Multiple sequence alignment - TraesCS5D01G476900

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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 TraesCS5D01G476900 chr5D 100.000 3097 0 0 1 3097 515666593 515669689 0.000000e+00 5720.0
1 TraesCS5D01G476900 chr5D 91.176 102 8 1 2755 2855 442545659 442545760 1.500000e-28 137.0
2 TraesCS5D01G476900 chr5D 92.754 69 5 0 2620 2688 415263949 415263881 1.970000e-17 100.0
3 TraesCS5D01G476900 chr5A 89.825 2339 193 25 238 2556 643916849 643919162 0.000000e+00 2959.0
4 TraesCS5D01G476900 chr5A 88.150 346 39 2 2753 3097 643919317 643919661 7.990000e-111 411.0
5 TraesCS5D01G476900 chr5B 87.500 2480 198 60 128 2585 648279538 648281927 0.000000e+00 2760.0
6 TraesCS5D01G476900 chr5B 87.297 1661 136 25 804 2441 648615981 648614373 0.000000e+00 1829.0
7 TraesCS5D01G476900 chr5B 88.022 1077 88 15 271 1343 648331103 648332142 0.000000e+00 1236.0
8 TraesCS5D01G476900 chr5B 93.333 345 21 2 2754 3097 648282096 648282439 2.760000e-140 508.0
9 TraesCS5D01G476900 chr5B 95.000 100 5 0 2626 2725 648281926 648282025 1.150000e-34 158.0
10 TraesCS5D01G476900 chr5B 91.176 102 8 1 2755 2855 217612609 217612508 1.500000e-28 137.0
11 TraesCS5D01G476900 chr5B 91.304 69 5 1 2620 2688 538724046 538723979 3.290000e-15 93.5
12 TraesCS5D01G476900 chr2D 91.262 103 8 1 2755 2856 284573364 284573262 4.160000e-29 139.0
13 TraesCS5D01G476900 chr7D 91.176 102 8 1 2755 2855 31467209 31467310 1.500000e-28 137.0
14 TraesCS5D01G476900 chr4D 91.176 102 8 1 2755 2855 65137067 65137168 1.500000e-28 137.0
15 TraesCS5D01G476900 chr4A 91.176 102 8 1 2755 2855 164877568 164877467 1.500000e-28 137.0
16 TraesCS5D01G476900 chr1D 91.176 102 8 1 2755 2855 177983347 177983448 1.500000e-28 137.0
17 TraesCS5D01G476900 chr6D 95.522 67 3 0 2620 2686 377341737 377341671 1.170000e-19 108.0
18 TraesCS5D01G476900 chr6A 95.522 67 3 0 2620 2686 460643431 460643365 1.170000e-19 108.0
19 TraesCS5D01G476900 chr6A 94.030 67 4 0 2620 2686 518785629 518785563 5.460000e-18 102.0
20 TraesCS5D01G476900 chr3A 94.118 68 3 1 2622 2688 684589747 684589814 5.460000e-18 102.0
21 TraesCS5D01G476900 chr1B 95.161 62 3 0 2628 2689 132296772 132296711 7.070000e-17 99.0
22 TraesCS5D01G476900 chr1B 91.304 69 6 0 2620 2688 132296717 132296785 9.140000e-16 95.3


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 TraesCS5D01G476900 chr5D 515666593 515669689 3096 False 5720 5720 100.000000 1 3097 1 chr5D.!!$F2 3096
1 TraesCS5D01G476900 chr5A 643916849 643919661 2812 False 1685 2959 88.987500 238 3097 2 chr5A.!!$F1 2859
2 TraesCS5D01G476900 chr5B 648614373 648615981 1608 True 1829 1829 87.297000 804 2441 1 chr5B.!!$R3 1637
3 TraesCS5D01G476900 chr5B 648331103 648332142 1039 False 1236 1236 88.022000 271 1343 1 chr5B.!!$F1 1072
4 TraesCS5D01G476900 chr5B 648279538 648282439 2901 False 1142 2760 91.944333 128 3097 3 chr5B.!!$F2 2969

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
754 767 0.033504 AGCACCAGACGTGTTGTAGG 59.966 55.0 0.0 0.0 44.97 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2744 2809 0.036388 GCCTCCAGAAACGTCATGGA 60.036 55.0 13.74 13.74 40.8 3.41 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
24 25 7.646446 TTTTTGTTGATTCTCGATCGACTAA 57.354 32.000 15.15 11.95 45.70 2.24
25 26 6.871044 TTTGTTGATTCTCGATCGACTAAG 57.129 37.500 15.15 4.58 45.70 2.18
26 27 4.921547 TGTTGATTCTCGATCGACTAAGG 58.078 43.478 15.15 4.16 45.70 2.69
27 28 4.638865 TGTTGATTCTCGATCGACTAAGGA 59.361 41.667 15.15 6.82 45.70 3.36
28 29 5.299531 TGTTGATTCTCGATCGACTAAGGAT 59.700 40.000 15.15 4.49 45.70 3.24
29 30 6.183360 TGTTGATTCTCGATCGACTAAGGATT 60.183 38.462 15.15 6.09 45.70 3.01
30 31 6.392625 TGATTCTCGATCGACTAAGGATTT 57.607 37.500 15.15 0.70 37.60 2.17
31 32 6.439599 TGATTCTCGATCGACTAAGGATTTC 58.560 40.000 15.15 9.97 37.60 2.17
