Multiple sequence alignment - TraesCS1B01G442700

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 TraesCS1B01G442700 chr1B 100.000 3401 0 0 1 3401 663612444 663609044 0.000000e+00 6281.0
1 TraesCS1B01G442700 chr1B 94.265 2040 89 17 752 2765 637525427 637523390 0.000000e+00 3094.0
2 TraesCS1B01G442700 chr1B 84.727 1591 224 15 819 2401 637621590 637623169 0.000000e+00 1574.0
3 TraesCS1B01G442700 chr1B 85.847 968 135 2 1368 2334 637820244 637819278 0.000000e+00 1027.0
4 TraesCS1B01G442700 chr1B 80.339 1414 219 40 874 2259 637815812 637817194 0.000000e+00 1016.0
5 TraesCS1B01G442700 chr1B 81.230 1268 229 7 1077 2343 637825370 637824111 0.000000e+00 1014.0
6 TraesCS1B01G442700 chr1B 93.478 552 29 5 2853 3401 637523384 637522837 0.000000e+00 813.0
7 TraesCS1B01G442700 chr1B 81.649 376 33 19 135 505 637526169 637525825 2.580000e-71 279.0
8 TraesCS1B01G442700 chr1B 88.144 194 8 6 511 692 637525775 637525585 2.060000e-52 217.0
9 TraesCS1B01G442700 chr1B 90.099 101 9 1 390 490 637815348 637815447 2.750000e-26 130.0
10 TraesCS1B01G442700 chr1B 92.453 53 4 0 30 82 214573393 214573341 3.640000e-10 76.8
11 TraesCS1B01G442700 chr1A 92.454 2306 110 31 511 2768 554221243 554223532 0.000000e+00 3236.0
12 TraesCS1B01G442700 chr1A 81.758 1206 213 5 1129 2334 554526203 554525005 0.000000e+00 1002.0
13 TraesCS1B01G442700 chr1A 94.718 549 23 4 2853 3398 554223531 554224076 0.000000e+00 848.0
14 TraesCS1B01G442700 chr1A 81.174 409 32 16 99 490 554214631 554215011 1.540000e-73 287.0
15 TraesCS1B01G442700 chr1D 85.122 1593 215 18 819 2401 462487576 462489156 0.000000e+00 1609.0
16 TraesCS1B01G442700 chr1D 82.855 1359 202 26 987 2333 462719057 462717718 0.000000e+00 1190.0
17 TraesCS1B01G442700 chr1D 95.336 729 33 1 1594 2322 462396184 462396911 0.000000e+00 1157.0
18 TraesCS1B01G442700 chr1D 83.789 987 156 4 1366 2350 462730241 462729257 0.000000e+00 933.0
19 TraesCS1B01G442700 chr1D 91.111 180 16 0 873 1052 462396000 462396179 9.430000e-61 244.0
20 TraesCS1B01G442700 chr1D 79.434 389 44 19 135 506 462486888 462487257 3.390000e-60 243.0
21 TraesCS1B01G442700 chr1D 90.323 155 9 4 308 456 462395384 462395538 7.440000e-47 198.0
22 TraesCS1B01G442700 chr1D 79.377 257 44 7 1001 1248 462736698 462736442 4.510000e-39 172.0
23 TraesCS1B01G442700 chr1D 87.879 132 10 3 490 618 462487278 462487406 2.110000e-32 150.0
24 TraesCS1B01G442700 chr1D 85.714 126 12 3 676 801 475925071 475925190 9.910000e-26 128.0
25 TraesCS1B01G442700 chr1D 95.775 71 3 0 2400 2470 462396923 462396993 7.710000e-22 115.0
26 TraesCS1B01G442700 chr6B 89.130 138 11 3 664 801 541949762 541949895 5.840000e-38 169.0
27 TraesCS1B01G442700 chr6B 94.643 56 1 2 32 87 668971123 668971070 6.050000e-13 86.1
28 TraesCS1B01G442700 chr6B 96.000 50 1 1 32 81 669056303 669056255 2.810000e-11 80.5
29 TraesCS1B01G442700 chr3B 94.949 99 2 2 2756 2854 132527288 132527383 5.880000e-33 152.0
30 TraesCS1B01G442700 chr3B 88.793 116 6 6 2762 2874 237977337 237977226 5.920000e-28 135.0
31 TraesCS1B01G442700 chrUn 95.652 92 1 2 2767 2858 17148683 17148595 9.840000e-31 145.0
32 TraesCS1B01G442700 chrUn 94.545 55 3 0 28 82 999735 999681 6.050000e-13 86.1
33 TraesCS1B01G442700 chr3D 93.000 100 4 2 2758 2857 509255104 509255200 3.540000e-30 143.0
34 TraesCS1B01G442700 chr6A 92.929 99 3 3 2764 2861 27342892 27342987 1.270000e-29 141.0
35 TraesCS1B01G442700 chr6A 84.314 102 14 2 7 108 517897623 517897524 7.770000e-17 99.0
36 TraesCS1B01G442700 chr2D 94.624 93 2 2 2762 2854 524566823 524566912 1.270000e-29 141.0
37 TraesCS1B01G442700 chr2D 82.877 146 18 4 656 801 102591990 102591852 1.280000e-24 124.0
38 TraesCS1B01G442700 chr2D 82.278 79 13 1 5 82 351288453 351288375 2.190000e-07 67.6
39 TraesCS1B01G442700 chr7D 85.612 139 13 4 663 801 264084247 264084378 4.580000e-29 139.0
40 TraesCS1B01G442700 chr7D 91.919 99 5 2 2767 2865 98275858 98275763 5.920000e-28 135.0
41 TraesCS1B01G442700 chr7D 80.952 84 15 1 6 89 578493022 578492940 7.880000e-07 65.8
42 TraesCS1B01G442700 chr7B 93.548 93 3 2 2762 2854 440325599 440325688 5.920000e-28 135.0
43 TraesCS1B01G442700 chr7B 84.559 136 15 3 670 805 153426916 153426787 2.750000e-26 130.0
44 TraesCS1B01G442700 chr3A 85.821 134 11 4 670 801 208033666 208033793 5.920000e-28 135.0
45 TraesCS1B01G442700 chr3A 94.828 58 3 0 25 82 699856469 699856412 1.300000e-14 91.6
46 TraesCS1B01G442700 chr5D 89.189 111 7 4 2767 2876 522111513 522111407 2.130000e-27 134.0
