Multiple sequence alignment - TraesCS7B01G065700

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 TraesCS7B01G065700 chr7B 100.000 2904 0 0 1 2904 71277586 71274683 0.000000e+00 5363.0
1 TraesCS7B01G065700 chr7B 88.727 754 61 7 1157 1910 428782922 428783651 0.000000e+00 900.0
2 TraesCS7B01G065700 chr7B 94.492 581 28 4 2307 2884 71256841 71256262 0.000000e+00 893.0
3 TraesCS7B01G065700 chr7D 88.143 1729 103 42 334 2005 111748085 111746402 0.000000e+00 1964.0
4 TraesCS7B01G065700 chr7D 78.325 406 61 12 85 465 111748591 111748188 1.350000e-58 237.0
5 TraesCS7B01G065700 chr7D 94.545 55 3 0 2024 2078 111746408 111746354 5.160000e-13 86.1
6 TraesCS7B01G065700 chr7A 90.729 1467 74 22 519 1930 116775606 116774147 0.000000e+00 1899.0
7 TraesCS7B01G065700 chr7A 89.157 166 13 3 2147 2307 116774057 116773892 4.910000e-48 202.0
8 TraesCS7B01G065700 chr2D 90.773 737 44 9 1174 1910 245573800 245573088 0.000000e+00 963.0
9 TraesCS7B01G065700 chr1B 95.167 600 27 2 2307 2904 110132201 110132800 0.000000e+00 946.0
10 TraesCS7B01G065700 chr1B 93.031 617 34 8 2295 2904 400115884 400115270 0.000000e+00 893.0
11 TraesCS7B01G065700 chr3B 93.823 599 35 2 2307 2904 33602149 33602746 0.000000e+00 900.0
12 TraesCS7B01G065700 chr6B 93.023 602 37 4 2307 2903 686426369 686426970 0.000000e+00 874.0
13 TraesCS7B01G065700 chr6B 92.167 600 43 4 2307 2904 582605027 582604430 0.000000e+00 845.0
14 TraesCS7B01G065700 chr6B 86.284 627 46 17 1289 1910 637178836 637179427 0.000000e+00 645.0
15 TraesCS7B01G065700 chr5B 92.642 598 43 1 2307 2903 598691893 598691296 0.000000e+00 859.0
16 TraesCS7B01G065700 chr5B 85.560 554 39 14 1157 1709 291615415 291614902 2.550000e-150 542.0
17 TraesCS7B01G065700 chr2B 92.500 600 42 3 2306 2903 92927487 92926889 0.000000e+00 856.0
18 TraesCS7B01G065700 chr2B 92.333 600 43 3 2307 2904 617986109 617985511 0.000000e+00 850.0
19 TraesCS7B01G065700 chr2A 87.598 766 59 14 1157 1910 424539243 424538502 0.000000e+00 856.0
20 TraesCS7B01G065700 chr2A 87.135 754 68 13 1157 1910 302435638 302436362 0.000000e+00 828.0
21 TraesCS7B01G065700 chr4A 86.472 754 73 10 1157 1910 7883571 7884295 0.000000e+00 800.0
22 TraesCS7B01G065700 chr4A 84.748 754 81 9 1157 1910 535940745 535941464 0.000000e+00 725.0
23 TraesCS7B01G065700 chr5A 85.544 754 84 12 1157 1910 222770847 222770119 0.000000e+00 765.0


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 TraesCS7B01G065700 chr7B 71274683 71277586 2903 True 5363.000000 5363 100.000000 1 2904 1 chr7B.!!$R2 2903
1 TraesCS7B01G065700 chr7B 428782922 428783651 729 False 900.000000 900 88.727000 1157 1910 1 chr7B.!!$F1 753
2 TraesCS7B01G065700 chr7B 71256262 71256841 579 True 893.000000 893 94.492000 2307 2884 1 chr7B.!!$R1 577
3 TraesCS7B01G065700 chr7D 111746354 111748591 2237 True 762.366667 1964 87.004333 85 2078 3 chr7D.!!$R1 1993
4 TraesCS7B01G065700 chr7A 116773892 116775606 1714 True 1050.500000 1899 89.943000 519 2307 2 chr7A.!!$R1 1788
5 TraesCS7B01G065700 chr2D 245573088 245573800 712 True 963.000000 963 90.773000 1174 1910 1 chr2D.!!$R1 736
6 TraesCS7B01G065700 chr1B 110132201 110132800 599 False 946.000000 946 95.167000 2307 2904 1 chr1B.!!$F1 597
7 TraesCS7B01G065700 chr1B 400115270 400115884 614 True 893.000000 893 93.031000 2295 2904 1 chr1B.!!$R1 609
8 TraesCS7B01G065700 chr3B 33602149 33602746 597 False 900.000000 900 93.823000 2307 2904 1 chr3B.!!$F1 597
9 TraesCS7B01G065700 chr6B 686426369 686426970 601 False 874.000000 874 93.023000 2307 2903 1 chr6B.!!$F2 596
10 TraesCS7B01G065700 chr6B 582604430 582605027 597 True 845.000000 845 92.167000 2307 2904 1 chr6B.!!$R1 597
11 TraesCS7B01G065700 chr6B 637178836 637179427 591 False 645.000000 645 86.284000 1289 1910 1 chr6B.!!$F1 621
12 TraesCS7B01G065700 chr5B 598691296 598691893 597 True 859.000000 859 92.642000 2307 2903 1 chr5B.!!$R2 596
13 TraesCS7B01G065700 chr5B 291614902 291615415 513 True 542.000000 542 85.560000 1157 1709 1 chr5B.!!$R1 552
14 TraesCS7B01G065700 chr2B 92926889 92927487 598 True 856.000000 856 92.500000 2306 2903 1 chr2B.!!$R1 597
15 TraesCS7B01G065700 chr2B 617985511 617986109 598 True 850.000000 850 92.333000 2307 2904 1 chr2B.!!$R2 597
16 TraesCS7B01G065700 chr2A 424538502 424539243 741 True 856.000000 856 87.598000 1157 1910 1 chr2A.!!$R1 753
17 TraesCS7B01G065700 chr2A 302435638 302436362 724 False 828.000000 828 87.135000 1157 1910 1 chr2A.!!$F1 753
18 TraesCS7B01G065700 chr4A 7883571 7884295 724 False 800.000000 800 86.472000 1157 1910 1 chr4A.!!$F1 753
19 TraesCS7B01G065700 chr4A 535940745 535941464 719 False 725.000000 725 84.748000 1157 1910 1 chr4A.!!$F2 753
20 TraesCS7B01G065700 chr5A 222770119 222770847 728 True 765.000000 765 85.544000 1157 1910 1 chr5A.!!$R1 753

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
76 77 0.17576 GCTCGTCTTGTCCAGCCATA 59.824 55.0 0.0 0.0 0.0 2.74 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1998 2409 0.03601 AGGGTGTTCGATTCAGGCTG 60.036 55.0 8.58 8.58 0.0 4.85 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 5.367945 TCAAGAAACCCTAGTGACAAAGT 57.632 39.130 0.00 0.00 0.00 2.66