32 33 6.263392 TGATTCTCGATCGACTAAGGATTTCT 59.737 38.462 15.15 0.00 37.60 2.52
33 34 6.452494 TTCTCGATCGACTAAGGATTTCTT 57.548 37.500 15.15 0.00 39.40 2.52
34 35 7.563888 TTCTCGATCGACTAAGGATTTCTTA 57.436 36.000 15.15 0.00 36.93 2.10
35 36 7.747155 TCTCGATCGACTAAGGATTTCTTAT 57.253 36.000 15.15 0.00 37.33 1.73
36 37 8.167605 TCTCGATCGACTAAGGATTTCTTATT 57.832 34.615 15.15 0.00 37.33 1.40
37 38 9.281371 TCTCGATCGACTAAGGATTTCTTATTA 57.719 33.333 15.15 0.00 37.33 0.98
38 39 9.332301 CTCGATCGACTAAGGATTTCTTATTAC 57.668 37.037 15.15 0.00 37.33 1.89
39 40 8.843262 TCGATCGACTAAGGATTTCTTATTACA 58.157 33.333 15.15 0.00 37.33 2.41
40 41 8.903723 CGATCGACTAAGGATTTCTTATTACAC 58.096 37.037 10.26 0.00 37.33 2.90
41 42 9.745880 GATCGACTAAGGATTTCTTATTACACA 57.254 33.333 0.00 0.00 37.33 3.72
48 49 7.787725 AGGATTTCTTATTACACAATCGACC 57.212 36.000 0.00 0.00 0.00 4.79
49 50 6.766467 AGGATTTCTTATTACACAATCGACCC 59.234 38.462 0.00 0.00 0.00 4.46
50 51 6.766467 GGATTTCTTATTACACAATCGACCCT 59.234 38.462 0.00 0.00 0.00 4.34
51 52 6.978343 TTTCTTATTACACAATCGACCCTG 57.022 37.500 0.00 0.00 0.00 4.45
52 53 5.925506 TCTTATTACACAATCGACCCTGA 57.074 39.130 0.00 0.00 0.00 3.86
53 54 5.902681 TCTTATTACACAATCGACCCTGAG 58.097 41.667 0.00 0.00 0.00 3.35
54 55 5.655090 TCTTATTACACAATCGACCCTGAGA 59.345 40.000 0.00 0.00 0.00 3.27
55 56 3.868757 TTACACAATCGACCCTGAGAG 57.131 47.619 0.00 0.00 0.00 3.20
56 57 0.247736 ACACAATCGACCCTGAGAGC 59.752 55.000 0.00 0.00 0.00 4.09
57 58 0.460987 CACAATCGACCCTGAGAGCC 60.461 60.000 0.00 0.00 0.00 4.70
58 59 0.904865 ACAATCGACCCTGAGAGCCA 60.905 55.000 0.00 0.00 0.00 4.75
59 60 0.467384 CAATCGACCCTGAGAGCCAT 59.533 55.000 0.00 0.00 0.00 4.40
60 61 1.688735 CAATCGACCCTGAGAGCCATA 59.311 52.381 0.00 0.00 0.00 2.74
61 62 1.626686 ATCGACCCTGAGAGCCATAG 58.373 55.000 0.00 0.00 0.00 2.23
62 63 0.551396 TCGACCCTGAGAGCCATAGA 59.449 55.000 0.00 0.00 0.00 1.98
63 64 1.145945 TCGACCCTGAGAGCCATAGAT 59.854 52.381 0.00 0.00 0.00 1.98
64 65 1.543802 CGACCCTGAGAGCCATAGATC 59.456 57.143 0.00 0.00 0.00 2.75
65 66 1.899142 GACCCTGAGAGCCATAGATCC 59.101 57.143 0.00 0.00 0.00 3.36
66 67 1.221523 ACCCTGAGAGCCATAGATCCA 59.778 52.381 0.00 0.00 0.00 3.41
67 68 1.901159 CCCTGAGAGCCATAGATCCAG 59.099 57.143 0.00 0.00 30.87 3.86
68 69 2.492381 CCCTGAGAGCCATAGATCCAGA 60.492 54.545 0.00 0.00 31.99 3.86
69 70 2.827322 CCTGAGAGCCATAGATCCAGAG 59.173 54.545 0.00 0.00 31.99 3.35
70 71 2.827322 CTGAGAGCCATAGATCCAGAGG 59.173 54.545 0.00 0.00 31.99 3.69
71 72 2.448577 TGAGAGCCATAGATCCAGAGGA 59.551 50.000 0.00 0.00 35.55 3.71
72 73 3.077240 TGAGAGCCATAGATCCAGAGGAT 59.923 47.826 0.00 0.00 46.28 3.24
73 74 4.293368 TGAGAGCCATAGATCCAGAGGATA 59.707 45.833 0.00 0.00 43.27 2.59
74 75 4.609301 AGAGCCATAGATCCAGAGGATAC 58.391 47.826 0.00 0.00 43.27 2.24
75 76 4.045207 AGAGCCATAGATCCAGAGGATACA 59.955 45.833 0.00 0.00 43.27 2.29
76 77 4.957830 AGCCATAGATCCAGAGGATACAT 58.042 43.478 0.00 0.00 43.27 2.29
77 78 6.068557 AGAGCCATAGATCCAGAGGATACATA 60.069 42.308 0.00 0.00 43.27 2.29
78 79 6.691578 AGCCATAGATCCAGAGGATACATAT 58.308 40.000 0.00 0.00 43.27 1.78
79 80 7.830912 AGCCATAGATCCAGAGGATACATATA 58.169 38.462 0.00 0.00 43.27 0.86
80 81 7.728083 AGCCATAGATCCAGAGGATACATATAC 59.272 40.741 0.00 0.00 43.27 1.47
81 82 7.507277 GCCATAGATCCAGAGGATACATATACA 59.493 40.741 0.00 0.00 43.27 2.29
82 83 8.855110 CCATAGATCCAGAGGATACATATACAC 58.145 40.741 0.00 0.00 43.27 2.90
83 84 9.639563 CATAGATCCAGAGGATACATATACACT 57.360 37.037 0.00 0.00 43.27 3.55
84 85 9.860650 ATAGATCCAGAGGATACATATACACTC 57.139 37.037 0.00 0.00 43.27 3.51
85 86 7.938686 AGATCCAGAGGATACATATACACTCT 58.061 38.462 0.00 0.00 43.27 3.24
86 87 8.397957 AGATCCAGAGGATACATATACACTCTT 58.602 37.037 0.00 0.00 43.27 2.85
87 88 8.964533 ATCCAGAGGATACATATACACTCTTT 57.035 34.615 0.00 0.00 41.16 2.52
