Multiple sequence alignment - TraesCS6D01G403300

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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 TraesCS6D01G403300 chr6D 100.000 3008 0 0 1 3008 471273832 471276839 0.000000e+00 5555.0
1 TraesCS6D01G403300 chr6D 88.423 2220 131 66 847 3008 471114596 471112445 0.000000e+00 2560.0
2 TraesCS6D01G403300 chr6D 90.470 1616 82 32 832 2419 459549194 459550765 0.000000e+00 2065.0
3 TraesCS6D01G403300 chr6D 86.715 557 61 8 2338 2888 459551262 459551811 9.220000e-170 606.0
4 TraesCS6D01G403300 chr6D 94.857 175 9 0 1 175 386682784 386682958 1.060000e-69 274.0
5 TraesCS6D01G403300 chr6D 83.987 306 28 17 426 725 471114914 471114624 1.060000e-69 274.0
6 TraesCS6D01G403300 chr6D 82.625 259 39 5 473 726 459548507 459548764 1.090000e-54 224.0
7 TraesCS6D01G403300 chr6B 88.119 2180 176 42 847 3008 719423169 719425283 0.000000e+00 2514.0
8 TraesCS6D01G403300 chr6B 88.178 1125 61 19 1902 3008 719309221 719308151 0.000000e+00 1275.0
9 TraesCS6D01G403300 chr6B 87.342 395 25 15 226 620 719422674 719423043 2.140000e-116 429.0
10 TraesCS6D01G403300 chr6B 96.000 50 2 0 2048 2097 719309026 719308977 6.910000e-12 82.4
11 TraesCS6D01G403300 chr6A 92.843 1551 74 20 778 2316 616054179 616055704 0.000000e+00 2215.0
12 TraesCS6D01G403300 chr6A 84.091 484 57 11 2338 2805 616055810 616056289 1.640000e-122 449.0
13 TraesCS6D01G403300 chr6A 92.887 239 8 5 439 671 616053831 616054066 3.710000e-89 339.0
14 TraesCS6D01G403300 chr6A 91.163 215 12 1 2801 3008 616056742 616056956 4.910000e-73 285.0
15 TraesCS6D01G403300 chr6A 93.714 175 11 0 1 175 124706287 124706113 2.300000e-66 263.0
16 TraesCS6D01G403300 chr6A 100.000 50 0 0 2048 2097 616055498 616055547 3.190000e-15 93.5
17 TraesCS6D01G403300 chr3A 89.118 1599 99 38 917 2476 574278797 574280359 0.000000e+00 1919.0
18 TraesCS6D01G403300 chr3A 94.463 1174 64 1 874 2046 574320708 574319535 0.000000e+00 1807.0
19 TraesCS6D01G403300 chr3A 96.599 441 6 5 234 671 574278155 574278589 0.000000e+00 723.0
20 TraesCS6D01G403300 chr3A 92.164 268 20 1 2649 2915 574319270 574319003 7.870000e-101 377.0
21 TraesCS6D01G403300 chr3A 93.296 179 11 1 1 179 108504377 108504554 2.300000e-66 263.0
22 TraesCS6D01G403300 chr3A 83.478 230 29 6 506 726 574321874 574321645 3.930000e-49 206.0
23 TraesCS6D01G403300 chr3A 98.000 50 1 0 2048 2097 574279979 574280028 1.490000e-13 87.9
24 TraesCS6D01G403300 chr2B 86.278 1596 125 51 867 2424 771418245 771416706 0.000000e+00 1648.0
25 TraesCS6D01G403300 chr2B 90.180 998 57 22 1322 2318 771488135 771487178 0.000000e+00 1262.0
26 TraesCS6D01G403300 chr2B 84.483 696 62 18 2341 3008 771416226 771415549 0.000000e+00 645.0
27 TraesCS6D01G403300 chr2B 85.028 354 37 8 889 1229 771488519 771488169 2.220000e-91 346.0
28 TraesCS6D01G403300 chr2B 91.188 261 14 6 366 623 771489049 771488795 2.220000e-91 346.0
29 TraesCS6D01G403300 chr2B 88.506 261 17 9 366 623 771420247 771419997 1.350000e-78 303.0
30 TraesCS6D01G403300 chr7B 85.922 824 71 22 2196 3008 680075105 680074316 0.000000e+00 837.0
31 TraesCS6D01G403300 chr7B 85.048 729 89 9 1316 2032 680075962 680075242 0.000000e+00 725.0
32 TraesCS6D01G403300 chr7B 86.207 464 43 6 2562 3008 707880583 707880124 1.620000e-132 483.0
33 TraesCS6D01G403300 chr7B 88.764 267 26 3 912 1178 680076307 680076045 1.040000e-84 324.0
34 TraesCS6D01G403300 chr7B 87.831 189 21 2 2382 2569 707880917 707880730 1.400000e-53 220.0
35 TraesCS6D01G403300 chr7D 88.410 673 64 11 2343 3008 600865014 600864349 0.000000e+00 798.0
36 TraesCS6D01G403300 chr7D 95.429 175 8 0 1 175 491838834 491839008 2.280000e-71 279.0
37 TraesCS6D01G403300 chr7D 94.286 175 10 0 1 175 153006560 153006734 4.940000e-68 268.0
38 TraesCS6D01G403300 chr7D 87.705 122 10 4 2196 2316 600865225 600865108 1.450000e-28 137.0
39 TraesCS6D01G403300 chr7A 91.185 329 28 1 2378 2706 692784896 692784569 2.130000e-121 446.0
40 TraesCS6D01G403300 chr5D 96.023 176 7 0 1 176 538257370 538257195 1.360000e-73 287.0