23 24 5.123227 TCAAGAAACCCTAGTGACAAAGTG 58.877 41.667 0.00 0.00 0.00 3.16
24 25 3.477530 AGAAACCCTAGTGACAAAGTGC 58.522 45.455 0.00 0.00 0.00 4.40
25 26 3.136626 AGAAACCCTAGTGACAAAGTGCT 59.863 43.478 0.00 0.00 0.00 4.40
26 27 3.577805 AACCCTAGTGACAAAGTGCTT 57.422 42.857 0.00 0.00 0.00 3.91
27 28 4.699925 AACCCTAGTGACAAAGTGCTTA 57.300 40.909 0.00 0.00 0.00 3.09
28 29 4.699925 ACCCTAGTGACAAAGTGCTTAA 57.300 40.909 0.00 0.00 0.00 1.85
29 30 4.642429 ACCCTAGTGACAAAGTGCTTAAG 58.358 43.478 0.00 0.00 0.00 1.85
30 31 4.102681 ACCCTAGTGACAAAGTGCTTAAGT 59.897 41.667 4.02 0.00 0.00 2.24
31 32 5.063880 CCCTAGTGACAAAGTGCTTAAGTT 58.936 41.667 4.02 0.00 0.00 2.66
32 33 5.531287 CCCTAGTGACAAAGTGCTTAAGTTT 59.469 40.000 4.02 0.00 31.20 2.66
33 34 6.039382 CCCTAGTGACAAAGTGCTTAAGTTTT 59.961 38.462 4.02 0.68 28.37 2.43
34 35 7.227910 CCCTAGTGACAAAGTGCTTAAGTTTTA 59.772 37.037 4.02 0.00 28.37 1.52
35 36 8.617809 CCTAGTGACAAAGTGCTTAAGTTTTAA 58.382 33.333 4.02 0.00 28.37 1.52
38 39 8.682710 AGTGACAAAGTGCTTAAGTTTTAATCA 58.317 29.630 4.02 7.48 28.37 2.57
39 40 9.463443 GTGACAAAGTGCTTAAGTTTTAATCAT 57.537 29.630 4.02 0.00 28.37 2.45
40 41 9.462174 TGACAAAGTGCTTAAGTTTTAATCATG 57.538 29.630 4.02 0.00 28.37 3.07
41 42 9.677567 GACAAAGTGCTTAAGTTTTAATCATGA 57.322 29.630 0.00 0.00 28.37 3.07
47 48 8.801913 GTGCTTAAGTTTTAATCATGATTCAGC 58.198 33.333 23.95 17.19 32.50 4.26
48 49 7.975616 TGCTTAAGTTTTAATCATGATTCAGCC 59.024 33.333 23.95 11.21 32.50 4.85
49 50 7.975616 GCTTAAGTTTTAATCATGATTCAGCCA 59.024 33.333 23.95 3.94 32.50 4.75
53 54 7.655490 AGTTTTAATCATGATTCAGCCATAGC 58.345 34.615 23.95 4.60 33.96 2.97
54 55 5.868043 TTAATCATGATTCAGCCATAGCG 57.132 39.130 23.95 0.00 36.81 4.26
55 56 2.916702 TCATGATTCAGCCATAGCGT 57.083 45.000 0.00 0.00 46.67 5.07
56 57 2.759191 TCATGATTCAGCCATAGCGTC 58.241 47.619 0.00 0.00 46.67 5.19
57 58 1.458445 CATGATTCAGCCATAGCGTCG 59.542 52.381 0.00 0.00 46.67 5.12
58 59 0.875908 TGATTCAGCCATAGCGTCGC 60.876 55.000 9.80 9.80 46.67 5.19
59 60 0.598680 GATTCAGCCATAGCGTCGCT 60.599 55.000 25.08 25.08 46.67 4.93
60 61 0.598680 ATTCAGCCATAGCGTCGCTC 60.599 55.000 25.50 9.46 46.67 5.03
61 62 2.936829 TTCAGCCATAGCGTCGCTCG 62.937 60.000 25.50 16.01 46.67 5.03
62 63 3.518998 AGCCATAGCGTCGCTCGT 61.519 61.111 25.50 11.29 46.67 4.18
63 64 3.025176 GCCATAGCGTCGCTCGTC 61.025 66.667 25.50 7.94 40.44 4.20
64 65 2.716244 CCATAGCGTCGCTCGTCT 59.284 61.111 25.50 1.33 40.44 4.18
65 66 1.064296 CCATAGCGTCGCTCGTCTT 59.936 57.895 25.50 0.47 40.44 3.01
66 67 1.202973 CCATAGCGTCGCTCGTCTTG 61.203 60.000 25.50 13.86 40.44 3.02
67 68 0.523546 CATAGCGTCGCTCGTCTTGT 60.524 55.000 25.50 0.00 40.44 3.16
68 69 0.248134 ATAGCGTCGCTCGTCTTGTC 60.248 55.000 25.50 0.00 40.44 3.18
69 70 2.249557 TAGCGTCGCTCGTCTTGTCC 62.250 60.000 25.50 0.00 40.44 4.02
70 71 2.254350 CGTCGCTCGTCTTGTCCA 59.746 61.111 0.00 0.00 34.52 4.02
71 72 1.797933 CGTCGCTCGTCTTGTCCAG 60.798 63.158 0.00 0.00 34.52 3.86
72 73 2.089349 GTCGCTCGTCTTGTCCAGC 61.089 63.158 0.00 0.00 0.00 4.85
73 74 2.811317 CGCTCGTCTTGTCCAGCC 60.811 66.667 0.00 0.00 0.00 4.85
74 75 2.343758 GCTCGTCTTGTCCAGCCA 59.656 61.111 0.00 0.00 0.00 4.75
75 76 1.078848 GCTCGTCTTGTCCAGCCAT 60.079 57.895 0.00 0.00 0.00 4.40
76 77 0.175760 GCTCGTCTTGTCCAGCCATA 59.824 55.000 0.00 0.00 0.00 2.74
77 78 1.804372 GCTCGTCTTGTCCAGCCATAG 60.804 57.143 0.00 0.00 0.00 2.23
78 79 0.175760 TCGTCTTGTCCAGCCATAGC 59.824 55.000 0.00 0.00 40.32 2.97
79 80 1.148157 CGTCTTGTCCAGCCATAGCG 61.148 60.000 0.00 0.00 46.67 4.26
80 81 1.153369 TCTTGTCCAGCCATAGCGC 60.153 57.895 0.00 0.00 46.67 5.92
81 82 2.124736 TTGTCCAGCCATAGCGCC 60.125 61.111 2.29 0.00 46.67 6.53
82 83 2.874648 CTTGTCCAGCCATAGCGCCA 62.875 60.000 2.29 0.00 46.67 5.69
83 84 2.124736 GTCCAGCCATAGCGCCAA 60.125 61.111 2.29 0.00 46.67 4.52
98 99 1.303317 CCAAACTTCTCGGGGGTGG 60.303 63.158 0.00 0.00 0.00 4.61
101 102 1.072648 CAAACTTCTCGGGGGTGGTTA 59.927 52.381 0.00 0.00 0.00 2.85
105 106 4.157120 CTCGGGGGTGGTTAGGCG 62.157 72.222 0.00 0.00 0.00 5.52
109 110 4.796495 GGGGTGGTTAGGCGCTGG 62.796 72.222 7.64 0.00 0.00 4.85
126 127 2.941720 GCTGGCTAGTTCTCCATCTTTG 59.058 50.000 0.00 0.00 0.00 2.77
132 133 4.025313 GCTAGTTCTCCATCTTTGAATCGC 60.025 45.833 0.00 0.00 0.00 4.58
136 137 1.010797 CCATCTTTGAATCGCGGCG 60.011 57.895 17.70 17.70 0.00 6.46
141 142 2.309764 CTTTGAATCGCGGCGGAAGG 62.310 60.000 23.46 7.23 0.00 3.46
142 143 2.789845 TTTGAATCGCGGCGGAAGGA 62.790 55.000 23.46 2.32 0.00 3.36
143 144 2.510691 GAATCGCGGCGGAAGGAA 60.511 61.111 23.46 1.46 0.00 3.36
154 155 1.731720 CGGAAGGAAGCCTCAGAAAG 58.268 55.000 0.00 0.00 30.89 2.62
155 156 1.276421 CGGAAGGAAGCCTCAGAAAGA 59.724 52.381 0.00 0.00 30.89 2.52
156 157 2.093235 CGGAAGGAAGCCTCAGAAAGAT 60.093 50.000 0.00 0.00 30.89 2.40
157 158 3.540617 GGAAGGAAGCCTCAGAAAGATC 58.459 50.000 0.00 0.00 30.89 2.75
160 162 3.180507 AGGAAGCCTCAGAAAGATCAGT 58.819 45.455 0.00 0.00 0.00 3.41