88 89 8.783660 TCCAGAGGATACATATACACTCTTTT 57.216 34.615 0.00 0.00 41.41 2.27
89 90 8.642432 TCCAGAGGATACATATACACTCTTTTG 58.358 37.037 0.00 0.00 41.41 2.44
90 91 8.424918 CCAGAGGATACATATACACTCTTTTGT 58.575 37.037 0.00 0.00 41.41 2.83
102 103 8.967664 ATACACTCTTTTGTAGTAAACCAACA 57.032 30.769 0.00 0.00 35.44 3.33
103 104 7.690952 ACACTCTTTTGTAGTAAACCAACAA 57.309 32.000 0.00 0.00 0.00 2.83
104 105 8.113173 ACACTCTTTTGTAGTAAACCAACAAA 57.887 30.769 7.08 7.08 40.36 2.83
105 106 8.745590 ACACTCTTTTGTAGTAAACCAACAAAT 58.254 29.630 10.43 0.00 41.34 2.32
106 107 9.581099 CACTCTTTTGTAGTAAACCAACAAATT 57.419 29.630 10.43 0.00 41.34 1.82
116 117 8.611654 AGTAAACCAACAAATTACTACACGAT 57.388 30.769 0.00 0.00 37.92 3.73
117 118 9.709495 AGTAAACCAACAAATTACTACACGATA 57.291 29.630 0.00 0.00 37.92 2.92
135 136 6.759827 ACACGATAAATATCTTTTACGTGCCT 59.240 34.615 22.01 10.70 45.37 4.75
148 149 9.005777 TCTTTTACGTGCCTATGACTAAATTTT 57.994 29.630 0.00 0.00 0.00 1.82
165 166 9.673454 ACTAAATTTTGTAAAATCGGTTCTGAC 57.327 29.630 3.32 0.00 37.62 3.51
166 167 9.672086 CTAAATTTTGTAAAATCGGTTCTGACA 57.328 29.630 0.00 0.00 37.62 3.58
175 176 3.401033 TCGGTTCTGACATGTTCATGT 57.599 42.857 16.78 16.78 37.50 3.21
185 186 2.887783 ACATGTTCATGTACGGCCAAAA 59.112 40.909 15.51 0.00 32.14 2.44
230 232 9.167311 ACAGAATTGTAGAAACTTACATGGATC 57.833 33.333 0.00 0.00 35.25 3.36
231 233 9.166173 CAGAATTGTAGAAACTTACATGGATCA 57.834 33.333 0.00 0.00 33.81 2.92
232 234 9.911788 AGAATTGTAGAAACTTACATGGATCAT 57.088 29.630 0.00 0.00 33.81 2.45
233 235 9.941664 GAATTGTAGAAACTTACATGGATCATG 57.058 33.333 6.37 6.37 46.18 3.07
234 236 9.685276 AATTGTAGAAACTTACATGGATCATGA 57.315 29.630 13.96 0.00 43.81 3.07
235 237 8.722480 TTGTAGAAACTTACATGGATCATGAG 57.278 34.615 13.96 5.26 43.81 2.90
236 238 7.851228 TGTAGAAACTTACATGGATCATGAGT 58.149 34.615 13.96 5.82 43.81 3.41
266 268 3.372206 GTCAAATCGAGGGTTCTCATGTG 59.628 47.826 0.00 0.00 39.95 3.21
274 276 4.074970 GAGGGTTCTCATGTGTCAACATT 58.925 43.478 0.00 0.00 44.94 2.71
294 296 2.746269 TGACCGAGAAACAAGTAACCG 58.254 47.619 0.00 0.00 0.00 4.44
295 297 2.101249 TGACCGAGAAACAAGTAACCGT 59.899 45.455 0.00 0.00 0.00 4.83
328 330 7.281100 ACTGAAAATTAGCAGACAAGTATAGCC 59.719 37.037 12.80 0.00 36.07 3.93
452 457 6.591448 ACATTGACATATGGATGCATACTACG 59.409 38.462 11.02 1.69 36.43 3.51
592 601 5.108254 GCGATTTTCACTTTTTGTGTAGCTG 60.108 40.000 0.00 0.00 46.27 4.24
629 638 1.265635 TCTCACGAAAAATTGCCCACG 59.734 47.619 0.00 0.00 0.00 4.94
701 710 6.111382 TGAACCTTTGAAATGCAATTGTTGA 58.889 32.000 7.40 0.00 36.10 3.18
703 712 7.282675 TGAACCTTTGAAATGCAATTGTTGAAT 59.717 29.630 7.40 0.00 36.10 2.57
753 766 1.419374 GAGCACCAGACGTGTTGTAG 58.581 55.000 0.00 0.00 44.97 2.74
754 767 0.033504 AGCACCAGACGTGTTGTAGG 59.966 55.000 0.00 0.00 44.97 3.18
756 769 1.808891 GCACCAGACGTGTTGTAGGTT 60.809 52.381 0.00 0.00 44.97 3.50
763 776 3.056749 AGACGTGTTGTAGGTTGGAGATC 60.057 47.826 0.00 0.00 0.00 2.75
832 845 1.762222 CGCTTTATTCCCTCGCACCG 61.762 60.000 0.00 0.00 0.00 4.94
833 846 2.014594 CTTTATTCCCTCGCACCGC 58.985 57.895 0.00 0.00 0.00 5.68
835 848 3.726595 TTATTCCCTCGCACCGCCG 62.727 63.158 0.00 0.00 0.00 6.46
905 918 6.485171 CCCTCTCTTCTTTTCTTTCCCATTA 58.515 40.000 0.00 0.00 0.00 1.90
906 919 6.948309 CCCTCTCTTCTTTTCTTTCCCATTAA 59.052 38.462 0.00 0.00 0.00 1.40
925 939 7.417456 CCCATTAATTTTCCCTAGCTACAAACC 60.417 40.741 0.00 0.00 0.00 3.27
929 943 1.188863 TCCCTAGCTACAAACCCGTC 58.811 55.000 0.00 0.00 0.00 4.79
947 961 2.547211 CGTCTCATTCCCATCATGAAGC 59.453 50.000 0.00 0.00 30.12 3.86
972 986 7.423199 CGATCCATTTGATTTGATTGAGACAT 58.577 34.615 0.00 0.00 32.41 3.06
1170 1184 3.716006 GACGACGACGACCGGACA 61.716 66.667 15.32 0.00 43.93 4.02
1418 1445 3.114693 CGAAGCAAGAAGTTCTGCATC 57.885 47.619 21.50 18.72 0.00 3.91
1421 1448 1.811359 AGCAAGAAGTTCTGCATCAGC 59.189 47.619 21.50 13.05 42.57 4.26