41 TraesCS6D01G403300 chr5D 94.318 176 9 1 1 176 14717517 14717343 4.940000e-68 268.0
42 TraesCS6D01G403300 chr4B 94.413 179 9 1 1 179 655083371 655083548 1.060000e-69 274.0
43 TraesCS6D01G403300 chr2A 94.857 175 9 0 1 175 764920716 764920542 1.060000e-69 274.0


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 TraesCS6D01G403300 chr6D 471273832 471276839 3007 False 5555.000000 5555 100.000000 1 3008 1 chr6D.!!$F2 3007
1 TraesCS6D01G403300 chr6D 471112445 471114914 2469 True 1417.000000 2560 86.205000 426 3008 2 chr6D.!!$R1 2582
2 TraesCS6D01G403300 chr6D 459548507 459551811 3304 False 965.000000 2065 86.603333 473 2888 3 chr6D.!!$F3 2415
3 TraesCS6D01G403300 chr6B 719422674 719425283 2609 False 1471.500000 2514 87.730500 226 3008 2 chr6B.!!$F1 2782
4 TraesCS6D01G403300 chr6B 719308151 719309221 1070 True 678.700000 1275 92.089000 1902 3008 2 chr6B.!!$R1 1106
5 TraesCS6D01G403300 chr6A 616053831 616056956 3125 False 676.300000 2215 92.196800 439 3008 5 chr6A.!!$F1 2569
6 TraesCS6D01G403300 chr3A 574278155 574280359 2204 False 909.966667 1919 94.572333 234 2476 3 chr3A.!!$F2 2242
7 TraesCS6D01G403300 chr3A 574319003 574321874 2871 True 796.666667 1807 90.035000 506 2915 3 chr3A.!!$R1 2409
8 TraesCS6D01G403300 chr2B 771415549 771420247 4698 True 865.333333 1648 86.422333 366 3008 3 chr2B.!!$R1 2642
9 TraesCS6D01G403300 chr2B 771487178 771489049 1871 True 651.333333 1262 88.798667 366 2318 3 chr2B.!!$R2 1952
10 TraesCS6D01G403300 chr7B 680074316 680076307 1991 True 628.666667 837 86.578000 912 3008 3 chr7B.!!$R1 2096
11 TraesCS6D01G403300 chr7B 707880124 707880917 793 True 351.500000 483 87.019000 2382 3008 2 chr7B.!!$R2 626
12 TraesCS6D01G403300 chr7D 600864349 600865225 876 True 467.500000 798 88.057500 2196 3008 2 chr7D.!!$R1 812

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
205 206 0.320374 TCTTTGTGAGATCCGGCGTT 59.680 50.0 6.01 0.0 0.0 4.84 F
967 3304 0.650512 CACGCGCTTTACATTCGGAT 59.349 50.0 5.73 0.0 0.0 4.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1420 3800 0.549950 ATCTCGTCCTCTTCGGGGTA 59.450 55.0 0.0 0.0 0.00 3.69 R
2571 6439 0.254462 TGCAAATACCTGATGGCGGA 59.746 50.0 0.0 0.0 36.63 5.54 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 3.477346 GGGGACCGAGGGTTAGGC 61.477 72.222 0.00 0.00 40.86 3.93
20 21 2.365237 GGGACCGAGGGTTAGGCT 60.365 66.667 0.00 0.00 35.25 4.58
21 22 2.732619 GGGACCGAGGGTTAGGCTG 61.733 68.421 0.00 0.00 35.25 4.85
22 23 1.684734 GGACCGAGGGTTAGGCTGA 60.685 63.158 0.00 0.00 35.25 4.26
23 24 1.049289 GGACCGAGGGTTAGGCTGAT 61.049 60.000 0.00 0.00 35.25 2.90
24 25 1.700955 GACCGAGGGTTAGGCTGATA 58.299 55.000 0.00 0.00 35.25 2.15
25 26 2.249139 GACCGAGGGTTAGGCTGATAT 58.751 52.381 0.00 0.00 35.25 1.63
26 27 2.231721 GACCGAGGGTTAGGCTGATATC 59.768 54.545 0.00 0.00 35.25 1.63
27 28 2.248248 CCGAGGGTTAGGCTGATATCA 58.752 52.381 5.07 5.07 0.00 2.15
28 29 2.834549 CCGAGGGTTAGGCTGATATCAT 59.165 50.000 5.72 0.00 0.00 2.45
29 30 3.368843 CCGAGGGTTAGGCTGATATCATG 60.369 52.174 5.72 2.04 0.00 3.07
30 31 3.259374 CGAGGGTTAGGCTGATATCATGT 59.741 47.826 5.72 0.00 0.00 3.21
31 32 4.462834 CGAGGGTTAGGCTGATATCATGTA 59.537 45.833 5.72 0.00 0.00 2.29
32 33 5.393569 CGAGGGTTAGGCTGATATCATGTAG 60.394 48.000 5.72 0.00 0.00 2.74
33 34 5.655394 AGGGTTAGGCTGATATCATGTAGA 58.345 41.667 5.72 0.00 0.00 2.59
34 35 5.719085 AGGGTTAGGCTGATATCATGTAGAG 59.281 44.000 5.72 0.00 0.00 2.43
35 36 5.717178 GGGTTAGGCTGATATCATGTAGAGA 59.283 44.000 5.72 0.00 0.00 3.10
36 37 6.211584 GGGTTAGGCTGATATCATGTAGAGAA 59.788 42.308 5.72 0.00 0.00 2.87
37 38 7.256332 GGGTTAGGCTGATATCATGTAGAGAAA 60.256 40.741 5.72 0.00 0.00 2.52
38 39 8.317679 GGTTAGGCTGATATCATGTAGAGAAAT 58.682 37.037 5.72 0.00 0.00 2.17
41 42 8.076910 AGGCTGATATCATGTAGAGAAATAGG 57.923 38.462 5.72 0.00 0.00 2.57
42 43 7.898100 AGGCTGATATCATGTAGAGAAATAGGA 59.102 37.037 5.72 0.00 0.00 2.94
43 44 8.703743 GGCTGATATCATGTAGAGAAATAGGAT 58.296 37.037 5.72 0.00 0.00 3.24
