Multiple sequence alignment - TraesCS2B01G099900

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 TraesCS2B01G099900 chr2B 100.000 2435 0 0 1 2435 59104128 59106562 0.000000e+00 4497.0
1 TraesCS2B01G099900 chr2B 78.655 342 66 3 1044 1383 59224210 59224546 1.130000e-53 220.0
2 TraesCS2B01G099900 chr2D 90.331 2027 116 38 475 2435 36490021 36488009 0.000000e+00 2584.0
3 TraesCS2B01G099900 chr2D 80.707 311 53 3 1078 1386 36425787 36425482 4.050000e-58 235.0
4 TraesCS2B01G099900 chr2D 78.788 330 67 1 1084 1413 36445351 36445025 4.080000e-53 219.0
5 TraesCS2B01G099900 chr2A 87.562 1005 80 27 825 1814 40492429 40491455 0.000000e+00 1122.0
6 TraesCS2B01G099900 chr2A 89.152 719 68 5 911 1629 40374144 40373436 0.000000e+00 887.0
7 TraesCS2B01G099900 chr2A 89.234 483 23 12 1862 2336 40373230 40372769 5.840000e-161 577.0
8 TraesCS2B01G099900 chr2A 79.252 294 54 3 1078 1369 40316164 40315876 5.310000e-47 198.0
9 TraesCS2B01G099900 chr6D 78.740 127 19 4 2131 2251 98218636 98218760 7.220000e-11 78.7
10 TraesCS2B01G099900 chr6B 100.000 28 0 0 2142 2169 182745379 182745352 4.000000e-03 52.8


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 TraesCS2B01G099900 chr2B 59104128 59106562 2434 False 4497 4497 100.000 1 2435 1 chr2B.!!$F1 2434
1 TraesCS2B01G099900 chr2D 36488009 36490021 2012 True 2584 2584 90.331 475 2435 1 chr2D.!!$R3 1960
2 TraesCS2B01G099900 chr2A 40491455 40492429 974 True 1122 1122 87.562 825 1814 1 chr2A.!!$R2 989
3 TraesCS2B01G099900 chr2A 40372769 40374144 1375 True 732 887 89.193 911 2336 2 chr2A.!!$R3 1425

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
765 780 0.036306 ATTTTCCCGTCGAAGCCAGT 59.964 50.0 0.0 0.0 0.0 4.0 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2350 2492 0.548031 GAGCCAGAATCCCACCATGA 59.452 55.0 0.0 0.0 0.0 3.07 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
22 23 5.708736 TTTCCTATTTCATGCCTAGTGGA 57.291 39.130 0.00 0.00 34.57 4.02
23 24 5.708736 TTCCTATTTCATGCCTAGTGGAA 57.291 39.130 0.00 0.00 34.57 3.53
24 25 5.912149 TCCTATTTCATGCCTAGTGGAAT 57.088 39.130 0.00 0.00 34.57 3.01
25 26 7.387265 TTCCTATTTCATGCCTAGTGGAATA 57.613 36.000 0.00 0.00 34.57 1.75
26 27 7.009179 TCCTATTTCATGCCTAGTGGAATAG 57.991 40.000 10.82 10.82 41.63 1.73
27 28 6.558775 TCCTATTTCATGCCTAGTGGAATAGT 59.441 38.462 14.40 0.00 40.91 2.12
28 29 6.652481 CCTATTTCATGCCTAGTGGAATAGTG 59.348 42.308 14.40 6.57 40.91 2.74
29 30 3.475566 TCATGCCTAGTGGAATAGTGC 57.524 47.619 0.00 0.00 34.57 4.40
30 31 3.041211 TCATGCCTAGTGGAATAGTGCT 58.959 45.455 0.00 0.00 34.57 4.40
31 32 3.455910 TCATGCCTAGTGGAATAGTGCTT 59.544 43.478 0.00 0.00 34.57 3.91
32 33 3.543680 TGCCTAGTGGAATAGTGCTTC 57.456 47.619 0.00 0.00 34.57 3.86
33 34 3.107601 TGCCTAGTGGAATAGTGCTTCT 58.892 45.455 0.00 0.00 34.57 2.85
34 35 3.519510 TGCCTAGTGGAATAGTGCTTCTT 59.480 43.478 0.00 0.00 34.57 2.52
35 36 4.123506 GCCTAGTGGAATAGTGCTTCTTC 58.876 47.826 0.00 0.00 34.57 2.87
36 37 4.698575 CCTAGTGGAATAGTGCTTCTTCC 58.301 47.826 0.00 0.00 39.13 3.46
37 38 4.407296 CCTAGTGGAATAGTGCTTCTTCCT 59.593 45.833 11.77 0.00 39.36 3.36
38 39 5.598830 CCTAGTGGAATAGTGCTTCTTCCTA 59.401 44.000 11.77 0.00 39.36 2.94
39 40 5.346181 AGTGGAATAGTGCTTCTTCCTAC 57.654 43.478 11.77 9.25 39.36 3.18
40 41 4.777896 AGTGGAATAGTGCTTCTTCCTACA 59.222 41.667 11.77 0.00 39.36 2.74
41 42 5.248477 AGTGGAATAGTGCTTCTTCCTACAA 59.752 40.000 11.77 0.00 39.36 2.41
42 43 5.938125 GTGGAATAGTGCTTCTTCCTACAAA 59.062 40.000 11.77 0.00 39.36 2.83
43 44 6.430000 GTGGAATAGTGCTTCTTCCTACAAAA 59.570 38.462 11.77 0.00 39.36 2.44
44 45 6.430000 TGGAATAGTGCTTCTTCCTACAAAAC 59.570 38.462 11.77 0.00 39.36 2.43
45 46 6.655425 GGAATAGTGCTTCTTCCTACAAAACT 59.345 38.462 0.00 0.00 36.36 2.66
46 47 7.175119 GGAATAGTGCTTCTTCCTACAAAACTT 59.825 37.037 0.00 0.00 36.36 2.66
47 48 5.757850 AGTGCTTCTTCCTACAAAACTTG 57.242 39.130 0.00 0.00 0.00 3.16
48 49 4.580580 AGTGCTTCTTCCTACAAAACTTGG 59.419 41.667 0.00 0.00 34.12 3.61