47 TraesCS1B01G442700 chr5D 84.444 135 14 4 668 801 220683345 220683217 3.560000e-25 126.0
48 TraesCS1B01G442700 chr7A 85.938 128 12 3 674 801 186540622 186540743 7.660000e-27 132.0
49 TraesCS1B01G442700 chr7A 84.559 136 16 3 666 801 621310486 621310356 2.750000e-26 130.0
50 TraesCS1B01G442700 chr5A 89.024 82 9 0 1 82 438367741 438367822 6.000000e-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 TraesCS1B01G442700 chr1B 663609044 663612444 3400 True 6281.000000 6281 100.00000 1 3401 1 chr1B.!!$R2 3400
1 TraesCS1B01G442700 chr1B 637621590 637623169 1579 False 1574.000000 1574 84.72700 819 2401 1 chr1B.!!$F1 1582
2 TraesCS1B01G442700 chr1B 637522837 637526169 3332 True 1100.750000 3094 89.38400 135 3401 4 chr1B.!!$R3 3266
3 TraesCS1B01G442700 chr1B 637819278 637825370 6092 True 1020.500000 1027 83.53850 1077 2343 2 chr1B.!!$R4 1266
4 TraesCS1B01G442700 chr1B 637815348 637817194 1846 False 573.000000 1016 85.21900 390 2259 2 chr1B.!!$F2 1869
5 TraesCS1B01G442700 chr1A 554221243 554224076 2833 False 2042.000000 3236 93.58600 511 3398 2 chr1A.!!$F2 2887
6 TraesCS1B01G442700 chr1A 554525005 554526203 1198 True 1002.000000 1002 81.75800 1129 2334 1 chr1A.!!$R1 1205
7 TraesCS1B01G442700 chr1D 462717718 462719057 1339 True 1190.000000 1190 82.85500 987 2333 1 chr1D.!!$R1 1346
8 TraesCS1B01G442700 chr1D 462729257 462730241 984 True 933.000000 933 83.78900 1366 2350 1 chr1D.!!$R2 984
9 TraesCS1B01G442700 chr1D 462486888 462489156 2268 False 667.333333 1609 84.14500 135 2401 3 chr1D.!!$F3 2266
10 TraesCS1B01G442700 chr1D 462395384 462396993 1609 False 428.500000 1157 93.13625 308 2470 4 chr1D.!!$F2 2162

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
127 128 0.108329 ACGAATCCCCTGCTAACGTG 60.108 55.0 0.00 0.0 0.00 4.49 F
245 246 0.108615 CAGGCCAAGTAGTCAGTCCG 60.109 60.0 5.01 0.0 0.00 4.79 F
1350 1911 0.817654 CATACTCACCGTCAGGCTCA 59.182 55.0 0.00 0.0 42.76 4.26 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1947 7358 1.302511 GTCCCGGACAATGCACAGT 60.303 57.895 13.05 0.0 32.09 3.55 R
2145 7556 3.557595 GCTCGCTAGTAGCAATGACAATT 59.442 43.478 21.70 0.0 42.58 2.32 R
2832 8263 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.0 0.00 2.71 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
47 48 8.900983 TTAAGTTTGAATTTGGAATTTGGAGG 57.099 30.769 0.00 0.00 0.00 4.30
48 49 5.308014 AGTTTGAATTTGGAATTTGGAGGC 58.692 37.500 0.00 0.00 0.00 4.70
49 50 3.979101 TGAATTTGGAATTTGGAGGCC 57.021 42.857 0.00 0.00 0.00 5.19
50 51 3.519667 TGAATTTGGAATTTGGAGGCCT 58.480 40.909 3.86 3.86 0.00 5.19
51 52 3.515104 TGAATTTGGAATTTGGAGGCCTC 59.485 43.478 25.59 25.59 0.00 4.70
52 53 1.544724 TTTGGAATTTGGAGGCCTCG 58.455 50.000 26.36 0.00 0.00 4.63
53 54 0.695924 TTGGAATTTGGAGGCCTCGA 59.304 50.000 26.36 20.75 0.00 4.04
54 55 0.918983 TGGAATTTGGAGGCCTCGAT 59.081 50.000 26.36 16.60 0.00 3.59
55 56 1.312815 GGAATTTGGAGGCCTCGATG 58.687 55.000 26.36 0.00 0.00 3.84
56 57 1.312815 GAATTTGGAGGCCTCGATGG 58.687 55.000 26.36 0.00 39.35 3.51
57 58 0.918983 AATTTGGAGGCCTCGATGGA 59.081 50.000 26.36 11.98 38.35 3.41
58 59 0.471617 ATTTGGAGGCCTCGATGGAG 59.528 55.000 26.36 0.00 40.14 3.86
66 67 3.222855 CTCGATGGAGGCCGAGCT 61.223 66.667 0.00 0.00 44.35 4.09
67 68 3.206211 CTCGATGGAGGCCGAGCTC 62.206 68.421 2.73 2.73 44.35 4.09
68 69 4.292178 CGATGGAGGCCGAGCTCC 62.292 72.222 8.47 0.00 40.05 4.70
71 72 2.927856 TGGAGGCCGAGCTCCAAA 60.928 61.111 8.96 0.00 45.68 3.28
72 73 2.351276 GGAGGCCGAGCTCCAAAA 59.649 61.111 8.47 0.00 39.45 2.44
73 74 1.746991 GGAGGCCGAGCTCCAAAAG 60.747 63.158 8.47 0.00 39.45 2.27
85 86 2.687370 CTCCAAAAGCAATTTTCCGGG 58.313 47.619 0.00 0.00 0.00 5.73
86 87 2.298729 CTCCAAAAGCAATTTTCCGGGA 59.701 45.455 0.00 0.00 0.00 5.14
87 88 2.903135 TCCAAAAGCAATTTTCCGGGAT 59.097 40.909 0.00 0.00 0.00 3.85
88 89 4.090090 TCCAAAAGCAATTTTCCGGGATA 58.910 39.130 0.00 0.00 0.00 2.59
89 90 4.159506 TCCAAAAGCAATTTTCCGGGATAG 59.840 41.667 0.00 0.00 0.00 2.08
90 91 4.159506 CCAAAAGCAATTTTCCGGGATAGA 59.840 41.667 0.00 0.00 0.00 1.98
91 92 5.343249 CAAAAGCAATTTTCCGGGATAGAG 58.657 41.667 0.00 0.00 0.00 2.43
92 93 4.503714 AAGCAATTTTCCGGGATAGAGA 57.496 40.909 0.00 0.00 0.00 3.10
93 94 4.713792 AGCAATTTTCCGGGATAGAGAT 57.286 40.909 0.00 0.00 0.00 2.75
94 95 4.392940 AGCAATTTTCCGGGATAGAGATG 58.607 43.478 0.00 0.00 0.00 2.90
95 96 3.503748 GCAATTTTCCGGGATAGAGATGG 59.496 47.826 0.00 0.00 0.00 3.51