44 45 9.531942 GCTGATATCATGTAGAGAAATAGGATG 57.468 37.037 5.72 0.00 0.00 3.51
45 46 9.531942 CTGATATCATGTAGAGAAATAGGATGC 57.468 37.037 5.72 0.00 0.00 3.91
46 47 9.039165 TGATATCATGTAGAGAAATAGGATGCA 57.961 33.333 0.00 0.00 0.00 3.96
47 48 9.881649 GATATCATGTAGAGAAATAGGATGCAA 57.118 33.333 0.00 0.00 0.00 4.08
48 49 7.976135 ATCATGTAGAGAAATAGGATGCAAC 57.024 36.000 0.00 0.00 0.00 4.17
49 50 7.129457 TCATGTAGAGAAATAGGATGCAACT 57.871 36.000 0.00 0.00 0.00 3.16
50 51 7.212976 TCATGTAGAGAAATAGGATGCAACTC 58.787 38.462 0.00 0.00 0.00 3.01
51 52 6.798427 TGTAGAGAAATAGGATGCAACTCT 57.202 37.500 0.00 0.00 37.14 3.24
52 53 6.810911 TGTAGAGAAATAGGATGCAACTCTC 58.189 40.000 0.00 0.00 35.40 3.20
53 54 5.946942 AGAGAAATAGGATGCAACTCTCA 57.053 39.130 11.17 0.00 32.13 3.27
54 55 6.305272 AGAGAAATAGGATGCAACTCTCAA 57.695 37.500 11.17 0.00 32.13 3.02
55 56 6.897986 AGAGAAATAGGATGCAACTCTCAAT 58.102 36.000 11.17 0.00 32.13 2.57
56 57 6.766944 AGAGAAATAGGATGCAACTCTCAATG 59.233 38.462 11.17 0.00 32.13 2.82
57 58 6.421485 AGAAATAGGATGCAACTCTCAATGT 58.579 36.000 0.00 0.00 0.00 2.71
58 59 7.568349 AGAAATAGGATGCAACTCTCAATGTA 58.432 34.615 0.00 0.00 0.00 2.29
59 60 7.497249 AGAAATAGGATGCAACTCTCAATGTAC 59.503 37.037 0.00 0.00 0.00 2.90
60 61 4.833478 AGGATGCAACTCTCAATGTACT 57.167 40.909 0.00 0.00 0.00 2.73
61 62 4.511527 AGGATGCAACTCTCAATGTACTG 58.488 43.478 0.00 0.00 0.00 2.74
62 63 4.223700 AGGATGCAACTCTCAATGTACTGA 59.776 41.667 0.00 0.00 0.00 3.41
63 64 5.104610 AGGATGCAACTCTCAATGTACTGAT 60.105 40.000 0.00 0.00 0.00 2.90
64 65 5.007430 GGATGCAACTCTCAATGTACTGATG 59.993 44.000 0.00 0.00 0.00 3.07
65 66 4.256110 TGCAACTCTCAATGTACTGATGG 58.744 43.478 0.00 0.00 0.00 3.51
66 67 3.624861 GCAACTCTCAATGTACTGATGGG 59.375 47.826 0.00 0.00 0.00 4.00
67 68 4.836825 CAACTCTCAATGTACTGATGGGT 58.163 43.478 0.00 0.00 0.00 4.51
68 69 4.478206 ACTCTCAATGTACTGATGGGTG 57.522 45.455 0.00 0.00 0.00 4.61
69 70 3.201290 CTCTCAATGTACTGATGGGTGC 58.799 50.000 0.00 0.00 0.00 5.01
70 71 2.571202 TCTCAATGTACTGATGGGTGCA 59.429 45.455 0.00 0.00 36.38 4.57
71 72 3.200605 TCTCAATGTACTGATGGGTGCAT 59.799 43.478 0.00 0.00 42.58 3.96
72 73 4.408596 TCTCAATGTACTGATGGGTGCATA 59.591 41.667 0.00 0.00 40.57 3.14
73 74 5.072193 TCTCAATGTACTGATGGGTGCATAT 59.928 40.000 0.00 0.00 40.57 1.78
74 75 5.065235 TCAATGTACTGATGGGTGCATATG 58.935 41.667 0.00 0.00 40.57 1.78
75 76 2.849942 TGTACTGATGGGTGCATATGC 58.150 47.619 21.09 21.09 42.50 3.14
110 111 5.746990 AGTACATAGGGCAAGTCATATCC 57.253 43.478 0.00 0.00 0.00 2.59
111 112 5.407049 AGTACATAGGGCAAGTCATATCCT 58.593 41.667 0.00 0.00 0.00 3.24
112 113 4.899352 ACATAGGGCAAGTCATATCCTC 57.101 45.455 0.00 0.00 0.00 3.71
113 114 4.234550 ACATAGGGCAAGTCATATCCTCA 58.765 43.478 0.00 0.00 0.00 3.86
114 115 4.660303 ACATAGGGCAAGTCATATCCTCAA 59.340 41.667 0.00 0.00 0.00 3.02
115 116 3.567478 AGGGCAAGTCATATCCTCAAC 57.433 47.619 0.00 0.00 0.00 3.18
116 117 3.118531 AGGGCAAGTCATATCCTCAACT 58.881 45.455 0.00 0.00 0.00 3.16
117 118 4.298626 AGGGCAAGTCATATCCTCAACTA 58.701 43.478 0.00 0.00 0.00 2.24
118 119 4.910304 AGGGCAAGTCATATCCTCAACTAT 59.090 41.667 0.00 0.00 0.00 2.12
119 120 6.084738 AGGGCAAGTCATATCCTCAACTATA 58.915 40.000 0.00 0.00 0.00 1.31
120 121 6.014156 AGGGCAAGTCATATCCTCAACTATAC 60.014 42.308 0.00 0.00 0.00 1.47
121 122 6.239600 GGGCAAGTCATATCCTCAACTATACA 60.240 42.308 0.00 0.00 0.00 2.29
122 123 6.647067 GGCAAGTCATATCCTCAACTATACAC 59.353 42.308 0.00 0.00 0.00 2.90
123 124 7.210174 GCAAGTCATATCCTCAACTATACACA 58.790 38.462 0.00 0.00 0.00 3.72
124 125 7.710907 GCAAGTCATATCCTCAACTATACACAA 59.289 37.037 0.00 0.00 0.00 3.33
125 126 9.599866 CAAGTCATATCCTCAACTATACACAAA 57.400 33.333 0.00 0.00 0.00 2.83
126 127 9.823647 AAGTCATATCCTCAACTATACACAAAG 57.176 33.333 0.00 0.00 0.00 2.77
127 128 9.201989 AGTCATATCCTCAACTATACACAAAGA 57.798 33.333 0.00 0.00 0.00 2.52
128 129 9.469807 GTCATATCCTCAACTATACACAAAGAG 57.530 37.037 0.00 0.00 0.00 2.85
129 130 9.421399 TCATATCCTCAACTATACACAAAGAGA 57.579 33.333 0.00 0.00 0.00 3.10