1440 1467 0.678684 CAGCAGGTGCATGTCCATGA 60.679 55.000 11.35 0.00 45.16 3.07
1506 1536 1.430369 AAGGCCAAGTCCAGGAAGCT 61.430 55.000 5.01 0.00 0.00 3.74
1577 1607 4.357947 GGACGAGGCAGCACGACA 62.358 66.667 16.17 0.00 0.00 4.35
1597 1627 2.033757 AAGCTGCTGGACCTGCTG 59.966 61.111 22.29 21.74 39.51 4.41
1978 2028 4.803426 CCCGCGTCTGGCTCTGAC 62.803 72.222 4.92 3.25 40.44 3.51
2140 2194 2.797156 CACAGTTCACACTCTGTACAGC 59.203 50.000 18.45 1.39 42.05 4.40
2153 2207 2.357009 CTGTACAGCTGGATGAATTGGC 59.643 50.000 19.93 0.00 0.00 4.52
2167 2221 0.171007 ATTGGCTGCGGATTTGAACG 59.829 50.000 0.00 0.00 0.00 3.95
2195 2249 5.106634 TGTTTCCGTTGGACATATTTTACCG 60.107 40.000 0.00 0.00 0.00 4.02
2196 2250 4.468765 TCCGTTGGACATATTTTACCGA 57.531 40.909 0.00 0.00 0.00 4.69
2289 2345 5.428253 AGCTCTGCCGATTTCATTAAGTTA 58.572 37.500 0.00 0.00 0.00 2.24
2290 2346 5.294552 AGCTCTGCCGATTTCATTAAGTTAC 59.705 40.000 0.00 0.00 0.00 2.50
2329 2386 9.575783 ACACGTTTAATATTCACAAACAACTTT 57.424 25.926 11.14 0.00 32.85 2.66
2458 2523 4.561254 AAAAGATAGGGGAGAGGCTAGA 57.439 45.455 0.00 0.00 0.00 2.43
2475 2540 4.799428 GGCTAGATGTAAGTCGACAGAAAC 59.201 45.833 19.50 10.15 31.51 2.78
2492 2557 7.360101 CGACAGAAACTAAATTTAGGGTCAGTG 60.360 40.741 25.25 17.96 35.08 3.66
2543 2608 1.741732 CGGTGGAGATGCCTTCTTCTG 60.742 57.143 0.00 0.00 33.74 3.02
2551 2616 2.046507 CCTTCTTCTGCCTGCGCT 60.047 61.111 9.73 0.00 35.36 5.92
2564 2629 0.749818 CTGCGCTCCTCTCTCCACTA 60.750 60.000 9.73 0.00 0.00 2.74
2568 2633 1.611491 CGCTCCTCTCTCCACTATTCC 59.389 57.143 0.00 0.00 0.00 3.01
2583 2648 2.711978 ATTCCTTTTCTACCTCCGGC 57.288 50.000 0.00 0.00 0.00 6.13
2584 2649 0.616891 TTCCTTTTCTACCTCCGGCC 59.383 55.000 0.00 0.00 0.00 6.13
2585 2650 0.545787 TCCTTTTCTACCTCCGGCCA 60.546 55.000 2.24 0.00 0.00 5.36
2586 2651 0.107654 CCTTTTCTACCTCCGGCCAG 60.108 60.000 2.24 0.00 0.00 4.85
2587 2652 0.744771 CTTTTCTACCTCCGGCCAGC 60.745 60.000 2.24 0.00 0.00 4.85
2588 2653 2.193087 TTTTCTACCTCCGGCCAGCC 62.193 60.000 2.24 0.00 0.00 4.85
2589 2654 3.916438 TTCTACCTCCGGCCAGCCA 62.916 63.158 9.78 0.00 35.37 4.75
2590 2655 4.162690 CTACCTCCGGCCAGCCAC 62.163 72.222 9.78 0.00 35.37 5.01
2594 2659 4.641645 CTCCGGCCAGCCACACAA 62.642 66.667 9.78 0.00 35.37 3.33
2599 2664 3.297620 GCCAGCCACACAACCCTG 61.298 66.667 0.00 0.00 0.00 4.45
2601 2666 1.898574 CCAGCCACACAACCCTGTC 60.899 63.158 0.00 0.00 31.64 3.51
2606 2671 0.110295 CCACACAACCCTGTCCATGA 59.890 55.000 0.00 0.00 31.64 3.07
2615 2680 2.834549 ACCCTGTCCATGACTAGTTCTG 59.165 50.000 0.00 0.00 33.15 3.02
2620 2685 3.258372 TGTCCATGACTAGTTCTGTGGTC 59.742 47.826 0.00 2.50 34.25 4.02
2621 2686 2.832129 TCCATGACTAGTTCTGTGGTCC 59.168 50.000 0.00 0.00 34.25 4.46
2622 2687 2.093447 CCATGACTAGTTCTGTGGTCCC 60.093 54.545 0.00 0.00 0.00 4.46
2623 2688 2.696526 TGACTAGTTCTGTGGTCCCT 57.303 50.000 0.00 0.00 0.00 4.20
2624 2689 2.972348 TGACTAGTTCTGTGGTCCCTT 58.028 47.619 0.00 0.00 0.00 3.95
2700 2765 4.027437 AGGGAGTACTTCAGTCCTTCATC 58.973 47.826 2.92 0.00 45.14 2.92
2717 2782 6.601613 TCCTTCATCTCTCTCTTTACAGTCTC 59.398 42.308 0.00 0.00 0.00 3.36
2725 2790 8.110271 TCTCTCTCTTTACAGTCTCCTTTCATA 58.890 37.037 0.00 0.00 0.00 2.15
2727 2792 8.690884 TCTCTCTTTACAGTCTCCTTTCATATG 58.309 37.037 0.00 0.00 0.00 1.78
2728 2793 7.268586 TCTCTTTACAGTCTCCTTTCATATGC 58.731 38.462 0.00 0.00 0.00 3.14
2730 2795 6.818644 TCTTTACAGTCTCCTTTCATATGCAC 59.181 38.462 0.00 0.00 0.00 4.57
2732 2797 4.511527 ACAGTCTCCTTTCATATGCACTG 58.488 43.478 0.00 4.16 36.81 3.66
2733 2798 4.223700 ACAGTCTCCTTTCATATGCACTGA 59.776 41.667 0.00 0.00 35.15 3.41
2734 2799 5.181009 CAGTCTCCTTTCATATGCACTGAA 58.819 41.667 8.98 8.98 33.30 3.02
2743 2808 4.763073 TCATATGCACTGAAAGGAGACTG 58.237 43.478 0.00 0.00 42.68 3.51
2744 2809 4.223700 TCATATGCACTGAAAGGAGACTGT 59.776 41.667 0.00 0.00 42.68 3.55