96 97 4.718961 CAATTTTCCGGGATAGAGATGGT 58.281 43.478 0.00 0.00 0.00 3.55
97 98 5.744887 GCAATTTTCCGGGATAGAGATGGTA 60.745 44.000 0.00 0.00 0.00 3.25
98 99 6.476378 CAATTTTCCGGGATAGAGATGGTAT 58.524 40.000 0.00 0.00 0.00 2.73
99 100 7.620880 CAATTTTCCGGGATAGAGATGGTATA 58.379 38.462 0.00 0.00 0.00 1.47
100 101 7.996758 ATTTTCCGGGATAGAGATGGTATAT 57.003 36.000 0.00 0.00 0.00 0.86
101 102 9.502035 AATTTTCCGGGATAGAGATGGTATATA 57.498 33.333 0.00 0.00 0.00 0.86
102 103 8.904648 TTTTCCGGGATAGAGATGGTATATAA 57.095 34.615 0.00 0.00 0.00 0.98
103 104 9.502035 TTTTCCGGGATAGAGATGGTATATAAT 57.498 33.333 0.00 0.00 0.00 1.28
104 105 9.502035 TTTCCGGGATAGAGATGGTATATAATT 57.498 33.333 0.00 0.00 0.00 1.40
105 106 9.502035 TTCCGGGATAGAGATGGTATATAATTT 57.498 33.333 0.00 0.00 0.00 1.82
106 107 8.924303 TCCGGGATAGAGATGGTATATAATTTG 58.076 37.037 0.00 0.00 0.00 2.32
107 108 8.924303 CCGGGATAGAGATGGTATATAATTTGA 58.076 37.037 0.00 0.00 0.00 2.69
116 117 9.449719 AGATGGTATATAATTTGAACGAATCCC 57.550 33.333 0.00 0.00 0.00 3.85
117 118 7.989416 TGGTATATAATTTGAACGAATCCCC 57.011 36.000 0.00 0.00 0.00 4.81
118 119 7.751646 TGGTATATAATTTGAACGAATCCCCT 58.248 34.615 0.00 0.00 0.00 4.79
119 120 7.663905 TGGTATATAATTTGAACGAATCCCCTG 59.336 37.037 0.00 0.00 0.00 4.45
120 121 4.918810 ATAATTTGAACGAATCCCCTGC 57.081 40.909 0.00 0.00 0.00 4.85
121 122 2.514458 ATTTGAACGAATCCCCTGCT 57.486 45.000 0.00 0.00 0.00 4.24
122 123 3.644966 ATTTGAACGAATCCCCTGCTA 57.355 42.857 0.00 0.00 0.00 3.49
123 124 3.426787 TTTGAACGAATCCCCTGCTAA 57.573 42.857 0.00 0.00 0.00 3.09
124 125 2.396590 TGAACGAATCCCCTGCTAAC 57.603 50.000 0.00 0.00 0.00 2.34
125 126 1.287425 GAACGAATCCCCTGCTAACG 58.713 55.000 0.00 0.00 0.00 3.18
126 127 0.611714 AACGAATCCCCTGCTAACGT 59.388 50.000 0.00 0.00 0.00 3.99
127 128 0.108329 ACGAATCCCCTGCTAACGTG 60.108 55.000 0.00 0.00 0.00 4.49
128 129 0.174845 CGAATCCCCTGCTAACGTGA 59.825 55.000 0.00 0.00 0.00 4.35
129 130 1.202533 CGAATCCCCTGCTAACGTGAT 60.203 52.381 0.00 0.00 0.00 3.06
130 131 2.484889 GAATCCCCTGCTAACGTGATC 58.515 52.381 0.00 0.00 0.00 2.92
131 132 0.759346 ATCCCCTGCTAACGTGATCC 59.241 55.000 0.00 0.00 0.00 3.36
132 133 0.616395 TCCCCTGCTAACGTGATCCA 60.616 55.000 0.00 0.00 0.00 3.41
133 134 0.251916 CCCCTGCTAACGTGATCCAA 59.748 55.000 0.00 0.00 0.00 3.53
145 146 7.705325 GCTAACGTGATCCAAGAGAGTATTTAA 59.295 37.037 0.00 0.00 0.00 1.52
190 191 2.668212 CGCTTGCAAGGGACGGAA 60.668 61.111 33.36 0.00 41.06 4.30
242 243 0.603569 CGACAGGCCAAGTAGTCAGT 59.396 55.000 5.01 0.00 0.00 3.41
243 244 1.402984 CGACAGGCCAAGTAGTCAGTC 60.403 57.143 5.01 0.00 0.00 3.51
245 246 0.108615 CAGGCCAAGTAGTCAGTCCG 60.109 60.000 5.01 0.00 0.00 4.79
256 263 2.126307 CAGTCCGTCGCCACTCTG 60.126 66.667 0.00 0.00 0.00 3.35
272 279 4.248859 CACTCTGACCAGTTTGTATCCAG 58.751 47.826 0.00 0.00 0.00 3.86
281 288 3.506067 CAGTTTGTATCCAGTTCCAACCC 59.494 47.826 0.00 0.00 0.00 4.11
290 297 4.013728 TCCAGTTCCAACCCAAATAATCG 58.986 43.478 0.00 0.00 0.00 3.34
291 298 4.013728 CCAGTTCCAACCCAAATAATCGA 58.986 43.478 0.00 0.00 0.00 3.59
292 299 4.644685 CCAGTTCCAACCCAAATAATCGAT 59.355 41.667 0.00 0.00 0.00 3.59
293 300 5.825679 CCAGTTCCAACCCAAATAATCGATA 59.174 40.000 0.00 0.00 0.00 2.92
296 303 7.445402 CAGTTCCAACCCAAATAATCGATATCT 59.555 37.037 0.00 0.00 0.00 1.98
298 305 7.316393 TCCAACCCAAATAATCGATATCTCT 57.684 36.000 0.00 0.00 0.00 3.10
299 306 7.386851 TCCAACCCAAATAATCGATATCTCTC 58.613 38.462 0.00 0.00 0.00 3.20
300 307 6.595716 CCAACCCAAATAATCGATATCTCTCC 59.404 42.308 0.00 0.00 0.00 3.71
301 308 6.935240 ACCCAAATAATCGATATCTCTCCA 57.065 37.500 0.00 0.00 0.00 3.86
302 309 7.316393 ACCCAAATAATCGATATCTCTCCAA 57.684 36.000 0.00 0.00 0.00 3.53
303 310 7.745717 ACCCAAATAATCGATATCTCTCCAAA 58.254 34.615 0.00 0.00 0.00 3.28
304 311 8.386264 ACCCAAATAATCGATATCTCTCCAAAT 58.614 33.333 0.00 0.00 0.00 2.32
305 312 9.890629 CCCAAATAATCGATATCTCTCCAAATA 57.109 33.333 0.00 0.00 0.00 1.40
325 332 6.687081 AATAATCGATATCTCTCCGTCTCC 57.313 41.667 0.00 0.00 0.00 3.71
374 382 2.416260 GAGCCGCCGTAACCCTAG 59.584 66.667 0.00 0.00 0.00 3.02
375 383 3.786901 GAGCCGCCGTAACCCTAGC 62.787 68.421 0.00 0.00 0.00 3.42
376 384 3.846430 GCCGCCGTAACCCTAGCT 61.846 66.667 0.00 0.00 0.00 3.32
456 470 1.332375 CCTCTCTCGGATCTGTTCGAC 59.668 57.143 0.42 0.00 0.00 4.20
481 495 4.216257 CCGTCATTCCTGTTCTTGTCAAAT 59.784 41.667 0.00 0.00 0.00 2.32
509 573 2.697751 CCAGCTACATCTGTCTTAGCCT 59.302 50.000 0.00 0.00 34.56 4.58