164 166 1.396301 GCCTCAGAAAGATCAGTTGCG 59.604 52.381 0.00 0.00 0.00 4.85
169 171 5.287170 TCAGAAAGATCAGTTGCGATTTG 57.713 39.130 0.00 0.00 0.00 2.32
177 179 0.599204 AGTTGCGATTTGGACGTCGT 60.599 50.000 9.92 0.00 39.87 4.34
178 180 0.179258 GTTGCGATTTGGACGTCGTC 60.179 55.000 17.16 17.16 39.87 4.20
179 181 1.610715 TTGCGATTTGGACGTCGTCG 61.611 55.000 18.61 19.86 39.87 5.12
190 192 2.006062 CGTCGTCGAGGCATCATCG 61.006 63.158 1.48 2.40 41.50 3.84
198 200 1.328680 CGAGGCATCATCGAAGTTTGG 59.671 52.381 0.00 0.00 42.76 3.28
199 201 2.632377 GAGGCATCATCGAAGTTTGGA 58.368 47.619 0.00 0.00 0.00 3.53
203 205 2.609459 GCATCATCGAAGTTTGGACGAT 59.391 45.455 0.00 0.00 45.44 3.73
207 209 2.804697 TCGAAGTTTGGACGATGTCA 57.195 45.000 0.00 0.00 33.68 3.58
221 223 3.502211 ACGATGTCAAGGTGATTTTGGAC 59.498 43.478 0.00 0.00 0.00 4.02
234 257 5.003160 TGATTTTGGACGATCTCAACACAT 58.997 37.500 0.00 0.00 0.00 3.21
252 276 0.767375 ATGGGTAGCATCGCCTTGAT 59.233 50.000 0.00 0.00 38.01 2.57
257 281 2.289002 GGTAGCATCGCCTTGATTTCAG 59.711 50.000 0.00 0.00 34.13 3.02
269 293 6.017605 CGCCTTGATTTCAGCTTAATAGTGAT 60.018 38.462 0.00 0.00 0.00 3.06
302 326 4.428615 TTGCGGCAGTAAAATAAAGACC 57.571 40.909 1.67 0.00 0.00 3.85
308 332 5.120519 CGGCAGTAAAATAAAGACCGTTGTA 59.879 40.000 0.00 0.00 34.83 2.41
310 334 7.532571 GGCAGTAAAATAAAGACCGTTGTAAT 58.467 34.615 0.00 0.00 0.00 1.89
351 609 7.925043 TCATTGGACGGCTAAAGTTAAATTA 57.075 32.000 0.00 0.00 0.00 1.40
353 611 8.617809 TCATTGGACGGCTAAAGTTAAATTATC 58.382 33.333 0.00 0.00 0.00 1.75
374 632 5.675684 TCCAATTTTAAGGAAATCCCAGC 57.324 39.130 0.00 0.00 36.96 4.85
379 637 7.448161 CCAATTTTAAGGAAATCCCAGCTTTTT 59.552 33.333 0.00 0.00 36.96 1.94
380 638 9.500785 CAATTTTAAGGAAATCCCAGCTTTTTA 57.499 29.630 0.00 0.00 36.96 1.52
383 641 4.404185 AGGAAATCCCAGCTTTTTACCT 57.596 40.909 0.00 0.00 37.41 3.08
384 642 4.089361 AGGAAATCCCAGCTTTTTACCTG 58.911 43.478 0.00 0.00 37.41 4.00
385 643 3.832490 GGAAATCCCAGCTTTTTACCTGT 59.168 43.478 0.00 0.00 34.14 4.00
388 646 6.405842 GGAAATCCCAGCTTTTTACCTGTATG 60.406 42.308 0.00 0.00 34.14 2.39
389 647 3.352648 TCCCAGCTTTTTACCTGTATGC 58.647 45.455 0.00 0.00 0.00 3.14
390 648 3.010138 TCCCAGCTTTTTACCTGTATGCT 59.990 43.478 0.00 0.00 0.00 3.79
391 649 3.129287 CCCAGCTTTTTACCTGTATGCTG 59.871 47.826 0.00 0.00 43.92 4.41
392 650 3.428045 CCAGCTTTTTACCTGTATGCTGC 60.428 47.826 0.00 0.00 43.25 5.25
394 652 4.635765 CAGCTTTTTACCTGTATGCTGCTA 59.364 41.667 0.00 0.00 39.60 3.49
395 653 5.297776 CAGCTTTTTACCTGTATGCTGCTAT 59.702 40.000 0.00 0.00 39.60 2.97
398 656 6.693113 GCTTTTTACCTGTATGCTGCTATTTC 59.307 38.462 0.00 0.00 0.00 2.17
399 657 7.415653 GCTTTTTACCTGTATGCTGCTATTTCT 60.416 37.037 0.00 0.00 0.00 2.52
453 711 8.934023 TCTTTCATATGGATTACCCCATTTAC 57.066 34.615 2.13 0.00 44.11 2.01
456 714 7.355512 TCATATGGATTACCCCATTTACCAT 57.644 36.000 2.13 0.00 44.11 3.55
459 717 9.540538 CATATGGATTACCCCATTTACCATAAA 57.459 33.333 0.00 0.00 44.11 1.40
467 730 9.556772 TTACCCCATTTACCATAAAATTAACCA 57.443 29.630 0.00 0.00 0.00 3.67
479 742 5.784578 AAAATTAACCAGTCTTCACCCAC 57.215 39.130 0.00 0.00 0.00 4.61
482 745 1.149101 AACCAGTCTTCACCCACCAT 58.851 50.000 0.00 0.00 0.00 3.55
489 752 5.496556 CAGTCTTCACCCACCATTTATACA 58.503 41.667 0.00 0.00 0.00 2.29
490 753 5.586243 CAGTCTTCACCCACCATTTATACAG 59.414 44.000 0.00 0.00 0.00 2.74
491 754 5.487488 AGTCTTCACCCACCATTTATACAGA 59.513 40.000 0.00 0.00 0.00 3.41
492 755 6.158695 AGTCTTCACCCACCATTTATACAGAT 59.841 38.462 0.00 0.00 0.00 2.90
493 756 6.260936 GTCTTCACCCACCATTTATACAGATG 59.739 42.308 0.00 0.00 0.00 2.90
494 757 5.708736 TCACCCACCATTTATACAGATGT 57.291 39.130 0.00 0.00 0.00 3.06
495 758 6.816616 TCACCCACCATTTATACAGATGTA 57.183 37.500 0.00 0.00 34.67 2.29
496 759 7.387265 TCACCCACCATTTATACAGATGTAT 57.613 36.000 10.19 10.19 43.15 2.29
500 763 9.166222 ACCCACCATTTATACAGATGTATAGAA 57.834 33.333 11.44 9.82 42.43 2.10
661 944 3.159298 CATGGCGTGGAAAGTAGCT 57.841 52.632 0.00 0.00 0.00 3.32
773 1062 2.618709 GCCGCAAAAATATACTCCTGCT 59.381 45.455 0.00 0.00 0.00 4.24
961 1263 2.115266 CGCTTTCCCCAACCCACT 59.885 61.111 0.00 0.00 0.00 4.00
1020 1330 1.918262 TCATCCTCAGCCAAGTCCAAT 59.082 47.619 0.00 0.00 0.00 3.16
1033 1350 2.504367 AGTCCAATCCAAACCAACGAG 58.496 47.619 0.00 0.00 0.00 4.18
1034 1351 1.068541 GTCCAATCCAAACCAACGAGC 60.069 52.381 0.00 0.00 0.00 5.03
1045 1362 0.036875 CCAACGAGCCCTTCCTTCTT 59.963 55.000 0.00 0.00 0.00 2.52
1078 1395 2.738314 CGTGATCAGCAGTCAACAATCA 59.262 45.455 0.00 0.00 0.00 2.57
1079 1396 3.373130 CGTGATCAGCAGTCAACAATCAT 59.627 43.478 0.00 0.00 0.00 2.45
1110 1444 1.299697 GCTCGATCGATCAGCAGCA 60.300 57.895 29.12 8.62 33.85 4.41
1111 1445 1.547292 GCTCGATCGATCAGCAGCAC 61.547 60.000 29.12 10.67 33.85 4.40
1112 1446 0.938637 CTCGATCGATCAGCAGCACC 60.939 60.000 24.40 0.00 0.00 5.01
1113 1447 2.298629 CGATCGATCAGCAGCACCG 61.299 63.158 24.40 4.65 0.00 4.94
1114 1448 2.587194 ATCGATCAGCAGCACCGC 60.587 61.111 0.00 0.00 0.00 5.68
1115 1449 3.375472 ATCGATCAGCAGCACCGCA 62.375 57.895 0.00 0.00 0.00 5.69