2745 2810 2.533266 TGCACTGAAAGGAGACTGTC 57.467 50.000 0.00 0.00 45.64 3.51
2783 2890 1.267806 CCTGCGCTAAATATGCCCAAG 59.732 52.381 9.73 0.00 0.00 3.61
2813 2920 4.213270 CAGACGATGTTGGACAAGCTTTTA 59.787 41.667 0.00 0.00 0.00 1.52
2881 2989 9.303116 TCAATTGTTGGGCTTTATAAGAAAGTA 57.697 29.630 5.13 0.00 0.00 2.24
3048 3156 8.947055 AGTATTTGAAAACTTCAGCAAATGTT 57.053 26.923 0.00 0.00 41.38 2.71
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.148639 CCTTAGTCGATCGAGAATCAACAAAAA 60.149 37.037 20.09 1.38 33.65 1.94
1 2 6.310467 CCTTAGTCGATCGAGAATCAACAAAA 59.690 38.462 20.09 3.68 33.65 2.44
2 3 5.805486 CCTTAGTCGATCGAGAATCAACAAA 59.195 40.000 20.09 2.02 33.65 2.83
3 4 5.124936 TCCTTAGTCGATCGAGAATCAACAA 59.875 40.000 20.09 3.17 33.65 2.83
4 5 4.638865 TCCTTAGTCGATCGAGAATCAACA 59.361 41.667 20.09 0.00 33.65 3.33
5 6 5.171147 TCCTTAGTCGATCGAGAATCAAC 57.829 43.478 20.09 5.32 33.65 3.18
6 7 6.392625 AATCCTTAGTCGATCGAGAATCAA 57.607 37.500 20.09 7.27 33.65 2.57
7 8 6.263392 AGAAATCCTTAGTCGATCGAGAATCA 59.737 38.462 20.09 5.73 33.65 2.57
8 9 6.674066 AGAAATCCTTAGTCGATCGAGAATC 58.326 40.000 20.09 13.54 0.00 2.52
9 10 6.642707 AGAAATCCTTAGTCGATCGAGAAT 57.357 37.500 20.09 10.28 0.00 2.40
10 11 6.452494 AAGAAATCCTTAGTCGATCGAGAA 57.548 37.500 20.09 14.56 32.24 2.87
11 12 7.747155 ATAAGAAATCCTTAGTCGATCGAGA 57.253 36.000 20.09 12.33 40.40 4.04
12 13 9.332301 GTAATAAGAAATCCTTAGTCGATCGAG 57.668 37.037 20.09 6.51 40.40 4.04
13 14 8.843262 TGTAATAAGAAATCCTTAGTCGATCGA 58.157 33.333 15.15 15.15 40.40 3.59
14 15 8.903723 GTGTAATAAGAAATCCTTAGTCGATCG 58.096 37.037 9.36 9.36 40.40 3.69
15 16 9.745880 TGTGTAATAAGAAATCCTTAGTCGATC 57.254 33.333 0.00 0.00 40.40 3.69
22 23 9.321562 GGTCGATTGTGTAATAAGAAATCCTTA 57.678 33.333 0.00 0.00 41.23 2.69
23 24 7.282450 GGGTCGATTGTGTAATAAGAAATCCTT 59.718 37.037 0.00 0.00 38.87 3.36
24 25 6.766467 GGGTCGATTGTGTAATAAGAAATCCT 59.234 38.462 0.00 0.00 0.00 3.24
25 26 6.766467 AGGGTCGATTGTGTAATAAGAAATCC 59.234 38.462 0.00 0.00 0.00 3.01
26 27 7.494625 TCAGGGTCGATTGTGTAATAAGAAATC 59.505 37.037 0.00 0.00 0.00 2.17
27 28 7.335627 TCAGGGTCGATTGTGTAATAAGAAAT 58.664 34.615 0.00 0.00 0.00 2.17
28 29 6.703319 TCAGGGTCGATTGTGTAATAAGAAA 58.297 36.000 0.00 0.00 0.00 2.52
29 30 6.153851 TCTCAGGGTCGATTGTGTAATAAGAA 59.846 38.462 0.00 0.00 0.00 2.52
30 31 5.655090 TCTCAGGGTCGATTGTGTAATAAGA 59.345 40.000 0.00 0.00 0.00 2.10
31 32 5.902681 TCTCAGGGTCGATTGTGTAATAAG 58.097 41.667 0.00 0.00 0.00 1.73
32 33 5.681437 GCTCTCAGGGTCGATTGTGTAATAA 60.681 44.000 0.00 0.00 0.00 1.40
33 34 4.202121 GCTCTCAGGGTCGATTGTGTAATA 60.202 45.833 0.00 0.00 0.00 0.98
34 35 3.430929 GCTCTCAGGGTCGATTGTGTAAT 60.431 47.826 0.00 0.00 0.00 1.89
35 36 2.094182 GCTCTCAGGGTCGATTGTGTAA 60.094 50.000 0.00 0.00 0.00 2.41
36 37 1.476891 GCTCTCAGGGTCGATTGTGTA 59.523 52.381 0.00 0.00 0.00 2.90
37 38 0.247736 GCTCTCAGGGTCGATTGTGT 59.752 55.000 0.00 0.00 0.00 3.72
38 39 0.460987 GGCTCTCAGGGTCGATTGTG 60.461 60.000 0.00 0.00 0.00 3.33
39 40 0.904865 TGGCTCTCAGGGTCGATTGT 60.905 55.000 0.00 0.00 0.00 2.71
40 41 0.467384 ATGGCTCTCAGGGTCGATTG 59.533 55.000 0.00 0.00 0.00 2.67
41 42 1.967066 CTATGGCTCTCAGGGTCGATT 59.033 52.381 0.00 0.00 0.00 3.34
42 43 1.145945 TCTATGGCTCTCAGGGTCGAT 59.854 52.381 0.00 0.00 0.00 3.59
43 44 0.551396 TCTATGGCTCTCAGGGTCGA 59.449 55.000 0.00 0.00 0.00 4.20
44 45 1.543802 GATCTATGGCTCTCAGGGTCG 59.456 57.143 0.00 0.00 0.00 4.79
45 46 1.899142 GGATCTATGGCTCTCAGGGTC 59.101 57.143 0.00 0.00 0.00 4.46
46 47 1.221523 TGGATCTATGGCTCTCAGGGT 59.778 52.381 0.00 0.00 0.00 4.34
47 48 1.901159 CTGGATCTATGGCTCTCAGGG 59.099 57.143 0.00 0.00 0.00 4.45
48 49 2.827322 CTCTGGATCTATGGCTCTCAGG 59.173 54.545 0.00 0.00 0.00 3.86
49 50 2.827322 CCTCTGGATCTATGGCTCTCAG 59.173 54.545 0.00 0.00 0.00 3.35