635 1014 2.281761 CCAAGGTGCAGGCGAGTT 60.282 61.111 0.00 0.00 0.00 3.01
647 1047 1.546476 AGGCGAGTTCTTAGGTGTCTG 59.454 52.381 0.00 0.00 0.00 3.51
674 1076 6.184789 GCCCTCTCAGCTAATATACTACTCT 58.815 44.000 0.00 0.00 0.00 3.24
678 1080 7.769044 CCTCTCAGCTAATATACTACTCTCTCC 59.231 44.444 0.00 0.00 0.00 3.71
680 1082 7.006865 TCAGCTAATATACTACTCTCTCCGT 57.993 40.000 0.00 0.00 0.00 4.69
692 1094 4.649692 ACTCTCTCCGTTCACAACTACTA 58.350 43.478 0.00 0.00 0.00 1.82
693 1095 5.254901 ACTCTCTCCGTTCACAACTACTAT 58.745 41.667 0.00 0.00 0.00 2.12
694 1096 5.711036 ACTCTCTCCGTTCACAACTACTATT 59.289 40.000 0.00 0.00 0.00 1.73
695 1097 6.127952 ACTCTCTCCGTTCACAACTACTATTC 60.128 42.308 0.00 0.00 0.00 1.75
707 1222 8.737175 TCACAACTACTATTCGATGTTCTAACT 58.263 33.333 0.00 0.00 0.00 2.24
708 1223 9.355215 CACAACTACTATTCGATGTTCTAACTT 57.645 33.333 0.00 0.00 0.00 2.66
709 1224 9.924650 ACAACTACTATTCGATGTTCTAACTTT 57.075 29.630 0.00 0.00 0.00 2.66
773 1288 3.390135 TGTTCACTCATTTCAGTCCGTC 58.610 45.455 0.00 0.00 0.00 4.79
780 1295 4.281182 ACTCATTTCAGTCCGTCTGTAGTT 59.719 41.667 5.09 0.00 43.97 2.24
816 1344 5.378332 TCCAAAACTTATGAACGGAGGAAA 58.622 37.500 0.00 0.00 0.00 3.13
838 1368 8.391106 GGAAATACTAACAGCAGTCAGTTTATG 58.609 37.037 0.00 0.00 0.00 1.90
845 1375 9.760660 CTAACAGCAGTCAGTTTATGATTTAAC 57.239 33.333 0.00 0.00 40.92 2.01
846 1376 7.744087 ACAGCAGTCAGTTTATGATTTAACA 57.256 32.000 0.00 0.00 40.92 2.41
847 1377 7.810658 ACAGCAGTCAGTTTATGATTTAACAG 58.189 34.615 0.00 0.00 40.92 3.16
850 1380 9.236006 AGCAGTCAGTTTATGATTTAACAGAAT 57.764 29.630 0.00 0.00 40.92 2.40
857 1388 7.614192 AGTTTATGATTTAACAGAATTCGGGGT 59.386 33.333 10.43 3.42 0.00 4.95
859 1390 9.463902 TTTATGATTTAACAGAATTCGGGGTTA 57.536 29.630 10.43 11.99 0.00 2.85
940 1479 9.253832 TCAAATTATTCCCATGTGTGTATTTCT 57.746 29.630 0.00 0.00 0.00 2.52
967 1506 6.314648 TGCAGAACATCTTGCTGAATTAGTAG 59.685 38.462 0.00 0.00 0.00 2.57
1022 1562 2.284190 GATGGGTAGCAGCAAGAGAAC 58.716 52.381 0.00 0.00 0.00 3.01
1030 1570 1.056103 CAGCAAGAGAACGAGTGTCG 58.944 55.000 0.00 0.00 46.93 4.35
1040 1580 1.517257 CGAGTGTCGTGCCATCCTC 60.517 63.158 0.00 0.00 34.72 3.71
1058 1598 1.739562 CTGGCGAGGCTGTGAAGAC 60.740 63.158 0.00 0.00 0.00 3.01
1350 1911 0.817654 CATACTCACCGTCAGGCTCA 59.182 55.000 0.00 0.00 42.76 4.26
1351 1912 1.204704 CATACTCACCGTCAGGCTCAA 59.795 52.381 0.00 0.00 42.76 3.02
1352 1913 0.888619 TACTCACCGTCAGGCTCAAG 59.111 55.000 0.00 0.00 42.76 3.02
1353 1914 1.739562 CTCACCGTCAGGCTCAAGC 60.740 63.158 0.00 0.00 42.76 4.01
1354 1915 2.164865 CTCACCGTCAGGCTCAAGCT 62.165 60.000 1.46 0.00 42.76 3.74
1355 1916 1.739562 CACCGTCAGGCTCAAGCTC 60.740 63.158 1.46 0.00 42.76 4.09
1356 1917 2.210013 ACCGTCAGGCTCAAGCTCA 61.210 57.895 1.46 0.00 42.76 4.26
1360 1921 1.606480 CGTCAGGCTCAAGCTCAAGAA 60.606 52.381 1.46 0.00 41.70 2.52
1757 7165 5.186021 TGAACAAAATACCACCTGTGTTTGT 59.814 36.000 9.58 9.58 43.07 2.83
1794 7202 5.627735 GCACTGGTTGATCAATCCTTCTCTA 60.628 44.000 16.06 0.00 0.00 2.43
1862 7270 1.271163 GGAAACCTTCGGATGTGTCCA 60.271 52.381 3.52 0.00 45.37 4.02
2078 7489 1.398692 TTGTTTGGGCAGGTCAGAAC 58.601 50.000 0.00 0.00 0.00 3.01
2128 7539 3.942748 GGTTATTGGTTCTGTCGGCAATA 59.057 43.478 0.00 0.00 0.00 1.90
2145 7556 3.258123 GCAATAGCACTTTGGGGAAGAAA 59.742 43.478 0.00 0.00 41.58 2.52
2313 7730 4.390264 GGTTTAGCCTGTTTGAAGAGAGT 58.610 43.478 0.00 0.00 0.00 3.24
2317 7734 6.665992 TTAGCCTGTTTGAAGAGAGTCTTA 57.334 37.500 0.00 0.00 36.73 2.10
2381 7809 5.837770 ACCCTGGCTAAGTTAACTAAAGT 57.162 39.130 8.92 0.00 0.00 2.66
2448 7878 2.098770 GTGGCTTGGATTGATTGAGAGC 59.901 50.000 0.00 0.00 0.00 4.09
2470 7900 4.455124 CGAAAACTTCAGCTAAAAGACCG 58.545 43.478 13.44 7.80 0.00 4.79
2618 8048 7.346471 AGTACCAATAATAGCCACTTGATGTT 58.654 34.615 0.00 0.00 0.00 2.71
2626 8057 3.754965 AGCCACTTGATGTTCAGCTTAA 58.245 40.909 0.00 0.00 0.00 1.85
2650 8081 7.839680 AATTTACAAAGAGAACTCCATTGGT 57.160 32.000 16.50 6.19 33.69 3.67
2765 8196 7.280356 AGGAAGCTGAAAGTTAGTCTGTAAAA 58.720 34.615 0.00 0.00 35.30 1.52
2766 8197 7.939588 AGGAAGCTGAAAGTTAGTCTGTAAAAT 59.060 33.333 0.00 0.00 35.30 1.82
2769 8200 9.780186 AAGCTGAAAGTTAGTCTGTAAAATACT 57.220 29.630 0.00 0.00 35.30 2.12
2770 8201 9.425577 AGCTGAAAGTTAGTCTGTAAAATACTC 57.574 33.333 0.00 0.00 35.30 2.59
2771 8202 8.657729 GCTGAAAGTTAGTCTGTAAAATACTCC 58.342 37.037 0.00 0.00 35.30 3.85
