Multiple sequence alignment - TraesCS6B01G419500

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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 TraesCS6B01G419500 chr6B 100.000 2592 0 0 891 3482 691136555 691139146 0.000000e+00 4787
1 TraesCS6B01G419500 chr6B 90.360 861 34 20 2639 3482 691265624 691266452 0.000000e+00 1085
2 TraesCS6B01G419500 chr6B 100.000 440 0 0 1 440 691135665 691136104 0.000000e+00 813
3 TraesCS6B01G419500 chr6B 91.429 105 4 5 3006 3109 691138543 691138643 4.690000e-29 139
4 TraesCS6B01G419500 chr6B 91.429 105 4 5 2879 2979 691138670 691138773 4.690000e-29 139
5 TraesCS6B01G419500 chr6B 89.423 104 7 3 3006 3109 691265863 691265962 1.010000e-25 128
6 TraesCS6B01G419500 chr6D 93.573 2116 66 30 891 2979 454633517 454635589 0.000000e+00 3090
7 TraesCS6B01G419500 chr6D 91.741 448 16 8 3006 3437 454635485 454635927 1.380000e-168 603
8 TraesCS6B01G419500 chr6D 80.170 353 30 23 70 397 454632499 454632836 9.720000e-56 228
9 TraesCS6B01G419500 chr6A 93.238 2026 76 20 957 2958 600816165 600818153 0.000000e+00 2926
10 TraesCS6B01G419500 chr6A 85.492 386 19 12 3006 3377 600818073 600818435 5.490000e-98 368
11 TraesCS6B01G419500 chr4B 92.019 639 31 6 1939 2557 18655732 18656370 0.000000e+00 880
12 TraesCS6B01G419500 chr4B 93.017 401 19 5 2988 3383 128090232 128090628 8.380000e-161 577
13 TraesCS6B01G419500 chr4B 82.740 562 38 18 1090 1644 18655229 18655738 2.470000e-121 446
14 TraesCS6B01G419500 chr4B 84.783 460 23 19 3006 3430 18656549 18656996 5.380000e-113 418
15 TraesCS6B01G419500 chr4B 90.592 287 9 7 2672 2958 18656360 18656628 7.100000e-97 364
16 TraesCS6B01G419500 chr3B 88.869 557 39 13 2641 3196 313799495 313800029 0.000000e+00 664
17 TraesCS6B01G419500 chr4A 88.127 379 29 10 2819 3196 721670780 721670417 1.480000e-118 436


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 TraesCS6B01G419500 chr6B 691135665 691139146 3481 False 1469.5 4787 95.714500 1 3482 4 chr6B.!!$F1 3481
1 TraesCS6B01G419500 chr6B 691265624 691266452 828 False 606.5 1085 89.891500 2639 3482 2 chr6B.!!$F2 843
2 TraesCS6B01G419500 chr6D 454632499 454635927 3428 False 1307.0 3090 88.494667 70 3437 3 chr6D.!!$F1 3367
3 TraesCS6B01G419500 chr6A 600816165 600818435 2270 False 1647.0 2926 89.365000 957 3377 2 chr6A.!!$F1 2420