49 50 4.578928 GTGCTTCTTCCTACAAAACTTGGA 59.421 41.667 0.00 0.00 34.12 3.53
50 51 4.578928 TGCTTCTTCCTACAAAACTTGGAC 59.421 41.667 0.00 0.00 34.12 4.02
51 52 4.023107 GCTTCTTCCTACAAAACTTGGACC 60.023 45.833 0.00 0.00 34.12 4.46
52 53 4.094830 TCTTCCTACAAAACTTGGACCC 57.905 45.455 0.00 0.00 34.12 4.46
53 54 3.720002 TCTTCCTACAAAACTTGGACCCT 59.280 43.478 0.00 0.00 34.12 4.34
54 55 3.782656 TCCTACAAAACTTGGACCCTC 57.217 47.619 0.00 0.00 34.12 4.30
55 56 2.374170 TCCTACAAAACTTGGACCCTCC 59.626 50.000 0.00 0.00 36.96 4.30
56 57 2.554564 CCTACAAAACTTGGACCCTCCC 60.555 54.545 0.00 0.00 35.03 4.30
57 58 0.179001 ACAAAACTTGGACCCTCCCG 60.179 55.000 0.00 0.00 35.03 5.14
58 59 1.228459 AAAACTTGGACCCTCCCGC 60.228 57.895 0.00 0.00 35.03 6.13
59 60 1.716028 AAAACTTGGACCCTCCCGCT 61.716 55.000 0.00 0.00 35.03 5.52
60 61 0.838987 AAACTTGGACCCTCCCGCTA 60.839 55.000 0.00 0.00 35.03 4.26
61 62 0.838987 AACTTGGACCCTCCCGCTAA 60.839 55.000 0.00 0.00 35.03 3.09
62 63 0.620700 ACTTGGACCCTCCCGCTAAT 60.621 55.000 0.00 0.00 35.03 1.73
63 64 0.179045 CTTGGACCCTCCCGCTAATG 60.179 60.000 0.00 0.00 35.03 1.90
64 65 1.632018 TTGGACCCTCCCGCTAATGG 61.632 60.000 0.00 0.00 35.03 3.16
71 72 3.861797 CCCGCTAATGGGCCGACT 61.862 66.667 0.00 0.00 43.70 4.18
72 73 2.588877 CCGCTAATGGGCCGACTG 60.589 66.667 0.00 0.00 0.00 3.51
73 74 2.499205 CGCTAATGGGCCGACTGA 59.501 61.111 0.00 0.00 0.00 3.41
74 75 1.069765 CGCTAATGGGCCGACTGAT 59.930 57.895 0.00 0.00 0.00 2.90
75 76 1.224069 CGCTAATGGGCCGACTGATG 61.224 60.000 0.00 0.00 0.00 3.07
76 77 0.179045 GCTAATGGGCCGACTGATGT 60.179 55.000 0.00 0.00 0.00 3.06
77 78 1.070134 GCTAATGGGCCGACTGATGTA 59.930 52.381 0.00 0.00 0.00 2.29
78 79 2.868044 GCTAATGGGCCGACTGATGTAG 60.868 54.545 0.00 0.00 0.00 2.74
79 80 0.469917 AATGGGCCGACTGATGTAGG 59.530 55.000 0.00 0.00 41.16 3.18
80 81 1.410850 ATGGGCCGACTGATGTAGGG 61.411 60.000 0.00 0.00 39.04 3.53
81 82 2.808206 GGGCCGACTGATGTAGGGG 61.808 68.421 0.00 0.00 39.04 4.79
82 83 2.808206 GGCCGACTGATGTAGGGGG 61.808 68.421 0.00 0.00 39.04 5.40
83 84 1.760875 GCCGACTGATGTAGGGGGA 60.761 63.158 0.00 0.00 39.04 4.81
84 85 1.122019 GCCGACTGATGTAGGGGGAT 61.122 60.000 0.00 0.00 39.04 3.85
85 86 1.826042 GCCGACTGATGTAGGGGGATA 60.826 57.143 0.00 0.00 39.04 2.59
86 87 2.821437 CCGACTGATGTAGGGGGATAT 58.179 52.381 0.00 0.00 35.66 1.63
87 88 3.173965 CCGACTGATGTAGGGGGATATT 58.826 50.000 0.00 0.00 35.66 1.28
88 89 3.583086 CCGACTGATGTAGGGGGATATTT 59.417 47.826 0.00 0.00 35.66 1.40
89 90 4.041691 CCGACTGATGTAGGGGGATATTTT 59.958 45.833 0.00 0.00 35.66 1.82
90 91 5.456186 CCGACTGATGTAGGGGGATATTTTT 60.456 44.000 0.00 0.00 35.66 1.94
91 92 5.701290 CGACTGATGTAGGGGGATATTTTTC 59.299 44.000 0.00 0.00 0.00 2.29
92 93 5.953571 ACTGATGTAGGGGGATATTTTTCC 58.046 41.667 0.00 0.00 34.83 3.13
113 114 4.540359 CCAATTTTGGGAAGATTCTGCA 57.460 40.909 1.14 0.00 44.70 4.41
114 115 5.093849 CCAATTTTGGGAAGATTCTGCAT 57.906 39.130 1.14 0.00 44.70 3.96
115 116 6.224665 CCAATTTTGGGAAGATTCTGCATA 57.775 37.500 1.14 0.00 44.70 3.14
116 117 6.278363 CCAATTTTGGGAAGATTCTGCATAG 58.722 40.000 1.14 0.00 44.70 2.23
117 118 4.989279 TTTTGGGAAGATTCTGCATAGC 57.011 40.909 0.00 0.00 0.00 2.97
118 119 3.939740 TTGGGAAGATTCTGCATAGCT 57.060 42.857 0.00 0.00 0.00 3.32
119 120 3.939740 TGGGAAGATTCTGCATAGCTT 57.060 42.857 0.00 0.00 0.00 3.74
120 121 4.240881 TGGGAAGATTCTGCATAGCTTT 57.759 40.909 0.00 0.00 0.00 3.51
121 122 4.603131 TGGGAAGATTCTGCATAGCTTTT 58.397 39.130 0.00 0.00 0.00 2.27
122 123 5.018809 TGGGAAGATTCTGCATAGCTTTTT 58.981 37.500 0.00 0.00 0.00 1.94
123 124 5.126061 TGGGAAGATTCTGCATAGCTTTTTC 59.874 40.000 0.00 0.00 0.00 2.29
124 125 5.359292 GGGAAGATTCTGCATAGCTTTTTCT 59.641 40.000 0.00 0.00 0.00 2.52
125 126 6.459435 GGGAAGATTCTGCATAGCTTTTTCTC 60.459 42.308 0.00 0.00 0.00 2.87
126 127 6.448207 AAGATTCTGCATAGCTTTTTCTCC 57.552 37.500 0.00 0.00 0.00 3.71
