Multiple sequence alignment - TraesCS5B01G310900

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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 TraesCS5B01G310900 chr5B 100.000 2773 0 0 1 2773 492797639 492800411 0.000000e+00 5121.0
1 TraesCS5B01G310900 chr5B 88.587 368 33 6 1122 1488 492782525 492782884 3.280000e-119 438.0
2 TraesCS5B01G310900 chr5B 88.108 370 37 4 1121 1490 493086693 493086331 1.530000e-117 433.0
3 TraesCS5B01G310900 chr5B 87.062 371 38 7 1122 1490 493140579 493140941 7.150000e-111 411.0
4 TraesCS5B01G310900 chr3B 97.062 987 24 1 1790 2771 59728060 59729046 0.000000e+00 1657.0
5 TraesCS5B01G310900 chr5D 93.241 577 25 2 921 1490 410538974 410539543 0.000000e+00 837.0
6 TraesCS5B01G310900 chr5D 87.838 370 38 4 1121 1490 410620356 410620718 7.100000e-116 427.0
7 TraesCS5B01G310900 chr5D 86.559 372 38 8 1121 1488 410490834 410491197 1.550000e-107 399.0
8 TraesCS5B01G310900 chr5D 89.068 311 19 5 1484 1791 410539606 410539904 3.370000e-99 372.0
9 TraesCS5B01G310900 chr5D 88.667 300 24 5 1484 1783 84788253 84788542 9.440000e-95 357.0
10 TraesCS5B01G310900 chr5A 91.282 585 24 6 925 1490 522104058 522104634 0.000000e+00 773.0
11 TraesCS5B01G310900 chr5A 88.949 371 32 6 1121 1490 522082766 522083128 1.510000e-122 449.0
12 TraesCS5B01G310900 chr5A 88.140 371 37 5 1120 1490 522223755 522224118 4.240000e-118 435.0
13 TraesCS5B01G310900 chr5A 93.262 282 13 4 1484 1765 522104697 522104972 7.150000e-111 411.0
14 TraesCS5B01G310900 chr5A 86.538 312 31 5 1481 1791 37178813 37178512 1.590000e-87 333.0
15 TraesCS5B01G310900 chr5A 85.897 312 33 6 1481 1791 121082706 121083007 3.450000e-84 322.0
16 TraesCS5B01G310900 chr2A 92.803 528 17 3 171 679 291672867 291672342 0.000000e+00 745.0
17 TraesCS5B01G310900 chr2A 85.714 308 34 3 1484 1791 343239755 343239458 1.600000e-82 316.0
18 TraesCS5B01G310900 chr2A 89.109 202 13 6 711 911 291672344 291672151 2.760000e-60 243.0
19 TraesCS5B01G310900 chr2A 89.444 180 17 2 746 924 685661892 685661714 2.780000e-55 226.0
20 TraesCS5B01G310900 chr2A 78.723 94 17 3 833 924 569287776 569287684 2.980000e-05 60.2
21 TraesCS5B01G310900 chr7D 88.998 509 45 5 171 679 39422529 39422032 1.090000e-173 619.0
22 TraesCS5B01G310900 chr7D 89.293 495 44 3 171 665 108515727 108516212 1.830000e-171 612.0
23 TraesCS5B01G310900 chr7D 88.605 509 47 5 171 679 39464143 39463646 2.360000e-170 608.0
24 TraesCS5B01G310900 chr7D 88.409 509 47 6 171 679 39388445 39387949 1.100000e-168 603.0
25 TraesCS5B01G310900 chr7D 91.713 181 14 1 746 925 39463515 39463335 1.650000e-62 250.0
26 TraesCS5B01G310900 chr7D 91.160 181 15 1 746 925 39387818 39387638 7.670000e-61 244.0
27 TraesCS5B01G310900 chr7D 90.055 181 17 1 746 925 39421897 39421717 1.660000e-57 233.0
28 TraesCS5B01G310900 chr2D 90.671 343 31 1 171 513 78799616 78799957 3.260000e-124 455.0
29 TraesCS5B01G310900 chr2D 86.730 211 19 3 715 924 78800323 78800525 2.780000e-55 226.0
30 TraesCS5B01G310900 chr2D 93.103 116 8 0 564 679 78799957 78800072 1.320000e-38 171.0
31 TraesCS5B01G310900 chr2D 97.826 46 1 0 882 927 630428219 630428174 2.290000e-11 80.5
32 TraesCS5B01G310900 chr7B 90.379 343 32 1 171 513 619067363 619067022 1.510000e-122 449.0
33 TraesCS5B01G310900 chr7B 88.732 284 20 6 1484 1765 624549132 624548859 1.230000e-88 337.0
34 TraesCS5B01G310900 chr7B 96.262 107 4 0 188 294 633215634 633215740 2.840000e-40 176.0
35 TraesCS5B01G310900 chr7B 92.920 113 8 0 567 679 619067019 619066907 6.140000e-37 165.0
36 TraesCS5B01G310900 chr7B 93.506 77 5 0 172 248 116378418 116378342 6.280000e-22 115.0
37 TraesCS5B01G310900 chr7B 97.500 40 1 0 885 924 709504155 709504116 4.960000e-08 69.4
38 TraesCS5B01G310900 chr7A 87.179 312 29 6 1481 1791 233806659 233806960 7.350000e-91 344.0
39 TraesCS5B01G310900 chr1B 86.408 309 37 3 1484 1791 380689852 380690156 1.590000e-87 333.0
40 TraesCS5B01G310900 chr6B 95.858 169 7 0 1 169 415901214 415901382 9.780000e-70 274.0
41 TraesCS5B01G310900 chr2B 94.350 177 10 0 1 177 386673729 386673553 3.520000e-69 272.0