2772 8203 9.152595 CTGAAAGTTAGTCTGTAAAATACTCCC 57.847 37.037 0.00 0.00 0.00 4.30
2773 8204 8.877195 TGAAAGTTAGTCTGTAAAATACTCCCT 58.123 33.333 0.00 0.00 0.00 4.20
2774 8205 9.368674 GAAAGTTAGTCTGTAAAATACTCCCTC 57.631 37.037 0.00 0.00 0.00 4.30
2775 8206 7.421087 AGTTAGTCTGTAAAATACTCCCTCC 57.579 40.000 0.00 0.00 0.00 4.30
2776 8207 6.096564 AGTTAGTCTGTAAAATACTCCCTCCG 59.903 42.308 0.00 0.00 0.00 4.63
2777 8208 4.351127 AGTCTGTAAAATACTCCCTCCGT 58.649 43.478 0.00 0.00 0.00 4.69
2778 8209 4.401837 AGTCTGTAAAATACTCCCTCCGTC 59.598 45.833 0.00 0.00 0.00 4.79
2779 8210 3.703052 TCTGTAAAATACTCCCTCCGTCC 59.297 47.826 0.00 0.00 0.00 4.79
2780 8211 2.767960 TGTAAAATACTCCCTCCGTCCC 59.232 50.000 0.00 0.00 0.00 4.46
2781 8212 1.961133 AAAATACTCCCTCCGTCCCA 58.039 50.000 0.00 0.00 0.00 4.37
2782 8213 2.191981 AAATACTCCCTCCGTCCCAT 57.808 50.000 0.00 0.00 0.00 4.00
2783 8214 3.339713 AAATACTCCCTCCGTCCCATA 57.660 47.619 0.00 0.00 0.00 2.74
2784 8215 3.339713 AATACTCCCTCCGTCCCATAA 57.660 47.619 0.00 0.00 0.00 1.90
2785 8216 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
2786 8217 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
2787 8218 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
2788 8219 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
2789 8220 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
2790 8221 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
2791 8222 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
2792 8223 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
2794 8225 3.025978 TCCGTCCCATAATGTAAGACGT 58.974 45.455 9.63 0.00 46.62 4.34
2795 8226 3.448301 TCCGTCCCATAATGTAAGACGTT 59.552 43.478 9.63 0.00 46.62 3.99
2796 8227 4.081531 TCCGTCCCATAATGTAAGACGTTT 60.082 41.667 9.63 0.00 46.62 3.60
2797 8228 4.632688 CCGTCCCATAATGTAAGACGTTTT 59.367 41.667 9.63 0.00 46.62 2.43
2798 8229 5.122711 CCGTCCCATAATGTAAGACGTTTTT 59.877 40.000 9.63 0.00 46.62 1.94
2846 8277 5.623956 AATGTCTTACATTATGGGACGGA 57.376 39.130 3.51 0.00 46.11 4.69
2847 8278 4.665833 TGTCTTACATTATGGGACGGAG 57.334 45.455 0.00 0.00 0.00 4.63
2848 8279 3.386726 TGTCTTACATTATGGGACGGAGG 59.613 47.826 0.00 0.00 0.00 4.30
2849 8280 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
2850 8281 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
2851 8282 1.424638 ACATTATGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
2911 8342 4.902443 TTGCATGACTAAACGGTTTCAA 57.098 36.364 9.78 3.69 0.00 2.69
2970 8401 5.045286 AGGCTCTTATGTTCTTTCATCAGGT 60.045 40.000 0.00 0.00 0.00 4.00
3120 8551 6.962686 TGAATACACATCAAATCTATGCTGC 58.037 36.000 0.00 0.00 0.00 5.25
3134 8565 0.179111 TGCTGCGTGATAGTAGGTGC 60.179 55.000 0.00 0.00 0.00 5.01
3136 8567 1.539065 GCTGCGTGATAGTAGGTGCAT 60.539 52.381 0.00 0.00 0.00 3.96
3215 8646 7.337942 AGGATTTTCAGGTTAGCTTTCAGTATG 59.662 37.037 0.00 0.00 37.54 2.39
3310 8742 8.169977 CTAATAAATTAGGCTGGCAAGAATGA 57.830 34.615 3.38 0.00 36.86 2.57
3398 8833 8.478775 ACCTCCTTAAAAGCAAGAACTAAAAT 57.521 30.769 0.00 0.00 0.00 1.82
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 9.506018 CCTCCAAATTCCAAATTCAAACTTAAT 57.494 29.630 0.00 0.00 0.00 1.40
22 23 7.443879 GCCTCCAAATTCCAAATTCAAACTTAA 59.556 33.333 0.00 0.00 0.00 1.85
23 24 6.934083 GCCTCCAAATTCCAAATTCAAACTTA 59.066 34.615 0.00 0.00 0.00 2.24
24 25 5.764686 GCCTCCAAATTCCAAATTCAAACTT 59.235 36.000 0.00 0.00 0.00 2.66
25 26 5.308014 GCCTCCAAATTCCAAATTCAAACT 58.692 37.500 0.00 0.00 0.00 2.66
26 27 4.455533 GGCCTCCAAATTCCAAATTCAAAC 59.544 41.667 0.00 0.00 0.00 2.93
27 28 4.350520 AGGCCTCCAAATTCCAAATTCAAA 59.649 37.500 0.00 0.00 0.00 2.69
28 29 3.909364 AGGCCTCCAAATTCCAAATTCAA 59.091 39.130 0.00 0.00 0.00 2.69
29 30 3.515104 GAGGCCTCCAAATTCCAAATTCA 59.485 43.478 23.19 0.00 0.00 2.57
30 31 3.429410 CGAGGCCTCCAAATTCCAAATTC 60.429 47.826 27.20 0.00 0.00 2.17
31 32 2.497273 CGAGGCCTCCAAATTCCAAATT 59.503 45.455 27.20 0.00 0.00 1.82
32 33 2.102578 CGAGGCCTCCAAATTCCAAAT 58.897 47.619 27.20 0.00 0.00 2.32
33 34 1.074727 TCGAGGCCTCCAAATTCCAAA 59.925 47.619 27.20 0.00 0.00 3.28
34 35 0.695924 TCGAGGCCTCCAAATTCCAA 59.304 50.000 27.20 0.00 0.00 3.53
35 36 0.918983 ATCGAGGCCTCCAAATTCCA 59.081 50.000 27.20 1.22 0.00 3.53
36 37 1.312815 CATCGAGGCCTCCAAATTCC 58.687 55.000 27.20 0.00 0.00 3.01
37 38 1.134098 TCCATCGAGGCCTCCAAATTC 60.134 52.381 27.20 0.94 37.29 2.17
38 39 0.918983 TCCATCGAGGCCTCCAAATT 59.081 50.000 27.20 4.49 37.29 1.82