127 128 5.753716 AGATTCTGCATAGCTTTTTCTCCT 58.246 37.500 0.00 0.00 0.00 3.69
128 129 5.821995 AGATTCTGCATAGCTTTTTCTCCTC 59.178 40.000 0.00 0.00 0.00 3.71
129 130 4.833478 TCTGCATAGCTTTTTCTCCTCT 57.167 40.909 0.00 0.00 0.00 3.69
130 131 5.171339 TCTGCATAGCTTTTTCTCCTCTT 57.829 39.130 0.00 0.00 0.00 2.85
131 132 5.564550 TCTGCATAGCTTTTTCTCCTCTTT 58.435 37.500 0.00 0.00 0.00 2.52
132 133 6.006449 TCTGCATAGCTTTTTCTCCTCTTTT 58.994 36.000 0.00 0.00 0.00 2.27
133 134 6.017400 TGCATAGCTTTTTCTCCTCTTTTG 57.983 37.500 0.00 0.00 0.00 2.44
134 135 5.536161 TGCATAGCTTTTTCTCCTCTTTTGT 59.464 36.000 0.00 0.00 0.00 2.83
135 136 5.860716 GCATAGCTTTTTCTCCTCTTTTGTG 59.139 40.000 0.00 0.00 0.00 3.33
136 137 6.515696 GCATAGCTTTTTCTCCTCTTTTGTGT 60.516 38.462 0.00 0.00 0.00 3.72
137 138 7.308589 GCATAGCTTTTTCTCCTCTTTTGTGTA 60.309 37.037 0.00 0.00 0.00 2.90
138 139 8.734386 CATAGCTTTTTCTCCTCTTTTGTGTAT 58.266 33.333 0.00 0.00 0.00 2.29
139 140 7.208225 AGCTTTTTCTCCTCTTTTGTGTATC 57.792 36.000 0.00 0.00 0.00 2.24
140 141 7.001073 AGCTTTTTCTCCTCTTTTGTGTATCT 58.999 34.615 0.00 0.00 0.00 1.98
141 142 7.503902 AGCTTTTTCTCCTCTTTTGTGTATCTT 59.496 33.333 0.00 0.00 0.00 2.40
142 143 7.592903 GCTTTTTCTCCTCTTTTGTGTATCTTG 59.407 37.037 0.00 0.00 0.00 3.02
143 144 8.519799 TTTTTCTCCTCTTTTGTGTATCTTGT 57.480 30.769 0.00 0.00 0.00 3.16
144 145 7.496529 TTTCTCCTCTTTTGTGTATCTTGTG 57.503 36.000 0.00 0.00 0.00 3.33
145 146 6.174720 TCTCCTCTTTTGTGTATCTTGTGT 57.825 37.500 0.00 0.00 0.00 3.72
146 147 5.991606 TCTCCTCTTTTGTGTATCTTGTGTG 59.008 40.000 0.00 0.00 0.00 3.82
147 148 4.515191 TCCTCTTTTGTGTATCTTGTGTGC 59.485 41.667 0.00 0.00 0.00 4.57
148 149 4.320494 CCTCTTTTGTGTATCTTGTGTGCC 60.320 45.833 0.00 0.00 0.00 5.01
149 150 3.568007 TCTTTTGTGTATCTTGTGTGCCC 59.432 43.478 0.00 0.00 0.00 5.36
150 151 2.949177 TTGTGTATCTTGTGTGCCCT 57.051 45.000 0.00 0.00 0.00 5.19
151 152 2.949177 TGTGTATCTTGTGTGCCCTT 57.051 45.000 0.00 0.00 0.00 3.95
152 153 3.222173 TGTGTATCTTGTGTGCCCTTT 57.778 42.857 0.00 0.00 0.00 3.11
153 154 3.561143 TGTGTATCTTGTGTGCCCTTTT 58.439 40.909 0.00 0.00 0.00 2.27
154 155 3.957497 TGTGTATCTTGTGTGCCCTTTTT 59.043 39.130 0.00 0.00 0.00 1.94
288 289 8.887264 TCTGTTGGCCTTTTAAATATTTAGGA 57.113 30.769 16.51 4.93 0.00 2.94
289 290 9.315363 TCTGTTGGCCTTTTAAATATTTAGGAA 57.685 29.630 16.51 10.96 0.00 3.36
290 291 9.366216 CTGTTGGCCTTTTAAATATTTAGGAAC 57.634 33.333 16.51 13.09 0.00 3.62
291 292 8.030106 TGTTGGCCTTTTAAATATTTAGGAACG 58.970 33.333 16.51 4.96 0.00 3.95
292 293 7.102847 TGGCCTTTTAAATATTTAGGAACGG 57.897 36.000 16.51 12.66 0.00 4.44
293 294 6.664384 TGGCCTTTTAAATATTTAGGAACGGT 59.336 34.615 16.51 0.00 0.00 4.83
294 295 7.178805 TGGCCTTTTAAATATTTAGGAACGGTT 59.821 33.333 16.51 0.00 0.00 4.44
295 296 8.036575 GGCCTTTTAAATATTTAGGAACGGTTT 58.963 33.333 16.51 0.00 0.00 3.27
296 297 9.426837 GCCTTTTAAATATTTAGGAACGGTTTT 57.573 29.630 16.51 0.00 0.00 2.43
309 310 7.940178 AGGAACGGTTTTTAAATTCATGAAC 57.060 32.000 11.07 0.00 0.00 3.18
310 311 7.493367 AGGAACGGTTTTTAAATTCATGAACA 58.507 30.769 11.07 0.00 0.00 3.18
311 312 8.147704 AGGAACGGTTTTTAAATTCATGAACAT 58.852 29.630 11.07 5.16 0.00 2.71
312 313 8.769891 GGAACGGTTTTTAAATTCATGAACATT 58.230 29.630 11.07 11.48 0.00 2.71
442 443 9.757227 ATTTTAAATTCGTGAACAATCTTTGGA 57.243 25.926 0.00 0.00 34.12 3.53
443 444 9.587772 TTTTAAATTCGTGAACAATCTTTGGAA 57.412 25.926 0.00 0.00 34.12 3.53
444 445 9.757227 TTTAAATTCGTGAACAATCTTTGGAAT 57.243 25.926 0.00 0.00 34.12 3.01
446 447 8.742554 AAATTCGTGAACAATCTTTGGAATAC 57.257 30.769 0.00 0.00 34.12 1.89
447 448 6.869315 TTCGTGAACAATCTTTGGAATACA 57.131 33.333 0.00 0.00 34.12 2.29
448 449 7.447374 TTCGTGAACAATCTTTGGAATACAT 57.553 32.000 0.00 0.00 34.12 2.29
449 450 8.554835 TTCGTGAACAATCTTTGGAATACATA 57.445 30.769 0.00 0.00 34.12 2.29
450 451 8.731275 TCGTGAACAATCTTTGGAATACATAT 57.269 30.769 0.00 0.00 34.12 1.78
451 452 9.173021 TCGTGAACAATCTTTGGAATACATATT 57.827 29.630 0.00 0.00 34.12 1.28
