TraesCS6A01G201100 chr2A 84.524 84 10 3 2793 2874 56141691 56141773 2.570000e-11 80.5
23 TraesCS6A01G201100 chr5D 88.060 67 6 2 128 193 135405623 135405688 9.250000e-11 78.7
24 TraesCS6A01G201100 chr7A 84.146 82 9 3 2797 2877 105466090 105466012 3.330000e-10 76.8


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 TraesCS6A01G201100 chr6A 328292060 328295169 3109 False 5744 5744 100.000 1 3110 1 chr6A.!!$F1 3109
1 TraesCS6A01G201100 chr6D 255620599 255623611 3012 True 4639 4639 94.634 127 3110 1 chr6D.!!$R1 2983
2 TraesCS6A01G201100 chr6B 350827990 350830319 2329 False 3893 3893 96.875 787 3110 1 chr6B.!!$F4 2323

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
623 631 0.106819 ACGGCCTCTAGTCGTATGGT 60.107 55.0 0.0 0.0 35.23 3.55 F
1125 1161 0.030705 CTGGAGGAGGAGATGGGGAA 60.031 60.0 0.0 0.0 0.00 3.97 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1722 1758 0.795735 GCTCGCACGCGTAGAGTTTA 60.796 55.0 31.02 8.87 39.58 2.01 R
2933 2973 0.541392 CCATCATCGACAAGGGTGGA 59.459 55.0 2.26 0.00 36.15 4.02 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 3.746045 GTTATATCCGTCAAGAGGGCA 57.254 47.619 3.98 0.00 36.36 5.36
21 22 3.391049 GTTATATCCGTCAAGAGGGCAC 58.609 50.000 3.98 0.00 36.36 5.01
22 23 0.389391 ATATCCGTCAAGAGGGCACG 59.611 55.000 3.98 0.00 36.36 5.34
23 24 0.681887 TATCCGTCAAGAGGGCACGA 60.682 55.000 3.98 0.00 35.49 4.35
24 25 1.541310 ATCCGTCAAGAGGGCACGAA 61.541 55.000 3.98 0.00 35.49 3.85
25 26 2.027625 CCGTCAAGAGGGCACGAAC 61.028 63.158 0.00 0.00 35.49 3.95
26 27 2.027625 CGTCAAGAGGGCACGAACC 61.028 63.158 0.00 0.00 35.49 3.62
27 28 1.371558 GTCAAGAGGGCACGAACCT 59.628 57.895 0.00 0.00 42.18 3.50
28 29 0.951040 GTCAAGAGGGCACGAACCTG 60.951 60.000 2.25 0.00 38.79 4.00
29 30 1.672356 CAAGAGGGCACGAACCTGG 60.672 63.158 2.25 0.00 38.79 4.45
30 31 2.895424 AAGAGGGCACGAACCTGGG 61.895 63.158 0.00 0.00 38.79 4.45
31 32 3.637273 GAGGGCACGAACCTGGGT 61.637 66.667 0.00 0.00 38.79 4.51
32 33 2.203877 AGGGCACGAACCTGGGTA 60.204 61.111 0.00 0.00 36.85 3.69
33 34 1.833787 GAGGGCACGAACCTGGGTAA 61.834 60.000 0.00 0.00 38.79 2.85
34 35 1.073548 GGGCACGAACCTGGGTAAA 59.926 57.895 0.00 0.00 0.00 2.01
35 36 1.239296 GGGCACGAACCTGGGTAAAC 61.239 60.000 0.00 0.00 0.00 2.01
36 37 0.535553 GGCACGAACCTGGGTAAACA 60.536 55.000 0.00 0.00 0.00 2.83
37 38 1.530323 GCACGAACCTGGGTAAACAT 58.470 50.000 0.00 0.00 0.00 2.71
38 39 1.467342 GCACGAACCTGGGTAAACATC 59.533 52.381 0.00 0.00 0.00 3.06
39 40 1.730064 CACGAACCTGGGTAAACATCG 59.270 52.381 0.00 8.63 35.16 3.84
40 41 1.345415 ACGAACCTGGGTAAACATCGT 59.655 47.619 9.69 9.69 37.24 3.73
41 42 1.730064 CGAACCTGGGTAAACATCGTG 59.270 52.381 0.00 0.00 0.00 4.35
42 43 2.774687 GAACCTGGGTAAACATCGTGT 58.225 47.619 0.00 0.00 0.00 4.49
43 44 2.467566 ACCTGGGTAAACATCGTGTC 57.532 50.000 0.00 0.00 0.00 3.67
44 45 1.002773 ACCTGGGTAAACATCGTGTCC 59.997 52.381 0.00 0.00 0.00 4.02
45 46 1.278127 CCTGGGTAAACATCGTGTCCT 59.722 52.381 0.00 0.00 0.00 3.85
46 47 2.618053 CTGGGTAAACATCGTGTCCTC 58.382 52.381 0.00 0.00 0.00 3.71
47 48 2.233922 CTGGGTAAACATCGTGTCCTCT 59.766 50.000 0.00 0.00 0.00 3.69
48 49 2.635915 TGGGTAAACATCGTGTCCTCTT 59.364 45.455 0.00 0.00 0.00 2.85
49 50 3.259902 GGGTAAACATCGTGTCCTCTTC 58.740 50.000 0.00 0.00 0.00 2.87
50 51 3.306502 GGGTAAACATCGTGTCCTCTTCA 60.307 47.826 0.00 0.00 0.00 3.02
51 52 4.504858 GGTAAACATCGTGTCCTCTTCAT 58.495 43.478 0.00 0.00 0.00 2.57
52 53 4.567159 GGTAAACATCGTGTCCTCTTCATC 59.433 45.833 0.00 0.00 0.00 2.92
