Multiple sequence alignment - TraesCS4B01G003800

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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 TraesCS4B01G003800 chr4B 100.000 2528 0 0 1 2528 2381149 2378622 0.000000e+00 4669.0
1 TraesCS4B01G003800 chr4B 96.914 162 5 0 1 162 15541249 15541088 3.200000e-69 272.0
2 TraesCS4B01G003800 chr4B 96.875 160 5 0 1 160 540001134 540001293 4.150000e-68 268.0
3 TraesCS4B01G003800 chr4B 96.273 161 6 0 1 161 5759066 5759226 5.360000e-67 265.0
4 TraesCS4B01G003800 chr4D 98.419 1771 18 6 758 2528 2770455 2768695 0.000000e+00 3107.0
5 TraesCS4B01G003800 chr4D 96.522 230 3 2 374 598 2770683 2770454 2.370000e-100 375.0
6 TraesCS4B01G003800 chr4D 97.633 169 4 0 161 329 2771182 2771014 8.850000e-75 291.0
7 TraesCS4B01G003800 chr3D 81.928 498 85 5 1015 1510 33206419 33205925 1.400000e-112 416.0
8 TraesCS4B01G003800 chr3A 81.526 498 87 5 1015 1510 45708946 45708452 3.030000e-109 405.0
9 TraesCS4B01G003800 chr3A 88.652 282 29 2 2108 2389 461837541 461837819 8.660000e-90 340.0
10 TraesCS4B01G003800 chr3B 81.452 496 89 3 1016 1510 55772540 55772047 1.090000e-108 403.0
11 TraesCS4B01G003800 chr3B 96.273 161 6 0 1 161 760723353 760723193 5.360000e-67 265.0
12 TraesCS4B01G003800 chr7B 88.411 302 30 4 2093 2393 603826260 603826557 2.390000e-95 359.0
13 TraesCS4B01G003800 chr7B 92.045 176 12 2 589 763 73683286 73683112 1.940000e-61 246.0
14 TraesCS4B01G003800 chr7B 93.865 163 10 0 597 759 497576624 497576786 1.940000e-61 246.0
15 TraesCS4B01G003800 chr7B 87.778 90 8 1 165 254 297161599 297161685 4.450000e-18 102.0
16 TraesCS4B01G003800 chr5B 87.869 305 29 6 2093 2393 245596371 245596671 4.000000e-93 351.0
17 TraesCS4B01G003800 chr5B 93.750 176 9 1 1 176 562059733 562059560 1.930000e-66 263.0
18 TraesCS4B01G003800 chr5B 95.152 165 8 0 1 165 689128888 689128724 6.940000e-66 261.0
19 TraesCS4B01G003800 chr5B 96.552 58 2 0 2421 2478 245596672 245596729 2.070000e-16 97.1
20 TraesCS4B01G003800 chr6A 88.235 289 31 2 2108 2396 573339167 573338882 2.410000e-90 342.0
21 TraesCS4B01G003800 chr6B 96.875 160 5 0 1 160 108589433 108589274 4.150000e-68 268.0
22 TraesCS4B01G003800 chr6B 84.444 90 11 2 165 254 134293004 134293090 4.480000e-13 86.1
23 TraesCS4B01G003800 chr2B 95.181 166 8 0 1 166 135871690 135871855 1.930000e-66 263.0
24 TraesCS4B01G003800 chr2B 93.902 164 10 0 596 759 713695796 713695959 5.400000e-62 248.0
25 TraesCS4B01G003800 chr2B 93.865 163 10 0 597 759 664125200 664125038 1.940000e-61 246.0
26 TraesCS4B01G003800 chr2B 86.667 90 9 1 165 254 737818065 737817979 2.070000e-16 97.1
27 TraesCS4B01G003800 chr2B 86.667 90 9 1 165 254 737862511 737862597 2.070000e-16 97.1
28 TraesCS4B01G003800 chr1B 94.186 172 10 0 588 759 488129071 488128900 1.930000e-66 263.0
29 TraesCS4B01G003800 chr1B 93.143 175 10 2 1 173 595447190 595447016 3.230000e-64 255.0
30 TraesCS4B01G003800 chr1B 93.865 163 10 0 597 759 52496222 52496060 1.940000e-61 246.0
31 TraesCS4B01G003800 chr1B 93.865 163 10 0 597 759 52616876 52616714 1.940000e-61 246.0
32 TraesCS4B01G003800 chr1B 91.489 94 5 1 161 254 621318903 621318993 2.640000e-25 126.0
33 TraesCS4B01G003800 chr1B 90.323 93 6 1 161 253 621389604 621389693 4.420000e-23 119.0
34 TraesCS4B01G003800 chr7D 79.241 395 63 13 2097 2477 558091531 558091920 8.970000e-65 257.0
35 TraesCS4B01G003800 chr7D 93.865 163 10 0 597 759 416628253 416628415 1.940000e-61 246.0
36 TraesCS4B01G003800 chr7D 86.667 90 9 1 165 254 87988475 87988561 2.070000e-16 97.1
37 TraesCS4B01G003800 chrUn 92.899 169 12 0 597 765 2572713 2572545 1.940000e-61 246.0
38 TraesCS4B01G003800 chrUn 80.347 173 30 4 1070 1240 39290836 39291006 7.340000e-26 128.0
39 TraesCS4B01G003800 chr1A 91.379 174 14 1 2223 2396 239885101 239884929 1.170000e-58 237.0
40 TraesCS4B01G003800 chr1A 96.552 58 2 0 2421 2478 239884931 239884874 2.070000e-16 97.1
41 TraesCS4B01G003800 chr1D 87.778 90 8 1 165 254 17620397 17620483 4.450000e-18 102.0


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 TraesCS4B01G003800 chr4B 2378622 2381149 2527 True 4669.000000 4669 100.000000 1 2528 1 chr4B.!!$R1 2527
1 TraesCS4B01G003800 chr4D 2768695 2771182 2487 True 1257.666667 3107 97.524667 161 2528 3 chr4D.!!$R1 2367

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