50 51 2.448577 TCCTCTGGATCTATGGCTCTCA 59.551 50.000 0.00 0.00 0.00 3.27
51 52 3.168035 TCCTCTGGATCTATGGCTCTC 57.832 52.381 0.00 0.00 0.00 3.20
52 53 3.850917 ATCCTCTGGATCTATGGCTCT 57.149 47.619 0.00 0.00 38.09 4.09
53 54 4.348486 TGTATCCTCTGGATCTATGGCTC 58.652 47.826 1.98 0.00 42.11 4.70
54 55 4.410481 TGTATCCTCTGGATCTATGGCT 57.590 45.455 1.98 0.00 42.11 4.75
55 56 6.992664 ATATGTATCCTCTGGATCTATGGC 57.007 41.667 1.98 0.00 42.11 4.40
56 57 8.855110 GTGTATATGTATCCTCTGGATCTATGG 58.145 40.741 1.98 0.00 42.11 2.74
57 58 9.639563 AGTGTATATGTATCCTCTGGATCTATG 57.360 37.037 1.98 0.00 42.11 2.23
58 59 9.860650 GAGTGTATATGTATCCTCTGGATCTAT 57.139 37.037 1.98 2.36 42.11 1.98
59 60 9.063484 AGAGTGTATATGTATCCTCTGGATCTA 57.937 37.037 1.98 0.00 42.11 1.98
60 61 7.938686 AGAGTGTATATGTATCCTCTGGATCT 58.061 38.462 1.98 0.00 42.11 2.75
61 62 8.588290 AAGAGTGTATATGTATCCTCTGGATC 57.412 38.462 1.98 0.00 42.11 3.36
62 63 8.964533 AAAGAGTGTATATGTATCCTCTGGAT 57.035 34.615 4.42 4.42 45.40 3.41
63 64 8.642432 CAAAAGAGTGTATATGTATCCTCTGGA 58.358 37.037 0.00 0.00 35.55 3.86
64 65 8.424918 ACAAAAGAGTGTATATGTATCCTCTGG 58.575 37.037 0.00 0.00 30.16 3.86
77 78 8.967664 TGTTGGTTTACTACAAAAGAGTGTAT 57.032 30.769 0.00 0.00 33.59 2.29
78 79 8.789825 TTGTTGGTTTACTACAAAAGAGTGTA 57.210 30.769 0.00 0.00 40.85 2.90
79 80 7.690952 TTGTTGGTTTACTACAAAAGAGTGT 57.309 32.000 0.00 0.00 40.85 3.55
90 91 9.709495 ATCGTGTAGTAATTTGTTGGTTTACTA 57.291 29.630 0.00 0.00 37.37 1.82
91 92 8.611654 ATCGTGTAGTAATTTGTTGGTTTACT 57.388 30.769 0.00 0.00 39.05 2.24
107 108 8.749499 GCACGTAAAAGATATTTATCGTGTAGT 58.251 33.333 26.91 5.33 45.51 2.73
108 109 8.212495 GGCACGTAAAAGATATTTATCGTGTAG 58.788 37.037 26.91 13.97 45.51 2.74
109 110 7.922278 AGGCACGTAAAAGATATTTATCGTGTA 59.078 33.333 26.91 1.67 45.51 2.90
110 111 6.759827 AGGCACGTAAAAGATATTTATCGTGT 59.240 34.615 26.91 15.62 45.51 4.49
111 112 7.173863 AGGCACGTAAAAGATATTTATCGTG 57.826 36.000 24.65 24.65 46.16 4.35
112 113 8.922676 CATAGGCACGTAAAAGATATTTATCGT 58.077 33.333 8.61 8.61 37.76 3.73
113 114 9.135843 TCATAGGCACGTAAAAGATATTTATCG 57.864 33.333 0.00 7.62 37.76 2.92
115 116 9.998106 AGTCATAGGCACGTAAAAGATATTTAT 57.002 29.630 0.00 0.00 0.00 1.40
117 118 9.826574 TTAGTCATAGGCACGTAAAAGATATTT 57.173 29.630 0.00 0.00 0.00 1.40
118 119 9.826574 TTTAGTCATAGGCACGTAAAAGATATT 57.173 29.630 0.00 0.00 0.00 1.28
119 120 9.998106 ATTTAGTCATAGGCACGTAAAAGATAT 57.002 29.630 0.00 0.00 0.00 1.63
120 121 9.826574 AATTTAGTCATAGGCACGTAAAAGATA 57.173 29.630 0.00 0.00 0.00 1.98
121 122 8.732746 AATTTAGTCATAGGCACGTAAAAGAT 57.267 30.769 0.00 0.00 0.00 2.40
122 123 8.556213 AAATTTAGTCATAGGCACGTAAAAGA 57.444 30.769 0.00 0.00 0.00 2.52
123 124 9.061610 CAAAATTTAGTCATAGGCACGTAAAAG 57.938 33.333 0.00 0.00 0.00 2.27
124 125 8.569641 ACAAAATTTAGTCATAGGCACGTAAAA 58.430 29.630 0.00 0.00 0.00 1.52
125 126 8.101654 ACAAAATTTAGTCATAGGCACGTAAA 57.898 30.769 0.00 0.00 0.00 2.01
126 127 7.675962 ACAAAATTTAGTCATAGGCACGTAA 57.324 32.000 0.00 0.00 0.00 3.18
148 149 5.760743 TGAACATGTCAGAACCGATTTTACA 59.239 36.000 0.00 0.00 0.00 2.41
165 166 3.567576 TTTTGGCCGTACATGAACATG 57.432 42.857 12.43 12.43 44.15 3.21
215 217 7.615582 TGAACTCATGATCCATGTAAGTTTC 57.384 36.000 12.31 8.40 41.98 2.78
231 233 4.494484 TCGATTTGACGTCATGAACTCAT 58.506 39.130 20.80 3.17 34.24 2.90
232 234 3.908213 TCGATTTGACGTCATGAACTCA 58.092 40.909 20.80 0.00 34.70 3.41
233 235 3.304559 CCTCGATTTGACGTCATGAACTC 59.695 47.826 20.80 7.51 34.70 3.01
234 236 3.254060 CCTCGATTTGACGTCATGAACT 58.746 45.455 20.80 0.00 34.70 3.01
235 237 2.348666 CCCTCGATTTGACGTCATGAAC 59.651 50.000 20.80 9.14 34.70 3.18
236 238 2.028476 ACCCTCGATTTGACGTCATGAA 60.028 45.455 20.80 12.31 34.70 2.57
274 276 2.101249 ACGGTTACTTGTTTCTCGGTCA 59.899 45.455 0.00 0.00 0.00 4.02
294 296 2.742053 TGCTAATTTTCAGTCGCCTCAC 59.258 45.455 0.00 0.00 0.00 3.51