39 40 0.471617 CTCCATCGAGGCCTCCAAAT 59.528 55.000 27.20 14.91 37.29 2.32
40 41 1.907739 CTCCATCGAGGCCTCCAAA 59.092 57.895 27.20 13.18 37.29 3.28
41 42 3.634202 CTCCATCGAGGCCTCCAA 58.366 61.111 27.20 15.86 37.29 3.53
50 51 3.219928 GAGCTCGGCCTCCATCGA 61.220 66.667 0.00 0.00 0.00 3.59
56 57 3.896479 CTTTTGGAGCTCGGCCTC 58.104 61.111 7.83 0.00 0.00 4.70
65 66 2.298729 TCCCGGAAAATTGCTTTTGGAG 59.701 45.455 0.73 0.00 34.73 3.86
66 67 2.320781 TCCCGGAAAATTGCTTTTGGA 58.679 42.857 0.73 0.00 34.73 3.53
67 68 2.829741 TCCCGGAAAATTGCTTTTGG 57.170 45.000 0.73 0.00 34.73 3.28
68 69 5.125417 TCTCTATCCCGGAAAATTGCTTTTG 59.875 40.000 0.73 0.00 34.73 2.44
69 70 5.261216 TCTCTATCCCGGAAAATTGCTTTT 58.739 37.500 0.73 0.00 37.28 2.27
70 71 4.855340 TCTCTATCCCGGAAAATTGCTTT 58.145 39.130 0.73 0.00 0.00 3.51
71 72 4.503714 TCTCTATCCCGGAAAATTGCTT 57.496 40.909 0.73 0.00 0.00 3.91
72 73 4.392940 CATCTCTATCCCGGAAAATTGCT 58.607 43.478 0.73 0.00 0.00 3.91
73 74 3.503748 CCATCTCTATCCCGGAAAATTGC 59.496 47.826 0.73 0.00 0.00 3.56
74 75 4.718961 ACCATCTCTATCCCGGAAAATTG 58.281 43.478 0.73 0.00 0.00 2.32
75 76 6.704056 ATACCATCTCTATCCCGGAAAATT 57.296 37.500 0.73 0.00 0.00 1.82
76 77 7.996758 ATATACCATCTCTATCCCGGAAAAT 57.003 36.000 0.73 0.00 0.00 1.82
77 78 8.904648 TTATATACCATCTCTATCCCGGAAAA 57.095 34.615 0.73 0.00 0.00 2.29
78 79 9.502035 AATTATATACCATCTCTATCCCGGAAA 57.498 33.333 0.73 0.00 0.00 3.13
79 80 9.502035 AAATTATATACCATCTCTATCCCGGAA 57.498 33.333 0.73 0.00 0.00 4.30
80 81 8.924303 CAAATTATATACCATCTCTATCCCGGA 58.076 37.037 0.73 0.00 0.00 5.14
81 82 8.924303 TCAAATTATATACCATCTCTATCCCGG 58.076 37.037 0.00 0.00 0.00 5.73
90 91 9.449719 GGGATTCGTTCAAATTATATACCATCT 57.550 33.333 0.00 0.00 0.00 2.90
91 92 8.674607 GGGGATTCGTTCAAATTATATACCATC 58.325 37.037 0.00 0.00 0.00 3.51
92 93 8.390921 AGGGGATTCGTTCAAATTATATACCAT 58.609 33.333 0.00 0.00 0.00 3.55
93 94 7.663905 CAGGGGATTCGTTCAAATTATATACCA 59.336 37.037 0.00 0.00 0.00 3.25
94 95 7.361799 GCAGGGGATTCGTTCAAATTATATACC 60.362 40.741 0.00 0.00 0.00 2.73
95 96 7.390718 AGCAGGGGATTCGTTCAAATTATATAC 59.609 37.037 0.00 0.00 0.00 1.47
96 97 7.458397 AGCAGGGGATTCGTTCAAATTATATA 58.542 34.615 0.00 0.00 0.00 0.86
97 98 6.306987 AGCAGGGGATTCGTTCAAATTATAT 58.693 36.000 0.00 0.00 0.00 0.86
98 99 5.690865 AGCAGGGGATTCGTTCAAATTATA 58.309 37.500 0.00 0.00 0.00 0.98
99 100 4.536765 AGCAGGGGATTCGTTCAAATTAT 58.463 39.130 0.00 0.00 0.00 1.28
100 101 3.963129 AGCAGGGGATTCGTTCAAATTA 58.037 40.909 0.00 0.00 0.00 1.40
101 102 2.807676 AGCAGGGGATTCGTTCAAATT 58.192 42.857 0.00 0.00 0.00 1.82
102 103 2.514458 AGCAGGGGATTCGTTCAAAT 57.486 45.000 0.00 0.00 0.00 2.32
103 104 3.078837 GTTAGCAGGGGATTCGTTCAAA 58.921 45.455 0.00 0.00 0.00 2.69
104 105 2.706890 GTTAGCAGGGGATTCGTTCAA 58.293 47.619 0.00 0.00 0.00 2.69
105 106 1.404986 CGTTAGCAGGGGATTCGTTCA 60.405 52.381 0.00 0.00 0.00 3.18
106 107 1.287425 CGTTAGCAGGGGATTCGTTC 58.713 55.000 0.00 0.00 0.00 3.95
107 108 0.611714 ACGTTAGCAGGGGATTCGTT 59.388 50.000 0.00 0.00 0.00 3.85
108 109 0.108329 CACGTTAGCAGGGGATTCGT 60.108 55.000 0.00 0.00 0.00 3.85
109 110 0.174845 TCACGTTAGCAGGGGATTCG 59.825 55.000 0.00 0.00 0.00 3.34
110 111 2.484889 GATCACGTTAGCAGGGGATTC 58.515 52.381 0.00 0.00 30.74 2.52
111 112 1.141053 GGATCACGTTAGCAGGGGATT 59.859 52.381 0.00 0.00 30.74 3.01
112 113 0.759346 GGATCACGTTAGCAGGGGAT 59.241 55.000 0.00 0.00 33.42 3.85
113 114 0.616395 TGGATCACGTTAGCAGGGGA 60.616 55.000 0.00 0.00 0.00 4.81
114 115 0.251916 TTGGATCACGTTAGCAGGGG 59.748 55.000 0.00 0.00 0.00 4.79
115 116 1.207089 TCTTGGATCACGTTAGCAGGG 59.793 52.381 0.00 0.00 0.00 4.45
116 117 2.166459 TCTCTTGGATCACGTTAGCAGG 59.834 50.000 0.00 0.00 0.00 4.85
117 118 3.119316 ACTCTCTTGGATCACGTTAGCAG 60.119 47.826 0.00 0.00 0.00 4.24
118 119 2.826128 ACTCTCTTGGATCACGTTAGCA 59.174 45.455 0.00 0.00 0.00 3.49
119 120 3.512033 ACTCTCTTGGATCACGTTAGC 57.488 47.619 0.00 0.00 0.00 3.09
120 121 9.239002 CTTAAATACTCTCTTGGATCACGTTAG 57.761 37.037 0.00 0.00 0.00 2.34
121 122 8.963725 TCTTAAATACTCTCTTGGATCACGTTA 58.036 33.333 0.00 0.00 0.00 3.18
122 123 7.837863 TCTTAAATACTCTCTTGGATCACGTT 58.162 34.615 0.00 0.00 0.00 3.99
123 124 7.406031 TCTTAAATACTCTCTTGGATCACGT 57.594 36.000 0.00 0.00 0.00 4.49
130 131 9.197694 CGGTTGATATCTTAAATACTCTCTTGG 57.802 37.037 3.98 0.00 0.00 3.61
131 132 9.751542 ACGGTTGATATCTTAAATACTCTCTTG 57.248 33.333 3.98 0.00 0.00 3.02
133 134 9.751542 CAACGGTTGATATCTTAAATACTCTCT 57.248 33.333 15.66 0.00 0.00 3.10