42 TraesCS5B01G310900 chr4A 95.266 169 8 0 1 169 708205824 708205656 4.550000e-68 268.0
43 TraesCS5B01G310900 chr1A 87.446 231 27 2 450 679 7689625 7689396 5.890000e-67 265.0
44 TraesCS5B01G310900 chrUn 90.184 163 15 1 455 617 47312512 47312673 7.780000e-51 211.0
45 TraesCS5B01G310900 chrUn 89.571 163 16 1 455 617 47291507 47291346 3.620000e-49 206.0
46 TraesCS5B01G310900 chr3A 78.571 168 34 2 1792 1958 706209365 706209531 2.920000e-20 110.0


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 TraesCS5B01G310900 chr5B 492797639 492800411 2772 False 5121.0 5121 100.0000 1 2773 1 chr5B.!!$F2 2772
1 TraesCS5B01G310900 chr3B 59728060 59729046 986 False 1657.0 1657 97.0620 1790 2771 1 chr3B.!!$F1 981
2 TraesCS5B01G310900 chr5D 410538974 410539904 930 False 604.5 837 91.1545 921 1791 2 chr5D.!!$F4 870
3 TraesCS5B01G310900 chr5A 522104058 522104972 914 False 592.0 773 92.2720 925 1765 2 chr5A.!!$F4 840
4 TraesCS5B01G310900 chr2A 291672151 291672867 716 True 494.0 745 90.9560 171 911 2 chr2A.!!$R4 740
5 TraesCS5B01G310900 chr7D 39463335 39464143 808 True 429.0 608 90.1590 171 925 2 chr7D.!!$R3 754
6 TraesCS5B01G310900 chr7D 39421717 39422529 812 True 426.0 619 89.5265 171 925 2 chr7D.!!$R2 754
7 TraesCS5B01G310900 chr7D 39387638 39388445 807 True 423.5 603 89.7845 171 925 2 chr7D.!!$R1 754
8 TraesCS5B01G310900 chr2D 78799616 78800525 909 False 284.0 455 90.1680 171 924 3 chr2D.!!$F1 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
875 1113 0.179054 GATCTTTACCCACTCGGCCC 60.179 60.0 0.0 0.0 33.26 5.80 F
1655 1984 0.601046 CGAGAGGACAGCAAGCACAA 60.601 55.0 0.0 0.0 0.00 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1700 2029 0.656785 GTGCTCTGCTTAGCTGATGC 59.343 55.0 13.89 17.47 43.19 3.91 R
2642 2976 2.303022 CCCACATTCATCTACGGCCTAT 59.697 50.0 0.00 0.00 0.00 2.57 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
19 20 2.042686 GCCAGGCTAATCACATCACA 57.957 50.000 3.29 0.00 0.00 3.58
20 21 2.579873 GCCAGGCTAATCACATCACAT 58.420 47.619 3.29 0.00 0.00 3.21
21 22 3.743521 GCCAGGCTAATCACATCACATA 58.256 45.455 3.29 0.00 0.00 2.29
22 23 3.499918 GCCAGGCTAATCACATCACATAC 59.500 47.826 3.29 0.00 0.00 2.39
23 24 4.067896 CCAGGCTAATCACATCACATACC 58.932 47.826 0.00 0.00 0.00 2.73
24 25 4.202398 CCAGGCTAATCACATCACATACCT 60.202 45.833 0.00 0.00 0.00 3.08
25 26 5.012046 CCAGGCTAATCACATCACATACCTA 59.988 44.000 0.00 0.00 0.00 3.08
26 27 6.296087 CCAGGCTAATCACATCACATACCTAT 60.296 42.308 0.00 0.00 0.00 2.57
27 28 7.164122 CAGGCTAATCACATCACATACCTATT 58.836 38.462 0.00 0.00 0.00 1.73
28 29 7.663081 CAGGCTAATCACATCACATACCTATTT 59.337 37.037 0.00 0.00 0.00 1.40
29 30 8.880244 AGGCTAATCACATCACATACCTATTTA 58.120 33.333 0.00 0.00 0.00 1.40
30 31 9.155975 GGCTAATCACATCACATACCTATTTAG 57.844 37.037 0.00 0.00 0.00 1.85
31 32 8.660373 GCTAATCACATCACATACCTATTTAGC 58.340 37.037 0.00 0.00 0.00 3.09
32 33 7.986085 AATCACATCACATACCTATTTAGCC 57.014 36.000 0.00 0.00 0.00 3.93
33 34 6.493189 TCACATCACATACCTATTTAGCCA 57.507 37.500 0.00 0.00 0.00 4.75
34 35 6.524734 TCACATCACATACCTATTTAGCCAG 58.475 40.000 0.00 0.00 0.00 4.85
35 36 5.702670 CACATCACATACCTATTTAGCCAGG 59.297 44.000 0.00 0.00 37.97 4.45
36 37 4.351874 TCACATACCTATTTAGCCAGGC 57.648 45.455 1.84 1.84 35.14 4.85
37 38 3.973973 TCACATACCTATTTAGCCAGGCT 59.026 43.478 20.63 20.63 43.41 4.58
38 39 5.152193 TCACATACCTATTTAGCCAGGCTA 58.848 41.667 18.06 18.06 40.44 3.93
48 49 4.837093 TTAGCCAGGCTAAACATACAGT 57.163 40.909 28.84 0.00 46.30 3.55
49 50 2.991250 AGCCAGGCTAAACATACAGTG 58.009 47.619 14.18 0.00 36.99 3.66
50 51 2.017049 GCCAGGCTAAACATACAGTGG 58.983 52.381 3.29 0.00 0.00 4.00
51 52 2.643551 CCAGGCTAAACATACAGTGGG 58.356 52.381 0.00 0.00 0.00 4.61
52 53 2.238646 CCAGGCTAAACATACAGTGGGA 59.761 50.000 0.00 0.00 0.00 4.37
53 54 3.308117 CCAGGCTAAACATACAGTGGGAA 60.308 47.826 0.00 0.00 0.00 3.97
54 55 3.689649 CAGGCTAAACATACAGTGGGAAC 59.310 47.826 0.00 0.00 0.00 3.62
55 56 3.587506 AGGCTAAACATACAGTGGGAACT 59.412 43.478 0.00 0.00 0.00 3.01
56 57 3.939592 GGCTAAACATACAGTGGGAACTC 59.060 47.826 0.00 0.00 0.00 3.01