1116 1450 3.561213 CGATCAGCAGCACCGCAG 61.561 66.667 0.00 0.00 0.00 5.18
1117 1451 3.873883 GATCAGCAGCACCGCAGC 61.874 66.667 0.00 0.00 41.34 5.25
1118 1452 4.710167 ATCAGCAGCACCGCAGCA 62.710 61.111 6.13 0.00 43.44 4.41
1123 1457 3.193614 CAGCACCGCAGCAGCTAG 61.194 66.667 0.00 0.00 39.10 3.42
1182 1516 1.454847 CGACCTCTCCCTCTCCCTG 60.455 68.421 0.00 0.00 0.00 4.45
1190 1524 3.086600 CCTCTCCCTGTCCCTGGC 61.087 72.222 0.00 0.00 0.00 4.85
1280 1629 4.980702 CAAGGGTGGGCAGCAGCA 62.981 66.667 2.65 0.00 44.61 4.41
1281 1630 4.673375 AAGGGTGGGCAGCAGCAG 62.673 66.667 2.65 0.00 44.61 4.24
1287 1636 4.816984 GGGCAGCAGCAGCAGGAT 62.817 66.667 12.41 0.00 45.49 3.24
1623 1977 2.540515 GTGTCTATGTCCATGTCCGTG 58.459 52.381 0.00 0.00 0.00 4.94
1812 2194 3.343617 TCAACCGTCCCTTGATTGATTC 58.656 45.455 0.00 0.00 0.00 2.52
1860 2248 6.256321 GGTATCACCATGATTTGTTGATTTGC 59.744 38.462 0.00 0.00 38.26 3.68
1861 2249 5.471556 TCACCATGATTTGTTGATTTGCT 57.528 34.783 0.00 0.00 0.00 3.91
1862 2250 5.231702 TCACCATGATTTGTTGATTTGCTG 58.768 37.500 0.00 0.00 0.00 4.41
1863 2251 4.992319 CACCATGATTTGTTGATTTGCTGT 59.008 37.500 0.00 0.00 0.00 4.40
1864 2252 6.015603 TCACCATGATTTGTTGATTTGCTGTA 60.016 34.615 0.00 0.00 0.00 2.74
1865 2253 6.089820 CACCATGATTTGTTGATTTGCTGTAC 59.910 38.462 0.00 0.00 0.00 2.90
1911 2308 9.136323 AGAAATGGAAACTATGGGCTTAATTAG 57.864 33.333 0.00 0.00 0.00 1.73
1912 2309 8.838649 AAATGGAAACTATGGGCTTAATTAGT 57.161 30.769 0.00 0.00 0.00 2.24
1913 2310 8.838649 AATGGAAACTATGGGCTTAATTAGTT 57.161 30.769 0.00 0.00 0.00 2.24
1925 2322 5.176592 GCTTAATTAGTTCCTCTCCACGTT 58.823 41.667 0.00 0.00 0.00 3.99
1929 2336 4.525912 TTAGTTCCTCTCCACGTTAACC 57.474 45.455 0.00 0.00 0.00 2.85
1967 2378 4.278669 CACATTACTCGACCTAGCTATGGT 59.721 45.833 12.88 12.88 41.07 3.55
1998 2409 8.495949 TGAATTAGACAATTAATTAGCTAGCGC 58.504 33.333 9.55 0.00 34.44 5.92
1999 2410 7.962964 ATTAGACAATTAATTAGCTAGCGCA 57.037 32.000 11.47 0.00 39.10 6.09
2000 2411 5.914085 AGACAATTAATTAGCTAGCGCAG 57.086 39.130 11.47 6.31 39.10 5.18
2013 2424 3.874873 CGCAGCCTGAATCGAACA 58.125 55.556 0.00 0.00 0.00 3.18
2014 2425 1.421485 CGCAGCCTGAATCGAACAC 59.579 57.895 0.00 0.00 0.00 3.32
2015 2426 1.796796 GCAGCCTGAATCGAACACC 59.203 57.895 0.00 0.00 0.00 4.16
2016 2427 1.648467 GCAGCCTGAATCGAACACCC 61.648 60.000 0.00 0.00 0.00 4.61
2017 2428 0.036010 CAGCCTGAATCGAACACCCT 60.036 55.000 0.00 0.00 0.00 4.34
2018 2429 0.693049 AGCCTGAATCGAACACCCTT 59.307 50.000 0.00 0.00 0.00 3.95
2019 2430 1.087501 GCCTGAATCGAACACCCTTC 58.912 55.000 0.00 0.00 0.00 3.46
2020 2431 1.739067 CCTGAATCGAACACCCTTCC 58.261 55.000 0.00 0.00 0.00 3.46
2021 2432 1.679032 CCTGAATCGAACACCCTTCCC 60.679 57.143 0.00 0.00 0.00 3.97
2022 2433 0.326927 TGAATCGAACACCCTTCCCC 59.673 55.000 0.00 0.00 0.00 4.81
2061 2472 1.108776 TCGGATCGGAACTTCGGATT 58.891 50.000 11.88 0.00 36.70 3.01
2065 2476 3.609644 CGGATCGGAACTTCGGATTAGAG 60.610 52.174 11.88 3.11 36.70 2.43
2067 2478 2.731572 TCGGAACTTCGGATTAGAGGT 58.268 47.619 0.00 0.00 31.47 3.85
2081 2492 4.602340 TTAGAGGTTCTTCTTCGTTGCT 57.398 40.909 0.00 0.00 0.00 3.91
2082 2493 5.717078 TTAGAGGTTCTTCTTCGTTGCTA 57.283 39.130 0.00 0.00 0.00 3.49
2083 2494 4.602340 AGAGGTTCTTCTTCGTTGCTAA 57.398 40.909 0.00 0.00 0.00 3.09
2087 2498 6.486993 AGAGGTTCTTCTTCGTTGCTAATTTT 59.513 34.615 0.00 0.00 0.00 1.82
2088 2499 6.438763 AGGTTCTTCTTCGTTGCTAATTTTG 58.561 36.000 0.00 0.00 0.00 2.44
2089 2500 5.629435 GGTTCTTCTTCGTTGCTAATTTTGG 59.371 40.000 0.00 0.00 0.00 3.28
2091 2502 6.627395 TCTTCTTCGTTGCTAATTTTGGAA 57.373 33.333 0.00 0.00 0.00 3.53
2092 2503 6.435428 TCTTCTTCGTTGCTAATTTTGGAAC 58.565 36.000 5.42 5.42 33.41 3.62
2097 2508 3.833442 GTTGCTAATTTTGGAACGGAGG 58.167 45.455 0.21 0.00 0.00 4.30
2098 2509 2.442413 TGCTAATTTTGGAACGGAGGG 58.558 47.619 0.00 0.00 0.00 4.30
2099 2510 2.040545 TGCTAATTTTGGAACGGAGGGA 59.959 45.455 0.00 0.00 0.00 4.20
2100 2511 2.683362 GCTAATTTTGGAACGGAGGGAG 59.317 50.000 0.00 0.00 0.00 4.30
2101 2512 2.971901 AATTTTGGAACGGAGGGAGT 57.028 45.000 0.00 0.00 0.00 3.85
2102 2513 4.624604 GCTAATTTTGGAACGGAGGGAGTA 60.625 45.833 0.00 0.00 0.00 2.59
2103 2514 3.629142 ATTTTGGAACGGAGGGAGTAG 57.371 47.619 0.00 0.00 0.00 2.57
2104 2515 1.272807 TTTGGAACGGAGGGAGTAGG 58.727 55.000 0.00 0.00 0.00 3.18
2106 2517 0.613853 TGGAACGGAGGGAGTAGGTG 60.614 60.000 0.00 0.00 0.00 4.00
2107 2518 1.516423 GAACGGAGGGAGTAGGTGC 59.484 63.158 0.00 0.00 0.00 5.01
2108 2519 1.957765 GAACGGAGGGAGTAGGTGCC 61.958 65.000 0.00 0.00 36.73 5.01
2109 2520 3.528370 CGGAGGGAGTAGGTGCCG 61.528 72.222 0.00 0.00 43.04 5.69
2110 2521 2.043248 GGAGGGAGTAGGTGCCGA 60.043 66.667 0.00 0.00 43.04 5.54
2111 2522 1.457831 GGAGGGAGTAGGTGCCGAT 60.458 63.158 0.00 0.00 43.04 4.18
2112 2523 1.049289 GGAGGGAGTAGGTGCCGATT 61.049 60.000 0.00 0.00 43.04 3.34
2113 2524 0.831307 GAGGGAGTAGGTGCCGATTT 59.169 55.000 0.00 0.00 43.04 2.17
2114 2525 1.209747 GAGGGAGTAGGTGCCGATTTT 59.790 52.381 0.00 0.00 43.04 1.82