91 92 0.035820 TGGAACCGGCACTAATGGAC 60.036 55.0 0.0 0.00 0.0 4.02 F
92 93 0.035820 GGAACCGGCACTAATGGACA 60.036 55.0 0.0 0.00 0.0 4.02 F
114 115 0.179015 TTAGTGCCGGCTCAAAACCA 60.179 50.0 29.7 2.35 0.0 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1457 1749 2.351350 CCGGACACCAAATAGTTTGCAC 60.351 50.000 0.0 0.0 39.31 4.57 R
1497 1789 3.030168 ATGGCGGGCGATGAGTTCA 62.030 57.895 0.0 0.0 0.00 3.18 R
1601 1893 3.322369 ACGCAAGACATGATTAACGTGA 58.678 40.909 0.0 0.0 43.62 4.35 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
23 24 3.107661 CGTGGCACGAACCGGTAC 61.108 66.667 34.85 0.00 46.05 3.34
24 25 2.341176 GTGGCACGAACCGGTACT 59.659 61.111 8.00 0.00 0.00 2.73
25 26 1.586028 GTGGCACGAACCGGTACTA 59.414 57.895 8.00 0.00 0.00 1.82
26 27 0.174162 GTGGCACGAACCGGTACTAT 59.826 55.000 8.00 0.00 0.00 2.12
27 28 1.405105 GTGGCACGAACCGGTACTATA 59.595 52.381 8.00 0.00 0.00 1.31
28 29 1.677576 TGGCACGAACCGGTACTATAG 59.322 52.381 8.00 0.00 0.00 1.31
29 30 1.000938 GGCACGAACCGGTACTATAGG 60.001 57.143 8.00 0.00 0.00 2.57
30 31 1.678101 GCACGAACCGGTACTATAGGT 59.322 52.381 8.00 0.00 40.50 3.08
35 36 1.322442 ACCGGTACTATAGGTTCGCC 58.678 55.000 4.49 0.00 33.96 5.54
36 37 1.321474 CCGGTACTATAGGTTCGCCA 58.679 55.000 4.43 0.00 40.60 5.69
37 38 1.000938 CCGGTACTATAGGTTCGCCAC 60.001 57.143 4.43 0.00 40.60 5.01
38 39 1.334419 CGGTACTATAGGTTCGCCACG 60.334 57.143 4.43 0.00 40.60 4.94
39 40 1.949525 GGTACTATAGGTTCGCCACGA 59.050 52.381 4.43 0.00 40.60 4.35
40 41 2.358898 GGTACTATAGGTTCGCCACGAA 59.641 50.000 4.43 0.00 43.75 3.85
47 48 2.049248 TTCGCCACGAACCGGTAC 60.049 61.111 8.00 0.00 41.05 3.34
48 49 2.563798 TTCGCCACGAACCGGTACT 61.564 57.895 8.00 0.00 41.05 2.73
49 50 1.240641 TTCGCCACGAACCGGTACTA 61.241 55.000 8.00 0.00 41.05 1.82
50 51 1.212490 CGCCACGAACCGGTACTAA 59.788 57.895 8.00 0.00 0.00 2.24
51 52 0.179129 CGCCACGAACCGGTACTAAT 60.179 55.000 8.00 0.00 0.00 1.73
52 53 1.283736 GCCACGAACCGGTACTAATG 58.716 55.000 8.00 2.10 0.00 1.90
53 54 1.135024 GCCACGAACCGGTACTAATGA 60.135 52.381 8.00 0.00 0.00 2.57
54 55 2.805845 CCACGAACCGGTACTAATGAG 58.194 52.381 8.00 0.00 0.00 2.90
55 56 2.424601 CCACGAACCGGTACTAATGAGA 59.575 50.000 8.00 0.00 0.00 3.27
56 57 3.119388 CCACGAACCGGTACTAATGAGAA 60.119 47.826 8.00 0.00 0.00 2.87
57 58 3.855950 CACGAACCGGTACTAATGAGAAC 59.144 47.826 8.00 0.00 0.00 3.01
58 59 3.103738 CGAACCGGTACTAATGAGAACG 58.896 50.000 8.00 0.00 0.00 3.95
59 60 3.442100 GAACCGGTACTAATGAGAACGG 58.558 50.000 8.00 9.34 40.23 4.44
60 61 1.135721 ACCGGTACTAATGAGAACGGC 59.864 52.381 4.49 0.00 39.00 5.68
61 62 1.135527 CCGGTACTAATGAGAACGGCA 59.864 52.381 0.00 0.00 32.94 5.69
62 63 2.460918 CGGTACTAATGAGAACGGCAG 58.539 52.381 0.00 0.00 0.00 4.85
63 64 2.798499 CGGTACTAATGAGAACGGCAGG 60.798 54.545 0.00 0.00 0.00 4.85
64 65 2.202566 GTACTAATGAGAACGGCAGGC 58.797 52.381 0.00 0.00 0.00 4.85
65 66 0.905357 ACTAATGAGAACGGCAGGCT 59.095 50.000 0.00 0.00 0.00 4.58
66 67 2.108168 ACTAATGAGAACGGCAGGCTA 58.892 47.619 0.00 0.00 0.00 3.93
67 68 2.101582 ACTAATGAGAACGGCAGGCTAG 59.898 50.000 0.00 0.00 0.00 3.42
68 69 0.462759 AATGAGAACGGCAGGCTAGC 60.463 55.000 6.04 6.04 0.00 3.42
76 77 4.664062 GCAGGCTAGCCATTGGAA 57.336 55.556 34.70 0.00 38.92 3.53
77 78 2.110296 GCAGGCTAGCCATTGGAAC 58.890 57.895 34.70 12.06 38.92 3.62
78 79 1.387295 GCAGGCTAGCCATTGGAACC 61.387 60.000 34.70 9.27 38.92 3.62
79 80 1.097547 CAGGCTAGCCATTGGAACCG 61.098 60.000 34.70 7.98 38.92 4.44
80 81 1.823899 GGCTAGCCATTGGAACCGG 60.824 63.158 29.33 0.00 35.81 5.28
81 82 2.481471 GCTAGCCATTGGAACCGGC 61.481 63.158 6.95 0.00 46.62 6.13
84 85 2.676471 GCCATTGGAACCGGCACT 60.676 61.111 6.95 0.00 45.52 4.40
85 86 1.377987 GCCATTGGAACCGGCACTA 60.378 57.895 6.95 0.00 45.52 2.74
86 87 0.963355 GCCATTGGAACCGGCACTAA 60.963 55.000 6.95 0.00 45.52 2.24
87 88 1.762708 CCATTGGAACCGGCACTAAT 58.237 50.000 0.00 2.48 0.00 1.73
88 89 1.405105 CCATTGGAACCGGCACTAATG 59.595 52.381 21.69 21.69 35.69 1.90
89 90 1.405105 CATTGGAACCGGCACTAATGG 59.595 52.381 21.22 9.47 33.50 3.16
90 91 0.693622 TTGGAACCGGCACTAATGGA 59.306 50.000 0.00 0.00 0.00 3.41
91 92 0.035820 TGGAACCGGCACTAATGGAC 60.036 55.000 0.00 0.00 0.00 4.02
92 93 0.035820 GGAACCGGCACTAATGGACA 60.036 55.000 0.00 0.00 0.00 4.02