452 453 9.787532 CGTGAACAATCTTTGGAATACATATTT 57.212 29.630 0.00 0.00 34.12 1.40
487 488 7.648039 TTTAAAAGGTAGCTGTTTCCAAAGA 57.352 32.000 1.99 0.00 0.00 2.52
488 489 5.774498 AAAAGGTAGCTGTTTCCAAAGAG 57.226 39.130 0.00 0.00 32.86 2.85
516 517 4.326504 AAACCTGCTTTTCATGTGGAAG 57.673 40.909 0.00 0.00 36.72 3.46
528 529 3.876914 TCATGTGGAAGTGAACACTCAAC 59.123 43.478 7.93 7.55 41.58 3.18
537 538 1.202639 TGAACACTCAACAGCGACCAT 60.203 47.619 0.00 0.00 0.00 3.55
550 551 1.886655 GCGACCATTTTCCCCAGTCTT 60.887 52.381 0.00 0.00 0.00 3.01
582 584 2.225019 TGCGCGGTCCGTAAATTTTAAA 59.775 40.909 13.94 0.00 39.71 1.52
701 715 3.576078 TTTTGTCTTCAGAAGGGAGCA 57.424 42.857 10.42 2.57 0.00 4.26
708 722 3.136443 TCTTCAGAAGGGAGCAGAAAACA 59.864 43.478 10.42 0.00 0.00 2.83
710 724 2.705658 TCAGAAGGGAGCAGAAAACAGA 59.294 45.455 0.00 0.00 0.00 3.41
729 743 6.065976 ACAGATATTTGATGTGGAGGTGAA 57.934 37.500 0.00 0.00 0.00 3.18
734 748 3.576078 TTGATGTGGAGGTGAACACTT 57.424 42.857 4.96 0.00 38.39 3.16
743 757 1.276421 AGGTGAACACTTAGCAGCGAT 59.724 47.619 4.96 0.00 35.37 4.58
765 780 0.036306 ATTTTCCCGTCGAAGCCAGT 59.964 50.000 0.00 0.00 0.00 4.00
784 799 0.178068 TCGTGAGAGCTAAATGGGCC 59.822 55.000 0.00 0.00 34.84 5.80
787 802 1.227973 GAGAGCTAAATGGGCCGGG 60.228 63.158 2.18 0.00 0.00 5.73
802 817 3.404438 GGGCCATCCACCACCGTA 61.404 66.667 4.39 0.00 35.00 4.02
803 818 2.672295 GGCCATCCACCACCGTAA 59.328 61.111 0.00 0.00 0.00 3.18
813 860 0.462403 ACCACCGTAACGTGCAAACT 60.462 50.000 0.00 0.00 32.10 2.66
816 863 2.368685 CACCGTAACGTGCAAACTTTC 58.631 47.619 0.00 0.00 0.00 2.62
927 974 7.336176 TGAGTTATTATAGGTCACGCGATATCT 59.664 37.037 15.93 8.43 0.00 1.98
957 1004 2.354821 CCAACTTATAACTCAAGCCGCC 59.645 50.000 0.00 0.00 0.00 6.13
1063 1117 1.751927 GCCAAGGAGACAGGCCATG 60.752 63.158 5.01 2.64 45.04 3.66
1445 1499 2.679059 CGGAGAAGTGATCAATGGTGCT 60.679 50.000 0.00 0.00 0.00 4.40
1485 1539 1.024579 TTTTCCGATCGAGCTTGCCC 61.025 55.000 18.66 0.00 0.00 5.36
1487 1541 2.852495 TTCCGATCGAGCTTGCCCAC 62.852 60.000 18.66 0.00 0.00 4.61
1563 1618 5.049543 AGGCGCTGTACGTAATTTTTGTTAA 60.050 36.000 7.64 0.00 46.11 2.01
1597 1652 7.952671 ACTACATCTACATACATGGATCGTTT 58.047 34.615 0.00 0.00 0.00 3.60
1598 1653 8.421784 ACTACATCTACATACATGGATCGTTTT 58.578 33.333 0.00 0.00 0.00 2.43
1703 1830 2.590007 GCTCGGCGGCATCATCTT 60.590 61.111 10.53 0.00 0.00 2.40
1748 1875 2.618709 ACCGAAGCCTTCTTTGAACTTG 59.381 45.455 2.49 0.00 36.06 3.16
1762 1889 9.638239 TTCTTTGAACTTGCATGGAATTATTAC 57.362 29.630 0.00 0.00 0.00 1.89
1842 1974 7.972832 AAAAAGTTCACGTCCATATCAGTTA 57.027 32.000 0.00 0.00 0.00 2.24
1857 1989 7.148573 CCATATCAGTTATCGTTCTTGGCATAC 60.149 40.741 0.00 0.00 0.00 2.39
1923 2058 0.317770 CGTTCAGTTGTTTGGCGCAT 60.318 50.000 10.83 0.00 0.00 4.73
1963 2098 4.241555 GTCAGGCCGGGCATCGAT 62.242 66.667 31.59 5.69 42.43 3.59
1964 2099 3.928779 TCAGGCCGGGCATCGATC 61.929 66.667 31.59 1.49 42.43 3.69
2004 2139 0.742505 CATGCATGATCCACACACCC 59.257 55.000 22.59 0.00 0.00 4.61
2030 2165 1.810151 TCGGCAAAAACTAGCACATCC 59.190 47.619 0.00 0.00 0.00 3.51
2084 2219 0.603707 TGGCTTTGAGAAGGTCTGCG 60.604 55.000 0.00 0.00 33.34 5.18
2239 2378 8.738645 ATTAAAGTGATCTAGCGGATTCTTTT 57.261 30.769 19.35 12.73 38.47 2.27
2295 2437 0.541863 ACACCTTTCTCGCCCCTATG 59.458 55.000 0.00 0.00 0.00 2.23
2310 2452 4.103311 GCCCCTATGAGTCCACTTTTCTAT 59.897 45.833 0.00 0.00 0.00 1.98
2322 2464 6.255887 GTCCACTTTTCTATAAGGTCGTCATG 59.744 42.308 0.00 0.00 0.00 3.07
2373 2516 0.462759 GGTGGGATTCTGGCTCTTCG 60.463 60.000 0.00 0.00 0.00 3.79
2383 2526 2.562738 TCTGGCTCTTCGTGAGATTTGA 59.437 45.455 11.23 2.65 45.39 2.69
2387 2530 4.125703 GGCTCTTCGTGAGATTTGATCAT 58.874 43.478 0.00 0.00 45.39 2.45
2398 2541 7.653311 CGTGAGATTTGATCATGAGGTTACATA 59.347 37.037 0.09 0.00 36.04 2.29
2410 2553 5.362263 TGAGGTTACATAAAGGCGTATTCC 58.638 41.667 0.00 0.00 0.00 3.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 5.708736 TCCACTAGGCATGAAATAGGAAA 57.291 39.130 0.00 0.00 33.74 3.13