132 133 7.776618 TCCTCAACTATACACAAAGAGAAGA 57.223 36.000 0.00 0.00 0.00 2.87
133 134 7.603651 TCCTCAACTATACACAAAGAGAAGAC 58.396 38.462 0.00 0.00 0.00 3.01
134 135 7.451877 TCCTCAACTATACACAAAGAGAAGACT 59.548 37.037 0.00 0.00 0.00 3.24
135 136 8.091449 CCTCAACTATACACAAAGAGAAGACTT 58.909 37.037 0.00 0.00 0.00 3.01
136 137 8.818141 TCAACTATACACAAAGAGAAGACTTG 57.182 34.615 0.00 0.00 0.00 3.16
137 138 7.872993 TCAACTATACACAAAGAGAAGACTTGG 59.127 37.037 0.00 0.00 0.00 3.61
138 139 7.540474 ACTATACACAAAGAGAAGACTTGGA 57.460 36.000 0.00 0.00 0.00 3.53
139 140 7.607250 ACTATACACAAAGAGAAGACTTGGAG 58.393 38.462 0.00 0.00 0.00 3.86
140 141 4.762289 ACACAAAGAGAAGACTTGGAGT 57.238 40.909 0.00 0.00 0.00 3.85
141 142 5.871396 ACACAAAGAGAAGACTTGGAGTA 57.129 39.130 0.00 0.00 0.00 2.59
142 143 6.426646 ACACAAAGAGAAGACTTGGAGTAT 57.573 37.500 0.00 0.00 0.00 2.12
143 144 7.540474 ACACAAAGAGAAGACTTGGAGTATA 57.460 36.000 0.00 0.00 0.00 1.47
144 145 7.963532 ACACAAAGAGAAGACTTGGAGTATAA 58.036 34.615 0.00 0.00 0.00 0.98
145 146 8.091449 ACACAAAGAGAAGACTTGGAGTATAAG 58.909 37.037 0.00 0.00 0.00 1.73
146 147 8.307483 CACAAAGAGAAGACTTGGAGTATAAGA 58.693 37.037 0.00 0.00 0.00 2.10
147 148 8.871125 ACAAAGAGAAGACTTGGAGTATAAGAA 58.129 33.333 0.00 0.00 0.00 2.52
148 149 9.883142 CAAAGAGAAGACTTGGAGTATAAGAAT 57.117 33.333 0.00 0.00 0.00 2.40
177 178 9.836864 ATGTGCTAAATACATATCTCAACAAGA 57.163 29.630 0.00 0.00 37.02 3.02
178 179 9.836864 TGTGCTAAATACATATCTCAACAAGAT 57.163 29.630 0.00 0.00 46.70 2.40
180 181 8.777413 TGCTAAATACATATCTCAACAAGATGC 58.223 33.333 0.00 0.00 44.69 3.91
181 182 8.777413 GCTAAATACATATCTCAACAAGATGCA 58.223 33.333 0.00 0.00 44.69 3.96
183 184 6.798315 ATACATATCTCAACAAGATGCAGC 57.202 37.500 0.00 0.00 44.69 5.25
184 185 4.520179 ACATATCTCAACAAGATGCAGCA 58.480 39.130 4.07 0.00 44.69 4.41
185 186 4.945543 ACATATCTCAACAAGATGCAGCAA 59.054 37.500 4.07 0.00 44.69 3.91
186 187 5.593095 ACATATCTCAACAAGATGCAGCAAT 59.407 36.000 4.07 0.00 44.69 3.56
187 188 4.634184 ATCTCAACAAGATGCAGCAATC 57.366 40.909 4.07 0.00 43.35 2.67
188 189 3.682696 TCTCAACAAGATGCAGCAATCT 58.317 40.909 4.07 0.00 38.59 2.40
189 190 4.077108 TCTCAACAAGATGCAGCAATCTT 58.923 39.130 4.07 6.72 45.69 2.40
190 191 4.521639 TCTCAACAAGATGCAGCAATCTTT 59.478 37.500 4.07 6.79 42.92 2.52
191 192 4.552355 TCAACAAGATGCAGCAATCTTTG 58.448 39.130 4.07 1.61 42.92 2.77
192 193 4.038282 TCAACAAGATGCAGCAATCTTTGT 59.962 37.500 4.07 2.34 42.92 2.83
193 194 3.909430 ACAAGATGCAGCAATCTTTGTG 58.091 40.909 4.07 9.10 42.92 3.33
194 195 3.570975 ACAAGATGCAGCAATCTTTGTGA 59.429 39.130 4.07 0.00 42.92 3.58
195 196 4.166523 CAAGATGCAGCAATCTTTGTGAG 58.833 43.478 4.07 3.77 42.92 3.51
196 197 3.682696 AGATGCAGCAATCTTTGTGAGA 58.317 40.909 4.07 0.00 39.13 3.27
198 199 4.335874 AGATGCAGCAATCTTTGTGAGATC 59.664 41.667 4.07 0.00 44.41 2.75
199 200 2.751259 TGCAGCAATCTTTGTGAGATCC 59.249 45.455 0.00 0.00 44.41 3.36
200 201 2.223203 GCAGCAATCTTTGTGAGATCCG 60.223 50.000 0.00 0.00 44.41 4.18
201 202 2.353889 CAGCAATCTTTGTGAGATCCGG 59.646 50.000 0.00 0.00 44.41 5.14
202 203 1.064654 GCAATCTTTGTGAGATCCGGC 59.935 52.381 0.00 0.00 44.41 6.13
203 204 1.328680 CAATCTTTGTGAGATCCGGCG 59.671 52.381 0.00 0.00 44.41 6.46
204 205 0.537188 ATCTTTGTGAGATCCGGCGT 59.463 50.000 6.01 0.00 41.31 5.68
205 206 0.320374 TCTTTGTGAGATCCGGCGTT 59.680 50.000 6.01 0.00 0.00 4.84
206 207 0.721718 CTTTGTGAGATCCGGCGTTC 59.278 55.000 6.01 2.16 0.00 3.95
207 208 1.011968 TTTGTGAGATCCGGCGTTCG 61.012 55.000 6.01 0.00 38.88 3.95
208 209 3.255379 GTGAGATCCGGCGTTCGC 61.255 66.667 6.01 8.75 37.59 4.70
671 705 9.066892 GCATCACTACCTATTTTTCATCCATTA 57.933 33.333 0.00 0.00 0.00 1.90
686 721 8.763049 TTCATCCATTAGATTAGATTGTAGCG 57.237 34.615 0.00 0.00 30.59 4.26
719 756 4.739716 ACAACTGCAATTTCATTCGTTCAC 59.260 37.500 0.00 0.00 0.00 3.18
762 841 4.785301 CCACAAATCCACCTCACTCATAT 58.215 43.478 0.00 0.00 0.00 1.78
767 846 9.559732 CACAAATCCACCTCACTCATATATTAA 57.440 33.333 0.00 0.00 0.00 1.40