53 54 4.543590 AAACATCGTGTCCTCTTCATCT 57.456 40.909 0.00 0.00 0.00 2.90
54 55 3.791973 ACATCGTGTCCTCTTCATCTC 57.208 47.619 0.00 0.00 0.00 2.75
55 56 2.428890 ACATCGTGTCCTCTTCATCTCC 59.571 50.000 0.00 0.00 0.00 3.71
56 57 2.516227 TCGTGTCCTCTTCATCTCCT 57.484 50.000 0.00 0.00 0.00 3.69
57 58 2.095461 TCGTGTCCTCTTCATCTCCTG 58.905 52.381 0.00 0.00 0.00 3.86
58 59 1.821753 CGTGTCCTCTTCATCTCCTGT 59.178 52.381 0.00 0.00 0.00 4.00
59 60 2.232452 CGTGTCCTCTTCATCTCCTGTT 59.768 50.000 0.00 0.00 0.00 3.16
60 61 3.444034 CGTGTCCTCTTCATCTCCTGTTA 59.556 47.826 0.00 0.00 0.00 2.41
61 62 4.675671 CGTGTCCTCTTCATCTCCTGTTAC 60.676 50.000 0.00 0.00 0.00 2.50
62 63 3.769844 TGTCCTCTTCATCTCCTGTTACC 59.230 47.826 0.00 0.00 0.00 2.85
63 64 4.027437 GTCCTCTTCATCTCCTGTTACCT 58.973 47.826 0.00 0.00 0.00 3.08
64 65 4.468153 GTCCTCTTCATCTCCTGTTACCTT 59.532 45.833 0.00 0.00 0.00 3.50
65 66 4.712337 TCCTCTTCATCTCCTGTTACCTTC 59.288 45.833 0.00 0.00 0.00 3.46
66 67 4.467795 CCTCTTCATCTCCTGTTACCTTCA 59.532 45.833 0.00 0.00 0.00 3.02
67 68 5.046304 CCTCTTCATCTCCTGTTACCTTCAA 60.046 44.000 0.00 0.00 0.00 2.69
68 69 6.352565 CCTCTTCATCTCCTGTTACCTTCAAT 60.353 42.308 0.00 0.00 0.00 2.57
69 70 6.644347 TCTTCATCTCCTGTTACCTTCAATC 58.356 40.000 0.00 0.00 0.00 2.67
70 71 5.359194 TCATCTCCTGTTACCTTCAATCC 57.641 43.478 0.00 0.00 0.00 3.01
71 72 4.164221 TCATCTCCTGTTACCTTCAATCCC 59.836 45.833 0.00 0.00 0.00 3.85
72 73 3.803340 TCTCCTGTTACCTTCAATCCCT 58.197 45.455 0.00 0.00 0.00 4.20
73 74 4.955335 TCTCCTGTTACCTTCAATCCCTA 58.045 43.478 0.00 0.00 0.00 3.53
74 75 4.962995 TCTCCTGTTACCTTCAATCCCTAG 59.037 45.833 0.00 0.00 0.00 3.02
75 76 4.955335 TCCTGTTACCTTCAATCCCTAGA 58.045 43.478 0.00 0.00 0.00 2.43
76 77 4.715297 TCCTGTTACCTTCAATCCCTAGAC 59.285 45.833 0.00 0.00 0.00 2.59
77 78 4.469945 CCTGTTACCTTCAATCCCTAGACA 59.530 45.833 0.00 0.00 0.00 3.41
78 79 5.416271 TGTTACCTTCAATCCCTAGACAC 57.584 43.478 0.00 0.00 0.00 3.67
79 80 4.841813 TGTTACCTTCAATCCCTAGACACA 59.158 41.667 0.00 0.00 0.00 3.72
80 81 3.983044 ACCTTCAATCCCTAGACACAC 57.017 47.619 0.00 0.00 0.00 3.82
81 82 3.248024 ACCTTCAATCCCTAGACACACA 58.752 45.455 0.00 0.00 0.00 3.72
82 83 3.261897 ACCTTCAATCCCTAGACACACAG 59.738 47.826 0.00 0.00 0.00 3.66
83 84 3.261897 CCTTCAATCCCTAGACACACAGT 59.738 47.826 0.00 0.00 0.00 3.55
84 85 4.263068 CCTTCAATCCCTAGACACACAGTT 60.263 45.833 0.00 0.00 0.00 3.16
85 86 4.537135 TCAATCCCTAGACACACAGTTC 57.463 45.455 0.00 0.00 0.00 3.01
86 87 3.056821 TCAATCCCTAGACACACAGTTCG 60.057 47.826 0.00 0.00 0.00 3.95
87 88 1.254026 TCCCTAGACACACAGTTCGG 58.746 55.000 0.00 0.00 0.00 4.30
88 89 0.246635 CCCTAGACACACAGTTCGGG 59.753 60.000 0.00 0.00 0.00 5.14
89 90 1.254026 CCTAGACACACAGTTCGGGA 58.746 55.000 0.00 0.00 0.00 5.14
90 91 1.067776 CCTAGACACACAGTTCGGGAC 60.068 57.143 0.00 0.00 0.00 4.46
91 92 0.963962 TAGACACACAGTTCGGGACC 59.036 55.000 0.00 0.00 0.00 4.46
92 93 1.301479 GACACACAGTTCGGGACCC 60.301 63.158 0.00 0.00 0.00 4.46
93 94 2.032071 CACACAGTTCGGGACCCC 59.968 66.667 4.46 0.00 0.00 4.95
94 95 3.246880 ACACAGTTCGGGACCCCC 61.247 66.667 4.46 0.00 41.09 5.40
95 96 2.928396 CACAGTTCGGGACCCCCT 60.928 66.667 4.46 0.00 42.67 4.79
96 97 1.611261 CACAGTTCGGGACCCCCTA 60.611 63.158 4.46 0.00 42.67 3.53
97 98 1.611556 ACAGTTCGGGACCCCCTAC 60.612 63.158 4.46 0.29 42.67 3.18
98 99 2.040114 AGTTCGGGACCCCCTACC 59.960 66.667 4.46 0.00 42.67 3.18
99 100 3.085947 GTTCGGGACCCCCTACCC 61.086 72.222 4.46 0.00 42.67 3.69
103 104 3.759101 GGGACCCCCTACCCGAGA 61.759 72.222 0.00 0.00 41.34 4.04