4 TraesCS6B01G419500 chr4B 18655229 18656996 1767 False 527.0 880 87.533500 1090 3430 4 chr4B.!!$F2 2340
5 TraesCS6B01G419500 chr3B 313799495 313800029 534 False 664.0 664 88.869000 2641 3196 1 chr3B.!!$F1 555

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
418 443 0.107410 AACTTGGCCAGTCAACACGA 60.107 50.0 5.11 0.0 32.94 4.35 F
1084 1308 0.101399 CGACACCAAGATCCTCTCCG 59.899 60.0 0.00 0.0 0.00 4.63 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1496 1733 0.463295 CTTCATCACCATCTGCGGCT 60.463 55.0 0.00 0.0 0.00 5.52 R
2996 3263 0.036590 TAGCCACATTGCACTGCTGA 59.963 50.0 3.61 0.0 33.63 4.26 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
32 33 9.865321 TTAGTTTACAAAGAGAATACATAGCGT 57.135 29.630 0.00 0.00 0.00 5.07
33 34 8.186178 AGTTTACAAAGAGAATACATAGCGTG 57.814 34.615 0.00 0.00 0.00 5.34
34 35 6.583912 TTACAAAGAGAATACATAGCGTGC 57.416 37.500 0.00 0.00 0.00 5.34
35 36 4.759782 ACAAAGAGAATACATAGCGTGCT 58.240 39.130 0.00 0.00 0.00 4.40
36 37 4.806247 ACAAAGAGAATACATAGCGTGCTC 59.194 41.667 0.00 0.00 0.00 4.26
37 38 4.655762 AAGAGAATACATAGCGTGCTCA 57.344 40.909 0.00 0.00 0.00 4.26
38 39 3.971150 AGAGAATACATAGCGTGCTCAC 58.029 45.455 0.00 0.00 0.00 3.51
39 40 3.053455 GAGAATACATAGCGTGCTCACC 58.947 50.000 0.00 0.00 0.00 4.02
40 41 2.695666 AGAATACATAGCGTGCTCACCT 59.304 45.455 0.00 0.00 0.00 4.00
41 42 2.802787 ATACATAGCGTGCTCACCTC 57.197 50.000 0.00 0.00 0.00 3.85
42 43 1.470051 TACATAGCGTGCTCACCTCA 58.530 50.000 0.00 0.00 0.00 3.86
43 44 0.608130 ACATAGCGTGCTCACCTCAA 59.392 50.000 0.00 0.00 0.00 3.02
44 45 1.002366 CATAGCGTGCTCACCTCAAC 58.998 55.000 0.00 0.00 0.00 3.18
45 46 0.898320 ATAGCGTGCTCACCTCAACT 59.102 50.000 0.00 0.00 0.00 3.16
46 47 1.541379 TAGCGTGCTCACCTCAACTA 58.459 50.000 0.00 0.00 0.00 2.24
47 48 0.679505 AGCGTGCTCACCTCAACTAA 59.320 50.000 0.00 0.00 0.00 2.24
48 49 1.070134 AGCGTGCTCACCTCAACTAAA 59.930 47.619 0.00 0.00 0.00 1.85
49 50 1.871039 GCGTGCTCACCTCAACTAAAA 59.129 47.619 0.00 0.00 0.00 1.52
50 51 2.484264 GCGTGCTCACCTCAACTAAAAT 59.516 45.455 0.00 0.00 0.00 1.82
51 52 3.424962 GCGTGCTCACCTCAACTAAAATC 60.425 47.826 0.00 0.00 0.00 2.17
52 53 3.745975 CGTGCTCACCTCAACTAAAATCA 59.254 43.478 0.00 0.00 0.00 2.57