773 852 9.304335 TCCACCTCACTCATATATTAATTACGA 57.696 33.333 0.00 0.00 0.00 3.43
857 1317 6.423182 TCTAACCAGCTTTATTTAGCATGGT 58.577 36.000 1.62 1.62 45.81 3.55
907 3241 0.668096 TATGCGTTCCCGTGACACAC 60.668 55.000 6.37 0.00 36.15 3.82
950 3287 1.518903 GCAGCAAGTCTTGGTCCCAC 61.519 60.000 14.32 1.72 39.79 4.61
967 3304 0.650512 CACGCGCTTTACATTCGGAT 59.349 50.000 5.73 0.00 0.00 4.18
1237 3613 5.604758 TCTTCATCTTCATCGAGTTGGAT 57.395 39.130 0.00 0.00 0.00 3.41
1290 3666 5.353400 TCGTCTTCGTTACATGATAGTCTGT 59.647 40.000 0.00 0.00 38.33 3.41
1296 3672 6.199393 TCGTTACATGATAGTCTGTCAATCG 58.801 40.000 3.15 5.09 0.00 3.34
1300 3676 6.653273 ACATGATAGTCTGTCAATCGTTTG 57.347 37.500 3.15 0.00 0.00 2.93
1420 3800 3.672808 CTGAAGGTGAAGAGCAAGATGT 58.327 45.455 0.00 0.00 0.00 3.06
1501 3881 3.748863 ACACATGTGATCCGCTCTC 57.251 52.632 31.94 0.00 0.00 3.20
1599 3979 1.299165 CCGGATCATCGACGGTGTC 60.299 63.158 8.18 5.19 42.53 3.67
1617 3997 3.965026 CTGGCCAGAGGGTCTCCGA 62.965 68.421 29.88 0.00 40.42 4.55
2034 4431 4.634443 AGTGTTCTTTGTGTTCCTGTGTAC 59.366 41.667 0.00 0.00 0.00 2.90
2040 4437 4.955811 TTGTGTTCCTGTGTACTGATCT 57.044 40.909 0.00 0.00 0.00 2.75
2046 4443 2.493675 TCCTGTGTACTGATCTGCTCAC 59.506 50.000 15.55 15.55 0.00 3.51
2079 4551 9.111613 TCTAGTCTGCTAGTTTATTCAGTCTAC 57.888 37.037 0.00 0.00 43.86 2.59
2080 4552 7.948034 AGTCTGCTAGTTTATTCAGTCTACT 57.052 36.000 0.00 0.00 0.00 2.57
2081 4553 8.356000 AGTCTGCTAGTTTATTCAGTCTACTT 57.644 34.615 0.00 0.00 0.00 2.24
2082 4554 9.463902 AGTCTGCTAGTTTATTCAGTCTACTTA 57.536 33.333 0.00 0.00 0.00 2.24
2112 4584 9.581289 ACTATATGTTGATCTAGTCTGCTAGTT 57.419 33.333 0.00 0.00 43.86 2.24
2117 4589 8.293699 TGTTGATCTAGTCTGCTAGTTATTCA 57.706 34.615 0.00 0.70 43.86 2.57
2118 4590 8.409371 TGTTGATCTAGTCTGCTAGTTATTCAG 58.591 37.037 0.00 0.00 43.86 3.02
2119 4591 8.410141 GTTGATCTAGTCTGCTAGTTATTCAGT 58.590 37.037 0.00 0.00 43.86 3.41
2120 4592 8.160521 TGATCTAGTCTGCTAGTTATTCAGTC 57.839 38.462 0.00 0.00 43.86 3.51
2121 4593 7.996066 TGATCTAGTCTGCTAGTTATTCAGTCT 59.004 37.037 0.00 0.00 43.86 3.24
2122 4594 8.760980 ATCTAGTCTGCTAGTTATTCAGTCTT 57.239 34.615 0.00 0.00 43.86 3.01
2194 4668 1.892819 ATGCACCTGGACCGTCTCTG 61.893 60.000 0.00 0.00 0.00 3.35
2301 5286 3.152341 CCTGAAAGATGCAAGTGTTCCT 58.848 45.455 0.00 0.00 34.07 3.36
2364 5459 1.672363 CAAAGCACAAGTCTCAGCACA 59.328 47.619 0.00 0.00 0.00 4.57
2407 5544 4.566545 TCAGGTTTTGCACTACAACATG 57.433 40.909 5.85 5.85 38.23 3.21
2420 5557 2.811410 ACAACATGACATCCTGGCATT 58.189 42.857 0.00 0.00 45.54 3.56
2421 5558 2.494471 ACAACATGACATCCTGGCATTG 59.506 45.455 0.00 0.00 45.54 2.82
2482 6187 8.077991 AGGCAATACAAATGATAATCATGAACG 58.922 33.333 0.00 0.00 37.15 3.95
2571 6439 3.563915 GCCGGTCTAGTTCCCCTATATCT 60.564 52.174 1.90 0.00 0.00 1.98
2856 7206 2.581354 GCGCCCAGTGTGATCTCT 59.419 61.111 0.00 0.00 0.00 3.10
2859 7209 1.107114 CGCCCAGTGTGATCTCTAGT 58.893 55.000 0.00 0.00 0.00 2.57
2946 7317 3.706594 GGTCATCCCAGTCTATGTCTTCA 59.293 47.826 0.00 0.00 0.00 3.02
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.064581 CCTAACCCTCGGTCCCCAG 61.065 68.421 0.00 0.00 33.12 4.45
2 3 3.477346 GCCTAACCCTCGGTCCCC 61.477 72.222 0.00 0.00 33.12 4.81
6 7 2.249139 GATATCAGCCTAACCCTCGGT 58.751 52.381 0.00 0.00 37.65 4.69
7 8 2.248248 TGATATCAGCCTAACCCTCGG 58.752 52.381 0.00 0.00 0.00 4.63
8 9 3.259374 ACATGATATCAGCCTAACCCTCG 59.741 47.826 11.78 0.00 0.00 4.63
9 10 4.899352 ACATGATATCAGCCTAACCCTC 57.101 45.455 11.78 0.00 0.00 4.30
10 11 5.655394 TCTACATGATATCAGCCTAACCCT 58.345 41.667 11.78 0.00 0.00 4.34
11 12 5.717178 TCTCTACATGATATCAGCCTAACCC 59.283 44.000 11.78 0.00 0.00 4.11
12 13 6.842437 TCTCTACATGATATCAGCCTAACC 57.158 41.667 11.78 0.00 0.00 2.85
15 16 9.194972 CCTATTTCTCTACATGATATCAGCCTA 57.805 37.037 11.78 0.00 0.00 3.93
16 17 7.898100 TCCTATTTCTCTACATGATATCAGCCT 59.102 37.037 11.78 0.00 0.00 4.58
17 18 8.072321 TCCTATTTCTCTACATGATATCAGCC 57.928 38.462 11.78 0.00 0.00 4.85
18 19 9.531942 CATCCTATTTCTCTACATGATATCAGC 57.468 37.037 11.78 0.00 0.00 4.26