104 105 2.613421 GGACCCCCTACCCGAGAT 59.387 66.667 0.00 0.00 0.00 2.75
105 106 1.533513 GGACCCCCTACCCGAGATC 60.534 68.421 0.00 0.00 0.00 2.75
106 107 1.902432 GACCCCCTACCCGAGATCG 60.902 68.421 0.00 0.00 39.44 3.69
116 117 3.089784 CGAGATCGGCCGGTTTTG 58.910 61.111 27.83 14.51 35.37 2.44
117 118 1.447140 CGAGATCGGCCGGTTTTGA 60.447 57.895 27.83 4.46 35.37 2.69
118 119 1.693083 CGAGATCGGCCGGTTTTGAC 61.693 60.000 27.83 5.44 35.37 3.18
119 120 0.672401 GAGATCGGCCGGTTTTGACA 60.672 55.000 27.83 2.60 0.00 3.58
120 121 0.953960 AGATCGGCCGGTTTTGACAC 60.954 55.000 27.83 3.65 0.00 3.67
121 122 0.953960 GATCGGCCGGTTTTGACACT 60.954 55.000 27.83 0.00 0.00 3.55
122 123 1.234615 ATCGGCCGGTTTTGACACTG 61.235 55.000 27.83 0.00 0.00 3.66
123 124 1.890041 CGGCCGGTTTTGACACTGA 60.890 57.895 20.10 0.00 0.00 3.41
124 125 1.652563 GGCCGGTTTTGACACTGAC 59.347 57.895 1.90 0.00 0.00 3.51
125 126 1.098712 GGCCGGTTTTGACACTGACA 61.099 55.000 1.90 0.00 0.00 3.58
126 127 0.307760 GCCGGTTTTGACACTGACAG 59.692 55.000 1.90 0.00 0.00 3.51
127 128 1.663695 CCGGTTTTGACACTGACAGT 58.336 50.000 1.07 1.07 0.00 3.55
128 129 2.828877 CCGGTTTTGACACTGACAGTA 58.171 47.619 8.02 0.00 0.00 2.74
129 130 3.199677 CCGGTTTTGACACTGACAGTAA 58.800 45.455 8.02 0.00 0.00 2.24
130 131 3.813166 CCGGTTTTGACACTGACAGTAAT 59.187 43.478 8.02 0.00 0.00 1.89
131 132 4.992319 CCGGTTTTGACACTGACAGTAATA 59.008 41.667 8.02 0.00 0.00 0.98
132 133 5.107220 CCGGTTTTGACACTGACAGTAATAC 60.107 44.000 8.02 4.91 0.00 1.89
133 134 5.107220 CGGTTTTGACACTGACAGTAATACC 60.107 44.000 8.02 12.27 0.00 2.73
134 135 5.180680 GGTTTTGACACTGACAGTAATACCC 59.819 44.000 8.02 0.00 0.00 3.69
135 136 5.818678 TTTGACACTGACAGTAATACCCT 57.181 39.130 8.02 0.00 0.00 4.34
147 148 5.044846 ACAGTAATACCCTCATCCTGCTTTT 60.045 40.000 0.00 0.00 0.00 2.27
165 166 9.820725 CCTGCTTTTGATTTTTATTGATATGGA 57.179 29.630 0.00 0.00 0.00 3.41
211 212 5.426509 ACAAGAGGATGATGATGGTGACTAA 59.573 40.000 0.00 0.00 0.00 2.24
218 219 5.598416 TGATGATGGTGACTAACGAGATT 57.402 39.130 0.00 0.00 0.00 2.40
293 294 2.613725 GGACGTGGGTTAGGGTTTACAG 60.614 54.545 0.00 0.00 0.00 2.74
331 339 2.768492 GGCTTCTCGGCTTGCATGG 61.768 63.158 1.34 0.00 34.85 3.66
356 364 5.841957 AGATGAACTTCTTGCTTTGTGTT 57.158 34.783 0.00 0.00 0.00 3.32
361 369 1.136695 CTTCTTGCTTTGTGTTGGCCA 59.863 47.619 0.00 0.00 0.00 5.36
372 380 2.203480 TTGGCCACTTGGACTGCC 60.203 61.111 3.88 0.00 45.91 4.85
373 381 2.766925 TTGGCCACTTGGACTGCCT 61.767 57.895 3.88 0.00 45.91 4.75
391 399 1.347707 CCTCCTGTAGTCAAGTTGCCA 59.652 52.381 0.00 0.00 0.00 4.92
401 409 3.086764 AAGTTGCCACCAAGCCCCT 62.087 57.895 0.00 0.00 0.00 4.79
402 410 2.524148 GTTGCCACCAAGCCCCTT 60.524 61.111 0.00 0.00 0.00 3.95
425 433 1.149174 CCTGACGCTGGCCCAATAT 59.851 57.895 0.00 0.00 0.00 1.28
428 436 1.961277 GACGCTGGCCCAATATCGG 60.961 63.158 0.00 0.00 0.00 4.18
439 447 0.109342 CAATATCGGGCTTCCTGGCT 59.891 55.000 0.00 0.00 41.48 4.75
447 455 3.710722 CTTCCTGGCTGACGGGCT 61.711 66.667 2.53 0.00 45.92 5.19
449 457 1.689233 TTCCTGGCTGACGGGCTAT 60.689 57.895 2.53 0.00 45.92 2.97
464 472 2.570302 GGGCTATCCCGGTGTATTGTAT 59.430 50.000 0.00 0.00 43.94 2.29
476 484 4.037684 GGTGTATTGTATCGTCAGTAGCCT 59.962 45.833 0.00 0.00 0.00 4.58
477 485 5.213675 GTGTATTGTATCGTCAGTAGCCTC 58.786 45.833 0.00 0.00 0.00 4.70
493 501 1.033574 CCTCGAGCTTATCCGGAGTT 58.966 55.000 11.34 0.00 0.00 3.01
498 506 2.418197 CGAGCTTATCCGGAGTTTGGAA 60.418 50.000 11.34 0.00 39.39 3.53