190 191 1.107114 CTGTAGTCTGTCGGCATCCT 58.893 55.000 0.00 0.00 0.00 3.24
242 243 3.371063 GGTCAGAGTGGCGACGGA 61.371 66.667 0.00 0.00 32.74 4.69
243 244 3.633094 CTGGTCAGAGTGGCGACGG 62.633 68.421 0.00 0.00 32.74 4.79
245 246 0.249911 AAACTGGTCAGAGTGGCGAC 60.250 55.000 4.84 0.00 0.00 5.19
272 279 7.661847 AGAGATATCGATTATTTGGGTTGGAAC 59.338 37.037 1.71 0.00 0.00 3.62
293 300 8.912988 GGAGAGATATCGATTATTTGGAGAGAT 58.087 37.037 1.71 0.00 0.00 2.75
296 303 6.659668 ACGGAGAGATATCGATTATTTGGAGA 59.340 38.462 1.71 0.00 0.00 3.71
298 305 6.659668 AGACGGAGAGATATCGATTATTTGGA 59.340 38.462 1.71 0.00 0.00 3.53
299 306 6.857956 AGACGGAGAGATATCGATTATTTGG 58.142 40.000 1.71 0.00 0.00 3.28
300 307 6.970043 GGAGACGGAGAGATATCGATTATTTG 59.030 42.308 1.71 0.00 0.00 2.32
301 308 6.095720 GGGAGACGGAGAGATATCGATTATTT 59.904 42.308 1.71 0.00 0.00 1.40
302 309 5.591067 GGGAGACGGAGAGATATCGATTATT 59.409 44.000 1.71 0.00 0.00 1.40
303 310 5.127491 GGGAGACGGAGAGATATCGATTAT 58.873 45.833 1.71 0.00 0.00 1.28
304 311 4.515361 GGGAGACGGAGAGATATCGATTA 58.485 47.826 1.71 0.00 0.00 1.75
305 312 3.349022 GGGAGACGGAGAGATATCGATT 58.651 50.000 1.71 0.00 0.00 3.34
306 313 2.356330 GGGGAGACGGAGAGATATCGAT 60.356 54.545 2.16 2.16 0.00 3.59
325 332 0.676782 ACTCGATTTTTCTGCCGGGG 60.677 55.000 2.18 0.00 0.00 5.73
440 454 1.428219 GCGTCGAACAGATCCGAGA 59.572 57.895 0.00 0.00 35.31 4.04
456 470 0.443869 CAAGAACAGGAATGACGGCG 59.556 55.000 4.80 4.80 0.00 6.46
481 495 2.961741 GACAGATGTAGCTGGAGATCCA 59.038 50.000 0.00 0.79 45.30 3.41
509 573 3.910989 TGAAGGGATCAGATCGACCTTA 58.089 45.455 16.85 7.01 41.35 2.69
576 723 5.607477 TGAGGGTAATGGACATCGAAATAC 58.393 41.667 0.00 0.00 0.00 1.89
577 724 5.880164 TGAGGGTAATGGACATCGAAATA 57.120 39.130 0.00 0.00 0.00 1.40
578 725 4.771114 TGAGGGTAATGGACATCGAAAT 57.229 40.909 0.00 0.00 0.00 2.17
635 1014 1.623811 GAGGGCAACAGACACCTAAGA 59.376 52.381 0.00 0.00 39.74 2.10
647 1047 5.476091 AGTATATTAGCTGAGAGGGCAAC 57.524 43.478 0.00 0.00 0.00 4.17
674 1076 4.696877 TCGAATAGTAGTTGTGAACGGAGA 59.303 41.667 0.00 0.00 36.23 3.71
678 1080 6.527023 AGAACATCGAATAGTAGTTGTGAACG 59.473 38.462 0.00 0.00 36.23 3.95
680 1082 9.350357 GTTAGAACATCGAATAGTAGTTGTGAA 57.650 33.333 0.00 0.00 0.00 3.18
750 1265 4.389374 ACGGACTGAAATGAGTGAACAAT 58.611 39.130 0.00 0.00 0.00 2.71
801 1316 6.759827 GCTGTTAGTATTTCCTCCGTTCATAA 59.240 38.462 0.00 0.00 0.00 1.90
803 1318 5.116882 GCTGTTAGTATTTCCTCCGTTCAT 58.883 41.667 0.00 0.00 0.00 2.57
805 1320 4.501071 TGCTGTTAGTATTTCCTCCGTTC 58.499 43.478 0.00 0.00 0.00 3.95
807 1322 3.514309 ACTGCTGTTAGTATTTCCTCCGT 59.486 43.478 0.00 0.00 0.00 4.69
808 1323 4.113354 GACTGCTGTTAGTATTTCCTCCG 58.887 47.826 0.00 0.00 0.00 4.63
816 1344 9.672673 AAATCATAAACTGACTGCTGTTAGTAT 57.327 29.630 19.18 9.22 41.33 2.12
838 1368 7.823665 ACTTTAACCCCGAATTCTGTTAAATC 58.176 34.615 23.23 0.00 40.41 2.17
845 1375 4.760204 ACAGAACTTTAACCCCGAATTCTG 59.240 41.667 3.52 9.02 44.50 3.02
846 1376 4.981812 ACAGAACTTTAACCCCGAATTCT 58.018 39.130 3.52 0.00 0.00 2.40
847 1377 5.001874 AGACAGAACTTTAACCCCGAATTC 58.998 41.667 0.00 0.00 0.00 2.17
850 1380 4.590222 AGTAGACAGAACTTTAACCCCGAA 59.410 41.667 0.00 0.00 0.00 4.30
852 1382 4.532314 AGTAGACAGAACTTTAACCCCG 57.468 45.455 0.00 0.00 0.00 5.73
853 1383 5.704515 GGAAAGTAGACAGAACTTTAACCCC 59.295 44.000 1.48 0.00 44.94 4.95
940 1479 2.845363 TCAGCAAGATGTTCTGCAGA 57.155 45.000 13.74 13.74 0.00 4.26
967 1506 2.131183 GTCTGCTGCTCCAATCGATAC 58.869 52.381 0.00 0.00 0.00 2.24
1022 1562 1.517257 GAGGATGGCACGACACTCG 60.517 63.158 0.00 0.00 46.93 4.18
1040 1580 1.739562 GTCTTCACAGCCTCGCCAG 60.740 63.158 0.00 0.00 0.00 4.85
1058 1598 2.202756 GGAACGCCTCTGCCGTAG 60.203 66.667 0.00 0.00 38.06 3.51
1351 1912 6.000219 TGAAGAGTAAAGCATTTCTTGAGCT 59.000 36.000 0.00 0.00 40.09 4.09
1352 1913 6.082984 GTGAAGAGTAAAGCATTTCTTGAGC 58.917 40.000 0.00 0.00 40.09 4.26
1353 1914 6.606768 GGTGAAGAGTAAAGCATTTCTTGAG 58.393 40.000 0.00 0.00 40.09 3.02
1354 1915 5.179368 CGGTGAAGAGTAAAGCATTTCTTGA 59.821 40.000 0.00 0.00 40.09 3.02
1355 1916 5.049405 ACGGTGAAGAGTAAAGCATTTCTTG 60.049 40.000 0.00 0.00 40.09 3.02
1356 1917 5.063880 ACGGTGAAGAGTAAAGCATTTCTT 58.936 37.500 0.00 0.00 40.09 2.52
1360 1921 4.213482 GTCAACGGTGAAGAGTAAAGCATT 59.787 41.667 3.77 0.00 34.87 3.56
1757 7165 3.159213 ACCAGTGCAGAAATCCATTGA 57.841 42.857 0.00 0.00 0.00 2.57
1794 7202 2.308275 AGCTCTTGGCCTTCTGAAGAAT 59.692 45.455 18.68 0.00 43.05 2.40