19 20 9.531942 GCATCCTATTTCTCTACATGATATCAG 57.468 37.037 11.78 6.15 0.00 2.90
20 21 9.039165 TGCATCCTATTTCTCTACATGATATCA 57.961 33.333 8.10 8.10 0.00 2.15
21 22 9.881649 TTGCATCCTATTTCTCTACATGATATC 57.118 33.333 0.00 0.00 0.00 1.63
22 23 9.664332 GTTGCATCCTATTTCTCTACATGATAT 57.336 33.333 0.00 0.00 0.00 1.63
23 24 8.874156 AGTTGCATCCTATTTCTCTACATGATA 58.126 33.333 0.00 0.00 0.00 2.15
24 25 7.743749 AGTTGCATCCTATTTCTCTACATGAT 58.256 34.615 0.00 0.00 0.00 2.45
25 26 7.070447 AGAGTTGCATCCTATTTCTCTACATGA 59.930 37.037 0.00 0.00 0.00 3.07
26 27 7.215789 AGAGTTGCATCCTATTTCTCTACATG 58.784 38.462 0.00 0.00 0.00 3.21
27 28 7.070447 TGAGAGTTGCATCCTATTTCTCTACAT 59.930 37.037 10.55 0.00 32.79 2.29
28 29 6.381133 TGAGAGTTGCATCCTATTTCTCTACA 59.619 38.462 10.55 0.00 32.79 2.74
29 30 6.810911 TGAGAGTTGCATCCTATTTCTCTAC 58.189 40.000 10.55 0.00 32.79 2.59
30 31 7.423844 TTGAGAGTTGCATCCTATTTCTCTA 57.576 36.000 10.55 3.22 32.79 2.43
31 32 5.946942 TGAGAGTTGCATCCTATTTCTCT 57.053 39.130 10.55 0.00 32.79 3.10
32 33 6.541641 ACATTGAGAGTTGCATCCTATTTCTC 59.458 38.462 0.00 0.00 0.00 2.87
33 34 6.421485 ACATTGAGAGTTGCATCCTATTTCT 58.579 36.000 0.00 0.00 0.00 2.52
34 35 6.690194 ACATTGAGAGTTGCATCCTATTTC 57.310 37.500 0.00 0.00 0.00 2.17
35 36 7.281774 CAGTACATTGAGAGTTGCATCCTATTT 59.718 37.037 0.00 0.00 0.00 1.40
36 37 6.765036 CAGTACATTGAGAGTTGCATCCTATT 59.235 38.462 0.00 0.00 0.00 1.73
37 38 6.098838 TCAGTACATTGAGAGTTGCATCCTAT 59.901 38.462 0.00 0.00 0.00 2.57
38 39 5.422012 TCAGTACATTGAGAGTTGCATCCTA 59.578 40.000 0.00 0.00 0.00 2.94
39 40 4.223700 TCAGTACATTGAGAGTTGCATCCT 59.776 41.667 0.00 0.00 0.00 3.24
40 41 4.507710 TCAGTACATTGAGAGTTGCATCC 58.492 43.478 0.00 0.00 0.00 3.51
41 42 5.007430 CCATCAGTACATTGAGAGTTGCATC 59.993 44.000 0.00 0.00 0.00 3.91
42 43 4.880120 CCATCAGTACATTGAGAGTTGCAT 59.120 41.667 0.00 0.00 0.00 3.96
43 44 4.256110 CCATCAGTACATTGAGAGTTGCA 58.744 43.478 0.00 0.00 0.00 4.08
44 45 3.624861 CCCATCAGTACATTGAGAGTTGC 59.375 47.826 0.00 0.00 0.00 4.17
45 46 4.633126 CACCCATCAGTACATTGAGAGTTG 59.367 45.833 0.00 0.00 0.00 3.16
46 47 4.836825 CACCCATCAGTACATTGAGAGTT 58.163 43.478 0.00 0.00 0.00 3.01
47 48 3.369892 GCACCCATCAGTACATTGAGAGT 60.370 47.826 0.00 0.00 0.00 3.24
48 49 3.201290 GCACCCATCAGTACATTGAGAG 58.799 50.000 0.00 0.00 0.00 3.20
49 50 2.571202 TGCACCCATCAGTACATTGAGA 59.429 45.455 0.00 0.00 0.00 3.27
50 51 2.989909 TGCACCCATCAGTACATTGAG 58.010 47.619 0.00 0.00 0.00 3.02
51 52 3.650281 ATGCACCCATCAGTACATTGA 57.350 42.857 0.00 0.00 0.00 2.57
52 53 4.320714 GCATATGCACCCATCAGTACATTG 60.321 45.833 22.84 0.00 41.59 2.82
53 54 3.822735 GCATATGCACCCATCAGTACATT 59.177 43.478 22.84 0.00 41.59 2.71
54 55 3.415212 GCATATGCACCCATCAGTACAT 58.585 45.455 22.84 0.00 41.59 2.29
55 56 2.849942 GCATATGCACCCATCAGTACA 58.150 47.619 22.84 0.00 41.59 2.90
84 85 9.148879 GGATATGACTTGCCCTATGTACTATAT 57.851 37.037 0.00 0.00 0.00 0.86
85 86 8.344546 AGGATATGACTTGCCCTATGTACTATA 58.655 37.037 0.00 0.00 0.00 1.31
86 87 7.192628 AGGATATGACTTGCCCTATGTACTAT 58.807 38.462 0.00 0.00 0.00 2.12
87 88 6.562228 AGGATATGACTTGCCCTATGTACTA 58.438 40.000 0.00 0.00 0.00 1.82
88 89 5.407049 AGGATATGACTTGCCCTATGTACT 58.593 41.667 0.00 0.00 0.00 2.73
89 90 5.246203 TGAGGATATGACTTGCCCTATGTAC 59.754 44.000 0.00 0.00 0.00 2.90
90 91 5.402630 TGAGGATATGACTTGCCCTATGTA 58.597 41.667 0.00 0.00 0.00 2.29
91 92 4.234550 TGAGGATATGACTTGCCCTATGT 58.765 43.478 0.00 0.00 0.00 2.29
92 93 4.897509 TGAGGATATGACTTGCCCTATG 57.102 45.455 0.00 0.00 0.00 2.23
93 94 4.910304 AGTTGAGGATATGACTTGCCCTAT 59.090 41.667 0.00 0.00 0.00 2.57
94 95 4.298626 AGTTGAGGATATGACTTGCCCTA 58.701 43.478 0.00 0.00 0.00 3.53
95 96 3.118531 AGTTGAGGATATGACTTGCCCT 58.881 45.455 0.00 0.00 0.00 5.19
96 97 3.567478 AGTTGAGGATATGACTTGCCC 57.433 47.619 0.00 0.00 0.00 5.36
97 98 6.647067 GTGTATAGTTGAGGATATGACTTGCC 59.353 42.308 0.00 0.00 0.00 4.52
98 99 7.210174 TGTGTATAGTTGAGGATATGACTTGC 58.790 38.462 0.00 0.00 0.00 4.01