53 54 4.143030 CGTGCTCACCTCAACTAAAATCAG 60.143 45.833 0.00 0.00 0.00 2.90
54 55 4.997395 GTGCTCACCTCAACTAAAATCAGA 59.003 41.667 0.00 0.00 0.00 3.27
55 56 5.645497 GTGCTCACCTCAACTAAAATCAGAT 59.355 40.000 0.00 0.00 0.00 2.90
56 57 5.645067 TGCTCACCTCAACTAAAATCAGATG 59.355 40.000 0.00 0.00 0.00 2.90
57 58 5.448360 GCTCACCTCAACTAAAATCAGATGC 60.448 44.000 0.00 0.00 0.00 3.91
58 59 4.943705 TCACCTCAACTAAAATCAGATGCC 59.056 41.667 0.00 0.00 0.00 4.40
59 60 4.701651 CACCTCAACTAAAATCAGATGCCA 59.298 41.667 0.00 0.00 0.00 4.92
60 61 4.702131 ACCTCAACTAAAATCAGATGCCAC 59.298 41.667 0.00 0.00 0.00 5.01
61 62 4.946157 CCTCAACTAAAATCAGATGCCACT 59.054 41.667 0.00 0.00 0.00 4.00
62 63 5.065731 CCTCAACTAAAATCAGATGCCACTC 59.934 44.000 0.00 0.00 0.00 3.51
63 64 4.631377 TCAACTAAAATCAGATGCCACTCG 59.369 41.667 0.00 0.00 0.00 4.18
64 65 2.939103 ACTAAAATCAGATGCCACTCGC 59.061 45.455 0.00 0.00 38.31 5.03
65 66 1.098050 AAAATCAGATGCCACTCGCC 58.902 50.000 0.00 0.00 36.24 5.54
66 67 0.749454 AAATCAGATGCCACTCGCCC 60.749 55.000 0.00 0.00 36.24 6.13
67 68 2.930385 AATCAGATGCCACTCGCCCG 62.930 60.000 0.00 0.00 36.24 6.13
68 69 4.147449 CAGATGCCACTCGCCCGA 62.147 66.667 0.00 0.00 36.24 5.14
69 70 3.390521 AGATGCCACTCGCCCGAA 61.391 61.111 0.00 0.00 36.24 4.30
70 71 2.892425 GATGCCACTCGCCCGAAG 60.892 66.667 0.00 0.00 36.24 3.79
74 75 2.668212 CCACTCGCCCGAAGCAAA 60.668 61.111 0.00 0.00 44.04 3.68
75 76 2.040544 CCACTCGCCCGAAGCAAAT 61.041 57.895 0.00 0.00 44.04 2.32
76 77 1.425428 CACTCGCCCGAAGCAAATC 59.575 57.895 0.00 0.00 44.04 2.17
77 78 1.003839 ACTCGCCCGAAGCAAATCA 60.004 52.632 0.00 0.00 44.04 2.57
78 79 0.605319 ACTCGCCCGAAGCAAATCAA 60.605 50.000 0.00 0.00 44.04 2.57
79 80 0.734889 CTCGCCCGAAGCAAATCAAT 59.265 50.000 0.00 0.00 44.04 2.57
80 81 0.732571 TCGCCCGAAGCAAATCAATC 59.267 50.000 0.00 0.00 44.04 2.67
81 82 0.248621 CGCCCGAAGCAAATCAATCC 60.249 55.000 0.00 0.00 44.04 3.01
82 83 1.106285 GCCCGAAGCAAATCAATCCT 58.894 50.000 0.00 0.00 42.97 3.24
83 84 1.478105 GCCCGAAGCAAATCAATCCTT 59.522 47.619 0.00 0.00 42.97 3.36
84 85 2.736400 GCCCGAAGCAAATCAATCCTTG 60.736 50.000 0.00 0.00 42.97 3.61
85 86 2.493278 CCCGAAGCAAATCAATCCTTGT 59.507 45.455 0.00 0.00 0.00 3.16
86 87 3.694072 CCCGAAGCAAATCAATCCTTGTA 59.306 43.478 0.00 0.00 0.00 2.41