295 297 3.002791 CTGCTAATTTTCAGTCGCCTCA 58.997 45.455 0.00 0.00 0.00 3.86
299 301 4.083802 ACTTGTCTGCTAATTTTCAGTCGC 60.084 41.667 6.55 0.00 0.00 5.19
328 330 2.336088 CCACCAAAAGGCTGCACG 59.664 61.111 0.50 0.00 0.00 5.34
346 348 2.306341 ACACGCTCCATGAATCTCAG 57.694 50.000 0.00 0.00 0.00 3.35
389 393 9.971744 AGAATTTTTCGAAACTTTGAAATGTTG 57.028 25.926 10.79 0.00 39.57 3.33
390 394 9.971744 CAGAATTTTTCGAAACTTTGAAATGTT 57.028 25.926 10.79 4.70 39.57 2.71
558 563 7.506328 AAAAGTGAAAATCGCTACTAGGTTT 57.494 32.000 0.00 0.00 35.97 3.27
592 601 4.492570 CGTGAGAAAATAGATTGACACGCC 60.493 45.833 0.00 0.00 41.84 5.68
625 634 8.079809 TGTCATATGAATGTATACTACACGTGG 58.920 37.037 21.57 5.28 42.23 4.94
676 685 6.258287 TCAACAATTGCATTTCAAAGGTTCAG 59.742 34.615 5.05 0.00 38.34 3.02
681 690 8.859517 AAAATTCAACAATTGCATTTCAAAGG 57.140 26.923 5.05 0.00 35.88 3.11
743 756 2.631062 TGATCTCCAACCTACAACACGT 59.369 45.455 0.00 0.00 0.00 4.49
833 846 3.585990 GCGATGCCATGGGAACGG 61.586 66.667 31.33 16.71 0.00 4.44
856 869 1.657751 GGATGCGCAGGAAGGGTTTC 61.658 60.000 18.32 4.59 0.00 2.78
905 918 4.014406 CGGGTTTGTAGCTAGGGAAAATT 58.986 43.478 0.00 0.00 0.00 1.82
906 919 3.009805 ACGGGTTTGTAGCTAGGGAAAAT 59.990 43.478 0.00 0.00 0.00 1.82
925 939 2.916702 TCATGATGGGAATGAGACGG 57.083 50.000 0.00 0.00 30.61 4.79
929 943 2.842457 TCGCTTCATGATGGGAATGAG 58.158 47.619 21.40 4.43 35.54 2.90
947 961 6.788243 TGTCTCAATCAAATCAAATGGATCG 58.212 36.000 0.00 0.00 34.28 3.69
972 986 4.560136 GACAGATCGAGCTCAGAACATA 57.440 45.455 15.40 0.00 0.00 2.29
974 988 2.929531 GACAGATCGAGCTCAGAACA 57.070 50.000 15.40 0.00 0.00 3.18
997 1011 1.335810 CCGCACCATGATCCTCATTTG 59.664 52.381 0.00 0.00 34.28 2.32
1087 1101 4.489771 CTCCCGGGCCATGACCAC 62.490 72.222 18.49 0.00 0.00 4.16
1343 1370 4.069232 CTGGTCCCTGAAGCGCGA 62.069 66.667 12.10 0.00 0.00 5.87
1344 1371 3.376935 ATCTGGTCCCTGAAGCGCG 62.377 63.158 0.00 0.00 0.00 6.86
1345 1372 1.817099 CATCTGGTCCCTGAAGCGC 60.817 63.158 0.00 0.00 0.00 5.92
1346 1373 1.817099 GCATCTGGTCCCTGAAGCG 60.817 63.158 4.96 0.00 31.39 4.68
1350 1377 1.344393 ACCTATGCATCTGGTCCCTGA 60.344 52.381 15.96 0.00 0.00 3.86
1387 1414 1.148157 CTTGCTTCGCGGTCATCGAT 61.148 55.000 6.13 0.00 42.43 3.59
1389 1416 1.351430 TTCTTGCTTCGCGGTCATCG 61.351 55.000 6.13 0.00 42.76 3.84
1392 1419 0.531974 AACTTCTTGCTTCGCGGTCA 60.532 50.000 6.13 0.00 0.00 4.02
1394 1421 0.249911 AGAACTTCTTGCTTCGCGGT 60.250 50.000 6.13 0.00 0.00 5.68
1421 1448 0.678684 TCATGGACATGCACCTGCTG 60.679 55.000 7.41 0.00 42.66 4.41
1422 1449 0.679002 GTCATGGACATGCACCTGCT 60.679 55.000 7.41 0.00 38.65 4.24
1423 1450 1.660560 GGTCATGGACATGCACCTGC 61.661 60.000 18.41 0.00 38.65 4.85
1424 1451 0.322726 TGGTCATGGACATGCACCTG 60.323 55.000 22.49 0.00 38.57 4.00
1425 1452 0.627451 ATGGTCATGGACATGCACCT 59.373 50.000 22.49 12.76 38.57 4.00
1426 1453 0.742505 CATGGTCATGGACATGCACC 59.257 55.000 18.66 18.66 38.65 5.01
1470 1500 4.747529 TCTCCGGCTCGTCGTCGA 62.748 66.667 4.42 4.42 45.36 4.20
1471 1501 3.720106 CTTCTCCGGCTCGTCGTCG 62.720 68.421 0.00 0.00 41.29 5.12
1473 1503 3.441290 CCTTCTCCGGCTCGTCGT 61.441 66.667 0.00 0.00 0.00 4.34
1577 1607 2.433446 CAGGTCCAGCAGCTTGGT 59.567 61.111 4.36 0.00 39.35 3.67
1977 2027 2.668550 GGCGAAAACTGCTCGGGT 60.669 61.111 0.00 0.00 36.80 5.28
1978 2028 3.788766 CGGCGAAAACTGCTCGGG 61.789 66.667 0.00 0.00 36.80 5.14
2140 2194 0.749091 TCCGCAGCCAATTCATCCAG 60.749 55.000 0.00 0.00 0.00 3.86
2153 2207 3.201726 ACAAATCGTTCAAATCCGCAG 57.798 42.857 0.00 0.00 0.00 5.18
2167 2221 7.883229 AAAATATGTCCAACGGAAACAAATC 57.117 32.000 0.00 0.00 31.38 2.17
2247 2303 4.701765 AGCTACAATCTTCGCTCATCAAT 58.298 39.130 0.00 0.00 0.00 2.57
2248 2304 4.115516 GAGCTACAATCTTCGCTCATCAA 58.884 43.478 5.34 0.00 46.06 2.57