99 100 9.599866 TTTGTGTATAGTTGAGGATATGACTTG 57.400 33.333 0.00 0.00 0.00 3.16
100 101 9.823647 CTTTGTGTATAGTTGAGGATATGACTT 57.176 33.333 0.00 0.00 0.00 3.01
101 102 9.201989 TCTTTGTGTATAGTTGAGGATATGACT 57.798 33.333 0.00 0.00 0.00 3.41
102 103 9.469807 CTCTTTGTGTATAGTTGAGGATATGAC 57.530 37.037 0.00 0.00 0.00 3.06
103 104 9.421399 TCTCTTTGTGTATAGTTGAGGATATGA 57.579 33.333 0.00 0.00 0.00 2.15
106 107 9.475620 TCTTCTCTTTGTGTATAGTTGAGGATA 57.524 33.333 0.00 0.00 0.00 2.59
107 108 8.254508 GTCTTCTCTTTGTGTATAGTTGAGGAT 58.745 37.037 0.00 0.00 0.00 3.24
108 109 7.451877 AGTCTTCTCTTTGTGTATAGTTGAGGA 59.548 37.037 0.00 0.00 0.00 3.71
109 110 7.607250 AGTCTTCTCTTTGTGTATAGTTGAGG 58.393 38.462 0.00 0.00 0.00 3.86
110 111 8.920665 CAAGTCTTCTCTTTGTGTATAGTTGAG 58.079 37.037 0.00 0.00 0.00 3.02
111 112 7.872993 CCAAGTCTTCTCTTTGTGTATAGTTGA 59.127 37.037 0.00 0.00 0.00 3.18
112 113 7.872993 TCCAAGTCTTCTCTTTGTGTATAGTTG 59.127 37.037 0.00 0.00 0.00 3.16
113 114 7.963532 TCCAAGTCTTCTCTTTGTGTATAGTT 58.036 34.615 0.00 0.00 0.00 2.24
114 115 7.233757 ACTCCAAGTCTTCTCTTTGTGTATAGT 59.766 37.037 0.00 0.00 0.00 2.12
115 116 7.607250 ACTCCAAGTCTTCTCTTTGTGTATAG 58.393 38.462 0.00 0.00 0.00 1.31
116 117 7.540474 ACTCCAAGTCTTCTCTTTGTGTATA 57.460 36.000 0.00 0.00 0.00 1.47
117 118 6.426646 ACTCCAAGTCTTCTCTTTGTGTAT 57.573 37.500 0.00 0.00 0.00 2.29
118 119 5.871396 ACTCCAAGTCTTCTCTTTGTGTA 57.129 39.130 0.00 0.00 0.00 2.90
119 120 4.762289 ACTCCAAGTCTTCTCTTTGTGT 57.238 40.909 0.00 0.00 0.00 3.72
120 121 8.307483 TCTTATACTCCAAGTCTTCTCTTTGTG 58.693 37.037 0.00 0.00 0.00 3.33
121 122 8.423906 TCTTATACTCCAAGTCTTCTCTTTGT 57.576 34.615 0.00 0.00 0.00 2.83
122 123 9.883142 ATTCTTATACTCCAAGTCTTCTCTTTG 57.117 33.333 0.00 0.00 0.00 2.77
151 152 9.836864 TCTTGTTGAGATATGTATTTAGCACAT 57.163 29.630 0.00 0.00 39.82 3.21
152 153 9.836864 ATCTTGTTGAGATATGTATTTAGCACA 57.163 29.630 0.00 0.00 43.35 4.57
154 155 8.777413 GCATCTTGTTGAGATATGTATTTAGCA 58.223 33.333 0.00 0.00 43.32 3.49
155 156 8.777413 TGCATCTTGTTGAGATATGTATTTAGC 58.223 33.333 0.00 0.00 43.32 3.09
157 158 8.777413 GCTGCATCTTGTTGAGATATGTATTTA 58.223 33.333 0.00 0.00 43.32 1.40
158 159 7.283807 TGCTGCATCTTGTTGAGATATGTATTT 59.716 33.333 0.00 0.00 43.32 1.40
159 160 6.769341 TGCTGCATCTTGTTGAGATATGTATT 59.231 34.615 0.00 0.00 43.32 1.89
160 161 6.293698 TGCTGCATCTTGTTGAGATATGTAT 58.706 36.000 0.00 0.00 43.32 2.29
161 162 5.673514 TGCTGCATCTTGTTGAGATATGTA 58.326 37.500 0.00 0.00 43.32 2.29
162 163 4.520179 TGCTGCATCTTGTTGAGATATGT 58.480 39.130 0.00 0.00 43.32 2.29
163 164 5.494632 TTGCTGCATCTTGTTGAGATATG 57.505 39.130 1.84 0.00 43.32 1.78
164 165 6.062749 AGATTGCTGCATCTTGTTGAGATAT 58.937 36.000 1.84 0.00 43.32 1.63
165 166 5.434408 AGATTGCTGCATCTTGTTGAGATA 58.566 37.500 1.84 0.00 43.32 1.98
166 167 4.270834 AGATTGCTGCATCTTGTTGAGAT 58.729 39.130 1.84 0.00 46.12 2.75
167 168 3.682696 AGATTGCTGCATCTTGTTGAGA 58.317 40.909 1.84 0.00 39.13 3.27
168 169 4.436242 AAGATTGCTGCATCTTGTTGAG 57.564 40.909 19.42 0.00 35.95 3.02
169 170 4.038282 ACAAAGATTGCTGCATCTTGTTGA 59.962 37.500 20.26 0.00 37.23 3.18
170 171 4.149922 CACAAAGATTGCTGCATCTTGTTG 59.850 41.667 20.26 18.10 37.23 3.33
171 172 4.038282 TCACAAAGATTGCTGCATCTTGTT 59.962 37.500 20.26 11.96 37.23 2.83
172 173 3.570975 TCACAAAGATTGCTGCATCTTGT 59.429 39.130 20.26 15.83 37.23 3.16
173 174 4.082949 TCTCACAAAGATTGCTGCATCTTG 60.083 41.667 20.26 15.36 37.23 3.02
174 175 4.077108 TCTCACAAAGATTGCTGCATCTT 58.923 39.130 16.38 16.38 38.65 2.40
175 176 3.682696 TCTCACAAAGATTGCTGCATCT 58.317 40.909 1.84 5.98 0.00 2.90
176 177 4.497674 GGATCTCACAAAGATTGCTGCATC 60.498 45.833 1.84 3.58 45.06 3.91
177 178 3.380637 GGATCTCACAAAGATTGCTGCAT 59.619 43.478 1.84 0.00 45.06 3.96
178 179 2.751259 GGATCTCACAAAGATTGCTGCA 59.249 45.455 0.00 0.00 45.06 4.41
179 180 2.223203 CGGATCTCACAAAGATTGCTGC 60.223 50.000 0.00 0.00 45.06 5.25
180 181 2.353889 CCGGATCTCACAAAGATTGCTG 59.646 50.000 0.00 0.00 45.06 4.41