101 102 2.253610 CTTGTAGTACCACCTCCACCA 58.746 52.381 0.00 0.00 0.00 4.17
102 103 1.933021 TGTAGTACCACCTCCACCAG 58.067 55.000 0.00 0.00 0.00 4.00
127 128 2.364190 AGAAAACCATCCCCACCCTAA 58.636 47.619 0.00 0.00 0.00 2.69
129 130 2.615986 AAACCATCCCCACCCTAAAC 57.384 50.000 0.00 0.00 0.00 2.01
180 191 2.456577 GGTACACCCAGCATTTCCAAT 58.543 47.619 0.00 0.00 0.00 3.16
183 194 1.203162 ACACCCAGCATTTCCAATCCA 60.203 47.619 0.00 0.00 0.00 3.41
186 197 2.292389 ACCCAGCATTTCCAATCCATCA 60.292 45.455 0.00 0.00 0.00 3.07
189 200 3.895656 CCAGCATTTCCAATCCATCAGAT 59.104 43.478 0.00 0.00 36.48 2.90
190 201 4.022242 CCAGCATTTCCAATCCATCAGATC 60.022 45.833 0.00 0.00 32.47 2.75
216 227 3.878160 AAAAAGGGCGACACAAAAAGA 57.122 38.095 0.00 0.00 0.00 2.52
217 228 3.878160 AAAAGGGCGACACAAAAAGAA 57.122 38.095 0.00 0.00 0.00 2.52
218 229 3.878160 AAAGGGCGACACAAAAAGAAA 57.122 38.095 0.00 0.00 0.00 2.52
219 230 3.436700 AAGGGCGACACAAAAAGAAAG 57.563 42.857 0.00 0.00 0.00 2.62
220 231 2.650322 AGGGCGACACAAAAAGAAAGA 58.350 42.857 0.00 0.00 0.00 2.52
233 244 9.937577 CACAAAAAGAAAGAAAAGAAAACGTAG 57.062 29.630 0.00 0.00 0.00 3.51
369 394 4.796231 ACGCATCTCCCGACGCAC 62.796 66.667 0.00 0.00 0.00 5.34
393 418 4.722700 CCACAGCCCAACTCCCCG 62.723 72.222 0.00 0.00 0.00 5.73
398 423 4.986708 GCCCAACTCCCCGCCAAA 62.987 66.667 0.00 0.00 0.00 3.28
399 424 2.203567 CCCAACTCCCCGCCAAAA 60.204 61.111 0.00 0.00 0.00 2.44
400 425 1.834822 CCCAACTCCCCGCCAAAAA 60.835 57.895 0.00 0.00 0.00 1.94
401 426 1.365999 CCAACTCCCCGCCAAAAAC 59.634 57.895 0.00 0.00 0.00 2.43
402 427 1.112916 CCAACTCCCCGCCAAAAACT 61.113 55.000 0.00 0.00 0.00 2.66
403 428 0.750249 CAACTCCCCGCCAAAAACTT 59.250 50.000 0.00 0.00 0.00 2.66
404 429 0.750249 AACTCCCCGCCAAAAACTTG 59.250 50.000 0.00 0.00 0.00 3.16
418 443 0.107410 AACTTGGCCAGTCAACACGA 60.107 50.000 5.11 0.00 32.94 4.35
420 445 0.249868 CTTGGCCAGTCAACACGAGA 60.250 55.000 5.11 0.00 0.00 4.04
423 448 2.375766 GCCAGTCAACACGAGAGCG 61.376 63.158 0.00 0.00 44.79 5.03
1084 1308 0.101399 CGACACCAAGATCCTCTCCG 59.899 60.000 0.00 0.00 0.00 4.63
1234 1464 2.037527 AGGACCTCGACCACCTCC 59.962 66.667 0.00 0.00 0.00 4.30
1294 1531 2.725312 GGATCTGGCAGCTCGTCCA 61.725 63.158 10.34 0.00 0.00 4.02
1333 1570 1.883732 CTCCGCGTCTTCCTCTTCA 59.116 57.895 4.92 0.00 0.00 3.02