1947 7358 1.302511 GTCCCGGACAATGCACAGT 60.303 57.895 13.05 0.00 32.09 3.55
2078 7489 3.690460 ACCTTTGGCTCACCTAATTCTG 58.310 45.455 0.00 0.00 36.63 3.02
2128 7539 3.711190 ACAATTTTCTTCCCCAAAGTGCT 59.289 39.130 0.00 0.00 36.31 4.40
2145 7556 3.557595 GCTCGCTAGTAGCAATGACAATT 59.442 43.478 21.70 0.00 42.58 2.32
2313 7730 4.020928 TCCGTTTTATGCACTGGAGTAAGA 60.021 41.667 0.00 0.00 0.00 2.10
2317 7734 2.851263 TCCGTTTTATGCACTGGAGT 57.149 45.000 0.00 0.00 0.00 3.85
2448 7878 4.210537 TCGGTCTTTTAGCTGAAGTTTTCG 59.789 41.667 0.00 4.87 0.00 3.46
2470 7900 2.594592 ACCACAACAGCGCCCTTC 60.595 61.111 2.29 0.00 0.00 3.46
2477 7907 4.331168 GTGATAGAAGATCACCACAACAGC 59.669 45.833 6.44 0.00 41.77 4.40
2618 8048 8.784043 GGAGTTCTCTTTGTAAATTTAAGCTGA 58.216 33.333 0.00 0.00 0.00 4.26
2626 8057 7.505585 TCACCAATGGAGTTCTCTTTGTAAATT 59.494 33.333 6.16 0.00 0.00 1.82
2765 8196 3.173965 CATTATGGGACGGAGGGAGTAT 58.826 50.000 0.00 0.00 0.00 2.12
2766 8197 2.090943 ACATTATGGGACGGAGGGAGTA 60.091 50.000 0.00 0.00 0.00 2.59
2768 8199 1.424638 ACATTATGGGACGGAGGGAG 58.575 55.000 0.00 0.00 0.00 4.30
2769 8200 2.779429 TACATTATGGGACGGAGGGA 57.221 50.000 0.00 0.00 0.00 4.20
2770 8201 2.969950 TCTTACATTATGGGACGGAGGG 59.030 50.000 0.00 0.00 0.00 4.30
2771 8202 3.552273 CGTCTTACATTATGGGACGGAGG 60.552 52.174 20.50 5.87 43.69 4.30
2772 8203 3.639538 CGTCTTACATTATGGGACGGAG 58.360 50.000 20.50 2.74 43.69 4.63
2773 8204 3.720949 CGTCTTACATTATGGGACGGA 57.279 47.619 20.50 2.30 43.69 4.69
2821 8252 6.887545 TCCGTCCCATAATGTAAGACATTTTT 59.112 34.615 9.92 0.00 45.80 1.94
2822 8253 6.419791 TCCGTCCCATAATGTAAGACATTTT 58.580 36.000 9.92 0.33 45.80 1.82
2823 8254 5.996644 TCCGTCCCATAATGTAAGACATTT 58.003 37.500 9.92 0.00 45.80 2.32
2825 8256 4.040461 CCTCCGTCCCATAATGTAAGACAT 59.960 45.833 0.00 0.00 41.31 3.06
2826 8257 3.386726 CCTCCGTCCCATAATGTAAGACA 59.613 47.826 0.00 0.00 0.00 3.41
2827 8258 3.244112 CCCTCCGTCCCATAATGTAAGAC 60.244 52.174 0.00 0.00 0.00 3.01
2828 8259 2.969950 CCCTCCGTCCCATAATGTAAGA 59.030 50.000 0.00 0.00 0.00 2.10
2829 8260 2.969950 TCCCTCCGTCCCATAATGTAAG 59.030 50.000 0.00 0.00 0.00 2.34
2830 8261 2.969950 CTCCCTCCGTCCCATAATGTAA 59.030 50.000 0.00 0.00 0.00 2.41
2831 8262 2.090943 ACTCCCTCCGTCCCATAATGTA 60.091 50.000 0.00 0.00 0.00 2.29
2832 8263 1.344087 ACTCCCTCCGTCCCATAATGT 60.344 52.381 0.00 0.00 0.00 2.71
2833 8264 1.424638 ACTCCCTCCGTCCCATAATG 58.575 55.000 0.00 0.00 0.00 1.90
2834 8265 3.562108 ATACTCCCTCCGTCCCATAAT 57.438 47.619 0.00 0.00 0.00 1.28
2835 8266 3.339713 AATACTCCCTCCGTCCCATAA 57.660 47.619 0.00 0.00 0.00 1.90
2836 8267 3.339713 AAATACTCCCTCCGTCCCATA 57.660 47.619 0.00 0.00 0.00 2.74
2837 8268 2.191981 AAATACTCCCTCCGTCCCAT 57.808 50.000 0.00 0.00 0.00 4.00
2838 8269 2.852714 TAAATACTCCCTCCGTCCCA 57.147 50.000 0.00 0.00 0.00 4.37
2839 8270 4.020751 GGTTATAAATACTCCCTCCGTCCC 60.021 50.000 0.00 0.00 0.00 4.46
2840 8271 4.590222 TGGTTATAAATACTCCCTCCGTCC 59.410 45.833 0.00 0.00 0.00 4.79
2841 8272 5.796424 TGGTTATAAATACTCCCTCCGTC 57.204 43.478 0.00 0.00 0.00 4.79
2842 8273 7.290714 TGTTATGGTTATAAATACTCCCTCCGT 59.709 37.037 0.00 0.00 30.92 4.69
2843 8274 7.673180 TGTTATGGTTATAAATACTCCCTCCG 58.327 38.462 0.00 0.00 30.92 4.63
2937 8368 8.814038 AAAGAACATAAGAGCCTACAATGAAT 57.186 30.769 0.00 0.00 0.00 2.57
2941 8372 8.049117 TGATGAAAGAACATAAGAGCCTACAAT 58.951 33.333 0.00 0.00 0.00 2.71
2942 8373 7.394016 TGATGAAAGAACATAAGAGCCTACAA 58.606 34.615 0.00 0.00 0.00 2.41
2970 8401 6.319405 TCAGCAACGGTGTAATATAGAGTACA 59.681 38.462 0.66 0.00 33.88 2.90
3120 8551 4.271049 CCTTTTCATGCACCTACTATCACG 59.729 45.833 0.00 0.00 0.00 4.35
3134 8565 8.027189 CCATCATAGCAATATGACCTTTTCATG 58.973 37.037 0.26 0.00 45.22 3.07
3136 8567 7.289310 TCCATCATAGCAATATGACCTTTTCA 58.711 34.615 0.26 0.00 39.05 2.69
3165 8596 9.239551 CCTTGATGACATCCATATATTCAACAT 57.760 33.333 12.90 0.00 35.17 2.71
3166 8597 8.439172 TCCTTGATGACATCCATATATTCAACA 58.561 33.333 12.90 0.00 35.17 3.33
3215 8646 3.304559 CGACATGCTAACAGACTGCTTAC 59.695 47.826 1.25 0.00 0.00 2.34
3308 8740 7.750229 AAATTTGAACAGCAGACTAAGATCA 57.250 32.000 0.00 0.00 0.00 2.92
3309 8741 8.940952 ACTAAATTTGAACAGCAGACTAAGATC 58.059 33.333 0.00 0.00 0.00 2.75
3310 8742 8.854614 ACTAAATTTGAACAGCAGACTAAGAT 57.145 30.769 0.00 0.00 0.00 2.40
3355 8788 3.477530 AGGTCTAACAAAAGGCACACTC 58.522 45.455 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.