181 182 2.636830 CCGGATCTCACAAAGATTGCT 58.363 47.619 0.00 0.00 45.06 3.91
182 183 1.064654 GCCGGATCTCACAAAGATTGC 59.935 52.381 5.05 0.00 45.06 3.56
183 184 1.328680 CGCCGGATCTCACAAAGATTG 59.671 52.381 5.05 0.00 45.06 2.67
184 185 1.066143 ACGCCGGATCTCACAAAGATT 60.066 47.619 5.05 0.00 45.06 2.40
186 187 0.320374 AACGCCGGATCTCACAAAGA 59.680 50.000 5.05 0.00 38.72 2.52
187 188 0.721718 GAACGCCGGATCTCACAAAG 59.278 55.000 5.05 0.00 0.00 2.77
188 189 1.011968 CGAACGCCGGATCTCACAAA 61.012 55.000 5.05 0.00 33.91 2.83
189 190 1.445410 CGAACGCCGGATCTCACAA 60.445 57.895 5.05 0.00 33.91 3.33
190 191 2.180769 CGAACGCCGGATCTCACA 59.819 61.111 5.05 0.00 33.91 3.58
191 192 3.255379 GCGAACGCCGGATCTCAC 61.255 66.667 5.05 0.00 39.04 3.51
216 217 0.822164 TCGATTCCCCTCTCGGAAAC 59.178 55.000 0.00 0.00 44.97 2.78
217 218 1.789523 ATCGATTCCCCTCTCGGAAA 58.210 50.000 0.00 0.00 44.97 3.13
218 219 2.107726 TCTATCGATTCCCCTCTCGGAA 59.892 50.000 1.71 0.00 45.87 4.30
219 220 1.703513 TCTATCGATTCCCCTCTCGGA 59.296 52.381 1.71 0.00 35.64 4.55
220 221 2.201921 TCTATCGATTCCCCTCTCGG 57.798 55.000 1.71 0.00 35.64 4.63
671 705 6.716934 TTCTTCCTCGCTACAATCTAATCT 57.283 37.500 0.00 0.00 0.00 2.40
676 710 4.894784 TGTTTTCTTCCTCGCTACAATCT 58.105 39.130 0.00 0.00 0.00 2.40
677 711 5.179555 AGTTGTTTTCTTCCTCGCTACAATC 59.820 40.000 0.00 0.00 0.00 2.67
679 713 4.272504 CAGTTGTTTTCTTCCTCGCTACAA 59.727 41.667 0.00 0.00 0.00 2.41
681 715 3.364068 GCAGTTGTTTTCTTCCTCGCTAC 60.364 47.826 0.00 0.00 0.00 3.58
686 721 6.042143 TGAAATTGCAGTTGTTTTCTTCCTC 58.958 36.000 0.00 0.00 0.00 3.71
719 756 2.611518 CTTCAGTAGAGCAAGTTCCCG 58.388 52.381 0.00 0.00 0.00 5.14
776 855 7.510549 AGAACATTGCACACAGTTAATAACT 57.489 32.000 0.00 0.00 44.06 2.24
857 1317 5.826601 TGTTATCAGCAAACAAGACACAA 57.173 34.783 0.00 0.00 34.04 3.33
950 3287 0.232303 GGATCCGAATGTAAAGCGCG 59.768 55.000 0.00 0.00 0.00 6.86
1290 3666 3.629855 ACACATGTCAACCAAACGATTGA 59.370 39.130 7.03 0.00 38.94 2.57
1296 3672 3.163630 AGCAACACATGTCAACCAAAC 57.836 42.857 0.00 0.00 0.00 2.93
1300 3676 1.202394 TGCAAGCAACACATGTCAACC 60.202 47.619 0.00 0.00 0.00 3.77
1420 3800 0.549950 ATCTCGTCCTCTTCGGGGTA 59.450 55.000 0.00 0.00 0.00 3.69
1501 3881 2.331805 CCGGTCGCAGAGGATACG 59.668 66.667 0.00 0.00 46.39 3.06
1599 3979 3.465403 CGGAGACCCTCTGGCCAG 61.465 72.222 27.87 27.87 33.57 4.85
1656 4036 2.033141 TCAAGCAGCAGCACCTCC 59.967 61.111 3.17 0.00 45.49 4.30
2034 4431 4.126208 AGATCAACTGTGAGCAGATCAG 57.874 45.455 1.30 0.00 42.87 2.90
2040 4437 3.367806 GCAGACTAGATCAACTGTGAGCA 60.368 47.826 0.00 0.00 42.87 4.26
2100 4572 8.582657 AAGAAGACTGAATAACTAGCAGACTA 57.417 34.615 0.00 0.00 34.50 2.59
2101 4573 7.475137 AAGAAGACTGAATAACTAGCAGACT 57.525 36.000 0.00 0.00 36.50 3.24
2102 4574 9.810545 ATTAAGAAGACTGAATAACTAGCAGAC 57.189 33.333 0.00 0.00 33.94 3.51
2194 4668 6.892310 ATTGAGCAAAGACAAGTGAAAAAC 57.108 33.333 0.00 0.00 0.00 2.43
2301 5286 6.625873 TCACTGTATGTGTATGTTTTTGCA 57.374 33.333 0.00 0.00 46.27 4.08
2333 5407 4.319177 ACTTGTGCTTTGTCTCCTGTATC 58.681 43.478 0.00 0.00 0.00 2.24
2364 5459 7.363530 CCTGAAATGACATGATGAGTGGATTTT 60.364 37.037 0.00 0.00 0.00 1.82
2407 5544 1.805120 GCAATGCAATGCCAGGATGTC 60.805 52.381 16.13 0.00 40.49 3.06
2419 5556 2.205022 AGTAGAAGCCTGCAATGCAA 57.795 45.000 9.92 0.00 38.41 4.08
2420 5557 2.205022 AAGTAGAAGCCTGCAATGCA 57.795 45.000 7.99 7.99 36.92 3.96
2421 5558 2.489329 TGAAAGTAGAAGCCTGCAATGC 59.511 45.455 0.00 0.00 0.00 3.56
2482 6187 5.774498 ATCTGTTTTTCTGTTCCTTGGAC 57.226 39.130 0.00 0.00 0.00 4.02
2571 6439 0.254462 TGCAAATACCTGATGGCGGA 59.746 50.000 0.00 0.00 36.63 5.54
2742 6629 2.876645 GAGGAGTCGACGCAAGCG 60.877 66.667 21.01 13.50 46.03 4.68
2842 7192 3.099905 TCCAACTAGAGATCACACTGGG 58.900 50.000 0.00 0.00 0.00 4.45
2922 7272 2.032620 GACATAGACTGGGATGACCGT 58.967 52.381 0.00 0.00 44.64 4.83
2946 7317 1.605058 ATAACTGGCAGCGAGGACGT 61.605 55.000 15.89 0.00 41.98 4.34


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

AutoCloner maintained by Alex Coulton.