2115 2526 1.633945 AGGGAGTAGGTGCCGATTTTT 59.366 47.619 0.00 0.00 43.04 1.94
2116 2527 2.841881 AGGGAGTAGGTGCCGATTTTTA 59.158 45.455 0.00 0.00 43.04 1.52
2117 2528 3.264964 AGGGAGTAGGTGCCGATTTTTAA 59.735 43.478 0.00 0.00 43.04 1.52
2118 2529 3.626217 GGGAGTAGGTGCCGATTTTTAAG 59.374 47.826 0.00 0.00 0.00 1.85
2119 2530 3.626217 GGAGTAGGTGCCGATTTTTAAGG 59.374 47.826 0.00 0.00 0.00 2.69
2215 2630 5.310857 ACTGGATGTTCCCCTCTATAAATCC 59.689 44.000 0.00 0.00 35.03 3.01
2239 2655 2.110213 GCCACCAGACCAACGTCA 59.890 61.111 0.00 0.00 41.87 4.35
2253 2669 3.753272 CCAACGTCACTTCAGAATCCAAT 59.247 43.478 0.00 0.00 0.00 3.16
2257 2673 4.932200 ACGTCACTTCAGAATCCAATCTTC 59.068 41.667 0.00 0.00 0.00 2.87
2263 2679 7.772292 TCACTTCAGAATCCAATCTTCCTATTG 59.228 37.037 0.00 0.00 36.74 1.90
2264 2680 7.772292 CACTTCAGAATCCAATCTTCCTATTGA 59.228 37.037 0.00 0.00 38.84 2.57
2281 2697 4.291815 AGCCGATCAGGATCAGCT 57.708 55.556 12.95 12.95 44.32 4.24
2282 2698 2.525784 AGCCGATCAGGATCAGCTT 58.474 52.632 12.95 0.44 46.25 3.74
2302 2718 4.832608 GGCGGCAGGTTCGGGTAG 62.833 72.222 3.07 0.00 0.00 3.18
2362 2779 2.041701 GGCCTATACGTCCTACCCAAA 58.958 52.381 0.00 0.00 0.00 3.28
2416 2833 2.167693 TCAACAGAAGAACACCAGTCGT 59.832 45.455 0.00 0.00 0.00 4.34
2434 2851 2.163613 TCGTGTATGTCGAGTGCAATCT 59.836 45.455 12.92 0.00 33.38 2.40
2490 2907 1.484653 CCGTCACTCAACCATATGGGA 59.515 52.381 25.55 12.94 41.15 4.37
2498 2915 4.289672 ACTCAACCATATGGGAAGTCACTT 59.710 41.667 25.55 5.47 41.15 3.16
2552 2970 1.238439 CAACAGCCGGACATTCACTT 58.762 50.000 5.05 0.00 0.00 3.16
2638 3057 9.482175 TTTATGTACATTAAGCCCCTTGTAATT 57.518 29.630 14.77 0.00 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 4.261197 GCACTTTGTCACTAGGGTTTCTTG 60.261 45.833 0.00 0.00 0.00 3.02
2 3 3.883489 GCACTTTGTCACTAGGGTTTCTT 59.117 43.478 0.00 0.00 0.00 2.52
3 4 3.136626 AGCACTTTGTCACTAGGGTTTCT 59.863 43.478 0.00 0.00 0.00 2.52
5 6 3.577805 AGCACTTTGTCACTAGGGTTT 57.422 42.857 0.00 0.00 0.00 3.27
7 8 4.102681 ACTTAAGCACTTTGTCACTAGGGT 59.897 41.667 1.29 0.00 0.00 4.34
8 9 4.642429 ACTTAAGCACTTTGTCACTAGGG 58.358 43.478 1.29 0.00 0.00 3.53
9 10 6.619801 AAACTTAAGCACTTTGTCACTAGG 57.380 37.500 1.29 0.00 0.00 3.02
12 13 8.682710 TGATTAAAACTTAAGCACTTTGTCACT 58.317 29.630 1.29 0.00 0.00 3.41
13 14 8.850454 TGATTAAAACTTAAGCACTTTGTCAC 57.150 30.769 1.29 0.00 0.00 3.67
14 15 9.462174 CATGATTAAAACTTAAGCACTTTGTCA 57.538 29.630 1.29 9.13 0.00 3.58
15 16 9.677567 TCATGATTAAAACTTAAGCACTTTGTC 57.322 29.630 1.29 4.60 0.00 3.18
21 22 8.801913 GCTGAATCATGATTAAAACTTAAGCAC 58.198 33.333 20.75 4.67 0.00 4.40
22 23 7.975616 GGCTGAATCATGATTAAAACTTAAGCA 59.024 33.333 20.75 9.44 0.00 3.91
23 24 7.975616 TGGCTGAATCATGATTAAAACTTAAGC 59.024 33.333 20.75 16.55 0.00 3.09
27 28 8.139989 GCTATGGCTGAATCATGATTAAAACTT 58.860 33.333 20.75 11.88 35.22 2.66
28 29 7.521099 CGCTATGGCTGAATCATGATTAAAACT 60.521 37.037 20.75 7.37 36.09 2.66
29 30 6.580041 CGCTATGGCTGAATCATGATTAAAAC 59.420 38.462 20.75 12.13 36.09 2.43
30 31 6.262944 ACGCTATGGCTGAATCATGATTAAAA 59.737 34.615 20.75 8.99 36.09 1.52
31 32 5.764686 ACGCTATGGCTGAATCATGATTAAA 59.235 36.000 20.75 11.35 36.09 1.52
32 33 5.308014 ACGCTATGGCTGAATCATGATTAA 58.692 37.500 20.75 13.02 36.09 1.40
33 34 4.898320 ACGCTATGGCTGAATCATGATTA 58.102 39.130 20.75 5.63 36.09 1.75
34 35 3.748083 ACGCTATGGCTGAATCATGATT 58.252 40.909 20.85 20.85 36.09 2.57
35 36 3.332919 GACGCTATGGCTGAATCATGAT 58.667 45.455 1.18 1.18 36.09 2.45
36 37 2.759191 GACGCTATGGCTGAATCATGA 58.241 47.619 0.00 0.00 36.09 3.07
37 38 1.458445 CGACGCTATGGCTGAATCATG 59.542 52.381 0.00 0.00 36.09 3.07
38 39 1.788258 CGACGCTATGGCTGAATCAT 58.212 50.000 0.00 0.00 36.09 2.45
39 40 0.875908 GCGACGCTATGGCTGAATCA 60.876 55.000 13.73 0.00 36.09 2.57
40 41 0.598680 AGCGACGCTATGGCTGAATC 60.599 55.000 23.15 0.00 41.50 2.52
41 42 0.598680 GAGCGACGCTATGGCTGAAT 60.599 55.000 24.55 0.00 43.39 2.57
42 43 1.226974 GAGCGACGCTATGGCTGAA 60.227 57.895 24.55 0.00 43.39 3.02
43 44 2.413351 GAGCGACGCTATGGCTGA 59.587 61.111 24.55 0.00 43.39 4.26
44 45 3.026879 CGAGCGACGCTATGGCTG 61.027 66.667 24.55 4.86 43.39 4.85
45 46 3.471244 GACGAGCGACGCTATGGCT 62.471 63.158 24.55 0.00 46.51 4.75
46 47 2.938539 AAGACGAGCGACGCTATGGC 62.939 60.000 24.55 20.40 46.94 4.40
47 48 1.064296 AAGACGAGCGACGCTATGG 59.936 57.895 24.55 17.08 46.94 2.74
48 49 0.523546 ACAAGACGAGCGACGCTATG 60.524 55.000 24.55 20.26 46.94 2.23
49 50 0.248134 GACAAGACGAGCGACGCTAT 60.248 55.000 24.55 14.46 46.94 2.97
50 51 1.134075 GACAAGACGAGCGACGCTA 59.866 57.895 24.55 0.00 46.94 4.26
51 52 2.126812 GACAAGACGAGCGACGCT 60.127 61.111 24.77 24.77 46.94 5.07
52 53 3.173240 GGACAAGACGAGCGACGC 61.173 66.667 13.03 13.03 46.94 5.19
54 55 2.089349 GCTGGACAAGACGAGCGAC 61.089 63.158 0.00 0.00 32.71 5.19
55 56 2.258591 GCTGGACAAGACGAGCGA 59.741 61.111 0.00 0.00 32.71 4.93
56 57 2.811317 GGCTGGACAAGACGAGCG 60.811 66.667 0.00 0.00 41.31 5.03
57 58 0.175760 TATGGCTGGACAAGACGAGC 59.824 55.000 0.00 0.00 36.26 5.03
58 59 1.804372 GCTATGGCTGGACAAGACGAG 60.804 57.143 0.00 0.00 36.26 4.18