1 2 5.708736 TTCCACTAGGCATGAAATAGGAA 57.291 39.130 0.00 0.00 33.74 3.36
2 3 5.912149 ATTCCACTAGGCATGAAATAGGA 57.088 39.130 0.00 0.00 33.74 2.94
3 4 6.652481 CACTATTCCACTAGGCATGAAATAGG 59.348 42.308 0.00 0.00 33.74 2.57
4 5 6.148480 GCACTATTCCACTAGGCATGAAATAG 59.852 42.308 0.00 0.00 33.74 1.73
5 6 5.997746 GCACTATTCCACTAGGCATGAAATA 59.002 40.000 0.00 0.00 33.74 1.40
6 7 4.823989 GCACTATTCCACTAGGCATGAAAT 59.176 41.667 0.00 0.00 33.74 2.17
7 8 4.080356 AGCACTATTCCACTAGGCATGAAA 60.080 41.667 0.00 0.00 33.74 2.69
8 9 3.455910 AGCACTATTCCACTAGGCATGAA 59.544 43.478 0.00 0.00 33.74 2.57
9 10 3.041211 AGCACTATTCCACTAGGCATGA 58.959 45.455 0.00 0.00 33.74 3.07
10 11 3.482156 AGCACTATTCCACTAGGCATG 57.518 47.619 0.00 0.00 33.74 4.06
11 12 3.713764 AGAAGCACTATTCCACTAGGCAT 59.286 43.478 0.00 0.00 33.74 4.40
12 13 3.107601 AGAAGCACTATTCCACTAGGCA 58.892 45.455 0.00 0.00 33.74 4.75
13 14 3.828875 AGAAGCACTATTCCACTAGGC 57.171 47.619 0.00 0.00 33.74 3.93
14 15 4.407296 AGGAAGAAGCACTATTCCACTAGG 59.593 45.833 12.99 0.00 44.11 3.02
15 16 5.606348 AGGAAGAAGCACTATTCCACTAG 57.394 43.478 12.99 0.00 44.11 2.57
16 17 5.955959 TGTAGGAAGAAGCACTATTCCACTA 59.044 40.000 12.99 0.00 44.11 2.74
17 18 4.777896 TGTAGGAAGAAGCACTATTCCACT 59.222 41.667 12.99 0.00 44.11 4.00
18 19 5.086104 TGTAGGAAGAAGCACTATTCCAC 57.914 43.478 12.99 9.79 44.11 4.02
19 20 5.755409 TTGTAGGAAGAAGCACTATTCCA 57.245 39.130 12.99 0.00 44.11 3.53
20 21 6.655425 AGTTTTGTAGGAAGAAGCACTATTCC 59.345 38.462 4.49 4.49 42.37 3.01
21 22 7.674471 AGTTTTGTAGGAAGAAGCACTATTC 57.326 36.000 0.00 0.00 0.00 1.75
22 23 7.040409 CCAAGTTTTGTAGGAAGAAGCACTATT 60.040 37.037 0.00 0.00 0.00 1.73
23 24 6.431234 CCAAGTTTTGTAGGAAGAAGCACTAT 59.569 38.462 0.00 0.00 0.00 2.12
24 25 5.763204 CCAAGTTTTGTAGGAAGAAGCACTA 59.237 40.000 0.00 0.00 0.00 2.74
25 26 4.580580 CCAAGTTTTGTAGGAAGAAGCACT 59.419 41.667 0.00 0.00 0.00 4.40
26 27 4.578928 TCCAAGTTTTGTAGGAAGAAGCAC 59.421 41.667 0.00 0.00 0.00 4.40
27 28 4.578928 GTCCAAGTTTTGTAGGAAGAAGCA 59.421 41.667 0.00 0.00 0.00 3.91
28 29 4.023107 GGTCCAAGTTTTGTAGGAAGAAGC 60.023 45.833 0.00 0.00 0.00 3.86
29 30 4.519350 GGGTCCAAGTTTTGTAGGAAGAAG 59.481 45.833 0.00 0.00 0.00 2.85
30 31 4.167307 AGGGTCCAAGTTTTGTAGGAAGAA 59.833 41.667 0.00 0.00 0.00 2.52
31 32 3.720002 AGGGTCCAAGTTTTGTAGGAAGA 59.280 43.478 0.00 0.00 0.00 2.87
32 33 4.072839 GAGGGTCCAAGTTTTGTAGGAAG 58.927 47.826 0.00 0.00 0.00 3.46
33 34 3.181437 GGAGGGTCCAAGTTTTGTAGGAA 60.181 47.826 0.00 0.00 36.28 3.36
34 35 2.374170 GGAGGGTCCAAGTTTTGTAGGA 59.626 50.000 0.00 0.00 36.28 2.94
35 36 2.554564 GGGAGGGTCCAAGTTTTGTAGG 60.555 54.545 0.00 0.00 38.64 3.18
36 37 2.791655 GGGAGGGTCCAAGTTTTGTAG 58.208 52.381 0.00 0.00 38.64 2.74
37 38 1.072648 CGGGAGGGTCCAAGTTTTGTA 59.927 52.381 0.00 0.00 38.64 2.41
38 39 0.179001 CGGGAGGGTCCAAGTTTTGT 60.179 55.000 0.00 0.00 38.64 2.83
39 40 1.524008 GCGGGAGGGTCCAAGTTTTG 61.524 60.000 0.00 0.00 38.64 2.44
40 41 1.228459 GCGGGAGGGTCCAAGTTTT 60.228 57.895 0.00 0.00 38.64 2.43
41 42 0.838987 TAGCGGGAGGGTCCAAGTTT 60.839 55.000 0.00 0.00 38.64 2.66
42 43 0.838987 TTAGCGGGAGGGTCCAAGTT 60.839 55.000 0.00 0.00 38.64 2.66
43 44 0.620700 ATTAGCGGGAGGGTCCAAGT 60.621 55.000 0.00 0.00 38.64 3.16
44 45 0.179045 CATTAGCGGGAGGGTCCAAG 60.179 60.000 0.00 0.00 38.64 3.61
45 46 1.632018 CCATTAGCGGGAGGGTCCAA 61.632 60.000 0.00 0.00 38.64 3.53
46 47 2.070039 CCATTAGCGGGAGGGTCCA 61.070 63.158 0.00 0.00 38.64 4.02
47 48 2.829592 CCATTAGCGGGAGGGTCC 59.170 66.667 0.00 0.00 35.23 4.46
55 56 2.383245 ATCAGTCGGCCCATTAGCGG 62.383 60.000 0.00 0.00 34.61 5.52
56 57 1.069765 ATCAGTCGGCCCATTAGCG 59.930 57.895 0.00 0.00 0.00 4.26
57 58 0.179045 ACATCAGTCGGCCCATTAGC 60.179 55.000 0.00 0.00 0.00 3.09
58 59 2.289072 CCTACATCAGTCGGCCCATTAG 60.289 54.545 0.00 0.00 0.00 1.73
59 60 1.691976 CCTACATCAGTCGGCCCATTA 59.308 52.381 0.00 0.00 0.00 1.90