57 58 3.939592 GCTAAACATACAGTGGGAACTCC 59.060 47.826 0.00 0.00 0.00 3.85
67 68 4.432741 GGAACTCCCAGGCCAGGC 62.433 72.222 9.12 1.26 34.14 4.85
68 69 3.334054 GAACTCCCAGGCCAGGCT 61.334 66.667 12.43 0.00 0.00 4.58
69 70 1.995626 GAACTCCCAGGCCAGGCTA 60.996 63.158 12.43 0.00 0.00 3.93
70 71 1.977293 GAACTCCCAGGCCAGGCTAG 61.977 65.000 12.43 10.74 0.00 3.42
71 72 3.871395 CTCCCAGGCCAGGCTAGC 61.871 72.222 12.43 6.04 0.00 3.42
72 73 4.421554 TCCCAGGCCAGGCTAGCT 62.422 66.667 15.72 0.00 0.00 3.32
73 74 3.871395 CCCAGGCCAGGCTAGCTC 61.871 72.222 15.72 4.82 0.00 4.09
74 75 3.085947 CCAGGCCAGGCTAGCTCA 61.086 66.667 15.72 0.00 0.00 4.26
75 76 2.505006 CAGGCCAGGCTAGCTCAG 59.495 66.667 15.72 4.37 0.00 3.35
76 77 2.767496 AGGCCAGGCTAGCTCAGG 60.767 66.667 15.72 14.61 0.00 3.86
85 86 1.868469 GCTAGCTCAGGCATCTTCTG 58.132 55.000 7.70 0.00 41.70 3.02
86 87 1.540797 GCTAGCTCAGGCATCTTCTGG 60.541 57.143 7.70 0.00 41.70 3.86
87 88 2.037901 CTAGCTCAGGCATCTTCTGGA 58.962 52.381 0.00 0.00 41.70 3.86
88 89 0.540923 AGCTCAGGCATCTTCTGGAC 59.459 55.000 0.00 0.00 41.70 4.02
89 90 0.251354 GCTCAGGCATCTTCTGGACA 59.749 55.000 0.00 0.00 38.54 4.02
90 91 1.134159 GCTCAGGCATCTTCTGGACAT 60.134 52.381 0.00 0.00 38.54 3.06
91 92 2.836262 CTCAGGCATCTTCTGGACATC 58.164 52.381 0.00 0.00 33.36 3.06
92 93 2.169978 CTCAGGCATCTTCTGGACATCA 59.830 50.000 0.00 0.00 33.36 3.07
93 94 2.573009 TCAGGCATCTTCTGGACATCAA 59.427 45.455 0.00 0.00 33.36 2.57
94 95 2.681848 CAGGCATCTTCTGGACATCAAC 59.318 50.000 0.00 0.00 0.00 3.18
95 96 2.019984 GGCATCTTCTGGACATCAACC 58.980 52.381 0.00 0.00 0.00 3.77
96 97 2.618816 GGCATCTTCTGGACATCAACCA 60.619 50.000 0.00 0.00 35.96 3.67
97 98 3.084039 GCATCTTCTGGACATCAACCAA 58.916 45.455 0.00 0.00 36.95 3.67
98 99 3.507233 GCATCTTCTGGACATCAACCAAA 59.493 43.478 0.00 0.00 36.95 3.28
99 100 4.616835 GCATCTTCTGGACATCAACCAAAC 60.617 45.833 0.00 0.00 36.95 2.93
100 101 4.163441 TCTTCTGGACATCAACCAAACA 57.837 40.909 0.00 0.00 36.95 2.83
101 102 3.882888 TCTTCTGGACATCAACCAAACAC 59.117 43.478 0.00 0.00 36.95 3.32
102 103 3.576078 TCTGGACATCAACCAAACACT 57.424 42.857 0.00 0.00 36.95 3.55
103 104 3.897239 TCTGGACATCAACCAAACACTT 58.103 40.909 0.00 0.00 36.95 3.16
104 105 4.277476 TCTGGACATCAACCAAACACTTT 58.723 39.130 0.00 0.00 36.95 2.66
105 106 4.338118 TCTGGACATCAACCAAACACTTTC 59.662 41.667 0.00 0.00 36.95 2.62
106 107 3.383185 TGGACATCAACCAAACACTTTCC 59.617 43.478 0.00 0.00 34.25 3.13
107 108 3.383185 GGACATCAACCAAACACTTTCCA 59.617 43.478 0.00 0.00 0.00 3.53
108 109 4.499696 GGACATCAACCAAACACTTTCCAG 60.500 45.833 0.00 0.00 0.00 3.86
109 110 3.384467 ACATCAACCAAACACTTTCCAGG 59.616 43.478 0.00 0.00 0.00 4.45
110 111 1.754226 TCAACCAAACACTTTCCAGGC 59.246 47.619 0.00 0.00 0.00 4.85
111 112 1.480137 CAACCAAACACTTTCCAGGCA 59.520 47.619 0.00 0.00 0.00 4.75
112 113 1.859302 ACCAAACACTTTCCAGGCAA 58.141 45.000 0.00 0.00 0.00 4.52
113 114 1.480545 ACCAAACACTTTCCAGGCAAC 59.519 47.619 0.00 0.00 0.00 4.17
114 115 1.480137 CCAAACACTTTCCAGGCAACA 59.520 47.619 0.00 0.00 41.41 3.33
115 116 2.093764 CCAAACACTTTCCAGGCAACAA 60.094 45.455 0.00 0.00 41.41 2.83
116 117 2.929398 CAAACACTTTCCAGGCAACAAC 59.071 45.455 0.00 0.00 41.41 3.32
117 118 1.111277 ACACTTTCCAGGCAACAACC 58.889 50.000 0.00 0.00 41.41 3.77
118 119 1.110442 CACTTTCCAGGCAACAACCA 58.890 50.000 0.00 0.00 41.41 3.67
119 120 1.067516 CACTTTCCAGGCAACAACCAG 59.932 52.381 0.00 0.00 41.41 4.00
120 121 0.675633 CTTTCCAGGCAACAACCAGG 59.324 55.000 0.00 0.00 37.71 4.45
121 122 1.398958 TTTCCAGGCAACAACCAGGC 61.399 55.000 0.00 0.00 36.34 4.85
122 123 2.521465 CCAGGCAACAACCAGGCA 60.521 61.111 0.00 0.00 41.41 4.75
123 124 2.730094 CAGGCAACAACCAGGCAC 59.270 61.111 0.00 0.00 41.41 5.01
124 125 2.126596 CAGGCAACAACCAGGCACA 61.127 57.895 0.00 0.00 41.41 4.57
125 126 1.152483 AGGCAACAACCAGGCACAT 60.152 52.632 0.00 0.00 41.41 3.21
126 127 1.005867 GGCAACAACCAGGCACATG 60.006 57.895 0.00 0.00 0.00 3.21
127 128 1.665599 GCAACAACCAGGCACATGC 60.666 57.895 0.00 0.00 41.14 4.06
145 146 3.835810 CCAGGCCAGGCAATAATCT 57.164 52.632 15.19 0.00 0.00 2.40