59 60 0.175760 GCTATGGCTGGACAAGACGA 59.824 55.000 0.00 0.00 36.26 4.20
60 61 1.148157 CGCTATGGCTGGACAAGACG 61.148 60.000 0.00 0.00 36.26 4.18
61 62 1.432270 GCGCTATGGCTGGACAAGAC 61.432 60.000 0.00 0.00 36.09 3.01
62 63 1.153369 GCGCTATGGCTGGACAAGA 60.153 57.895 0.00 0.00 36.09 3.02
63 64 2.182842 GGCGCTATGGCTGGACAAG 61.183 63.158 7.64 0.00 40.72 3.16
64 65 2.124736 GGCGCTATGGCTGGACAA 60.125 61.111 7.64 0.00 40.72 3.18
65 66 2.476852 TTTGGCGCTATGGCTGGACA 62.477 55.000 7.64 0.00 45.14 4.02
66 67 1.748879 TTTGGCGCTATGGCTGGAC 60.749 57.895 7.64 0.00 45.14 4.02
67 68 1.748879 GTTTGGCGCTATGGCTGGA 60.749 57.895 7.64 0.00 45.14 3.86
68 69 1.315257 AAGTTTGGCGCTATGGCTGG 61.315 55.000 7.64 0.00 45.14 4.85
69 70 0.099436 GAAGTTTGGCGCTATGGCTG 59.901 55.000 7.64 0.00 45.14 4.85
70 71 0.035056 AGAAGTTTGGCGCTATGGCT 60.035 50.000 7.64 0.00 45.14 4.75
71 72 0.378610 GAGAAGTTTGGCGCTATGGC 59.621 55.000 7.64 0.00 45.12 4.40
72 73 0.652592 CGAGAAGTTTGGCGCTATGG 59.347 55.000 7.64 0.00 0.00 2.74
73 74 0.652592 CCGAGAAGTTTGGCGCTATG 59.347 55.000 7.64 0.00 0.00 2.23
74 75 0.462047 CCCGAGAAGTTTGGCGCTAT 60.462 55.000 7.64 0.00 0.00 2.97
75 76 1.079405 CCCGAGAAGTTTGGCGCTA 60.079 57.895 7.64 0.00 0.00 4.26
76 77 2.358737 CCCGAGAAGTTTGGCGCT 60.359 61.111 7.64 0.00 0.00 5.92
77 78 3.431725 CCCCGAGAAGTTTGGCGC 61.432 66.667 0.00 0.00 0.00 6.53
78 79 2.746277 CCCCCGAGAAGTTTGGCG 60.746 66.667 0.00 0.00 0.00 5.69
79 80 1.971695 CACCCCCGAGAAGTTTGGC 60.972 63.158 0.00 0.00 0.00 4.52
80 81 1.303317 CCACCCCCGAGAAGTTTGG 60.303 63.158 0.00 0.00 0.00 3.28
81 82 0.179001 AACCACCCCCGAGAAGTTTG 60.179 55.000 0.00 0.00 0.00 2.93
82 83 1.350019 CTAACCACCCCCGAGAAGTTT 59.650 52.381 0.00 0.00 0.00 2.66
83 84 0.981943 CTAACCACCCCCGAGAAGTT 59.018 55.000 0.00 0.00 0.00 2.66
98 99 0.175989 AGAACTAGCCAGCGCCTAAC 59.824 55.000 2.29 0.00 34.57 2.34
101 102 2.726351 GGAGAACTAGCCAGCGCCT 61.726 63.158 2.29 0.00 34.57 5.52
105 106 2.941720 CAAAGATGGAGAACTAGCCAGC 59.058 50.000 0.00 0.00 40.75 4.85
106 107 4.478206 TCAAAGATGGAGAACTAGCCAG 57.522 45.455 0.00 0.00 37.64 4.85
109 110 4.025313 GCGATTCAAAGATGGAGAACTAGC 60.025 45.833 0.00 0.00 0.00 3.42
126 127 2.510691 TTCCTTCCGCCGCGATTC 60.511 61.111 15.93 0.00 0.00 2.52
136 137 3.054802 TGATCTTTCTGAGGCTTCCTTCC 60.055 47.826 0.00 0.00 31.76 3.46
141 142 3.126686 GCAACTGATCTTTCTGAGGCTTC 59.873 47.826 0.00 0.00 0.00 3.86
142 143 3.080319 GCAACTGATCTTTCTGAGGCTT 58.920 45.455 0.00 0.00 0.00 4.35
143 144 2.709213 GCAACTGATCTTTCTGAGGCT 58.291 47.619 0.00 0.00 0.00 4.58
149 150 4.154918 GTCCAAATCGCAACTGATCTTTCT 59.845 41.667 0.00 0.00 0.00 2.52
154 155 1.732259 ACGTCCAAATCGCAACTGATC 59.268 47.619 0.00 0.00 0.00 2.92
155 156 1.732259 GACGTCCAAATCGCAACTGAT 59.268 47.619 3.51 0.00 0.00 2.90
156 157 1.144969 GACGTCCAAATCGCAACTGA 58.855 50.000 3.51 0.00 0.00 3.41
157 158 0.179250 CGACGTCCAAATCGCAACTG 60.179 55.000 10.58 0.00 0.00 3.16
160 162 1.610715 CGACGACGTCCAAATCGCAA 61.611 55.000 21.63 0.00 42.12 4.85
164 166 1.411493 GCCTCGACGACGTCCAAATC 61.411 60.000 21.63 4.54 40.69 2.17
169 171 2.278013 GATGCCTCGACGACGTCC 60.278 66.667 21.63 8.57 40.69 4.79
177 179 2.270923 CAAACTTCGATGATGCCTCGA 58.729 47.619 5.16 0.00 42.93 4.04
178 180 1.328680 CCAAACTTCGATGATGCCTCG 59.671 52.381 5.16 0.00 37.47 4.63
179 181 2.352960 GTCCAAACTTCGATGATGCCTC 59.647 50.000 5.16 0.00 0.00 4.70
190 192 3.058914 CACCTTGACATCGTCCAAACTTC 60.059 47.826 0.00 0.00 0.00 3.01
198 200 3.751175 TCCAAAATCACCTTGACATCGTC 59.249 43.478 0.00 0.00 0.00 4.20
199 201 3.502211 GTCCAAAATCACCTTGACATCGT 59.498 43.478 0.00 0.00 0.00 3.73
203 205 3.201353 TCGTCCAAAATCACCTTGACA 57.799 42.857 0.00 0.00 0.00 3.58
204 206 4.003648 AGATCGTCCAAAATCACCTTGAC 58.996 43.478 0.00 0.00 0.00 3.18
207 209 4.286297 TGAGATCGTCCAAAATCACCTT 57.714 40.909 0.00 0.00 0.00 3.50
221 223 2.205074 GCTACCCATGTGTTGAGATCG 58.795 52.381 0.00 0.00 0.00 3.69
234 257 0.546122 AATCAAGGCGATGCTACCCA 59.454 50.000 0.00 0.00 33.40 4.51
277 301 7.030768 GGTCTTTATTTTACTGCCGCAATTTA 58.969 34.615 0.00 0.00 0.00 1.40
297 321 9.675464 TTCATCCTAAATTATTACAACGGTCTT 57.325 29.630 0.00 0.00 0.00 3.01
315 339 5.013079 AGCCGTCCAATGAATATTCATCCTA 59.987 40.000 27.04 14.53 46.60 2.94
325 349 6.827586 TTTAACTTTAGCCGTCCAATGAAT 57.172 33.333 0.00 0.00 0.00 2.57
351 609 5.966319 AGCTGGGATTTCCTTAAAATTGGAT 59.034 36.000 0.00 0.00 37.70 3.41
353 611 5.682234 AGCTGGGATTTCCTTAAAATTGG 57.318 39.130 0.00 0.00 37.70 3.16
364 622 6.564328 CATACAGGTAAAAAGCTGGGATTTC 58.436 40.000 9.18 0.00 0.00 2.17
365 623 5.105351 GCATACAGGTAAAAAGCTGGGATTT 60.105 40.000 9.18 0.00 0.00 2.17
369 627 3.129287 CAGCATACAGGTAAAAAGCTGGG 59.871 47.826 9.18 0.56 42.99 4.45
374 632 7.989826 AGAAATAGCAGCATACAGGTAAAAAG 58.010 34.615 0.00 0.00 0.00 2.27
379 637 7.938140 AAAAAGAAATAGCAGCATACAGGTA 57.062 32.000 0.00 0.00 0.00 3.08
380 638 6.840780 AAAAAGAAATAGCAGCATACAGGT 57.159 33.333 0.00 0.00 0.00 4.00
429 687 7.728083 TGGTAAATGGGGTAATCCATATGAAAG 59.272 37.037 3.65 0.00 46.05 2.62