505 513 1.073125 TCCGGAGTTTGGAATCTTGCA 59.927 47.619 0.00 0.00 30.98 4.08
512 520 5.143376 AGTTTGGAATCTTGCATCTTTGG 57.857 39.130 0.00 0.00 0.00 3.28
538 546 0.540597 AACCCAAGCAGGCTCCTTTC 60.541 55.000 0.00 0.00 35.39 2.62
539 547 1.075482 CCCAAGCAGGCTCCTTTCA 59.925 57.895 0.00 0.00 35.39 2.69
548 556 2.103094 CAGGCTCCTTTCATATCGGTGA 59.897 50.000 0.00 0.00 0.00 4.02
549 557 2.103263 AGGCTCCTTTCATATCGGTGAC 59.897 50.000 0.00 0.00 0.00 3.67
558 566 2.679132 ATATCGGTGACAGGCGACGC 62.679 60.000 12.43 12.43 0.00 5.19
562 570 1.447140 GGTGACAGGCGACGCATAA 60.447 57.895 23.09 0.46 0.00 1.90
563 571 0.810031 GGTGACAGGCGACGCATAAT 60.810 55.000 23.09 6.11 0.00 1.28
564 572 0.577269 GTGACAGGCGACGCATAATC 59.423 55.000 23.09 15.69 0.00 1.75
567 575 1.933853 GACAGGCGACGCATAATCTTT 59.066 47.619 23.09 1.50 0.00 2.52
569 577 1.003545 CAGGCGACGCATAATCTTTGG 60.004 52.381 23.09 0.00 0.00 3.28
571 579 1.003866 GGCGACGCATAATCTTTGGAC 60.004 52.381 23.09 0.00 0.00 4.02
590 598 1.351017 ACCCGGCTTCAGAATCTTTGA 59.649 47.619 0.00 0.00 0.00 2.69
602 610 6.745116 TCAGAATCTTTGAGTTCGTCAAGTA 58.255 36.000 0.00 0.00 46.09 2.24
615 623 2.877168 CGTCAAGTATACGGCCTCTAGT 59.123 50.000 0.00 0.00 36.71 2.57
616 624 3.059051 CGTCAAGTATACGGCCTCTAGTC 60.059 52.174 0.00 0.00 36.71 2.59
623 631 0.106819 ACGGCCTCTAGTCGTATGGT 60.107 55.000 0.00 0.00 35.23 3.55
638 666 1.126488 ATGGTGATCTCAGGATGCGT 58.874 50.000 0.00 0.00 34.76 5.24
645 673 3.891366 TGATCTCAGGATGCGTAGATTCA 59.109 43.478 5.97 4.02 34.76 2.57
649 677 2.625314 TCAGGATGCGTAGATTCAGAGG 59.375 50.000 0.00 0.00 34.76 3.69
664 692 3.653344 TCAGAGGTTCGTGTTCTTCATG 58.347 45.455 0.00 0.00 34.61 3.07
667 695 3.139077 GAGGTTCGTGTTCTTCATGGTT 58.861 45.455 0.00 0.00 34.14 3.67
672 700 2.035449 TCGTGTTCTTCATGGTTCTCGT 59.965 45.455 0.00 0.00 34.14 4.18
675 703 4.058817 GTGTTCTTCATGGTTCTCGTCTT 58.941 43.478 0.00 0.00 0.00 3.01
679 707 3.254903 TCTTCATGGTTCTCGTCTTCGAA 59.745 43.478 0.00 0.00 45.61 3.71
689 717 0.703466 CGTCTTCGAAGCTTCACGTC 59.297 55.000 25.47 10.58 39.71 4.34
690 718 1.061485 GTCTTCGAAGCTTCACGTCC 58.939 55.000 25.47 6.94 0.00 4.79
706 734 1.022735 GTCCTGCATCTTCATGGCTG 58.977 55.000 0.00 0.00 0.00 4.85
709 737 2.025727 GCATCTTCATGGCTGCGC 59.974 61.111 0.00 0.00 0.00 6.09
730 758 2.174349 CTGCGTCTTTGCGGCTTC 59.826 61.111 0.00 0.00 37.81 3.86
750 778 0.319040 GCGAGCTGCATCTTCGGATA 60.319 55.000 14.00 0.00 45.45 2.59
756 784 3.133721 AGCTGCATCTTCGGATAAAGTCT 59.866 43.478 1.02 0.00 32.70 3.24
797 825 9.840427 ATAAAGTCGAAAGTTATCAAATTGTGG 57.160 29.630 0.00 0.00 0.00 4.17
798 826 6.254281 AGTCGAAAGTTATCAAATTGTGGG 57.746 37.500 0.00 0.00 0.00 4.61
799 827 5.183140 AGTCGAAAGTTATCAAATTGTGGGG 59.817 40.000 0.00 0.00 0.00 4.96
847 875 8.336080 ACTGACAATAAAAAGAGTCGAAAGTTC 58.664 33.333 0.00 0.00 33.83 3.01
971 999 2.408022 CGAGGTCGTCGGGCTAAG 59.592 66.667 7.05 0.00 45.58 2.18
1028 1058 1.969064 CCACCAACCAATTCGCCGA 60.969 57.895 0.00 0.00 0.00 5.54
1125 1161 0.030705 CTGGAGGAGGAGATGGGGAA 60.031 60.000 0.00 0.00 0.00 3.97
1152 1188 2.669569 GCTCTCCAACGGCTTGCA 60.670 61.111 0.00 0.00 0.00 4.08
1335 1371 2.442087 CCTTTTCCCGCCCCATCC 60.442 66.667 0.00 0.00 0.00 3.51
1452 1488 2.102357 GAGCTCGATGCCGACGAA 59.898 61.111 0.00 0.00 44.23 3.85
1485 1521 5.039920 AGCATGTCCACTTCTGCAATATA 57.960 39.130 0.00 0.00 37.09 0.86
1533 1569 0.253044 ACCTTAGGATGCACATGCGT 59.747 50.000 4.77 0.00 45.83 5.24
1737 1773 1.419107 GCCCTAAACTCTACGCGTGC 61.419 60.000 24.59 8.73 0.00 5.34