93 94 1.084289 GAACCGGCACTAATGGACAC 58.916 55.000 0.00 0.00 0.00 3.67
94 95 0.398696 AACCGGCACTAATGGACACA 59.601 50.000 0.00 0.00 0.00 3.72
95 96 0.618458 ACCGGCACTAATGGACACAT 59.382 50.000 0.00 0.00 39.54 3.21
97 98 2.237643 ACCGGCACTAATGGACACATTA 59.762 45.455 0.00 0.00 45.17 1.90
108 109 4.615901 CACATTAGTGCCGGCTCA 57.384 55.556 29.70 9.72 39.21 4.26
109 110 2.853159 CACATTAGTGCCGGCTCAA 58.147 52.632 29.70 19.77 39.21 3.02
110 111 1.164411 CACATTAGTGCCGGCTCAAA 58.836 50.000 29.70 18.42 39.21 2.69
111 112 1.539388 CACATTAGTGCCGGCTCAAAA 59.461 47.619 29.70 21.42 39.21 2.44
112 113 1.539827 ACATTAGTGCCGGCTCAAAAC 59.460 47.619 29.70 17.26 0.00 2.43
113 114 1.135402 CATTAGTGCCGGCTCAAAACC 60.135 52.381 29.70 6.44 0.00 3.27
114 115 0.179015 TTAGTGCCGGCTCAAAACCA 60.179 50.000 29.70 2.35 0.00 3.67
115 116 0.179015 TAGTGCCGGCTCAAAACCAA 60.179 50.000 29.70 5.19 0.00 3.67
116 117 1.040339 AGTGCCGGCTCAAAACCAAA 61.040 50.000 29.70 0.00 0.00 3.28
117 118 0.874175 GTGCCGGCTCAAAACCAAAC 60.874 55.000 29.70 9.41 0.00 2.93
118 119 1.300620 GCCGGCTCAAAACCAAACC 60.301 57.895 22.15 0.00 0.00 3.27
119 120 1.007849 CCGGCTCAAAACCAAACCG 60.008 57.895 0.00 0.00 40.30 4.44
120 121 1.007849 CGGCTCAAAACCAAACCGG 60.008 57.895 0.00 0.00 42.50 5.28
121 122 1.300620 GGCTCAAAACCAAACCGGC 60.301 57.895 0.00 0.00 39.03 6.13
122 123 1.300620 GCTCAAAACCAAACCGGCC 60.301 57.895 0.00 0.00 39.03 6.13
123 124 1.365999 CTCAAAACCAAACCGGCCC 59.634 57.895 0.00 0.00 39.03 5.80
124 125 1.075896 TCAAAACCAAACCGGCCCT 60.076 52.632 0.00 0.00 39.03 5.19
125 126 0.185416 TCAAAACCAAACCGGCCCTA 59.815 50.000 0.00 0.00 39.03 3.53
126 127 1.041437 CAAAACCAAACCGGCCCTAA 58.959 50.000 0.00 0.00 39.03 2.69
127 128 1.621317 CAAAACCAAACCGGCCCTAAT 59.379 47.619 0.00 0.00 39.03 1.73
128 129 2.826725 CAAAACCAAACCGGCCCTAATA 59.173 45.455 0.00 0.00 39.03 0.98
129 130 3.391799 AAACCAAACCGGCCCTAATAT 57.608 42.857 0.00 0.00 39.03 1.28
130 131 2.358322 ACCAAACCGGCCCTAATATG 57.642 50.000 0.00 0.00 39.03 1.78
131 132 1.567175 ACCAAACCGGCCCTAATATGT 59.433 47.619 0.00 0.00 39.03 2.29
132 133 2.227194 CCAAACCGGCCCTAATATGTC 58.773 52.381 0.00 0.00 0.00 3.06
133 134 2.158667 CCAAACCGGCCCTAATATGTCT 60.159 50.000 0.00 0.00 0.00 3.41
134 135 3.139077 CAAACCGGCCCTAATATGTCTC 58.861 50.000 0.00 0.00 0.00 3.36
135 136 2.097110 ACCGGCCCTAATATGTCTCA 57.903 50.000 0.00 0.00 0.00 3.27
136 137 2.621070 ACCGGCCCTAATATGTCTCAT 58.379 47.619 0.00 0.00 0.00 2.90
137 138 3.786553 ACCGGCCCTAATATGTCTCATA 58.213 45.455 0.00 0.00 0.00 2.15
138 139 4.362677 ACCGGCCCTAATATGTCTCATAT 58.637 43.478 0.00 0.00 0.00 1.78
139 140 4.783227 ACCGGCCCTAATATGTCTCATATT 59.217 41.667 15.90 15.90 0.00 1.28
140 141 5.962031 ACCGGCCCTAATATGTCTCATATTA 59.038 40.000 0.00 16.29 0.00 0.98
141 142 6.098409 ACCGGCCCTAATATGTCTCATATTAG 59.902 42.308 26.23 26.23 41.11 1.73
202 203 7.136822 TGATCCTATACCAAGTAGTTGCAAT 57.863 36.000 0.59 3.31 31.64 3.56
355 356 8.792830 ATATATGGACAAAGTAGGGAGTACAA 57.207 34.615 0.00 0.00 33.55 2.41
356 357 4.884668 TGGACAAAGTAGGGAGTACAAG 57.115 45.455 0.00 0.00 33.55 3.16
357 358 3.581332 TGGACAAAGTAGGGAGTACAAGG 59.419 47.826 0.00 0.00 33.55 3.61
358 359 3.581770 GGACAAAGTAGGGAGTACAAGGT 59.418 47.826 0.00 0.00 33.55 3.50
359 360 4.774200 GGACAAAGTAGGGAGTACAAGGTA 59.226 45.833 0.00 0.00 33.55 3.08
360 361 5.424573 GGACAAAGTAGGGAGTACAAGGTAT 59.575 44.000 0.00 0.00 33.55 2.73
361 362 6.608808 GGACAAAGTAGGGAGTACAAGGTATA 59.391 42.308 0.00 0.00 33.55 1.47
362 363 7.289549 GGACAAAGTAGGGAGTACAAGGTATAT 59.710 40.741 0.00 0.00 33.55 0.86
363 364 9.359653 GACAAAGTAGGGAGTACAAGGTATATA 57.640 37.037 0.00 0.00 33.55 0.86
364 365 9.893975 ACAAAGTAGGGAGTACAAGGTATATAT 57.106 33.333 0.00 0.00 33.55 0.86
366 367 8.896722 AAGTAGGGAGTACAAGGTATATATGG 57.103 38.462 0.00 0.00 33.55 2.74
367 368 8.240881 AGTAGGGAGTACAAGGTATATATGGA 57.759 38.462 0.00 0.00 33.55 3.41
368 369 8.114743 AGTAGGGAGTACAAGGTATATATGGAC 58.885 40.741 0.00 0.00 33.55 4.02
369 370 6.871035 AGGGAGTACAAGGTATATATGGACA 58.129 40.000 0.00 0.00 30.01 4.02
370 371 7.310634 AGGGAGTACAAGGTATATATGGACAA 58.689 38.462 0.00 0.00 30.01 3.18
371 372 7.792736 AGGGAGTACAAGGTATATATGGACAAA 59.207 37.037 0.00 0.00 30.01 2.83
372 373 8.095169 GGGAGTACAAGGTATATATGGACAAAG 58.905 40.741 0.00 0.00 30.01 2.77