453 711 6.435904 TGGGTGAAGACTGGTTAATTTTATGG 59.564 38.462 0.00 0.00 0.00 2.74
456 714 5.771165 GGTGGGTGAAGACTGGTTAATTTTA 59.229 40.000 0.00 0.00 0.00 1.52
459 717 3.139397 TGGTGGGTGAAGACTGGTTAATT 59.861 43.478 0.00 0.00 0.00 1.40
465 728 2.292828 AAATGGTGGGTGAAGACTGG 57.707 50.000 0.00 0.00 0.00 4.00
467 730 5.487488 TCTGTATAAATGGTGGGTGAAGACT 59.513 40.000 0.00 0.00 0.00 3.24
473 736 8.593679 TCTATACATCTGTATAAATGGTGGGTG 58.406 37.037 10.42 0.00 41.40 4.61
496 759 9.506042 TCCATGGGAGCAAATATAGATATTCTA 57.494 33.333 13.02 0.00 32.08 2.10
955 1257 5.105310 GCATATATAGTGATCGGAAGTGGGT 60.105 44.000 0.00 0.00 0.00 4.51
961 1263 4.141937 GGCTGGCATATATAGTGATCGGAA 60.142 45.833 0.00 0.00 0.00 4.30
1020 1330 0.536460 GAAGGGCTCGTTGGTTTGGA 60.536 55.000 0.00 0.00 0.00 3.53
1033 1350 1.065345 GTGGGTAGAAGAAGGAAGGGC 60.065 57.143 0.00 0.00 0.00 5.19
1034 1351 1.560146 GGTGGGTAGAAGAAGGAAGGG 59.440 57.143 0.00 0.00 0.00 3.95
1045 1362 0.613572 TGATCACGCAGGTGGGTAGA 60.614 55.000 0.00 1.40 44.50 2.59
1110 1444 3.790437 ATGGCTAGCTGCTGCGGT 61.790 61.111 15.72 5.92 45.42 5.68
1111 1445 3.277602 CATGGCTAGCTGCTGCGG 61.278 66.667 15.72 3.55 45.42 5.69
1112 1446 3.277602 CCATGGCTAGCTGCTGCG 61.278 66.667 15.72 4.37 45.42 5.18
1113 1447 1.751927 AACCATGGCTAGCTGCTGC 60.752 57.895 13.04 13.39 42.39 5.25
1114 1448 2.001361 GCAACCATGGCTAGCTGCTG 62.001 60.000 13.04 9.44 42.39 4.41
1115 1449 1.751927 GCAACCATGGCTAGCTGCT 60.752 57.895 13.04 7.57 42.39 4.24
1116 1450 2.803479 GCAACCATGGCTAGCTGC 59.197 61.111 13.04 11.64 41.94 5.25
1146 1480 1.831652 CGGTCTGGTCAAAGAGGGCT 61.832 60.000 0.00 0.00 0.00 5.19
1270 1619 4.816984 ATCCTGCTGCTGCTGCCC 62.817 66.667 25.44 4.84 40.48 5.36
1271 1620 3.210528 GATCCTGCTGCTGCTGCC 61.211 66.667 25.44 8.69 40.48 4.85
1272 1621 2.437895 TGATCCTGCTGCTGCTGC 60.438 61.111 22.51 22.51 40.48 5.25
1273 1622 1.820056 CCTGATCCTGCTGCTGCTG 60.820 63.158 17.00 15.58 40.48 4.41
1274 1623 2.590645 CCTGATCCTGCTGCTGCT 59.409 61.111 17.00 0.00 40.48 4.24
1275 1624 3.210528 GCCTGATCCTGCTGCTGC 61.211 66.667 8.89 8.89 40.20 5.25
1276 1625 2.895865 CGCCTGATCCTGCTGCTG 60.896 66.667 0.00 0.00 0.00 4.41
1277 1626 3.079478 TCGCCTGATCCTGCTGCT 61.079 61.111 0.00 0.00 0.00 4.24
1278 1627 2.588314 CTCGCCTGATCCTGCTGC 60.588 66.667 0.00 0.00 0.00 5.25
1279 1628 2.588314 GCTCGCCTGATCCTGCTG 60.588 66.667 2.56 0.00 0.00 4.41
1280 1629 4.218578 CGCTCGCCTGATCCTGCT 62.219 66.667 2.56 0.00 0.00 4.24
1759 2133 6.238593 GCCATCTCTCCTTTTATTTACAGCAG 60.239 42.308 0.00 0.00 0.00 4.24
1892 2289 7.993758 AGAGGAACTAATTAAGCCCATAGTTTC 59.006 37.037 0.00 0.00 41.55 2.78
1911 2308 3.675502 GCTAGGTTAACGTGGAGAGGAAC 60.676 52.174 14.90 0.00 0.00 3.62
1912 2309 2.494870 GCTAGGTTAACGTGGAGAGGAA 59.505 50.000 14.90 0.00 0.00 3.36
1913 2310 2.097825 GCTAGGTTAACGTGGAGAGGA 58.902 52.381 14.90 0.00 0.00 3.71
1925 2322 5.675684 TGTGAATGTCTGATGCTAGGTTA 57.324 39.130 0.00 0.00 0.00 2.85
1929 2336 6.143598 CGAGTAATGTGAATGTCTGATGCTAG 59.856 42.308 0.00 0.00 0.00 3.42
1998 2409 0.036010 AGGGTGTTCGATTCAGGCTG 60.036 55.000 8.58 8.58 0.00 4.85
1999 2410 0.693049 AAGGGTGTTCGATTCAGGCT 59.307 50.000 0.00 0.00 0.00 4.58
2000 2411 1.087501 GAAGGGTGTTCGATTCAGGC 58.912 55.000 0.00 0.00 0.00 4.85
2001 2412 1.679032 GGGAAGGGTGTTCGATTCAGG 60.679 57.143 0.00 0.00 0.00 3.86
2002 2413 1.679032 GGGGAAGGGTGTTCGATTCAG 60.679 57.143 0.00 0.00 0.00 3.02
2003 2414 0.326927 GGGGAAGGGTGTTCGATTCA 59.673 55.000 0.00 0.00 0.00 2.57
2004 2415 0.393944 GGGGGAAGGGTGTTCGATTC 60.394 60.000 0.00 0.00 0.00 2.52
2005 2416 1.137594 TGGGGGAAGGGTGTTCGATT 61.138 55.000 0.00 0.00 0.00 3.34
2006 2417 1.540367 TGGGGGAAGGGTGTTCGAT 60.540 57.895 0.00 0.00 0.00 3.59
2007 2418 2.122324 TGGGGGAAGGGTGTTCGA 60.122 61.111 0.00 0.00 0.00 3.71
2008 2419 2.351276 CTGGGGGAAGGGTGTTCG 59.649 66.667 0.00 0.00 0.00 3.95
2009 2420 1.134438 AGACTGGGGGAAGGGTGTTC 61.134 60.000 0.00 0.00 0.00 3.18
2010 2421 1.072930 AGACTGGGGGAAGGGTGTT 60.073 57.895 0.00 0.00 0.00 3.32
2011 2422 1.847968 CAGACTGGGGGAAGGGTGT 60.848 63.158 0.00 0.00 0.00 4.16
2012 2423 0.546747 TACAGACTGGGGGAAGGGTG 60.547 60.000 7.51 0.00 0.00 4.61
2013 2424 0.252742 CTACAGACTGGGGGAAGGGT 60.253 60.000 7.51 0.00 0.00 4.34
2014 2425 0.042731 TCTACAGACTGGGGGAAGGG 59.957 60.000 7.51 0.00 0.00 3.95
2015 2426 1.765314 CATCTACAGACTGGGGGAAGG 59.235 57.143 7.51 0.00 0.00 3.46
2016 2427 2.472029 ACATCTACAGACTGGGGGAAG 58.528 52.381 7.51 1.97 0.00 3.46
2017 2428 2.571653 CAACATCTACAGACTGGGGGAA 59.428 50.000 7.51 0.00 0.00 3.97
2018 2429 2.187958 CAACATCTACAGACTGGGGGA 58.812 52.381 7.51 2.31 0.00 4.81
2019 2430 1.210478 CCAACATCTACAGACTGGGGG 59.790 57.143 7.51 0.00 0.00 5.40
2020 2431 1.210478 CCCAACATCTACAGACTGGGG 59.790 57.143 7.51 1.06 37.78 4.96
2021 2432 1.909302 ACCCAACATCTACAGACTGGG 59.091 52.381 16.21 16.21 42.82 4.45
2022 2433 3.600388 GAACCCAACATCTACAGACTGG 58.400 50.000 7.51 0.00 0.00 4.00
2061 2472 5.717078 TTAGCAACGAAGAAGAACCTCTA 57.283 39.130 0.00 0.00 0.00 2.43
2065 2476 5.629435 CCAAAATTAGCAACGAAGAAGAACC 59.371 40.000 0.00 0.00 0.00 3.62