1522 1759 2.169978 CAGATGGTGATGAAGCAGGAGA 59.830 50.000 0.00 0.00 40.26 3.71
1689 1926 1.742146 CGATCCGCCCAAGATGAGA 59.258 57.895 0.00 0.00 0.00 3.27
1692 1929 0.755686 ATCCGCCCAAGATGAGAGAC 59.244 55.000 0.00 0.00 0.00 3.36
1722 1959 1.521681 CGAGATCCCGCCCAAGAAC 60.522 63.158 0.00 0.00 0.00 3.01
1725 1962 1.521681 GATCCCGCCCAAGAACGAG 60.522 63.158 0.00 0.00 0.00 4.18
1731 1968 2.264794 CCCAAGAACGAGGACCGG 59.735 66.667 0.00 0.00 43.93 5.28
2486 2733 1.296722 CGACCGTCTCGTGATCGAC 60.297 63.158 3.55 0.00 41.35 4.20
2494 2741 4.498520 CGTGATCGACCGCCAGCT 62.499 66.667 0.00 0.00 39.71 4.24
2495 2742 2.583593 GTGATCGACCGCCAGCTC 60.584 66.667 0.00 0.00 0.00 4.09
2496 2743 3.068064 TGATCGACCGCCAGCTCA 61.068 61.111 0.00 0.00 0.00 4.26
2501 2760 2.268920 GACCGCCAGCTCAATCCA 59.731 61.111 0.00 0.00 0.00 3.41
2589 2852 9.130661 TCCAAGTCAATATGGGTTAAATATGTG 57.869 33.333 0.00 0.00 37.31 3.21
2591 2854 9.950680 CAAGTCAATATGGGTTAAATATGTGTC 57.049 33.333 0.00 0.00 0.00 3.67
2592 2855 8.378172 AGTCAATATGGGTTAAATATGTGTCG 57.622 34.615 0.00 0.00 0.00 4.35
2593 2856 8.208224 AGTCAATATGGGTTAAATATGTGTCGA 58.792 33.333 0.00 0.00 0.00 4.20
2678 2945 3.460857 TTTTGGATTTGGGGTTCGTTG 57.539 42.857 0.00 0.00 0.00 4.10
2742 3009 7.436970 TGGTGTGCTTAATTAGATGTACATACG 59.563 37.037 8.71 0.00 0.00 3.06
2847 3114 6.035866 CACTGCTGCTTTGTTTTGTTTAATCA 59.964 34.615 0.00 0.00 0.00 2.57
2849 3116 6.946165 TGCTGCTTTGTTTTGTTTAATCATG 58.054 32.000 0.00 0.00 0.00 3.07
2925 3192 5.303747 TCTTTTGTGTTCTTTCGAAGCAA 57.696 34.783 0.00 0.00 0.00 3.91
2926 3193 5.704888 TCTTTTGTGTTCTTTCGAAGCAAA 58.295 33.333 0.00 2.63 35.39 3.68
2927 3194 5.799936 TCTTTTGTGTTCTTTCGAAGCAAAG 59.200 36.000 0.00 0.00 36.96 2.77
2928 3195 4.955925 TTGTGTTCTTTCGAAGCAAAGA 57.044 36.364 0.00 0.00 40.03 2.52
2929 3196 5.499139 TTGTGTTCTTTCGAAGCAAAGAT 57.501 34.783 0.00 0.00 41.11 2.40
2930 3197 6.612247 TTGTGTTCTTTCGAAGCAAAGATA 57.388 33.333 0.00 0.00 41.11 1.98
2931 3198 6.801539 TGTGTTCTTTCGAAGCAAAGATAT 57.198 33.333 0.00 0.00 41.11 1.63
2932 3199 6.602179 TGTGTTCTTTCGAAGCAAAGATATG 58.398 36.000 0.00 0.00 41.11 1.78
2933 3200 6.426633 TGTGTTCTTTCGAAGCAAAGATATGA 59.573 34.615 0.00 0.00 41.11 2.15
2934 3201 7.041440 TGTGTTCTTTCGAAGCAAAGATATGAA 60.041 33.333 0.00 0.00 41.11 2.57