452 739 9.634021 ACCTACTCAAGAAAAGAAAATCTTTCT 57.366 29.630 5.86 0.00 45.19 2.52
512 800 7.206687 TGAATTACTCGTATATGCATGACACA 58.793 34.615 10.16 0.00 0.00 3.72
573 861 4.240096 GAGACATGTCCCAATGCAAAAAG 58.760 43.478 22.21 0.00 0.00 2.27
601 893 5.841957 AAAAAGGACATGCATCATACTCC 57.158 39.130 0.00 0.00 0.00 3.85
602 894 3.498774 AAGGACATGCATCATACTCCC 57.501 47.619 0.00 0.00 0.00 4.30
603 895 2.699160 AGGACATGCATCATACTCCCT 58.301 47.619 0.00 0.00 0.00 4.20
604 896 2.636893 AGGACATGCATCATACTCCCTC 59.363 50.000 0.00 0.00 0.00 4.30
605 897 2.289945 GGACATGCATCATACTCCCTCC 60.290 54.545 0.00 0.00 0.00 4.30
606 898 1.345741 ACATGCATCATACTCCCTCCG 59.654 52.381 0.00 0.00 0.00 4.63
607 899 1.345741 CATGCATCATACTCCCTCCGT 59.654 52.381 0.00 0.00 0.00 4.69
608 900 1.496060 TGCATCATACTCCCTCCGTT 58.504 50.000 0.00 0.00 0.00 4.44
609 901 1.412710 TGCATCATACTCCCTCCGTTC 59.587 52.381 0.00 0.00 0.00 3.95
610 902 1.270358 GCATCATACTCCCTCCGTTCC 60.270 57.143 0.00 0.00 0.00 3.62
611 903 2.320781 CATCATACTCCCTCCGTTCCT 58.679 52.381 0.00 0.00 0.00 3.36
612 904 3.497332 CATCATACTCCCTCCGTTCCTA 58.503 50.000 0.00 0.00 0.00 2.94
613 905 3.675348 TCATACTCCCTCCGTTCCTAA 57.325 47.619 0.00 0.00 0.00 2.69
614 906 3.985127 TCATACTCCCTCCGTTCCTAAA 58.015 45.455 0.00 0.00 0.00 1.85
615 907 4.553678 TCATACTCCCTCCGTTCCTAAAT 58.446 43.478 0.00 0.00 0.00 1.40
616 908 4.344102 TCATACTCCCTCCGTTCCTAAATG 59.656 45.833 0.00 0.00 0.00 2.32
617 909 2.547990 ACTCCCTCCGTTCCTAAATGT 58.452 47.619 0.00 0.00 0.00 2.71
618 910 3.716431 ACTCCCTCCGTTCCTAAATGTA 58.284 45.455 0.00 0.00 0.00 2.29
619 911 4.098894 ACTCCCTCCGTTCCTAAATGTAA 58.901 43.478 0.00 0.00 0.00 2.41
620 912 4.161754 ACTCCCTCCGTTCCTAAATGTAAG 59.838 45.833 0.00 0.00 0.00 2.34
621 913 4.098894 TCCCTCCGTTCCTAAATGTAAGT 58.901 43.478 0.00 0.00 0.00 2.24
622 914 4.161001 TCCCTCCGTTCCTAAATGTAAGTC 59.839 45.833 0.00 0.00 0.00 3.01
623 915 4.161754 CCCTCCGTTCCTAAATGTAAGTCT 59.838 45.833 0.00 0.00 0.00 3.24
624 916 5.338137 CCCTCCGTTCCTAAATGTAAGTCTT 60.338 44.000 0.00 0.00 0.00 3.01
625 917 6.171213 CCTCCGTTCCTAAATGTAAGTCTTT 58.829 40.000 0.00 0.00 0.00 2.52
626 918 6.092259 CCTCCGTTCCTAAATGTAAGTCTTTG 59.908 42.308 0.00 0.00 0.00 2.77
627 919 6.527423 TCCGTTCCTAAATGTAAGTCTTTGT 58.473 36.000 0.00 0.00 0.00 2.83
628 920 7.669427 TCCGTTCCTAAATGTAAGTCTTTGTA 58.331 34.615 0.00 0.00 0.00 2.41
629 921 7.816031 TCCGTTCCTAAATGTAAGTCTTTGTAG 59.184 37.037 0.00 0.00 0.00 2.74
630 922 7.816031 CCGTTCCTAAATGTAAGTCTTTGTAGA 59.184 37.037 0.00 0.00 0.00 2.59
631 923 8.861101 CGTTCCTAAATGTAAGTCTTTGTAGAG 58.139 37.037 0.00 0.00 0.00 2.43
632 924 9.924650 GTTCCTAAATGTAAGTCTTTGTAGAGA 57.075 33.333 0.00 0.00 0.00 3.10
638 930 9.965902 AAATGTAAGTCTTTGTAGAGATTCCAT 57.034 29.630 0.00 0.00 0.00 3.41
639 931 9.965902 AATGTAAGTCTTTGTAGAGATTCCATT 57.034 29.630 0.00 0.00 0.00 3.16
647 939 9.542462 TCTTTGTAGAGATTCCATTATAAACCG 57.458 33.333 0.00 0.00 0.00 4.44
648 940 7.724305 TTGTAGAGATTCCATTATAAACCGC 57.276 36.000 0.00 0.00 0.00 5.68
649 941 6.822442 TGTAGAGATTCCATTATAAACCGCA 58.178 36.000 0.00 0.00 0.00 5.69
650 942 7.450074 TGTAGAGATTCCATTATAAACCGCAT 58.550 34.615 0.00 0.00 0.00 4.73
651 943 8.590204 TGTAGAGATTCCATTATAAACCGCATA 58.410 33.333 0.00 0.00 0.00 3.14
652 944 7.907214 AGAGATTCCATTATAAACCGCATAC 57.093 36.000 0.00 0.00 0.00 2.39
653 945 6.590292 AGAGATTCCATTATAAACCGCATACG 59.410 38.462 0.00 0.00 39.67 3.06
669 961 5.519722 CGCATACGGATGTATATAGATGCA 58.480 41.667 9.90 0.00 39.28 3.96
670 962 6.152379 CGCATACGGATGTATATAGATGCAT 58.848 40.000 9.90 0.00 40.68 3.96
671 963 6.642540 CGCATACGGATGTATATAGATGCATT 59.357 38.462 9.90 1.23 38.38 3.56
672 964 7.169813 CGCATACGGATGTATATAGATGCATTT 59.830 37.037 9.90 0.00 38.38 2.32
673 965 8.830580 GCATACGGATGTATATAGATGCATTTT 58.169 33.333 9.90 0.00 38.38 1.82
677 969 9.944376 ACGGATGTATATAGATGCATTTTAAGT 57.056 29.630 11.19 0.00 38.38 2.24
753 1045 9.379791 ACAAAGACTTATATTTAGAAACGGAGG 57.620 33.333 0.00 0.00 0.00 4.30
754 1046 8.827677 CAAAGACTTATATTTAGAAACGGAGGG 58.172 37.037 0.00 0.00 0.00 4.30
755 1047 7.063934 AGACTTATATTTAGAAACGGAGGGG 57.936 40.000 0.00 0.00 0.00 4.79
756 1048 6.042897 AGACTTATATTTAGAAACGGAGGGGG 59.957 42.308 0.00 0.00 0.00 5.40
800 1092 3.056628 GCACTAGCCAGCAGTACAG 57.943 57.895 0.00 0.00 33.58 2.74