2067 2478 6.627395 TCCAAAATTAGCAACGAAGAAGAA 57.373 33.333 0.00 0.00 0.00 2.52
2081 2492 4.080751 CCTACTCCCTCCGTTCCAAAATTA 60.081 45.833 0.00 0.00 0.00 1.40
2082 2493 2.971901 ACTCCCTCCGTTCCAAAATT 57.028 45.000 0.00 0.00 0.00 1.82
2083 2494 2.238898 CCTACTCCCTCCGTTCCAAAAT 59.761 50.000 0.00 0.00 0.00 1.82
2087 2498 0.613853 CACCTACTCCCTCCGTTCCA 60.614 60.000 0.00 0.00 0.00 3.53
2088 2499 1.957765 GCACCTACTCCCTCCGTTCC 61.958 65.000 0.00 0.00 0.00 3.62
2089 2500 1.516423 GCACCTACTCCCTCCGTTC 59.484 63.158 0.00 0.00 0.00 3.95
2091 2502 2.363925 GGCACCTACTCCCTCCGT 60.364 66.667 0.00 0.00 0.00 4.69
2092 2503 3.528370 CGGCACCTACTCCCTCCG 61.528 72.222 0.00 0.00 0.00 4.63
2093 2504 1.049289 AATCGGCACCTACTCCCTCC 61.049 60.000 0.00 0.00 0.00 4.30
2094 2505 0.831307 AAATCGGCACCTACTCCCTC 59.169 55.000 0.00 0.00 0.00 4.30
2095 2506 1.286248 AAAATCGGCACCTACTCCCT 58.714 50.000 0.00 0.00 0.00 4.20
2096 2507 2.124277 AAAAATCGGCACCTACTCCC 57.876 50.000 0.00 0.00 0.00 4.30
2097 2508 3.626217 CCTTAAAAATCGGCACCTACTCC 59.374 47.826 0.00 0.00 0.00 3.85
2098 2509 3.064958 GCCTTAAAAATCGGCACCTACTC 59.935 47.826 0.00 0.00 43.25 2.59
2099 2510 3.014623 GCCTTAAAAATCGGCACCTACT 58.985 45.455 0.00 0.00 43.25 2.57
2100 2511 2.098607 GGCCTTAAAAATCGGCACCTAC 59.901 50.000 0.00 0.00 45.53 3.18
2101 2512 2.025699 AGGCCTTAAAAATCGGCACCTA 60.026 45.455 0.00 0.00 45.53 3.08
2102 2513 1.182667 GGCCTTAAAAATCGGCACCT 58.817 50.000 0.00 0.00 45.53 4.00
2103 2514 1.182667 AGGCCTTAAAAATCGGCACC 58.817 50.000 0.00 0.00 45.53 5.01
2104 2515 3.313012 AAAGGCCTTAAAAATCGGCAC 57.687 42.857 20.84 0.00 45.53 5.01
2123 2534 3.252215 ACTTCGGATGCGATTGTGAAAAA 59.748 39.130 11.02 0.00 0.00 1.94
2124 2535 2.811431 ACTTCGGATGCGATTGTGAAAA 59.189 40.909 11.02 0.00 0.00 2.29
2125 2536 2.422597 ACTTCGGATGCGATTGTGAAA 58.577 42.857 11.02 0.00 0.00 2.69
2126 2537 2.093306 ACTTCGGATGCGATTGTGAA 57.907 45.000 11.02 0.00 0.00 3.18
2127 2538 1.999735 GAACTTCGGATGCGATTGTGA 59.000 47.619 11.02 0.00 0.00 3.58
2128 2539 1.062587 GGAACTTCGGATGCGATTGTG 59.937 52.381 11.02 4.13 0.00 3.33
2129 2540 1.369625 GGAACTTCGGATGCGATTGT 58.630 50.000 11.02 9.98 0.00 2.71
2130 2541 0.301687 CGGAACTTCGGATGCGATTG 59.698 55.000 11.02 9.30 33.89 2.67
2131 2542 0.174845 TCGGAACTTCGGATGCGATT 59.825 50.000 11.02 2.03 35.94 3.34
2132 2543 0.174845 TTCGGAACTTCGGATGCGAT 59.825 50.000 11.02 0.00 39.77 4.58
2133 2544 0.734942 GTTCGGAACTTCGGATGCGA 60.735 55.000 13.49 4.75 38.57 5.10
2134 2545 1.693083 GGTTCGGAACTTCGGATGCG 61.693 60.000 19.40 0.00 33.39 4.73
2135 2546 1.693083 CGGTTCGGAACTTCGGATGC 61.693 60.000 19.40 0.77 0.00 3.91
2136 2547 0.108992 TCGGTTCGGAACTTCGGATG 60.109 55.000 19.40 3.13 0.00 3.51
2137 2548 0.108945 GTCGGTTCGGAACTTCGGAT 60.109 55.000 19.40 0.00 0.00 4.18
2138 2549 1.174712 AGTCGGTTCGGAACTTCGGA 61.175 55.000 19.40 9.78 0.00 4.55
2139 2550 0.319297 AAGTCGGTTCGGAACTTCGG 60.319 55.000 19.40 7.84 0.00 4.30
2140 2551 0.782384 CAAGTCGGTTCGGAACTTCG 59.218 55.000 19.40 15.21 0.00 3.79
2141 2552 2.144482 TCAAGTCGGTTCGGAACTTC 57.856 50.000 19.40 10.53 0.00 3.01
2142 2553 2.607631 TTCAAGTCGGTTCGGAACTT 57.392 45.000 19.40 4.04 0.00 2.66
2143 2554 2.607631 TTTCAAGTCGGTTCGGAACT 57.392 45.000 19.40 0.00 0.00 3.01
2144 2555 2.159881 CGATTTCAAGTCGGTTCGGAAC 60.160 50.000 12.41 12.41 35.55 3.62
2145 2556 2.063266 CGATTTCAAGTCGGTTCGGAA 58.937 47.619 0.00 0.00 35.55 4.30
2146 2557 1.270274 TCGATTTCAAGTCGGTTCGGA 59.730 47.619 2.11 0.00 39.45 4.55
2147 2558 1.389106 GTCGATTTCAAGTCGGTTCGG 59.611 52.381 2.11 0.00 39.45 4.30
2148 2559 1.389106 GGTCGATTTCAAGTCGGTTCG 59.611 52.381 2.11 0.00 39.45 3.95
2149 2560 2.685100 AGGTCGATTTCAAGTCGGTTC 58.315 47.619 2.11 0.00 39.45 3.62
2189 2600 3.715648 ATAGAGGGGAACATCCAGTCT 57.284 47.619 0.00 2.42 43.69 3.24
2190 2601 5.888982 TTTATAGAGGGGAACATCCAGTC 57.111 43.478 0.00 0.00 43.69 3.51
2215 2630 2.184020 TTGGTCTGGTGGCGGAGATG 62.184 60.000 0.00 0.00 0.00 2.90
2239 2655 7.865820 TCAATAGGAAGATTGGATTCTGAAGT 58.134 34.615 0.00 0.00 37.41 3.01
2253 2669 2.630098 CCTGATCGGCTCAATAGGAAGA 59.370 50.000 0.00 0.00 32.14 2.87
2257 2673 2.564504 TGATCCTGATCGGCTCAATAGG 59.435 50.000 7.40 0.00 40.63 2.57
2300 2716 3.009916 GGTCTATATCCTCGTCACCCCTA 59.990 52.174 0.00 0.00 0.00 3.53
2302 2718 2.169330 GGTCTATATCCTCGTCACCCC 58.831 57.143 0.00 0.00 0.00 4.95
2362 2779 6.500751 TCTTTTTATCTTCTGGGGTAGTGACT 59.499 38.462 0.00 0.00 0.00 3.41
2416 2833 4.921547 GAGTAGATTGCACTCGACATACA 58.078 43.478 17.27 0.00 33.62 2.29
2434 2851 2.284417 CGAGTGATGTGATCGTCGAGTA 59.716 50.000 0.00 0.00 39.40 2.59
2498 2915 6.207614 CCGACTCCTGATCTTTGATATAGTCA 59.792 42.308 0.00 0.00 32.34 3.41
2607 3026 9.131791 CAAGGGGCTTAATGTACATAAAGTAAT 57.868 33.333 9.21 0.00 33.72 1.89
2638 3057 4.974438 AGACCCCAACCCGCCTCA 62.974 66.667 0.00 0.00 0.00 3.86
2682 3102 0.615850 GAACCCTTGTCCCAGAGGAG 59.384 60.000 0.00 0.00 45.21 3.69


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

AutoCloner maintained by Alex Coulton.