2935 3202 7.965107 GTGTTCTTTCGAAGCAAAGATATGAAT 59.035 33.333 0.00 0.00 41.11 2.57
2936 3203 7.964559 TGTTCTTTCGAAGCAAAGATATGAATG 59.035 33.333 0.00 0.00 41.11 2.67
2937 3204 7.848223 TCTTTCGAAGCAAAGATATGAATGA 57.152 32.000 0.00 0.00 37.45 2.57
2938 3205 7.913423 TCTTTCGAAGCAAAGATATGAATGAG 58.087 34.615 0.00 0.00 37.45 2.90
2939 3206 6.609237 TTCGAAGCAAAGATATGAATGAGG 57.391 37.500 0.00 0.00 0.00 3.86
2940 3207 5.917462 TCGAAGCAAAGATATGAATGAGGA 58.083 37.500 0.00 0.00 0.00 3.71
2941 3208 6.528321 TCGAAGCAAAGATATGAATGAGGAT 58.472 36.000 0.00 0.00 0.00 3.24
2942 3209 6.426025 TCGAAGCAAAGATATGAATGAGGATG 59.574 38.462 0.00 0.00 0.00 3.51
2943 3210 5.961396 AGCAAAGATATGAATGAGGATGC 57.039 39.130 0.00 0.00 0.00 3.91
2944 3211 5.382616 AGCAAAGATATGAATGAGGATGCA 58.617 37.500 0.00 0.00 32.76 3.96
2945 3212 5.831525 AGCAAAGATATGAATGAGGATGCAA 59.168 36.000 0.00 0.00 32.76 4.08
2946 3213 6.322969 AGCAAAGATATGAATGAGGATGCAAA 59.677 34.615 0.00 0.00 32.76 3.68
2947 3214 7.015292 AGCAAAGATATGAATGAGGATGCAAAT 59.985 33.333 0.00 0.00 32.76 2.32
2948 3215 8.301720 GCAAAGATATGAATGAGGATGCAAATA 58.698 33.333 0.00 0.00 0.00 1.40
2951 3218 8.749026 AGATATGAATGAGGATGCAAATATCC 57.251 34.615 0.00 0.00 45.71 2.59
2952 3219 7.778853 AGATATGAATGAGGATGCAAATATCCC 59.221 37.037 0.28 0.00 46.38 3.85
2953 3220 5.064314 TGAATGAGGATGCAAATATCCCA 57.936 39.130 0.28 0.02 46.38 4.37
2954 3221 5.074804 TGAATGAGGATGCAAATATCCCAG 58.925 41.667 0.28 0.00 46.38 4.45
2955 3222 4.736611 ATGAGGATGCAAATATCCCAGT 57.263 40.909 0.28 0.00 46.38 4.00
2956 3223 3.824133 TGAGGATGCAAATATCCCAGTG 58.176 45.455 0.28 0.00 46.38 3.66
2957 3224 3.459227 TGAGGATGCAAATATCCCAGTGA 59.541 43.478 0.28 0.00 46.38 3.41
2958 3225 4.079844 TGAGGATGCAAATATCCCAGTGAA 60.080 41.667 0.28 0.00 46.38 3.18
2959 3226 4.467769 AGGATGCAAATATCCCAGTGAAG 58.532 43.478 0.28 0.00 46.38 3.02
2960 3227 3.005155 GGATGCAAATATCCCAGTGAAGC 59.995 47.826 0.00 0.00 40.64 3.86
2961 3228 3.370840 TGCAAATATCCCAGTGAAGCT 57.629 42.857 0.00 0.00 0.00 3.74
2962 3229 3.282021 TGCAAATATCCCAGTGAAGCTC 58.718 45.455 0.00 0.00 0.00 4.09
2963 3230 2.620585 GCAAATATCCCAGTGAAGCTCC 59.379 50.000 0.00 0.00 0.00 4.70
2964 3231 3.686691 GCAAATATCCCAGTGAAGCTCCT 60.687 47.826 0.00 0.00 0.00 3.69