2004 2040 0.909610 AGGAAGATGGCGGTGAAGGA 60.910 55.000 0.00 0.00 0.00 3.36
2061 2097 2.483714 GGAGCTCAAAGATGATGGCGTA 60.484 50.000 17.19 0.00 33.29 4.42
2471 2511 4.092091 GCACTCGTTCTTGATCTTCGAAAT 59.908 41.667 0.00 0.00 0.00 2.17
2642 2682 5.181622 GGTTCACCACACCAAATTATACGAA 59.818 40.000 0.00 0.00 34.04 3.85
2853 2893 2.724454 AGTATCACACGCCACTAGTCT 58.276 47.619 0.00 0.00 0.00 3.24
2903 2943 2.225041 CCCATGTCCTCTATAGACGGGA 60.225 54.545 14.55 11.07 37.04 5.14
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
2 3 1.611977 CGTGCCCTCTTGACGGATATA 59.388 52.381 0.00 0.00 0.00 0.86
5 6 1.541310 TTCGTGCCCTCTTGACGGAT 61.541 55.000 0.00 0.00 33.88 4.18
6 7 2.204461 TTCGTGCCCTCTTGACGGA 61.204 57.895 0.00 0.00 33.88 4.69
9 10 0.951040 CAGGTTCGTGCCCTCTTGAC 60.951 60.000 0.00 0.00 0.00 3.18
10 11 1.371183 CAGGTTCGTGCCCTCTTGA 59.629 57.895 0.00 0.00 0.00 3.02
11 12 1.672356 CCAGGTTCGTGCCCTCTTG 60.672 63.158 0.00 0.00 0.00 3.02
12 13 2.750350 CCAGGTTCGTGCCCTCTT 59.250 61.111 0.00 0.00 0.00 2.85
13 14 2.741878 TACCCAGGTTCGTGCCCTCT 62.742 60.000 0.00 0.00 0.00 3.69
14 15 1.833787 TTACCCAGGTTCGTGCCCTC 61.834 60.000 0.00 0.00 0.00 4.30
15 16 1.420532 TTTACCCAGGTTCGTGCCCT 61.421 55.000 0.00 0.00 0.00 5.19
16 17 1.073548 TTTACCCAGGTTCGTGCCC 59.926 57.895 0.00 0.00 0.00 5.36
17 18 0.535553 TGTTTACCCAGGTTCGTGCC 60.536 55.000 0.00 0.00 0.00 5.01
18 19 1.467342 GATGTTTACCCAGGTTCGTGC 59.533 52.381 0.00 0.00 0.00 5.34
19 20 1.730064 CGATGTTTACCCAGGTTCGTG 59.270 52.381 0.00 0.00 0.00 4.35
20 21 1.345415 ACGATGTTTACCCAGGTTCGT 59.655 47.619 7.51 7.51 33.54 3.85
21 22 1.730064 CACGATGTTTACCCAGGTTCG 59.270 52.381 6.36 6.36 31.96 3.95
22 23 2.740447 GACACGATGTTTACCCAGGTTC 59.260 50.000 0.00 0.00 0.00 3.62
23 24 2.551504 GGACACGATGTTTACCCAGGTT 60.552 50.000 0.00 0.00 0.00 3.50
24 25 1.002773 GGACACGATGTTTACCCAGGT 59.997 52.381 0.00 0.00 0.00 4.00
25 26 1.278127 AGGACACGATGTTTACCCAGG 59.722 52.381 0.00 0.00 0.00 4.45
26 27 2.233922 AGAGGACACGATGTTTACCCAG 59.766 50.000 0.00 0.00 0.00 4.45
27 28 2.253610 AGAGGACACGATGTTTACCCA 58.746 47.619 0.00 0.00 0.00 4.51
28 29 3.259902 GAAGAGGACACGATGTTTACCC 58.740 50.000 0.00 0.00 0.00 3.69
29 30 3.921677 TGAAGAGGACACGATGTTTACC 58.078 45.455 0.00 0.00 0.00 2.85
30 31 5.411781 AGATGAAGAGGACACGATGTTTAC 58.588 41.667 0.00 0.00 0.00 2.01
31 32 5.394224 GGAGATGAAGAGGACACGATGTTTA 60.394 44.000 0.00 0.00 0.00 2.01
32 33 4.499183 GAGATGAAGAGGACACGATGTTT 58.501 43.478 0.00 0.00 0.00 2.83
33 34 3.118956 GGAGATGAAGAGGACACGATGTT 60.119 47.826 0.00 0.00 0.00 2.71
34 35 2.428890 GGAGATGAAGAGGACACGATGT 59.571 50.000 0.00 0.00 0.00 3.06
35 36 2.692557 AGGAGATGAAGAGGACACGATG 59.307 50.000 0.00 0.00 0.00 3.84
36 37 2.692557 CAGGAGATGAAGAGGACACGAT 59.307 50.000 0.00 0.00 0.00 3.73
37 38 2.095461 CAGGAGATGAAGAGGACACGA 58.905 52.381 0.00 0.00 0.00 4.35
38 39 1.821753 ACAGGAGATGAAGAGGACACG 59.178 52.381 0.00 0.00 0.00 4.49
39 40 3.971245 AACAGGAGATGAAGAGGACAC 57.029 47.619 0.00 0.00 0.00 3.67
40 41 3.769844 GGTAACAGGAGATGAAGAGGACA 59.230 47.826 0.00 0.00 0.00 4.02
41 42 4.027437 AGGTAACAGGAGATGAAGAGGAC 58.973 47.826 0.00 0.00 41.41 3.85
42 43 4.338795 AGGTAACAGGAGATGAAGAGGA 57.661 45.455 0.00 0.00 41.41 3.71
43 44 4.467795 TGAAGGTAACAGGAGATGAAGAGG 59.532 45.833 0.00 0.00 41.41 3.69
44 45 5.667539 TGAAGGTAACAGGAGATGAAGAG 57.332 43.478 0.00 0.00 41.41 2.85
45 46 6.352222 GGATTGAAGGTAACAGGAGATGAAGA 60.352 42.308 0.00 0.00 41.41 2.87
46 47 5.819901 GGATTGAAGGTAACAGGAGATGAAG 59.180 44.000 0.00 0.00 41.41 3.02