809 1101 5.517322 AGCCAGCAGTACAGTAGTATAAC 57.483 43.478 0.00 0.00 31.84 1.89
1138 1430 1.000496 GTACGCCCTACAGATACTGCC 60.000 57.143 0.00 0.00 34.37 4.85
1307 1599 2.161855 CACCTACCAAAGCATGCAAGA 58.838 47.619 21.98 0.00 0.00 3.02
1455 1747 0.976073 ACCCCATGTCGGACGAGAAT 60.976 55.000 3.34 0.00 36.56 2.40
1457 1749 1.000163 CCCCATGTCGGACGAGAATAG 60.000 57.143 3.34 0.00 36.56 1.73
1875 2167 0.893727 ATCAACCCGTCCCACTTTGC 60.894 55.000 0.00 0.00 0.00 3.68
1888 2180 4.460382 TCCCACTTTGCTTCAAGATGATTC 59.540 41.667 0.00 0.00 0.00 2.52
1952 2244 7.174946 TCTGAACGAAAAAGCTAAAATCCTGAT 59.825 33.333 0.00 0.00 0.00 2.90
2074 2366 2.237143 TGCTCTCACTCCCGATGATTTT 59.763 45.455 0.00 0.00 0.00 1.82
2179 2471 4.222588 CCCATGGTAGAGAAATTTGGCAAA 59.777 41.667 16.01 16.01 0.00 3.68
2180 2472 5.279910 CCCATGGTAGAGAAATTTGGCAAAA 60.280 40.000 17.70 0.44 0.00 2.44
2228 2520 7.709182 TGTTTTGTGGTGACTATAGGATAATCG 59.291 37.037 4.43 0.00 0.00 3.34
2502 2794 4.929819 TGATCCCGATATTTTCTCGTGA 57.070 40.909 0.00 0.00 34.36 4.35
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 2.198906 TAGTACCGGTTCGTGCCACG 62.199 60.000 15.04 11.80 44.19 4.94
7 8 0.174162 ATAGTACCGGTTCGTGCCAC 59.826 55.000 15.04 1.99 0.00 5.01
8 9 1.677576 CTATAGTACCGGTTCGTGCCA 59.322 52.381 15.04 0.00 0.00 4.92
9 10 1.000938 CCTATAGTACCGGTTCGTGCC 60.001 57.143 15.04 0.00 0.00 5.01
10 11 1.678101 ACCTATAGTACCGGTTCGTGC 59.322 52.381 15.04 0.00 0.00 5.34
11 12 3.957468 GAACCTATAGTACCGGTTCGTG 58.043 50.000 15.04 0.51 44.86 4.35
15 16 1.683385 GGCGAACCTATAGTACCGGTT 59.317 52.381 15.04 0.00 43.32 4.44
16 17 1.322442 GGCGAACCTATAGTACCGGT 58.678 55.000 13.98 13.98 0.00 5.28
17 18 1.000938 GTGGCGAACCTATAGTACCGG 60.001 57.143 0.00 0.00 36.63 5.28
18 19 1.334419 CGTGGCGAACCTATAGTACCG 60.334 57.143 0.00 0.25 36.63 4.02
19 20 1.949525 TCGTGGCGAACCTATAGTACC 59.050 52.381 0.00 0.00 36.63 3.34
20 21 3.698029 TTCGTGGCGAACCTATAGTAC 57.302 47.619 0.00 0.00 41.05 2.73
30 31 1.240641 TAGTACCGGTTCGTGGCGAA 61.241 55.000 15.04 0.00 43.75 4.70
31 32 1.240641 TTAGTACCGGTTCGTGGCGA 61.241 55.000 15.04 0.00 0.00 5.54
32 33 0.179129 ATTAGTACCGGTTCGTGGCG 60.179 55.000 15.04 0.00 0.00 5.69
33 34 1.135024 TCATTAGTACCGGTTCGTGGC 60.135 52.381 15.04 0.00 0.00 5.01
34 35 2.424601 TCTCATTAGTACCGGTTCGTGG 59.575 50.000 15.04 0.29 0.00 4.94
35 36 3.770263 TCTCATTAGTACCGGTTCGTG 57.230 47.619 15.04 10.08 0.00 4.35
36 37 3.426695 CGTTCTCATTAGTACCGGTTCGT 60.427 47.826 15.04 0.00 0.00 3.85
37 38 3.103738 CGTTCTCATTAGTACCGGTTCG 58.896 50.000 15.04 0.00 0.00 3.95
38 39 3.442100 CCGTTCTCATTAGTACCGGTTC 58.558 50.000 15.04 8.12 0.00 3.62
39 40 2.417787 GCCGTTCTCATTAGTACCGGTT 60.418 50.000 15.04 0.00 0.00 4.44
40 41 1.135721 GCCGTTCTCATTAGTACCGGT 59.864 52.381 13.98 13.98 0.00 5.28
41 42 1.135527 TGCCGTTCTCATTAGTACCGG 59.864 52.381 0.00 0.00 0.00 5.28
42 43 2.460918 CTGCCGTTCTCATTAGTACCG 58.539 52.381 0.00 0.00 0.00 4.02
43 44 2.822764 CCTGCCGTTCTCATTAGTACC 58.177 52.381 0.00 0.00 0.00 3.34
44 45 2.159085 AGCCTGCCGTTCTCATTAGTAC 60.159 50.000 0.00 0.00 0.00 2.73
45 46 2.108168 AGCCTGCCGTTCTCATTAGTA 58.892 47.619 0.00 0.00 0.00 1.82
46 47 0.905357 AGCCTGCCGTTCTCATTAGT 59.095 50.000 0.00 0.00 0.00 2.24
47 48 2.748605 CTAGCCTGCCGTTCTCATTAG 58.251 52.381 0.00 0.00 0.00 1.73
48 49 1.202533 GCTAGCCTGCCGTTCTCATTA 60.203 52.381 2.29 0.00 0.00 1.90
49 50 0.462759 GCTAGCCTGCCGTTCTCATT 60.463 55.000 2.29 0.00 0.00 2.57
50 51 1.144936 GCTAGCCTGCCGTTCTCAT 59.855 57.895 2.29 0.00 0.00 2.90
51 52 2.579201 GCTAGCCTGCCGTTCTCA 59.421 61.111 2.29 0.00 0.00 3.27
52 53 2.202946 GGCTAGCCTGCCGTTCTC 60.203 66.667 27.17 0.00 43.74 2.87
59 60 1.387295 GGTTCCAATGGCTAGCCTGC 61.387 60.000 33.07 12.04 36.94 4.85
60 61 1.097547 CGGTTCCAATGGCTAGCCTG 61.098 60.000 33.07 23.50 36.94 4.85
61 62 1.224592 CGGTTCCAATGGCTAGCCT 59.775 57.895 33.07 16.79 36.94 4.58
62 63 1.823899 CCGGTTCCAATGGCTAGCC 60.824 63.158 27.71 27.71 0.00 3.93
63 64 2.481471 GCCGGTTCCAATGGCTAGC 61.481 63.158 6.04 6.04 45.40 3.42
64 65 3.827634 GCCGGTTCCAATGGCTAG 58.172 61.111 1.90 0.00 45.40 3.42
68 69 1.405105 CATTAGTGCCGGTTCCAATGG 59.595 52.381 1.90 0.00 0.00 3.16
69 70 1.405105 CCATTAGTGCCGGTTCCAATG 59.595 52.381 1.90 8.50 0.00 2.82
70 71 1.283613 TCCATTAGTGCCGGTTCCAAT 59.716 47.619 1.90 0.00 0.00 3.16