60 61 0.469917 CCTACATCAGTCGGCCCATT 59.530 55.000 0.00 0.00 0.00 3.16
61 62 1.410850 CCCTACATCAGTCGGCCCAT 61.411 60.000 0.00 0.00 29.49 4.00
62 63 2.063979 CCCTACATCAGTCGGCCCA 61.064 63.158 0.00 0.00 29.49 5.36
63 64 2.808206 CCCCTACATCAGTCGGCCC 61.808 68.421 0.00 0.00 29.49 5.80
64 65 2.808206 CCCCCTACATCAGTCGGCC 61.808 68.421 0.00 0.00 29.49 6.13
65 66 1.122019 ATCCCCCTACATCAGTCGGC 61.122 60.000 0.00 0.00 29.49 5.54
66 67 2.304221 TATCCCCCTACATCAGTCGG 57.696 55.000 0.00 0.00 0.00 4.79
67 68 4.891992 AAATATCCCCCTACATCAGTCG 57.108 45.455 0.00 0.00 0.00 4.18
68 69 6.004574 GGAAAAATATCCCCCTACATCAGTC 58.995 44.000 0.00 0.00 33.05 3.51
69 70 5.953571 GGAAAAATATCCCCCTACATCAGT 58.046 41.667 0.00 0.00 33.05 3.41
93 94 5.751990 GCTATGCAGAATCTTCCCAAAATTG 59.248 40.000 0.00 0.00 0.00 2.32
94 95 5.659971 AGCTATGCAGAATCTTCCCAAAATT 59.340 36.000 0.00 0.00 0.00 1.82
95 96 5.206587 AGCTATGCAGAATCTTCCCAAAAT 58.793 37.500 0.00 0.00 0.00 1.82
96 97 4.603131 AGCTATGCAGAATCTTCCCAAAA 58.397 39.130 0.00 0.00 0.00 2.44
97 98 4.240881 AGCTATGCAGAATCTTCCCAAA 57.759 40.909 0.00 0.00 0.00 3.28
98 99 3.939740 AGCTATGCAGAATCTTCCCAA 57.060 42.857 0.00 0.00 0.00 4.12
99 100 3.939740 AAGCTATGCAGAATCTTCCCA 57.060 42.857 0.00 0.00 0.00 4.37
100 101 5.359292 AGAAAAAGCTATGCAGAATCTTCCC 59.641 40.000 0.00 0.00 0.00 3.97
101 102 6.448207 AGAAAAAGCTATGCAGAATCTTCC 57.552 37.500 0.00 0.00 0.00 3.46
102 103 6.318396 AGGAGAAAAAGCTATGCAGAATCTTC 59.682 38.462 0.00 0.00 0.00 2.87
103 104 6.186234 AGGAGAAAAAGCTATGCAGAATCTT 58.814 36.000 0.00 0.00 0.00 2.40
104 105 5.753716 AGGAGAAAAAGCTATGCAGAATCT 58.246 37.500 0.00 0.00 0.00 2.40
105 106 5.821995 AGAGGAGAAAAAGCTATGCAGAATC 59.178 40.000 0.00 0.00 0.00 2.52
106 107 5.753716 AGAGGAGAAAAAGCTATGCAGAAT 58.246 37.500 0.00 0.00 0.00 2.40
107 108 5.171339 AGAGGAGAAAAAGCTATGCAGAA 57.829 39.130 0.00 0.00 0.00 3.02
108 109 4.833478 AGAGGAGAAAAAGCTATGCAGA 57.167 40.909 0.00 0.00 0.00 4.26
109 110 5.893897 AAAGAGGAGAAAAAGCTATGCAG 57.106 39.130 0.00 0.00 0.00 4.41
110 111 5.536161 ACAAAAGAGGAGAAAAAGCTATGCA 59.464 36.000 0.00 0.00 0.00 3.96
111 112 5.860716 CACAAAAGAGGAGAAAAAGCTATGC 59.139 40.000 0.00 0.00 0.00 3.14
112 113 6.974965 ACACAAAAGAGGAGAAAAAGCTATG 58.025 36.000 0.00 0.00 0.00 2.23
113 114 8.870075 ATACACAAAAGAGGAGAAAAAGCTAT 57.130 30.769 0.00 0.00 0.00 2.97
114 115 8.157476 AGATACACAAAAGAGGAGAAAAAGCTA 58.843 33.333 0.00 0.00 0.00 3.32
115 116 7.001073 AGATACACAAAAGAGGAGAAAAAGCT 58.999 34.615 0.00 0.00 0.00 3.74
116 117 7.208225 AGATACACAAAAGAGGAGAAAAAGC 57.792 36.000 0.00 0.00 0.00 3.51
117 118 8.624776 ACAAGATACACAAAAGAGGAGAAAAAG 58.375 33.333 0.00 0.00 0.00 2.27
118 119 8.405531 CACAAGATACACAAAAGAGGAGAAAAA 58.594 33.333 0.00 0.00 0.00 1.94
119 120 7.556275 ACACAAGATACACAAAAGAGGAGAAAA 59.444 33.333 0.00 0.00 0.00 2.29
120 121 7.012327 CACACAAGATACACAAAAGAGGAGAAA 59.988 37.037 0.00 0.00 0.00 2.52
121 122 6.483307 CACACAAGATACACAAAAGAGGAGAA 59.517 38.462 0.00 0.00 0.00 2.87
122 123 5.991606 CACACAAGATACACAAAAGAGGAGA 59.008 40.000 0.00 0.00 0.00 3.71
123 124 5.334414 GCACACAAGATACACAAAAGAGGAG 60.334 44.000 0.00 0.00 0.00 3.69
124 125 4.515191 GCACACAAGATACACAAAAGAGGA 59.485 41.667 0.00 0.00 0.00 3.71
125 126 4.320494 GGCACACAAGATACACAAAAGAGG 60.320 45.833 0.00 0.00 0.00 3.69
126 127 4.320494 GGGCACACAAGATACACAAAAGAG 60.320 45.833 0.00 0.00 0.00 2.85
127 128 3.568007 GGGCACACAAGATACACAAAAGA 59.432 43.478 0.00 0.00 0.00 2.52
128 129 3.569701 AGGGCACACAAGATACACAAAAG 59.430 43.478 0.00 0.00 0.00 2.27
129 130 3.561143 AGGGCACACAAGATACACAAAA 58.439 40.909 0.00 0.00 0.00 2.44
130 131 3.222173 AGGGCACACAAGATACACAAA 57.778 42.857 0.00 0.00 0.00 2.83
131 132 2.949177 AGGGCACACAAGATACACAA 57.051 45.000 0.00 0.00 0.00 3.33
132 133 2.949177 AAGGGCACACAAGATACACA 57.051 45.000 0.00 0.00 0.00 3.72
133 134 4.584327 AAAAAGGGCACACAAGATACAC 57.416 40.909 0.00 0.00 0.00 2.90