47 48 5.339200 GGGATTGAAGGTAACAGGAGATGAA 60.339 44.000 0.00 0.00 41.41 2.57
48 49 4.164221 GGGATTGAAGGTAACAGGAGATGA 59.836 45.833 0.00 0.00 41.41 2.92
49 50 4.164988 AGGGATTGAAGGTAACAGGAGATG 59.835 45.833 0.00 0.00 41.41 2.90
50 51 4.375313 AGGGATTGAAGGTAACAGGAGAT 58.625 43.478 0.00 0.00 41.41 2.75
51 52 3.803340 AGGGATTGAAGGTAACAGGAGA 58.197 45.455 0.00 0.00 41.41 3.71
52 53 4.962995 TCTAGGGATTGAAGGTAACAGGAG 59.037 45.833 0.00 0.00 41.41 3.69
53 54 4.715297 GTCTAGGGATTGAAGGTAACAGGA 59.285 45.833 0.00 0.00 41.41 3.86
54 55 4.469945 TGTCTAGGGATTGAAGGTAACAGG 59.530 45.833 0.00 0.00 41.41 4.00
55 56 5.046591 TGTGTCTAGGGATTGAAGGTAACAG 60.047 44.000 0.00 0.00 41.41 3.16
56 57 4.841813 TGTGTCTAGGGATTGAAGGTAACA 59.158 41.667 0.00 0.00 41.41 2.41
57 58 5.176592 GTGTGTCTAGGGATTGAAGGTAAC 58.823 45.833 0.00 0.00 0.00 2.50
58 59 4.841813 TGTGTGTCTAGGGATTGAAGGTAA 59.158 41.667 0.00 0.00 0.00 2.85
59 60 4.422057 TGTGTGTCTAGGGATTGAAGGTA 58.578 43.478 0.00 0.00 0.00 3.08
60 61 3.248024 TGTGTGTCTAGGGATTGAAGGT 58.752 45.455 0.00 0.00 0.00 3.50
61 62 3.261897 ACTGTGTGTCTAGGGATTGAAGG 59.738 47.826 0.00 0.00 0.00 3.46
62 63 4.543590 ACTGTGTGTCTAGGGATTGAAG 57.456 45.455 0.00 0.00 0.00 3.02
63 64 4.560716 CGAACTGTGTGTCTAGGGATTGAA 60.561 45.833 0.00 0.00 0.00 2.69
64 65 3.056821 CGAACTGTGTGTCTAGGGATTGA 60.057 47.826 0.00 0.00 0.00 2.57
65 66 3.254060 CGAACTGTGTGTCTAGGGATTG 58.746 50.000 0.00 0.00 0.00 2.67
66 67 2.233922 CCGAACTGTGTGTCTAGGGATT 59.766 50.000 0.00 0.00 0.00 3.01
67 68 1.825474 CCGAACTGTGTGTCTAGGGAT 59.175 52.381 0.00 0.00 0.00 3.85
68 69 1.254026 CCGAACTGTGTGTCTAGGGA 58.746 55.000 0.00 0.00 0.00 4.20
69 70 0.246635 CCCGAACTGTGTGTCTAGGG 59.753 60.000 0.00 0.00 32.87 3.53
70 71 1.067776 GTCCCGAACTGTGTGTCTAGG 60.068 57.143 0.00 0.00 0.00 3.02
71 72 1.067776 GGTCCCGAACTGTGTGTCTAG 60.068 57.143 0.00 0.00 0.00 2.43
72 73 0.963962 GGTCCCGAACTGTGTGTCTA 59.036 55.000 0.00 0.00 0.00 2.59
73 74 1.746517 GGTCCCGAACTGTGTGTCT 59.253 57.895 0.00 0.00 0.00 3.41
74 75 1.301479 GGGTCCCGAACTGTGTGTC 60.301 63.158 0.00 0.00 0.00 3.67
75 76 2.814835 GGGGTCCCGAACTGTGTGT 61.815 63.158 0.48 0.00 0.00 3.72
76 77 2.032071 GGGGTCCCGAACTGTGTG 59.968 66.667 0.48 0.00 0.00 3.82
77 78 3.246880 GGGGGTCCCGAACTGTGT 61.247 66.667 0.48 0.00 36.85 3.72
86 87 3.097429 ATCTCGGGTAGGGGGTCCC 62.097 68.421 0.00 0.00 45.90 4.46
87 88 1.533513 GATCTCGGGTAGGGGGTCC 60.534 68.421 0.00 0.00 0.00 4.46
88 89 1.902432 CGATCTCGGGTAGGGGGTC 60.902 68.421 0.00 0.00 35.37 4.46
89 90 2.197875 CGATCTCGGGTAGGGGGT 59.802 66.667 0.00 0.00 35.37 4.95
99 100 1.447140 TCAAAACCGGCCGATCTCG 60.447 57.895 30.73 12.43 39.44 4.04
100 101 0.672401 TGTCAAAACCGGCCGATCTC 60.672 55.000 30.73 10.48 0.00 2.75
101 102 0.953960 GTGTCAAAACCGGCCGATCT 60.954 55.000 30.73 7.34 0.00 2.75
102 103 0.953960 AGTGTCAAAACCGGCCGATC 60.954 55.000 30.73 8.82 0.00 3.69
103 104 1.072505 AGTGTCAAAACCGGCCGAT 59.927 52.632 30.73 6.36 0.00 4.18
104 105 1.890041 CAGTGTCAAAACCGGCCGA 60.890 57.895 30.73 0.90 0.00 5.54
105 106 1.890041 TCAGTGTCAAAACCGGCCG 60.890 57.895 21.04 21.04 0.00 6.13
106 107 1.098712 TGTCAGTGTCAAAACCGGCC 61.099 55.000 0.00 0.00 0.00 6.13
107 108 0.307760 CTGTCAGTGTCAAAACCGGC 59.692 55.000 0.00 0.00 0.00 6.13
108 109 1.663695 ACTGTCAGTGTCAAAACCGG 58.336 50.000 4.21 0.00 0.00 5.28
109 110 5.107220 GGTATTACTGTCAGTGTCAAAACCG 60.107 44.000 16.03 0.00 0.00 4.44
110 111 5.180680 GGGTATTACTGTCAGTGTCAAAACC 59.819 44.000 16.03 12.74 0.00 3.27