146 147 1.325355 CCAGGCCAGGCAATAATCTG 58.675 55.000 15.19 9.92 0.00 2.90
147 148 0.672342 CAGGCCAGGCAATAATCTGC 59.328 55.000 15.19 0.00 41.85 4.26
155 156 2.789491 GCAATAATCTGCCAGGAAGC 57.211 50.000 0.00 0.00 36.25 3.86
156 157 1.002033 GCAATAATCTGCCAGGAAGCG 60.002 52.381 0.00 0.00 36.25 4.68
157 158 2.564771 CAATAATCTGCCAGGAAGCGA 58.435 47.619 0.00 0.00 34.65 4.93
158 159 3.144506 CAATAATCTGCCAGGAAGCGAT 58.855 45.455 0.00 0.00 34.65 4.58
159 160 2.533266 TAATCTGCCAGGAAGCGATC 57.467 50.000 0.00 0.00 34.65 3.69
169 170 2.859992 GAAGCGATCCAAACAGCCT 58.140 52.632 0.00 0.00 0.00 4.58
433 455 9.929180 AAGTCTTTTAGCGAGCATATATTCATA 57.071 29.630 0.00 0.00 0.00 2.15
466 488 3.144506 CACCACTGACTCTTTGATTGCT 58.855 45.455 0.00 0.00 0.00 3.91
565 587 9.896263 GAGCAAATAGTGGTAGTCTATTAGTAC 57.104 37.037 0.00 0.00 38.34 2.73
679 701 1.549203 ACATGCCCATCCTGAAACAC 58.451 50.000 0.00 0.00 0.00 3.32
680 702 1.203038 ACATGCCCATCCTGAAACACA 60.203 47.619 0.00 0.00 0.00 3.72
681 703 1.203052 CATGCCCATCCTGAAACACAC 59.797 52.381 0.00 0.00 0.00 3.82
682 704 0.184692 TGCCCATCCTGAAACACACA 59.815 50.000 0.00 0.00 0.00 3.72
683 705 0.598065 GCCCATCCTGAAACACACAC 59.402 55.000 0.00 0.00 0.00 3.82
684 706 1.979855 CCCATCCTGAAACACACACA 58.020 50.000 0.00 0.00 0.00 3.72
687 709 2.033299 CCATCCTGAAACACACACACAC 59.967 50.000 0.00 0.00 0.00 3.82
688 710 2.481289 TCCTGAAACACACACACACA 57.519 45.000 0.00 0.00 0.00 3.72
689 711 2.080693 TCCTGAAACACACACACACAC 58.919 47.619 0.00 0.00 0.00 3.82
691 713 2.414029 CCTGAAACACACACACACACAC 60.414 50.000 0.00 0.00 0.00 3.82
692 714 2.222027 TGAAACACACACACACACACA 58.778 42.857 0.00 0.00 0.00 3.72
693 715 2.031595 TGAAACACACACACACACACAC 60.032 45.455 0.00 0.00 0.00 3.82
694 716 1.598882 AACACACACACACACACACA 58.401 45.000 0.00 0.00 0.00 3.72
695 717 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
696 718 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
697 719 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
699 721 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
700 722 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
701 723 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
702 724 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
703 725 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
704 726 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
705 727 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
706 728 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
707 729 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
708 730 0.871057 CACACACACACACACACACA 59.129 50.000 0.00 0.00 0.00 3.72
709 731 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
711 733 0.871722 ACACACACACACACACACAC 59.128 50.000 0.00 0.00 0.00 3.82
741 978 8.721133 ATATATATGGTATTATCGGGTGAGCA 57.279 34.615 0.00 0.00 0.00 4.26
742 979 5.957771 ATATGGTATTATCGGGTGAGCAT 57.042 39.130 0.00 0.00 33.21 3.79
743 980 4.640771 ATGGTATTATCGGGTGAGCATT 57.359 40.909 0.00 0.00 0.00 3.56
744 981 5.755409 ATGGTATTATCGGGTGAGCATTA 57.245 39.130 0.00 0.00 0.00 1.90
745 982 5.147330 TGGTATTATCGGGTGAGCATTAG 57.853 43.478 0.00 0.00 0.00 1.73
867 1105 6.470278 CATCATAGCATCTGATCTTTACCCA 58.530 40.000 0.00 0.00 31.00 4.51
875 1113 0.179054 GATCTTTACCCACTCGGCCC 60.179 60.000 0.00 0.00 33.26 5.80
883 1121 2.727392 CCACTCGGCCCCGTCATTA 61.727 63.158 6.61 0.00 40.74 1.90
884 1122 1.219664 CACTCGGCCCCGTCATTAA 59.780 57.895 6.61 0.00 40.74 1.40
939 1177 5.506649 CGATCTAGTAACCAAGAGAGGAAGC 60.507 48.000 0.00 0.00 0.00 3.86
971 1209 2.027377 CCATGAGTCTGCCTTCTTCTGT 60.027 50.000 0.00 0.00 0.00 3.41
1042 1280 6.927936 TCTCACTTCTCATTTTTCTCAGACAG 59.072 38.462 0.00 0.00 0.00 3.51
1046 1284 7.226325 CACTTCTCATTTTTCTCAGACAGAACT 59.774 37.037 0.00 0.00 41.13 3.01
1050 1289 6.537355 TCATTTTTCTCAGACAGAACTCCAT 58.463 36.000 0.00 0.00 41.13 3.41
1119 1376 5.114780 CACTTACAAGCAGCATCTAGATGT 58.885 41.667 28.92 14.75 40.80 3.06
1648 1977 2.580815 CATGGCGAGAGGACAGCA 59.419 61.111 0.00 0.00 36.82 4.41
1655 1984 0.601046 CGAGAGGACAGCAAGCACAA 60.601 55.000 0.00 0.00 0.00 3.33