262 263 9.487442 TCCTAAATATTTAAAAGGCCAACAGAT 57.513 29.630 5.01 0.00 0.00 2.90
263 264 8.887264 TCCTAAATATTTAAAAGGCCAACAGA 57.113 30.769 5.01 0.00 0.00 3.41
264 265 9.366216 GTTCCTAAATATTTAAAAGGCCAACAG 57.634 33.333 5.01 0.00 0.00 3.16
265 266 8.030106 CGTTCCTAAATATTTAAAAGGCCAACA 58.970 33.333 5.01 0.00 0.00 3.33
266 267 7.490079 CCGTTCCTAAATATTTAAAAGGCCAAC 59.510 37.037 5.01 8.83 0.00 3.77
267 268 7.178805 ACCGTTCCTAAATATTTAAAAGGCCAA 59.821 33.333 17.52 5.54 0.00 4.52
268 269 6.664384 ACCGTTCCTAAATATTTAAAAGGCCA 59.336 34.615 17.52 4.73 0.00 5.36
269 270 7.104043 ACCGTTCCTAAATATTTAAAAGGCC 57.896 36.000 17.52 0.00 0.00 5.19
270 271 8.991243 AAACCGTTCCTAAATATTTAAAAGGC 57.009 30.769 17.52 4.72 0.00 4.35
283 284 9.465985 GTTCATGAATTTAAAAACCGTTCCTAA 57.534 29.630 12.12 0.00 0.00 2.69
284 285 8.630917 TGTTCATGAATTTAAAAACCGTTCCTA 58.369 29.630 12.12 0.00 0.00 2.94
285 286 7.493367 TGTTCATGAATTTAAAAACCGTTCCT 58.507 30.769 12.12 0.00 0.00 3.36
286 287 7.701809 TGTTCATGAATTTAAAAACCGTTCC 57.298 32.000 12.12 0.00 0.00 3.62
416 417 9.757227 TCCAAAGATTGTTCACGAATTTAAAAT 57.243 25.926 0.00 0.00 0.00 1.82
417 418 9.587772 TTCCAAAGATTGTTCACGAATTTAAAA 57.412 25.926 0.00 0.00 0.00 1.52
418 419 9.757227 ATTCCAAAGATTGTTCACGAATTTAAA 57.243 25.926 0.00 0.00 0.00 1.52
420 421 9.834628 GTATTCCAAAGATTGTTCACGAATTTA 57.165 29.630 0.00 0.00 0.00 1.40
421 422 8.356657 TGTATTCCAAAGATTGTTCACGAATTT 58.643 29.630 0.00 0.00 0.00 1.82
422 423 7.881142 TGTATTCCAAAGATTGTTCACGAATT 58.119 30.769 0.00 0.00 0.00 2.17
423 424 7.447374 TGTATTCCAAAGATTGTTCACGAAT 57.553 32.000 0.00 0.00 0.00 3.34
424 425 6.869315 TGTATTCCAAAGATTGTTCACGAA 57.131 33.333 0.00 0.00 0.00 3.85
425 426 8.731275 ATATGTATTCCAAAGATTGTTCACGA 57.269 30.769 0.00 0.00 0.00 4.35
426 427 9.787532 AAATATGTATTCCAAAGATTGTTCACG 57.212 29.630 0.00 0.00 0.00 4.35
456 457 8.843262 GGAAACAGCTACCTTTTAAAAGAGTAA 58.157 33.333 26.11 9.57 38.28 2.24
457 458 7.994334 TGGAAACAGCTACCTTTTAAAAGAGTA 59.006 33.333 26.11 22.13 35.28 2.59
458 459 6.831868 TGGAAACAGCTACCTTTTAAAAGAGT 59.168 34.615 26.11 22.18 35.28 3.24
459 460 7.272037 TGGAAACAGCTACCTTTTAAAAGAG 57.728 36.000 26.11 17.87 35.28 2.85
460 461 7.648039 TTGGAAACAGCTACCTTTTAAAAGA 57.352 32.000 26.11 9.00 44.54 2.52
461 462 8.194769 TCTTTGGAAACAGCTACCTTTTAAAAG 58.805 33.333 19.19 19.19 44.54 2.27
462 463 8.068892 TCTTTGGAAACAGCTACCTTTTAAAA 57.931 30.769 0.00 0.00 44.54 1.52
463 464 7.558444 TCTCTTTGGAAACAGCTACCTTTTAAA 59.442 33.333 0.00 0.00 44.54 1.52
464 465 7.057894 TCTCTTTGGAAACAGCTACCTTTTAA 58.942 34.615 0.00 0.00 44.54 1.52
465 466 6.597562 TCTCTTTGGAAACAGCTACCTTTTA 58.402 36.000 0.00 0.00 44.54 1.52
466 467 5.445964 TCTCTTTGGAAACAGCTACCTTTT 58.554 37.500 0.00 0.00 44.54 2.27
467 468 5.048846 TCTCTTTGGAAACAGCTACCTTT 57.951 39.130 0.00 0.00 44.54 3.11
468 469 4.646572 CTCTCTTTGGAAACAGCTACCTT 58.353 43.478 0.00 0.00 44.54 3.50
469 470 3.558109 GCTCTCTTTGGAAACAGCTACCT 60.558 47.826 0.00 0.00 44.54 3.08
470 471 2.744741 GCTCTCTTTGGAAACAGCTACC 59.255 50.000 0.00 0.00 44.54 3.18
471 472 3.403038 TGCTCTCTTTGGAAACAGCTAC 58.597 45.455 0.00 0.00 44.54 3.58
472 473 3.324846 TCTGCTCTCTTTGGAAACAGCTA 59.675 43.478 0.00 0.00 44.54 3.32
473 474 2.105477 TCTGCTCTCTTTGGAAACAGCT 59.895 45.455 0.00 0.00 44.54 4.24
508 509 3.879295 CTGTTGAGTGTTCACTTCCACAT 59.121 43.478 6.91 0.00 33.99 3.21
516 517 0.582005 GGTCGCTGTTGAGTGTTCAC 59.418 55.000 0.00 0.00 31.71 3.18
528 529 0.609131 ACTGGGGAAAATGGTCGCTG 60.609 55.000 0.00 0.00 0.00 5.18
537 538 2.039084 GAGCTCTCAAGACTGGGGAAAA 59.961 50.000 6.43 0.00 0.00 2.29
550 551 2.510012 CCGCGCATTGAGCTCTCA 60.510 61.111 16.19 1.52 42.61 3.27
563 564 4.030366 GGATTTAAAATTTACGGACCGCG 58.970 43.478 15.39 0.00 0.00 6.46
566 567 6.180771 TCACGGATTTAAAATTTACGGACC 57.819 37.500 0.00 0.00 0.00 4.46
701 715 7.121759 CACCTCCACATCAAATATCTGTTTTCT 59.878 37.037 0.00 0.00 0.00 2.52
708 722 5.882557 GTGTTCACCTCCACATCAAATATCT 59.117 40.000 0.00 0.00 0.00 1.98