71 72 0.693622 TCCATTAGTGCCGGTTCCAA 59.306 50.000 1.90 0.00 0.00 3.53
72 73 0.035820 GTCCATTAGTGCCGGTTCCA 60.036 55.000 1.90 0.00 0.00 3.53
73 74 0.035820 TGTCCATTAGTGCCGGTTCC 60.036 55.000 1.90 0.00 0.00 3.62
74 75 1.084289 GTGTCCATTAGTGCCGGTTC 58.916 55.000 1.90 0.00 0.00 3.62
75 76 0.398696 TGTGTCCATTAGTGCCGGTT 59.601 50.000 1.90 0.00 0.00 4.44
76 77 0.618458 ATGTGTCCATTAGTGCCGGT 59.382 50.000 1.90 0.00 0.00 5.28
77 78 1.750193 AATGTGTCCATTAGTGCCGG 58.250 50.000 0.00 0.00 39.52 6.13
84 85 2.912771 CCGGCACTAATGTGTCCATTA 58.087 47.619 0.00 0.00 45.29 1.90
85 86 1.750193 CCGGCACTAATGTGTCCATT 58.250 50.000 0.00 0.00 45.29 3.16
86 87 0.748005 GCCGGCACTAATGTGTCCAT 60.748 55.000 24.80 0.00 45.29 3.41
87 88 1.376683 GCCGGCACTAATGTGTCCA 60.377 57.895 24.80 0.00 45.29 4.02
88 89 1.078426 AGCCGGCACTAATGTGTCC 60.078 57.895 31.54 0.00 45.29 4.02
89 90 0.391130 TGAGCCGGCACTAATGTGTC 60.391 55.000 31.54 14.56 45.44 3.67
90 91 0.036164 TTGAGCCGGCACTAATGTGT 59.964 50.000 31.54 3.33 45.44 3.72
91 92 1.164411 TTTGAGCCGGCACTAATGTG 58.836 50.000 31.54 0.00 46.37 3.21
92 93 1.539827 GTTTTGAGCCGGCACTAATGT 59.460 47.619 31.54 5.22 0.00 2.71
93 94 1.135402 GGTTTTGAGCCGGCACTAATG 60.135 52.381 31.54 0.00 0.00 1.90
94 95 1.173913 GGTTTTGAGCCGGCACTAAT 58.826 50.000 31.54 7.13 0.00 1.73
95 96 0.179015 TGGTTTTGAGCCGGCACTAA 60.179 50.000 31.54 22.93 0.00 2.24
96 97 0.179015 TTGGTTTTGAGCCGGCACTA 60.179 50.000 31.54 17.63 0.00 2.74
97 98 1.040339 TTTGGTTTTGAGCCGGCACT 61.040 50.000 31.54 9.09 0.00 4.40
98 99 0.874175 GTTTGGTTTTGAGCCGGCAC 60.874 55.000 31.54 24.60 0.00 5.01
99 100 1.439644 GTTTGGTTTTGAGCCGGCA 59.560 52.632 31.54 5.56 0.00 5.69
100 101 1.300620 GGTTTGGTTTTGAGCCGGC 60.301 57.895 21.89 21.89 0.00 6.13
101 102 1.007849 CGGTTTGGTTTTGAGCCGG 60.008 57.895 0.00 0.00 36.05 6.13
102 103 1.007849 CCGGTTTGGTTTTGAGCCG 60.008 57.895 0.00 0.00 38.99 5.52
103 104 1.300620 GCCGGTTTGGTTTTGAGCC 60.301 57.895 1.90 0.00 41.21 4.70
104 105 1.300620 GGCCGGTTTGGTTTTGAGC 60.301 57.895 1.90 0.00 41.21 4.26
105 106 1.112916 AGGGCCGGTTTGGTTTTGAG 61.113 55.000 1.90 0.00 41.21 3.02
106 107 0.185416 TAGGGCCGGTTTGGTTTTGA 59.815 50.000 1.90 0.00 41.21 2.69
107 108 1.041437 TTAGGGCCGGTTTGGTTTTG 58.959 50.000 1.90 0.00 41.21 2.44
108 109 2.018355 ATTAGGGCCGGTTTGGTTTT 57.982 45.000 1.90 0.00 41.21 2.43
109 110 2.903375 TATTAGGGCCGGTTTGGTTT 57.097 45.000 1.90 0.00 41.21 3.27
110 111 2.024751 ACATATTAGGGCCGGTTTGGTT 60.025 45.455 1.90 0.00 41.21 3.67
111 112 1.567175 ACATATTAGGGCCGGTTTGGT 59.433 47.619 1.90 0.00 41.21 3.67
112 113 2.158667 AGACATATTAGGGCCGGTTTGG 60.159 50.000 1.90 0.00 42.50 3.28
113 114 3.139077 GAGACATATTAGGGCCGGTTTG 58.861 50.000 1.90 0.00 0.00 2.93
114 115 2.775384 TGAGACATATTAGGGCCGGTTT 59.225 45.455 1.90 0.00 0.00 3.27
115 116 2.404559 TGAGACATATTAGGGCCGGTT 58.595 47.619 1.90 0.00 0.00 4.44
116 117 2.097110 TGAGACATATTAGGGCCGGT 57.903 50.000 1.90 0.00 0.00 5.28
117 118 5.359194 AATATGAGACATATTAGGGCCGG 57.641 43.478 13.15 0.00 0.00 6.13
137 138 9.668497 GGAACACTAGTAGAAAAATGACCTAAT 57.332 33.333 3.59 0.00 0.00 1.73
138 139 8.653191 TGGAACACTAGTAGAAAAATGACCTAA 58.347 33.333 3.59 0.00 0.00 2.69
139 140 8.197592 TGGAACACTAGTAGAAAAATGACCTA 57.802 34.615 3.59 0.00 0.00 3.08
140 141 7.074653 TGGAACACTAGTAGAAAAATGACCT 57.925 36.000 3.59 0.00 0.00 3.85
159 160 6.071728 AGGATCATTTGTCAAAGTCATGGAAC 60.072 38.462 4.03 0.00 0.00 3.62
202 203 6.364706 CAGCTTTCAAACAAACCGCAATATTA 59.635 34.615 0.00 0.00 0.00 0.98
211 212 2.167487 TGTCCCAGCTTTCAAACAAACC 59.833 45.455 0.00 0.00 0.00 3.27
220 221 4.301628 CTGAACATTTTGTCCCAGCTTTC 58.698 43.478 0.00 0.00 29.14 2.62
329 330 9.886337 TTGTACTCCCTACTTTGTCCATATATA 57.114 33.333 0.00 0.00 0.00 0.86
330 331 8.792830 TTGTACTCCCTACTTTGTCCATATAT 57.207 34.615 0.00 0.00 0.00 0.86
331 332 7.289317 CCTTGTACTCCCTACTTTGTCCATATA 59.711 40.741 0.00 0.00 0.00 0.86
332 333 6.099845 CCTTGTACTCCCTACTTTGTCCATAT 59.900 42.308 0.00 0.00 0.00 1.78
333 334 5.424252 CCTTGTACTCCCTACTTTGTCCATA 59.576 44.000 0.00 0.00 0.00 2.74
334 335 4.225267 CCTTGTACTCCCTACTTTGTCCAT 59.775 45.833 0.00 0.00 0.00 3.41
335 336 3.581332 CCTTGTACTCCCTACTTTGTCCA 59.419 47.826 0.00 0.00 0.00 4.02
336 337 3.581770 ACCTTGTACTCCCTACTTTGTCC 59.418 47.826 0.00 0.00 0.00 4.02