1659 1988 2.186826 GGACAGCAAGCACAACGGT 61.187 57.895 0.00 0.00 0.00 4.83
1697 2026 2.076863 GCTGTTGTGGAGCTAATCGTT 58.923 47.619 0.00 0.00 33.37 3.85
1698 2027 2.094417 GCTGTTGTGGAGCTAATCGTTC 59.906 50.000 0.00 0.00 33.37 3.95
1699 2028 3.325870 CTGTTGTGGAGCTAATCGTTCA 58.674 45.455 0.00 0.00 0.00 3.18
1700 2029 3.325870 TGTTGTGGAGCTAATCGTTCAG 58.674 45.455 0.00 0.00 0.00 3.02
1701 2030 2.010145 TGTGGAGCTAATCGTTCAGC 57.990 50.000 0.00 0.00 38.09 4.26
1702 2031 1.275010 TGTGGAGCTAATCGTTCAGCA 59.725 47.619 0.00 0.00 40.36 4.41
1765 2094 3.016736 AGTTGTGTTGTGTTCTTCCCAG 58.983 45.455 0.00 0.00 0.00 4.45
1771 2100 2.758423 GTTGTGTTCTTCCCAGTTTGGT 59.242 45.455 0.00 0.00 35.17 3.67
1785 2114 5.469084 CCCAGTTTGGTAAGAAACAGAGTAC 59.531 44.000 0.00 0.00 38.14 2.73
1850 2179 3.428589 GGTATCTTTAGTCGTTGGCTCGT 60.429 47.826 3.16 0.00 0.00 4.18
1855 2184 0.319211 TAGTCGTTGGCTCGTGTTGG 60.319 55.000 3.16 0.00 0.00 3.77
1862 2191 0.893270 TGGCTCGTGTTGGGATTTGG 60.893 55.000 0.00 0.00 0.00 3.28
1864 2193 1.243902 GCTCGTGTTGGGATTTGGAA 58.756 50.000 0.00 0.00 0.00 3.53
1934 2263 0.179156 GGATGGAAAGCGACGTCGTA 60.179 55.000 35.48 17.21 42.22 3.43
2025 2354 3.003763 GAGGTGGAGACGGGGCTT 61.004 66.667 0.00 0.00 0.00 4.35
2049 2378 0.108945 CTTAACGACGACTGGGGGAC 60.109 60.000 0.00 0.00 0.00 4.46
2100 2429 5.839063 ACTCCATTTAACTCCCGATCTATCA 59.161 40.000 0.00 0.00 0.00 2.15
2117 2446 0.601057 TCAATGACGTCGGCTTCTCA 59.399 50.000 11.62 0.00 0.00 3.27
2211 2540 2.350895 CTGGTGCCGGATTCCACA 59.649 61.111 5.05 0.00 33.72 4.17
2323 2652 3.499918 ACTTCTTCCACTGCTGAAAATCG 59.500 43.478 0.00 0.00 0.00 3.34
2338 2667 5.793817 TGAAAATCGAGATTGGACTTCAGA 58.206 37.500 0.00 0.00 0.00 3.27
2447 2781 3.768632 CACGTAACTCGAGCAGCC 58.231 61.111 13.61 0.00 42.86 4.85
2477 2811 3.653078 CCCAAACGGCACCCCCTA 61.653 66.667 0.00 0.00 0.00 3.53
2505 2839 1.705337 CCGCTACCCGCATCAACTTG 61.705 60.000 0.00 0.00 39.08 3.16
2642 2976 3.833645 CGTCTGAATCGCGGGGGA 61.834 66.667 6.13 0.00 0.00 4.81
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.042686 TGTGATGTGATTAGCCTGGC 57.957 50.000 11.65 11.65 0.00 4.85
1 2 4.067896 GGTATGTGATGTGATTAGCCTGG 58.932 47.826 0.00 0.00 0.00 4.45
2 3 4.965814 AGGTATGTGATGTGATTAGCCTG 58.034 43.478 0.00 0.00 0.00 4.85
3 4 6.942163 ATAGGTATGTGATGTGATTAGCCT 57.058 37.500 0.00 0.00 0.00 4.58
4 5 7.986085 AAATAGGTATGTGATGTGATTAGCC 57.014 36.000 0.00 0.00 0.00 3.93
5 6 8.660373 GCTAAATAGGTATGTGATGTGATTAGC 58.340 37.037 0.00 0.00 35.27 3.09
6 7 9.155975 GGCTAAATAGGTATGTGATGTGATTAG 57.844 37.037 0.00 0.00 0.00 1.73
7 8 8.655901 TGGCTAAATAGGTATGTGATGTGATTA 58.344 33.333 0.00 0.00 0.00 1.75
8 9 7.517320 TGGCTAAATAGGTATGTGATGTGATT 58.483 34.615 0.00 0.00 0.00 2.57
9 10 7.078249 TGGCTAAATAGGTATGTGATGTGAT 57.922 36.000 0.00 0.00 0.00 3.06
10 11 6.464322 CCTGGCTAAATAGGTATGTGATGTGA 60.464 42.308 0.00 0.00 0.00 3.58
11 12 5.702670 CCTGGCTAAATAGGTATGTGATGTG 59.297 44.000 0.00 0.00 0.00 3.21
12 13 5.746065 GCCTGGCTAAATAGGTATGTGATGT 60.746 44.000 12.43 0.00 36.44 3.06
13 14 4.697352 GCCTGGCTAAATAGGTATGTGATG 59.303 45.833 12.43 0.00 36.44 3.07
14 15 4.599241 AGCCTGGCTAAATAGGTATGTGAT 59.401 41.667 21.98 0.00 36.99 3.06
15 16 3.973973 AGCCTGGCTAAATAGGTATGTGA 59.026 43.478 21.98 0.00 36.99 3.58
16 17 4.357918 AGCCTGGCTAAATAGGTATGTG 57.642 45.455 21.98 0.00 36.99 3.21
28 29 3.118408 CCACTGTATGTTTAGCCTGGCTA 60.118 47.826 24.10 24.10 40.44 3.93
29 30 2.356125 CCACTGTATGTTTAGCCTGGCT 60.356 50.000 26.52 26.52 43.41 4.75
30 31 2.017049 CCACTGTATGTTTAGCCTGGC 58.983 52.381 11.65 11.65 0.00 4.85
31 32 2.238646 TCCCACTGTATGTTTAGCCTGG 59.761 50.000 0.00 0.00 0.00 4.45
32 33 3.627395 TCCCACTGTATGTTTAGCCTG 57.373 47.619 0.00 0.00 0.00 4.85
33 34 3.587506 AGTTCCCACTGTATGTTTAGCCT 59.412 43.478 0.00 0.00 0.00 4.58
34 35 3.939592 GAGTTCCCACTGTATGTTTAGCC 59.060 47.826 0.00 0.00 31.22 3.93
35 36 3.939592 GGAGTTCCCACTGTATGTTTAGC 59.060 47.826 0.00 0.00 31.22 3.09
50 51 4.432741 GCCTGGCCTGGGAGTTCC 62.433 72.222 28.23 8.27 0.00 3.62
51 52 1.977293 CTAGCCTGGCCTGGGAGTTC 61.977 65.000 28.23 12.37 0.00 3.01