111 112 5.995897 AGGGTATTACTGTCAGTGTCAAAAC 59.004 40.000 16.03 5.23 0.00 2.43
112 113 6.182507 AGGGTATTACTGTCAGTGTCAAAA 57.817 37.500 16.03 1.61 0.00 2.44
113 114 5.305902 TGAGGGTATTACTGTCAGTGTCAAA 59.694 40.000 16.03 2.00 0.00 2.69
114 115 4.836175 TGAGGGTATTACTGTCAGTGTCAA 59.164 41.667 16.03 2.38 0.00 3.18
115 116 4.412843 TGAGGGTATTACTGTCAGTGTCA 58.587 43.478 16.03 0.00 0.00 3.58
116 117 5.452077 GGATGAGGGTATTACTGTCAGTGTC 60.452 48.000 16.03 3.36 0.00 3.67
117 118 4.406003 GGATGAGGGTATTACTGTCAGTGT 59.594 45.833 16.03 6.83 0.00 3.55
118 119 4.651503 AGGATGAGGGTATTACTGTCAGTG 59.348 45.833 16.03 0.00 0.00 3.66
119 120 4.651503 CAGGATGAGGGTATTACTGTCAGT 59.348 45.833 10.99 10.99 39.69 3.41
120 121 4.502259 GCAGGATGAGGGTATTACTGTCAG 60.502 50.000 0.00 0.00 39.69 3.51
121 122 3.388024 GCAGGATGAGGGTATTACTGTCA 59.612 47.826 0.00 0.00 39.69 3.58
122 123 3.643792 AGCAGGATGAGGGTATTACTGTC 59.356 47.826 0.00 0.00 39.69 3.51
123 124 3.658725 AGCAGGATGAGGGTATTACTGT 58.341 45.455 0.00 0.00 39.69 3.55
124 125 4.696479 AAGCAGGATGAGGGTATTACTG 57.304 45.455 0.00 0.00 39.69 2.74
125 126 5.191722 TCAAAAGCAGGATGAGGGTATTACT 59.808 40.000 0.00 0.00 39.69 2.24
126 127 5.437060 TCAAAAGCAGGATGAGGGTATTAC 58.563 41.667 0.00 0.00 39.69 1.89
127 128 5.708736 TCAAAAGCAGGATGAGGGTATTA 57.291 39.130 0.00 0.00 39.69 0.98
128 129 4.591321 TCAAAAGCAGGATGAGGGTATT 57.409 40.909 0.00 0.00 39.69 1.89
129 130 4.803329 ATCAAAAGCAGGATGAGGGTAT 57.197 40.909 0.00 0.00 39.69 2.73
130 131 4.591321 AATCAAAAGCAGGATGAGGGTA 57.409 40.909 0.00 0.00 39.69 3.69
131 132 3.463048 AATCAAAAGCAGGATGAGGGT 57.537 42.857 0.00 0.00 39.69 4.34
132 133 4.813750 AAAATCAAAAGCAGGATGAGGG 57.186 40.909 0.00 0.00 39.69 4.30
133 134 8.036575 TCAATAAAAATCAAAAGCAGGATGAGG 58.963 33.333 0.00 0.00 39.69 3.86
134 135 8.991243 TCAATAAAAATCAAAAGCAGGATGAG 57.009 30.769 0.00 0.00 39.69 2.90
147 148 8.537728 AGGTGCTTCCATATCAATAAAAATCA 57.462 30.769 1.79 0.00 39.02 2.57
239 240 3.830755 GCGAGGTTAGGGGTATCTTATGA 59.169 47.826 0.00 0.00 0.00 2.15
245 246 1.421480 AAGGCGAGGTTAGGGGTATC 58.579 55.000 0.00 0.00 0.00 2.24
310 311 4.416738 GCAAGCCGAGAAGCCCCT 62.417 66.667 0.00 0.00 0.00 4.79
311 312 4.722700 TGCAAGCCGAGAAGCCCC 62.723 66.667 0.00 0.00 0.00 5.80
353 361 1.827789 GCAGTCCAAGTGGCCAACA 60.828 57.895 7.24 0.00 34.44 3.33
372 380 2.417719 GTGGCAACTTGACTACAGGAG 58.582 52.381 0.00 0.00 37.61 3.69
373 381 1.071699 GGTGGCAACTTGACTACAGGA 59.928 52.381 0.00 0.00 37.61 3.86
383 391 2.524148 GGGGCTTGGTGGCAACTT 60.524 61.111 3.27 0.00 43.83 2.66
425 433 3.706373 GTCAGCCAGGAAGCCCGA 61.706 66.667 0.00 0.00 37.58 5.14
428 436 4.785453 CCCGTCAGCCAGGAAGCC 62.785 72.222 0.00 0.00 0.00 4.35
447 455 4.143543 TGACGATACAATACACCGGGATA 58.856 43.478 6.32 0.00 0.00 2.59
449 457 2.359848 CTGACGATACAATACACCGGGA 59.640 50.000 6.32 0.00 0.00 5.14
456 464 4.212847 TCGAGGCTACTGACGATACAATAC 59.787 45.833 0.00 0.00 0.00 1.89
464 472 3.499050 GCTCGAGGCTACTGACGA 58.501 61.111 15.58 0.00 38.06 4.20
476 484 1.136305 CCAAACTCCGGATAAGCTCGA 59.864 52.381 3.57 0.00 0.00 4.04
477 485 1.136305 TCCAAACTCCGGATAAGCTCG 59.864 52.381 3.57 0.00 0.00 5.03
484 492 2.290896 TGCAAGATTCCAAACTCCGGAT 60.291 45.455 3.57 0.00 30.99 4.18
487 495 3.012518 AGATGCAAGATTCCAAACTCCG 58.987 45.455 0.00 0.00 0.00 4.63
489 497 5.166398 CCAAAGATGCAAGATTCCAAACTC 58.834 41.667 0.00 0.00 0.00 3.01
493 501 3.777087 TCCCAAAGATGCAAGATTCCAA 58.223 40.909 0.00 0.00 0.00 3.53
498 506 5.337813 GGTTTCATTCCCAAAGATGCAAGAT 60.338 40.000 0.00 0.00 0.00 2.40