337 338 4.886496 ACCTTGTACTCCCTACTTTGTC 57.114 45.455 0.00 0.00 0.00 3.18
338 339 9.893975 ATATATACCTTGTACTCCCTACTTTGT 57.106 33.333 0.00 0.00 0.00 2.83
340 341 9.322769 CCATATATACCTTGTACTCCCTACTTT 57.677 37.037 0.00 0.00 0.00 2.66
341 342 8.685311 TCCATATATACCTTGTACTCCCTACTT 58.315 37.037 0.00 0.00 0.00 2.24
342 343 8.114743 GTCCATATATACCTTGTACTCCCTACT 58.885 40.741 0.00 0.00 0.00 2.57
343 344 7.892241 TGTCCATATATACCTTGTACTCCCTAC 59.108 40.741 0.00 0.00 0.00 3.18
344 345 8.003564 TGTCCATATATACCTTGTACTCCCTA 57.996 38.462 0.00 0.00 0.00 3.53
345 346 6.871035 TGTCCATATATACCTTGTACTCCCT 58.129 40.000 0.00 0.00 0.00 4.20
346 347 7.549147 TTGTCCATATATACCTTGTACTCCC 57.451 40.000 0.00 0.00 0.00 4.30
347 348 8.648693 ACTTTGTCCATATATACCTTGTACTCC 58.351 37.037 0.00 0.00 0.00 3.85
348 349 9.477484 CACTTTGTCCATATATACCTTGTACTC 57.523 37.037 0.00 0.00 0.00 2.59
349 350 7.931948 GCACTTTGTCCATATATACCTTGTACT 59.068 37.037 0.00 0.00 0.00 2.73
350 351 7.713507 TGCACTTTGTCCATATATACCTTGTAC 59.286 37.037 0.00 0.00 0.00 2.90
351 352 7.713507 GTGCACTTTGTCCATATATACCTTGTA 59.286 37.037 10.32 0.00 0.00 2.41
352 353 6.542370 GTGCACTTTGTCCATATATACCTTGT 59.458 38.462 10.32 0.00 0.00 3.16
353 354 6.292865 CGTGCACTTTGTCCATATATACCTTG 60.293 42.308 16.19 0.00 0.00 3.61
354 355 5.758296 CGTGCACTTTGTCCATATATACCTT 59.242 40.000 16.19 0.00 0.00 3.50
355 356 5.069914 TCGTGCACTTTGTCCATATATACCT 59.930 40.000 16.19 0.00 0.00 3.08
356 357 5.294356 TCGTGCACTTTGTCCATATATACC 58.706 41.667 16.19 0.00 0.00 2.73
357 358 6.479001 ACTTCGTGCACTTTGTCCATATATAC 59.521 38.462 16.19 0.00 0.00 1.47
358 359 6.478673 CACTTCGTGCACTTTGTCCATATATA 59.521 38.462 16.19 0.00 0.00 0.86
359 360 5.294306 CACTTCGTGCACTTTGTCCATATAT 59.706 40.000 16.19 0.00 0.00 0.86
360 361 4.629634 CACTTCGTGCACTTTGTCCATATA 59.370 41.667 16.19 0.00 0.00 0.86
361 362 3.436704 CACTTCGTGCACTTTGTCCATAT 59.563 43.478 16.19 0.00 0.00 1.78
362 363 2.805671 CACTTCGTGCACTTTGTCCATA 59.194 45.455 16.19 0.00 0.00 2.74
363 364 1.603802 CACTTCGTGCACTTTGTCCAT 59.396 47.619 16.19 0.00 0.00 3.41
364 365 1.013596 CACTTCGTGCACTTTGTCCA 58.986 50.000 16.19 0.00 0.00 4.02
365 366 1.014352 ACACTTCGTGCACTTTGTCC 58.986 50.000 16.19 0.00 36.98 4.02
366 367 2.825086 AACACTTCGTGCACTTTGTC 57.175 45.000 16.19 0.00 36.98 3.18
367 368 2.415357 CCAAACACTTCGTGCACTTTGT 60.415 45.455 16.19 9.26 36.98 2.83
368 369 2.184448 CCAAACACTTCGTGCACTTTG 58.816 47.619 16.19 16.13 36.98 2.77
369 370 1.469079 GCCAAACACTTCGTGCACTTT 60.469 47.619 16.19 4.43 36.98 2.66
370 371 0.100503 GCCAAACACTTCGTGCACTT 59.899 50.000 16.19 0.00 36.98 3.16
371 372 1.029408 TGCCAAACACTTCGTGCACT 61.029 50.000 16.19 0.00 36.98 4.40
372 373 0.179150 TTGCCAAACACTTCGTGCAC 60.179 50.000 6.82 6.82 36.98 4.57
512 800 1.320507 AAAACAATTACCGGCCGTGT 58.679 45.000 26.12 22.86 0.00 4.49
596 888 3.716431 ACATTTAGGAACGGAGGGAGTA 58.284 45.455 0.00 0.00 0.00 2.59
597 889 2.547990 ACATTTAGGAACGGAGGGAGT 58.452 47.619 0.00 0.00 0.00 3.85
598 890 4.161754 ACTTACATTTAGGAACGGAGGGAG 59.838 45.833 0.00 0.00 0.00 4.30
599 891 4.098894 ACTTACATTTAGGAACGGAGGGA 58.901 43.478 0.00 0.00 0.00 4.20
600 892 4.161754 AGACTTACATTTAGGAACGGAGGG 59.838 45.833 0.00 0.00 0.00 4.30
601 893 5.340439 AGACTTACATTTAGGAACGGAGG 57.660 43.478 0.00 0.00 0.00 4.30
602 894 6.649557 ACAAAGACTTACATTTAGGAACGGAG 59.350 38.462 0.00 0.00 0.00 4.63
603 895 6.527423 ACAAAGACTTACATTTAGGAACGGA 58.473 36.000 0.00 0.00 0.00 4.69
604 896 6.796705 ACAAAGACTTACATTTAGGAACGG 57.203 37.500 0.00 0.00 0.00 4.44
605 897 8.752766 TCTACAAAGACTTACATTTAGGAACG 57.247 34.615 0.00 0.00 0.00 3.95
606 898 9.924650 TCTCTACAAAGACTTACATTTAGGAAC 57.075 33.333 0.00 0.00 0.00 3.62
612 904 9.965902 ATGGAATCTCTACAAAGACTTACATTT 57.034 29.630 0.00 0.00 0.00 2.32
613 905 9.965902 AATGGAATCTCTACAAAGACTTACATT 57.034 29.630 0.00 0.00 30.67 2.71
621 913 9.542462 CGGTTTATAATGGAATCTCTACAAAGA 57.458 33.333 0.00 0.00 0.00 2.52
622 914 8.283291 GCGGTTTATAATGGAATCTCTACAAAG 58.717 37.037 0.00 0.00 0.00 2.77
623 915 7.771361 TGCGGTTTATAATGGAATCTCTACAAA 59.229 33.333 0.00 0.00 0.00 2.83
624 916 7.276658 TGCGGTTTATAATGGAATCTCTACAA 58.723 34.615 0.00 0.00 0.00 2.41
625 917 6.822442 TGCGGTTTATAATGGAATCTCTACA 58.178 36.000 0.00 0.00 0.00 2.74
626 918 7.907214 ATGCGGTTTATAATGGAATCTCTAC 57.093 36.000 0.00 0.00 0.00 2.59