52 53 1.997874 CTAGCCTGGCCTGGGAGTT 60.998 63.158 28.23 10.62 0.00 3.01
53 54 2.366167 CTAGCCTGGCCTGGGAGT 60.366 66.667 28.23 12.03 0.00 3.85
54 55 3.871395 GCTAGCCTGGCCTGGGAG 61.871 72.222 28.23 13.56 0.00 4.30
55 56 4.421554 AGCTAGCCTGGCCTGGGA 62.422 66.667 28.23 3.98 0.00 4.37
56 57 3.871395 GAGCTAGCCTGGCCTGGG 61.871 72.222 28.23 19.17 0.00 4.45
57 58 3.085947 TGAGCTAGCCTGGCCTGG 61.086 66.667 23.89 23.89 0.00 4.45
58 59 2.505006 CTGAGCTAGCCTGGCCTG 59.495 66.667 16.57 9.66 0.00 4.85
59 60 2.767496 CCTGAGCTAGCCTGGCCT 60.767 66.667 16.57 5.19 0.00 5.19
60 61 4.560743 GCCTGAGCTAGCCTGGCC 62.561 72.222 28.27 17.64 41.13 5.36
61 62 3.117452 ATGCCTGAGCTAGCCTGGC 62.117 63.158 30.09 30.09 45.34 4.85
62 63 1.071128 GATGCCTGAGCTAGCCTGG 59.929 63.158 12.13 16.33 40.80 4.45
63 64 0.469070 AAGATGCCTGAGCTAGCCTG 59.531 55.000 12.13 7.07 40.80 4.85
64 65 0.758123 GAAGATGCCTGAGCTAGCCT 59.242 55.000 12.13 0.00 40.80 4.58
65 66 0.758123 AGAAGATGCCTGAGCTAGCC 59.242 55.000 12.13 3.49 40.80 3.93
66 67 1.540797 CCAGAAGATGCCTGAGCTAGC 60.541 57.143 6.62 6.62 40.80 3.42
67 68 2.037901 TCCAGAAGATGCCTGAGCTAG 58.962 52.381 0.00 0.00 40.80 3.42
68 69 1.759445 GTCCAGAAGATGCCTGAGCTA 59.241 52.381 0.00 0.00 40.80 3.32
69 70 0.540923 GTCCAGAAGATGCCTGAGCT 59.459 55.000 0.00 0.00 40.80 4.09
70 71 0.251354 TGTCCAGAAGATGCCTGAGC 59.749 55.000 0.00 0.00 40.48 4.26
71 72 2.169978 TGATGTCCAGAAGATGCCTGAG 59.830 50.000 0.00 0.00 33.65 3.35
72 73 2.190538 TGATGTCCAGAAGATGCCTGA 58.809 47.619 0.00 0.00 33.65 3.86
73 74 2.681848 GTTGATGTCCAGAAGATGCCTG 59.318 50.000 0.00 0.00 0.00 4.85
74 75 2.356535 GGTTGATGTCCAGAAGATGCCT 60.357 50.000 0.00 0.00 0.00 4.75
75 76 2.019984 GGTTGATGTCCAGAAGATGCC 58.980 52.381 0.00 0.00 0.00 4.40
76 77 2.715046 TGGTTGATGTCCAGAAGATGC 58.285 47.619 0.00 0.00 0.00 3.91
77 78 4.520111 TGTTTGGTTGATGTCCAGAAGATG 59.480 41.667 0.00 0.00 36.28 2.90
78 79 4.520492 GTGTTTGGTTGATGTCCAGAAGAT 59.480 41.667 0.00 0.00 36.28 2.40
79 80 3.882888 GTGTTTGGTTGATGTCCAGAAGA 59.117 43.478 0.00 0.00 36.28 2.87
80 81 3.885297 AGTGTTTGGTTGATGTCCAGAAG 59.115 43.478 0.00 0.00 36.28 2.85
81 82 3.897239 AGTGTTTGGTTGATGTCCAGAA 58.103 40.909 0.00 0.00 36.28 3.02
82 83 3.576078 AGTGTTTGGTTGATGTCCAGA 57.424 42.857 0.00 0.00 36.28 3.86
83 84 4.499696 GGAAAGTGTTTGGTTGATGTCCAG 60.500 45.833 0.00 0.00 36.28 3.86
84 85 3.383185 GGAAAGTGTTTGGTTGATGTCCA 59.617 43.478 0.00 0.00 0.00 4.02
85 86 3.383185 TGGAAAGTGTTTGGTTGATGTCC 59.617 43.478 0.00 0.00 0.00 4.02
86 87 4.499696 CCTGGAAAGTGTTTGGTTGATGTC 60.500 45.833 0.00 0.00 0.00 3.06
87 88 3.384467 CCTGGAAAGTGTTTGGTTGATGT 59.616 43.478 0.00 0.00 0.00 3.06
88 89 3.799917 GCCTGGAAAGTGTTTGGTTGATG 60.800 47.826 0.00 0.00 0.00 3.07
89 90 2.365293 GCCTGGAAAGTGTTTGGTTGAT 59.635 45.455 0.00 0.00 0.00 2.57
90 91 1.754226 GCCTGGAAAGTGTTTGGTTGA 59.246 47.619 0.00 0.00 0.00 3.18
91 92 1.480137 TGCCTGGAAAGTGTTTGGTTG 59.520 47.619 0.00 0.00 0.00 3.77
92 93 1.859302 TGCCTGGAAAGTGTTTGGTT 58.141 45.000 0.00 0.00 0.00 3.67
93 94 1.480545 GTTGCCTGGAAAGTGTTTGGT 59.519 47.619 0.00 0.00 0.00 3.67
94 95 1.480137 TGTTGCCTGGAAAGTGTTTGG 59.520 47.619 0.00 0.00 0.00 3.28
95 96 2.929398 GTTGTTGCCTGGAAAGTGTTTG 59.071 45.455 0.00 0.00 0.00 2.93
96 97 2.093711 GGTTGTTGCCTGGAAAGTGTTT 60.094 45.455 0.00 0.00 0.00 2.83
97 98 1.480545 GGTTGTTGCCTGGAAAGTGTT 59.519 47.619 0.00 0.00 0.00 3.32
98 99 1.111277 GGTTGTTGCCTGGAAAGTGT 58.889 50.000 0.00 0.00 0.00 3.55
99 100 1.067516 CTGGTTGTTGCCTGGAAAGTG 59.932 52.381 0.00 0.00 0.00 3.16
100 101 1.402787 CTGGTTGTTGCCTGGAAAGT 58.597 50.000 0.00 0.00 0.00 2.66
101 102 0.675633 CCTGGTTGTTGCCTGGAAAG 59.324 55.000 0.00 0.00 46.74 2.62
102 103 1.398958 GCCTGGTTGTTGCCTGGAAA 61.399 55.000 11.44 0.00 46.74 3.13
103 104 1.832167 GCCTGGTTGTTGCCTGGAA 60.832 57.895 11.44 0.00 46.74 3.53
104 105 2.203480 GCCTGGTTGTTGCCTGGA 60.203 61.111 11.44 0.00 46.74 3.86
105 106 2.521465 TGCCTGGTTGTTGCCTGG 60.521 61.111 0.00 4.00 46.58 4.45
106 107 1.466025 ATGTGCCTGGTTGTTGCCTG 61.466 55.000 0.00 0.00 0.00 4.85
107 108 1.152483 ATGTGCCTGGTTGTTGCCT 60.152 52.632 0.00 0.00 0.00 4.75