710 724 5.819991 AGTGTTCACCTCCACATCAAATAT 58.180 37.500 0.00 0.00 33.99 1.28
729 743 2.586258 AATCGATCGCTGCTAAGTGT 57.414 45.000 11.09 0.00 35.32 3.55
734 748 1.865865 GGGAAAATCGATCGCTGCTA 58.134 50.000 11.09 0.00 0.00 3.49
743 757 0.738412 GGCTTCGACGGGAAAATCGA 60.738 55.000 0.00 0.00 45.17 3.59
765 780 0.178068 GGCCCATTTAGCTCTCACGA 59.822 55.000 0.00 0.00 0.00 4.35
787 802 2.104253 CGTTACGGTGGTGGATGGC 61.104 63.158 0.00 0.00 0.00 4.40
793 808 0.316360 GTTTGCACGTTACGGTGGTG 60.316 55.000 10.20 0.00 38.36 4.17
796 811 2.368685 GAAAGTTTGCACGTTACGGTG 58.631 47.619 10.20 6.35 40.89 4.94
797 812 1.004715 CGAAAGTTTGCACGTTACGGT 60.005 47.619 10.20 0.00 0.00 4.83
799 814 2.216940 TCTCGAAAGTTTGCACGTTACG 59.783 45.455 2.19 2.19 0.00 3.18
800 815 3.847037 TCTCGAAAGTTTGCACGTTAC 57.153 42.857 0.00 0.00 0.00 2.50
801 816 4.375606 CGATTCTCGAAAGTTTGCACGTTA 60.376 41.667 0.00 0.00 43.74 3.18
802 817 3.603857 CGATTCTCGAAAGTTTGCACGTT 60.604 43.478 0.00 0.00 43.74 3.99
803 818 2.096909 CGATTCTCGAAAGTTTGCACGT 60.097 45.455 0.00 0.00 43.74 4.49
830 877 1.951130 ACGTCTGCTGCAAGACACG 60.951 57.895 22.66 19.82 45.77 4.49
839 886 2.505777 CGCCTCTCACGTCTGCTG 60.506 66.667 0.00 0.00 0.00 4.41
899 946 5.276270 TCGCGTGACCTATAATAACTCAAC 58.724 41.667 5.77 0.00 0.00 3.18
900 947 5.503662 TCGCGTGACCTATAATAACTCAA 57.496 39.130 5.77 0.00 0.00 3.02
901 948 5.700722 ATCGCGTGACCTATAATAACTCA 57.299 39.130 5.77 0.00 0.00 3.41
1039 1093 0.671781 CCTGTCTCCTTGGCGACTTG 60.672 60.000 10.58 4.52 0.00 3.16
1445 1499 0.821711 CAGCCGGAAAAACCCTCACA 60.822 55.000 5.05 0.00 34.64 3.58
1563 1618 9.788960 CATGTATGTAGATGTAGTAATGCGTAT 57.211 33.333 0.00 0.00 0.00 3.06
1573 1628 8.818141 AAAACGATCCATGTATGTAGATGTAG 57.182 34.615 0.00 0.00 0.00 2.74
1597 1652 4.181309 ACAACGGCTCAAGAAACAAAAA 57.819 36.364 0.00 0.00 0.00 1.94
1598 1653 3.859411 ACAACGGCTCAAGAAACAAAA 57.141 38.095 0.00 0.00 0.00 2.44
1649 1725 4.767928 CCTCGTTGGGCTCTAGATTATACT 59.232 45.833 0.00 0.00 0.00 2.12
1703 1830 0.697079 AGGAGTACGGTGGAGACTGA 59.303 55.000 0.00 0.00 32.19 3.41
1748 1875 9.132521 GCATAGTCAATTGTAATAATTCCATGC 57.867 33.333 5.13 4.32 0.00 4.06
1762 1889 4.122046 TCAGTGATCCGCATAGTCAATTG 58.878 43.478 0.00 0.00 0.00 2.32
1834 1966 6.811954 TGTATGCCAAGAACGATAACTGATA 58.188 36.000 0.00 0.00 0.00 2.15
1842 1974 6.479001 GTGTATAACTGTATGCCAAGAACGAT 59.521 38.462 0.00 0.00 0.00 3.73
1857 1989 2.613691 GGTGTGGGTCGTGTATAACTG 58.386 52.381 0.00 0.00 0.00 3.16
1923 2058 0.759959 TTGTACGGCCACTTCTTCCA 59.240 50.000 2.24 0.00 0.00 3.53
1979 2114 3.117963 TGTGTGGATCATGCATGTATGGA 60.118 43.478 25.43 7.04 0.00 3.41
1983 2118 2.642427 GGTGTGTGGATCATGCATGTA 58.358 47.619 25.43 13.19 0.00 2.29
2004 2139 2.030363 TGCTAGTTTTTGCCGATTGTGG 60.030 45.455 0.00 0.00 0.00 4.17
2030 2165 3.728474 GCAGATGCCCTCGACATG 58.272 61.111 0.00 0.00 34.31 3.21
2053 2188 3.330701 TCTCAAAGCCATTAGGGAACTGT 59.669 43.478 0.00 0.00 43.88 3.55
2239 2378 0.751277 CCAAGCCACACACACCTTCA 60.751 55.000 0.00 0.00 0.00 3.02
2295 2437 5.963594 ACGACCTTATAGAAAAGTGGACTC 58.036 41.667 0.00 0.00 0.00 3.36
2310 2452 3.595173 CACCATGAACATGACGACCTTA 58.405 45.455 15.21 0.00 41.20 2.69
2350 2492 0.548031 GAGCCAGAATCCCACCATGA 59.452 55.000 0.00 0.00 0.00 3.07
2351 2493 0.549950 AGAGCCAGAATCCCACCATG 59.450 55.000 0.00 0.00 0.00 3.66
2352 2494 1.213926 GAAGAGCCAGAATCCCACCAT 59.786 52.381 0.00 0.00 0.00 3.55
2373 2516 7.798596 ATGTAACCTCATGATCAAATCTCAC 57.201 36.000 0.00 0.00 0.00 3.51
2383 2526 5.036117 ACGCCTTTATGTAACCTCATGAT 57.964 39.130 0.00 0.00 0.00 2.45
2387 2530 5.129815 AGGAATACGCCTTTATGTAACCTCA 59.870 40.000 0.00 0.00 33.46 3.86
2398 2541 6.944096 AGTCTAACTTAAGGAATACGCCTTT 58.056 36.000 7.53 0.00 45.85 3.11
2410 2553 6.780706 TGGCTTTTCGAAGTCTAACTTAAG 57.219 37.500 0.00 0.00 38.80 1.85


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

AutoCloner maintained by Alex Coulton.