512 520 0.247460 GCCTGCTTGGGTTTCATTCC 59.753 55.000 0.00 0.00 36.00 3.01
528 536 2.103263 GTCACCGATATGAAAGGAGCCT 59.897 50.000 0.00 0.00 0.00 4.58
538 546 0.934901 CGTCGCCTGTCACCGATATG 60.935 60.000 0.00 0.00 35.76 1.78
539 547 1.359117 CGTCGCCTGTCACCGATAT 59.641 57.895 0.00 0.00 35.76 1.63
548 556 1.665679 CAAAGATTATGCGTCGCCTGT 59.334 47.619 15.88 3.36 0.00 4.00
549 557 1.003545 CCAAAGATTATGCGTCGCCTG 60.004 52.381 15.88 0.00 0.00 4.85
558 566 2.348411 AGCCGGGTCCAAAGATTATG 57.652 50.000 0.00 0.00 0.00 1.90
559 567 2.241176 TGAAGCCGGGTCCAAAGATTAT 59.759 45.455 6.62 0.00 0.00 1.28
560 568 1.631388 TGAAGCCGGGTCCAAAGATTA 59.369 47.619 6.62 0.00 0.00 1.75
562 570 0.035056 CTGAAGCCGGGTCCAAAGAT 60.035 55.000 6.62 0.00 0.00 2.40
563 571 1.125093 TCTGAAGCCGGGTCCAAAGA 61.125 55.000 6.62 4.99 0.00 2.52
564 572 0.250727 TTCTGAAGCCGGGTCCAAAG 60.251 55.000 6.62 2.36 0.00 2.77
567 575 0.909610 AGATTCTGAAGCCGGGTCCA 60.910 55.000 6.62 0.00 0.00 4.02
569 577 1.740025 CAAAGATTCTGAAGCCGGGTC 59.260 52.381 6.62 0.80 0.00 4.46
571 579 2.012673 CTCAAAGATTCTGAAGCCGGG 58.987 52.381 2.18 0.00 0.00 5.73
590 598 2.097825 AGGCCGTATACTTGACGAACT 58.902 47.619 0.00 0.00 42.98 3.01
602 610 2.224719 ACCATACGACTAGAGGCCGTAT 60.225 50.000 0.00 7.47 46.43 3.06
615 623 2.297315 GCATCCTGAGATCACCATACGA 59.703 50.000 0.00 0.00 0.00 3.43
616 624 2.681706 GCATCCTGAGATCACCATACG 58.318 52.381 0.00 0.00 0.00 3.06
623 631 3.891366 TGAATCTACGCATCCTGAGATCA 59.109 43.478 0.00 0.00 0.00 2.92
638 666 5.243060 TGAAGAACACGAACCTCTGAATCTA 59.757 40.000 0.00 0.00 0.00 1.98
645 673 2.368875 ACCATGAAGAACACGAACCTCT 59.631 45.455 0.00 0.00 0.00 3.69
649 677 3.120991 CGAGAACCATGAAGAACACGAAC 60.121 47.826 0.00 0.00 0.00 3.95
672 700 0.959553 AGGACGTGAAGCTTCGAAGA 59.040 50.000 28.95 4.63 0.00 2.87
675 703 1.372997 GCAGGACGTGAAGCTTCGA 60.373 57.895 21.11 8.11 0.00 3.71
679 707 0.322975 AAGATGCAGGACGTGAAGCT 59.677 50.000 0.00 0.00 28.13 3.74
689 717 1.734137 GCAGCCATGAAGATGCAGG 59.266 57.895 7.24 0.00 38.54 4.85
690 718 1.355563 CGCAGCCATGAAGATGCAG 59.644 57.895 11.79 2.51 38.60 4.41
730 758 3.624300 CCGAAGATGCAGCTCGCG 61.624 66.667 17.10 17.10 46.97 5.87
740 768 5.606348 AGCTTGAGACTTTATCCGAAGAT 57.394 39.130 0.00 0.00 36.44 2.40
742 770 6.276847 ACATAGCTTGAGACTTTATCCGAAG 58.723 40.000 0.00 0.00 0.00 3.79
776 804 5.182380 TCCCCACAATTTGATAACTTTCGAC 59.818 40.000 2.79 0.00 0.00 4.20
847 875 3.486584 GCTTCGTGCATTTTCTTCTGAG 58.513 45.455 0.00 0.00 42.31 3.35
883 911 1.140804 GCGTGTTTGGTTGCACCTT 59.859 52.632 6.83 0.00 39.58 3.50
884 912 2.781158 GGCGTGTTTGGTTGCACCT 61.781 57.895 6.83 0.00 39.58 4.00
971 999 3.670377 GGTGGTGCCCAACTTCGC 61.670 66.667 2.29 0.00 38.38 4.70
1413 1449 0.806102 CGACATCGTAGCCCTTGGTG 60.806 60.000 0.00 0.00 34.11 4.17
1722 1758 0.795735 GCTCGCACGCGTAGAGTTTA 60.796 55.000 31.02 8.87 39.58 2.01
2004 2040 3.072476 TGAAGAACTCCGGATCAAAACCT 59.928 43.478 3.57 0.00 0.00 3.50
2188 2226 6.707440 TCTTCTTGCACCAGTTTATTTCAA 57.293 33.333 0.00 0.00 0.00 2.69
2562 2602 9.677567 CATTTTACTATTTACACAGCACAACTT 57.322 29.630 0.00 0.00 0.00 2.66
2642 2682 2.380064 TCCCCTTGCAATCAAAGTGT 57.620 45.000 0.00 0.00 0.00 3.55
2853 2893 4.523083 GAGGTCATTAGCCATGTTTACCA 58.477 43.478 0.00 0.00 32.03 3.25
2903 2943 2.260869 GCGGTGACACAGGTGCAAT 61.261 57.895 8.08 0.00 0.00 3.56
2933 2973 0.541392 CCATCATCGACAAGGGTGGA 59.459 55.000 2.26 0.00 36.15 4.02


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

AutoCloner maintained by Alex Coulton.