108 109 1.005867 CATGTGCCTGGTTGTTGCC 60.006 57.895 0.00 0.00 0.00 4.52
109 110 1.665599 GCATGTGCCTGGTTGTTGC 60.666 57.895 0.00 0.00 34.31 4.17
110 111 4.659480 GCATGTGCCTGGTTGTTG 57.341 55.556 0.00 0.00 34.31 3.33
127 128 1.325355 CAGATTATTGCCTGGCCTGG 58.675 55.000 23.89 23.89 0.00 4.45
128 129 0.672342 GCAGATTATTGCCTGGCCTG 59.328 55.000 17.53 15.32 38.13 4.85
129 130 3.122369 GCAGATTATTGCCTGGCCT 57.878 52.632 17.53 6.14 38.13 5.19
136 137 1.002033 CGCTTCCTGGCAGATTATTGC 60.002 52.381 17.94 9.99 43.34 3.56
137 138 2.564771 TCGCTTCCTGGCAGATTATTG 58.435 47.619 17.94 0.00 0.00 1.90
138 139 3.406764 GATCGCTTCCTGGCAGATTATT 58.593 45.455 17.94 0.00 0.00 1.40
139 140 2.289945 GGATCGCTTCCTGGCAGATTAT 60.290 50.000 17.94 0.26 41.78 1.28
140 141 1.070758 GGATCGCTTCCTGGCAGATTA 59.929 52.381 17.94 0.00 41.78 1.75
141 142 0.179034 GGATCGCTTCCTGGCAGATT 60.179 55.000 17.94 0.00 41.78 2.40
142 143 1.340399 TGGATCGCTTCCTGGCAGAT 61.340 55.000 17.94 0.00 45.68 2.90
143 144 1.552799 TTGGATCGCTTCCTGGCAGA 61.553 55.000 17.94 0.00 45.68 4.26
144 145 0.677731 TTTGGATCGCTTCCTGGCAG 60.678 55.000 7.75 7.75 45.68 4.85
145 146 0.960364 GTTTGGATCGCTTCCTGGCA 60.960 55.000 5.91 0.00 45.68 4.92
146 147 0.960364 TGTTTGGATCGCTTCCTGGC 60.960 55.000 5.91 0.00 45.68 4.85
147 148 1.089920 CTGTTTGGATCGCTTCCTGG 58.910 55.000 5.91 0.00 45.68 4.45
148 149 0.449388 GCTGTTTGGATCGCTTCCTG 59.551 55.000 5.91 0.00 45.68 3.86
149 150 0.678048 GGCTGTTTGGATCGCTTCCT 60.678 55.000 5.91 0.00 45.68 3.36
150 151 0.678048 AGGCTGTTTGGATCGCTTCC 60.678 55.000 0.00 0.00 45.69 3.46
151 152 0.729690 GAGGCTGTTTGGATCGCTTC 59.270 55.000 0.00 0.00 0.00 3.86
152 153 0.326264 AGAGGCTGTTTGGATCGCTT 59.674 50.000 0.00 0.00 0.00 4.68
153 154 1.195115 TAGAGGCTGTTTGGATCGCT 58.805 50.000 0.00 0.00 0.00 4.93
154 155 2.024176 TTAGAGGCTGTTTGGATCGC 57.976 50.000 0.00 0.00 0.00 4.58
155 156 3.941483 ACATTTAGAGGCTGTTTGGATCG 59.059 43.478 0.00 0.00 0.00 3.69
156 157 6.767902 TCATACATTTAGAGGCTGTTTGGATC 59.232 38.462 0.00 0.00 0.00 3.36
157 158 6.662755 TCATACATTTAGAGGCTGTTTGGAT 58.337 36.000 0.00 0.00 0.00 3.41
158 159 6.061022 TCATACATTTAGAGGCTGTTTGGA 57.939 37.500 0.00 0.00 0.00 3.53
159 160 6.319658 ACATCATACATTTAGAGGCTGTTTGG 59.680 38.462 0.00 0.00 0.00 3.28
160 161 7.325660 ACATCATACATTTAGAGGCTGTTTG 57.674 36.000 0.00 0.00 0.00 2.93
161 162 7.944729 AACATCATACATTTAGAGGCTGTTT 57.055 32.000 0.00 0.00 0.00 2.83
162 163 7.611467 TGAAACATCATACATTTAGAGGCTGTT 59.389 33.333 0.00 0.00 0.00 3.16
163 164 7.066284 GTGAAACATCATACATTTAGAGGCTGT 59.934 37.037 0.00 0.00 36.32 4.40
164 165 7.281774 AGTGAAACATCATACATTTAGAGGCTG 59.718 37.037 0.00 0.00 41.43 4.85
165 166 7.341805 AGTGAAACATCATACATTTAGAGGCT 58.658 34.615 0.00 0.00 41.43 4.58
166 167 7.559590 AGTGAAACATCATACATTTAGAGGC 57.440 36.000 0.00 0.00 41.43 4.70
167 168 9.166173 TGAAGTGAAACATCATACATTTAGAGG 57.834 33.333 0.00 0.00 39.96 3.69
169 170 8.668353 GCTGAAGTGAAACATCATACATTTAGA 58.332 33.333 0.00 0.00 44.26 2.10
242 243 9.725019 TCTGAGTAATCAATCATACAAAGTGTT 57.275 29.630 0.00 0.00 0.00 3.32
433 455 5.247110 AGAGTCAGTGGTGTATCAGTTTGAT 59.753 40.000 0.00 0.00 40.72 2.57
445 467 3.144506 AGCAATCAAAGAGTCAGTGGTG 58.855 45.455 0.00 0.00 0.00 4.17
446 468 3.498774 AGCAATCAAAGAGTCAGTGGT 57.501 42.857 0.00 0.00 0.00 4.16
466 488 1.742411 GCGAAGGATGAACGGGATCAA 60.742 52.381 0.00 0.00 32.06 2.57
636 658 5.815581 ACATAGGGCAAGATTCAGTACAAA 58.184 37.500 0.00 0.00 0.00 2.83
679 701 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
680 702 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
681 703 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
682 704 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
683 705 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
684 706 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
687 709 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
688 710 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
689 711 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
691 713 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