2329 2386 9.183368 TGGATATTTGATTTGCACACTTATGTA 57.817 29.630 0.00 0.00 36.72 2.29
2441 2506 3.466395 ACATCTAGCCTCTCCCCTATC 57.534 52.381 0.00 0.00 0.00 2.08
2443 2508 3.727923 ACTTACATCTAGCCTCTCCCCTA 59.272 47.826 0.00 0.00 0.00 3.53
2475 2540 5.671493 ACGATCCACTGACCCTAAATTTAG 58.329 41.667 16.90 16.90 0.00 1.85
2492 2557 4.335315 TGCATATGAAGGTTGAAACGATCC 59.665 41.667 6.97 0.00 0.00 3.36
2543 2608 4.219999 GGAGAGAGGAGCGCAGGC 62.220 72.222 11.47 0.00 40.37 4.85
2551 2616 5.594777 AGAAAAGGAATAGTGGAGAGAGGA 58.405 41.667 0.00 0.00 0.00 3.71
2583 2648 1.898574 GACAGGGTTGTGTGGCTGG 60.899 63.158 0.00 0.00 37.76 4.85
2584 2649 1.898574 GGACAGGGTTGTGTGGCTG 60.899 63.158 0.00 0.00 37.76 4.85
2585 2650 1.719063 ATGGACAGGGTTGTGTGGCT 61.719 55.000 0.00 0.00 37.76 4.75
2586 2651 1.228552 ATGGACAGGGTTGTGTGGC 60.229 57.895 0.00 0.00 37.76 5.01
2587 2652 0.110295 TCATGGACAGGGTTGTGTGG 59.890 55.000 0.00 0.00 37.76 4.17
2588 2653 1.202806 AGTCATGGACAGGGTTGTGTG 60.203 52.381 0.00 0.00 37.76 3.82
2589 2654 1.140312 AGTCATGGACAGGGTTGTGT 58.860 50.000 0.00 0.00 37.76 3.72
2590 2655 2.303022 ACTAGTCATGGACAGGGTTGTG 59.697 50.000 0.00 0.00 37.76 3.33
2591 2656 2.621070 ACTAGTCATGGACAGGGTTGT 58.379 47.619 0.00 0.00 41.18 3.32
2592 2657 3.261897 AGAACTAGTCATGGACAGGGTTG 59.738 47.826 0.00 0.00 34.60 3.77
2593 2658 3.261897 CAGAACTAGTCATGGACAGGGTT 59.738 47.826 0.00 1.22 34.60 4.11
2594 2659 2.834549 CAGAACTAGTCATGGACAGGGT 59.165 50.000 0.00 0.00 34.60 4.34
2599 2664 3.368531 GGACCACAGAACTAGTCATGGAC 60.369 52.174 17.11 12.38 37.90 4.02
2601 2666 2.093447 GGGACCACAGAACTAGTCATGG 60.093 54.545 10.93 11.10 39.56 3.66
2606 2671 2.158143 AGGAAGGGACCACAGAACTAGT 60.158 50.000 0.00 0.00 0.00 2.57
2615 2680 8.491958 TCTTATATTTCTTTAGGAAGGGACCAC 58.508 37.037 0.00 0.00 35.16 4.16
2620 2685 7.217906 ACGCTCTTATATTTCTTTAGGAAGGG 58.782 38.462 0.00 0.00 35.16 3.95
2621 2686 8.664211 AACGCTCTTATATTTCTTTAGGAAGG 57.336 34.615 0.00 0.00 35.16 3.46
2700 2765 6.582677 TGAAAGGAGACTGTAAAGAGAGAG 57.417 41.667 0.00 0.00 42.68 3.20
2725 2790 2.289945 GGACAGTCTCCTTTCAGTGCAT 60.290 50.000 0.00 0.00 35.89 3.96
2727 2792 1.070758 TGGACAGTCTCCTTTCAGTGC 59.929 52.381 0.00 0.00 40.26 4.40
2728 2793 3.007290 TCATGGACAGTCTCCTTTCAGTG 59.993 47.826 0.00 0.00 40.26 3.66
2730 2795 3.594134 GTCATGGACAGTCTCCTTTCAG 58.406 50.000 0.00 0.00 40.26 3.02
2732 2797 2.028930 ACGTCATGGACAGTCTCCTTTC 60.029 50.000 0.00 0.00 40.26 2.62
2733 2798 1.971357 ACGTCATGGACAGTCTCCTTT 59.029 47.619 0.00 0.00 40.26 3.11
2734 2799 1.633774 ACGTCATGGACAGTCTCCTT 58.366 50.000 0.00 0.00 40.26 3.36
2736 2801 2.028930 AGAAACGTCATGGACAGTCTCC 60.029 50.000 0.00 0.00 39.97 3.71
2737 2802 2.989840 CAGAAACGTCATGGACAGTCTC 59.010 50.000 0.00 0.00 32.09 3.36
2738 2803 2.289072 CCAGAAACGTCATGGACAGTCT 60.289 50.000 7.66 0.00 36.09 3.24
2739 2804 2.069273 CCAGAAACGTCATGGACAGTC 58.931 52.381 7.66 0.00 36.09 3.51
2740 2805 1.691976 TCCAGAAACGTCATGGACAGT 59.308 47.619 11.19 0.00 38.19 3.55
2742 2807 1.001974 CCTCCAGAAACGTCATGGACA 59.998 52.381 11.19 0.00 38.19 4.02
2743 2808 1.726853 CCTCCAGAAACGTCATGGAC 58.273 55.000 11.19 0.00 38.19 4.02
2744 2809 0.036388 GCCTCCAGAAACGTCATGGA 60.036 55.000 13.74 13.74 40.80 3.41
2745 2810 1.026718 GGCCTCCAGAAACGTCATGG 61.027 60.000 0.00 7.20 35.30 3.66
2749 2814 2.035442 GCAGGCCTCCAGAAACGTC 61.035 63.158 0.00 0.00 0.00 4.34
2750 2815 2.032681 GCAGGCCTCCAGAAACGT 59.967 61.111 0.00 0.00 0.00 3.99
2783 2890 2.349886 GTCCAACATCGTCTGAGATTGC 59.650 50.000 0.00 0.00 0.00 3.56
2813 2920 2.026262 AGTTGGGTAGCACCGATTGAAT 60.026 45.455 0.00 0.00 39.83 2.57
2991 3099 6.687105 CACTGGTCTAGAAACGAAAACTTTTG 59.313 38.462 0.00 0.00 0.00 2.44
2998 3106 2.762745 GCCACTGGTCTAGAAACGAAA 58.237 47.619 0.00 0.00 0.00 3.46


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

AutoCloner maintained by Alex Coulton.