627 919 7.758076 CGTATGCGGTTTATAATGGAATCTCTA 59.242 37.037 0.00 0.00 0.00 2.43
628 920 6.590292 CGTATGCGGTTTATAATGGAATCTCT 59.410 38.462 0.00 0.00 0.00 3.10
629 921 6.762108 CGTATGCGGTTTATAATGGAATCTC 58.238 40.000 0.00 0.00 0.00 2.75
630 922 6.721571 CGTATGCGGTTTATAATGGAATCT 57.278 37.500 0.00 0.00 0.00 2.40
646 938 5.519722 TGCATCTATATACATCCGTATGCG 58.480 41.667 0.00 0.00 38.79 4.73
647 939 7.953158 AATGCATCTATATACATCCGTATGC 57.047 36.000 0.00 0.00 38.79 3.14
651 943 9.944376 ACTTAAAATGCATCTATATACATCCGT 57.056 29.630 0.00 0.00 0.00 4.69
727 1019 9.379791 CCTCCGTTTCTAAATATAAGTCTTTGT 57.620 33.333 0.00 0.00 0.00 2.83
728 1020 8.827677 CCCTCCGTTTCTAAATATAAGTCTTTG 58.172 37.037 0.00 0.00 0.00 2.77
729 1021 7.991460 CCCCTCCGTTTCTAAATATAAGTCTTT 59.009 37.037 0.00 0.00 0.00 2.52
730 1022 7.419865 CCCCCTCCGTTTCTAAATATAAGTCTT 60.420 40.741 0.00 0.00 0.00 3.01
731 1023 6.042897 CCCCCTCCGTTTCTAAATATAAGTCT 59.957 42.308 0.00 0.00 0.00 3.24
732 1024 6.183361 ACCCCCTCCGTTTCTAAATATAAGTC 60.183 42.308 0.00 0.00 0.00 3.01
733 1025 5.668991 ACCCCCTCCGTTTCTAAATATAAGT 59.331 40.000 0.00 0.00 0.00 2.24
734 1026 6.183810 ACCCCCTCCGTTTCTAAATATAAG 57.816 41.667 0.00 0.00 0.00 1.73
735 1027 6.270695 CCTACCCCCTCCGTTTCTAAATATAA 59.729 42.308 0.00 0.00 0.00 0.98
736 1028 5.781818 CCTACCCCCTCCGTTTCTAAATATA 59.218 44.000 0.00 0.00 0.00 0.86
737 1029 4.596212 CCTACCCCCTCCGTTTCTAAATAT 59.404 45.833 0.00 0.00 0.00 1.28
738 1030 3.969312 CCTACCCCCTCCGTTTCTAAATA 59.031 47.826 0.00 0.00 0.00 1.40
739 1031 2.775960 CCTACCCCCTCCGTTTCTAAAT 59.224 50.000 0.00 0.00 0.00 1.40
740 1032 2.190538 CCTACCCCCTCCGTTTCTAAA 58.809 52.381 0.00 0.00 0.00 1.85
741 1033 1.079323 ACCTACCCCCTCCGTTTCTAA 59.921 52.381 0.00 0.00 0.00 2.10
742 1034 0.712380 ACCTACCCCCTCCGTTTCTA 59.288 55.000 0.00 0.00 0.00 2.10
743 1035 0.178882 AACCTACCCCCTCCGTTTCT 60.179 55.000 0.00 0.00 0.00 2.52
744 1036 0.035725 CAACCTACCCCCTCCGTTTC 60.036 60.000 0.00 0.00 0.00 2.78
745 1037 0.769386 ACAACCTACCCCCTCCGTTT 60.769 55.000 0.00 0.00 0.00 3.60
746 1038 1.151965 ACAACCTACCCCCTCCGTT 60.152 57.895 0.00 0.00 0.00 4.44
747 1039 1.916777 CACAACCTACCCCCTCCGT 60.917 63.158 0.00 0.00 0.00 4.69
748 1040 2.666098 CCACAACCTACCCCCTCCG 61.666 68.421 0.00 0.00 0.00 4.63
749 1041 1.540617 ACCACAACCTACCCCCTCC 60.541 63.158 0.00 0.00 0.00 4.30
750 1042 1.896122 CGACCACAACCTACCCCCTC 61.896 65.000 0.00 0.00 0.00 4.30
751 1043 1.916777 CGACCACAACCTACCCCCT 60.917 63.158 0.00 0.00 0.00 4.79
752 1044 2.666812 CGACCACAACCTACCCCC 59.333 66.667 0.00 0.00 0.00 5.40
753 1045 2.046604 GCGACCACAACCTACCCC 60.047 66.667 0.00 0.00 0.00 4.95
754 1046 2.046604 GGCGACCACAACCTACCC 60.047 66.667 0.00 0.00 0.00 3.69
755 1047 2.433664 CGGCGACCACAACCTACC 60.434 66.667 0.00 0.00 0.00 3.18
756 1048 2.433664 CCGGCGACCACAACCTAC 60.434 66.667 9.30 0.00 0.00 3.18
797 1089 9.587772 CAGAGCATTAGTTTGTTATACTACTGT 57.412 33.333 0.00 0.00 33.65 3.55
798 1090 9.803315 TCAGAGCATTAGTTTGTTATACTACTG 57.197 33.333 0.00 0.00 34.01 2.74
809 1101 4.631377 TGAACGGATCAGAGCATTAGTTTG 59.369 41.667 0.00 0.00 33.04 2.93
1359 1651 3.706373 TCCCTGAGCTTGGGCGAC 61.706 66.667 17.95 0.00 44.23 5.19
1455 1747 3.749088 CGGACACCAAATAGTTTGCACTA 59.251 43.478 0.00 0.00 39.94 2.74
1457 1749 2.351350 CCGGACACCAAATAGTTTGCAC 60.351 50.000 0.00 0.00 39.31 4.57
1497 1789 3.030168 ATGGCGGGCGATGAGTTCA 62.030 57.895 0.00 0.00 0.00 3.18
1601 1893 3.322369 ACGCAAGACATGATTAACGTGA 58.678 40.909 0.00 0.00 43.62 4.35
1875 2167 8.283992 GTGAGCAATATCAGAATCATCTTGAAG 58.716 37.037 0.00 0.00 32.03 3.02
1888 2180 7.493743 AGCTTAAGATTGTGAGCAATATCAG 57.506 36.000 6.67 0.00 44.61 2.90
1960 2252 3.384146 TGCTTTTGGATCTGTTGCAGAAA 59.616 39.130 2.80 0.00 44.04 2.52
2060 2352 3.610911 GGTGAAGAAAATCATCGGGAGT 58.389 45.455 0.00 0.00 0.00 3.85
2179 2471 1.897802 CGGTAGGTGAGTTGGGTAGTT 59.102 52.381 0.00 0.00 0.00 2.24
2180 2472 1.553706 CGGTAGGTGAGTTGGGTAGT 58.446 55.000 0.00 0.00 0.00 2.73
2288 2580 4.038763 ACAAGTCAGAGAAACCACGTGATA 59.961 41.667 19.30 0.00 0.00 2.15
2463 2755 3.485463 TCAACCTCTGGTAACCACAAG 57.515 47.619 0.00 0.00 33.12 3.16
2502 2794 3.375782 AAAAAGAAAATCGCTGCTGCT 57.624 38.095 14.03 0.00 36.97 4.24


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

AutoCloner maintained by Alex Coulton.