692 714 0.871722 GTGTGTGTGTGTGTGTGTGT 59.128 50.000 0.00 0.00 0.00 3.72
693 715 0.871057 TGTGTGTGTGTGTGTGTGTG 59.129 50.000 0.00 0.00 0.00 3.82
694 716 1.819928 ATGTGTGTGTGTGTGTGTGT 58.180 45.000 0.00 0.00 0.00 3.72
695 717 5.861222 ATATATGTGTGTGTGTGTGTGTG 57.139 39.130 0.00 0.00 0.00 3.82
722 959 4.640771 AATGCTCACCCGATAATACCAT 57.359 40.909 0.00 0.00 0.00 3.55
867 1105 0.974010 TCTTAATGACGGGGCCGAGT 60.974 55.000 0.00 2.80 42.83 4.18
875 1113 1.087771 GGTGCCGGTCTTAATGACGG 61.088 60.000 1.90 0.00 46.24 4.79
912 1150 3.563223 TCTCTTGGTTACTAGATCGGGG 58.437 50.000 0.00 0.00 0.00 5.73
956 1194 0.877743 GCCAACAGAAGAAGGCAGAC 59.122 55.000 0.00 0.00 46.26 3.51
957 1195 3.329300 GCCAACAGAAGAAGGCAGA 57.671 52.632 0.00 0.00 46.26 4.26
971 1209 2.281900 GTGGTTACCTGGCGCCAA 60.282 61.111 32.09 13.85 32.26 4.52
995 1233 3.530564 ACGGGGGAGTATATATAGGCTGA 59.469 47.826 0.00 0.00 0.00 4.26
997 1235 3.792684 AGACGGGGGAGTATATATAGGCT 59.207 47.826 0.00 0.00 0.00 4.58
1119 1376 2.640302 GCTCCTGCTGACCAGACGA 61.640 63.158 0.47 0.00 44.64 4.20
1141 1398 2.524394 ACCTCACCGTCCTGTGCT 60.524 61.111 0.00 0.00 36.17 4.40
1251 1508 3.314331 CACCTCGCAGACCCACCT 61.314 66.667 0.00 0.00 0.00 4.00
1282 1539 3.551407 GGAGCCCCTCATCCCGAC 61.551 72.222 0.00 0.00 31.08 4.79
1283 1540 4.088351 TGGAGCCCCTCATCCCGA 62.088 66.667 0.00 0.00 34.47 5.14
1284 1541 3.554342 CTGGAGCCCCTCATCCCG 61.554 72.222 0.00 0.00 34.47 5.14
1285 1542 3.174265 CCTGGAGCCCCTCATCCC 61.174 72.222 0.00 0.00 34.47 3.85
1286 1543 3.883549 GCCTGGAGCCCCTCATCC 61.884 72.222 0.00 0.00 36.05 3.51
1287 1544 2.771762 AGCCTGGAGCCCCTCATC 60.772 66.667 0.00 0.00 45.47 2.92
1288 1545 2.771762 GAGCCTGGAGCCCCTCAT 60.772 66.667 0.00 0.00 45.47 2.90
1506 1835 3.768633 GCCTGACGACATGGAGAAT 57.231 52.632 0.00 0.00 0.00 2.40
1548 1877 2.203480 ATGCCGCCAAACCACTGT 60.203 55.556 0.00 0.00 0.00 3.55
1632 1961 1.220206 CTTGCTGTCCTCTCGCCAT 59.780 57.895 0.00 0.00 0.00 4.40
1679 2008 3.325870 CTGAACGATTAGCTCCACAACA 58.674 45.455 0.00 0.00 0.00 3.33
1700 2029 0.656785 GTGCTCTGCTTAGCTGATGC 59.343 55.000 13.89 17.47 43.19 3.91
1701 2030 1.934525 CTGTGCTCTGCTTAGCTGATG 59.065 52.381 13.89 9.48 43.19 3.07
1702 2031 1.554160 ACTGTGCTCTGCTTAGCTGAT 59.446 47.619 13.89 0.00 43.19 2.90
1765 2094 4.508861 TGCGTACTCTGTTTCTTACCAAAC 59.491 41.667 0.00 0.00 36.87 2.93
1771 2100 3.499537 TCGACTGCGTACTCTGTTTCTTA 59.500 43.478 0.00 0.00 38.98 2.10
1850 2179 0.671251 GTGCGTTCCAAATCCCAACA 59.329 50.000 0.00 0.00 0.00 3.33
1855 2184 0.872388 AACTCGTGCGTTCCAAATCC 59.128 50.000 0.00 0.00 0.00 3.01
1862 2191 2.093783 CCCTGAAATAACTCGTGCGTTC 59.906 50.000 0.00 0.00 0.00 3.95
1864 2193 1.722011 CCCTGAAATAACTCGTGCGT 58.278 50.000 0.00 0.00 0.00 5.24
1937 2266 4.386951 TCCGTCACCCGCACCATG 62.387 66.667 0.00 0.00 34.38 3.66
1951 2280 1.226717 GCTAGCTCTTGGACGTCCG 60.227 63.158 28.70 16.15 39.43 4.79
2018 2347 2.265683 GTCGTTAAGTCTTAAGCCCCG 58.734 52.381 5.24 6.10 0.00 5.73
2025 2354 2.489329 CCCCAGTCGTCGTTAAGTCTTA 59.511 50.000 0.00 0.00 0.00 2.10
2049 2378 1.463444 GTCGACCCAAACGGATTTCAG 59.537 52.381 3.51 0.00 34.64 3.02
2073 2402 4.469945 AGATCGGGAGTTAAATGGAGTTGA 59.530 41.667 0.00 0.00 0.00 3.18
2100 2429 2.271800 GATTGAGAAGCCGACGTCATT 58.728 47.619 17.16 6.87 0.00 2.57
2117 2446 1.284785 TCTTCCTGCGATTTGGGGATT 59.715 47.619 0.00 0.00 0.00 3.01
2211 2540 3.194861 CGAATACGTGATCAACCATGGT 58.805 45.455 13.00 13.00 34.56 3.55
2277 2606 3.596214 GGAACTACGATCCAGAAAAGCA 58.404 45.455 0.00 0.00 36.92 3.91
2346 2680 4.537135 AAGCTGAAGTCCAATCGTTCTA 57.463 40.909 0.00 0.00 0.00 2.10
2447 2781 2.829206 TTTGGGTGCACGAGCGTTG 61.829 57.895 11.45 0.00 46.23 4.10
2477 2811 3.775654 GGGTAGCGGCAGTGCTCT 61.776 66.667 16.11 14.47 45.87 4.09
2505 2839 5.007430 CACCATGTTCAAGATGTGAGCTATC 59.993 44.000 0.00 0.00 38.25 2.08
2642 2976 2.303022 CCCACATTCATCTACGGCCTAT 59.697 50.000 0.00 0.00 0.00 2.57
2680 3014 3.525199 AGGTCTACTTAACGAGGGGACTA 59.475 47.826 0.00 0.00 44.43 2.59


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

AutoCloner maintained by Alex Coulton.