2965 3232 4.444876 GCAAATATCCCAGTGAAGCTCCTA 60.445 45.833 0.00 0.00 0.00 2.94
2966 3233 5.747248 GCAAATATCCCAGTGAAGCTCCTAT 60.747 44.000 0.00 0.00 0.00 2.57
2967 3234 6.302269 CAAATATCCCAGTGAAGCTCCTATT 58.698 40.000 0.00 0.00 0.00 1.73
2968 3235 7.453393 CAAATATCCCAGTGAAGCTCCTATTA 58.547 38.462 0.00 0.00 0.00 0.98
2969 3236 7.821134 AATATCCCAGTGAAGCTCCTATTAT 57.179 36.000 0.00 0.00 0.00 1.28
2970 3237 7.821134 ATATCCCAGTGAAGCTCCTATTATT 57.179 36.000 0.00 0.00 0.00 1.40
2971 3238 5.975988 TCCCAGTGAAGCTCCTATTATTT 57.024 39.130 0.00 0.00 0.00 1.40
2972 3239 5.684704 TCCCAGTGAAGCTCCTATTATTTG 58.315 41.667 0.00 0.00 0.00 2.32
2973 3240 5.191722 TCCCAGTGAAGCTCCTATTATTTGT 59.808 40.000 0.00 0.00 0.00 2.83
2974 3241 5.888161 CCCAGTGAAGCTCCTATTATTTGTT 59.112 40.000 0.00 0.00 0.00 2.83
2975 3242 7.054124 CCCAGTGAAGCTCCTATTATTTGTTA 58.946 38.462 0.00 0.00 0.00 2.41
2976 3243 7.721399 CCCAGTGAAGCTCCTATTATTTGTTAT 59.279 37.037 0.00 0.00 0.00 1.89
2977 3244 8.562892 CCAGTGAAGCTCCTATTATTTGTTATG 58.437 37.037 0.00 0.00 0.00 1.90
2978 3245 9.113838 CAGTGAAGCTCCTATTATTTGTTATGT 57.886 33.333 0.00 0.00 0.00 2.29
2979 3246 9.686683 AGTGAAGCTCCTATTATTTGTTATGTT 57.313 29.630 0.00 0.00 0.00 2.71
3000 3267 6.554419 TGTTATTGCTAATGTCAATGTCAGC 58.446 36.000 0.00 0.00 35.87 4.26
3001 3268 6.150809 TGTTATTGCTAATGTCAATGTCAGCA 59.849 34.615 0.00 0.00 37.25 4.41
3002 3269 4.690184 TTGCTAATGTCAATGTCAGCAG 57.310 40.909 0.00 0.00 39.89 4.24
3003 3270 3.678289 TGCTAATGTCAATGTCAGCAGT 58.322 40.909 0.00 0.00 34.30 4.40
3004 3271 3.437741 TGCTAATGTCAATGTCAGCAGTG 59.562 43.478 0.00 0.00 41.54 3.66
3005 3272 3.730061 GCTAATGTCAATGTCAGCAGTGC 60.730 47.826 7.13 7.13 40.17 4.40
3006 3273 1.900245 ATGTCAATGTCAGCAGTGCA 58.100 45.000 19.20 0.00 40.17 4.57
3007 3274 1.677942 TGTCAATGTCAGCAGTGCAA 58.322 45.000 19.20 1.37 40.17 4.08
3008 3275 2.232399 TGTCAATGTCAGCAGTGCAAT 58.768 42.857 19.20 2.26 40.17 3.56
3009 3276 2.030628 TGTCAATGTCAGCAGTGCAATG 60.031 45.455 19.20 10.38 40.17 2.82
3010 3277 2.030540 GTCAATGTCAGCAGTGCAATGT 60.031 45.455 19.20 0.00 40.17 2.71
3011 3278 2.030628 TCAATGTCAGCAGTGCAATGTG 60.031 45.455 19.20 12.41 40.17 3.21
3012 3279 0.885879 ATGTCAGCAGTGCAATGTGG 59.114 50.000 19.20 8.35 0.00 4.17
3013 3280 1.080974 GTCAGCAGTGCAATGTGGC 60.081 57.895 19.20 10.41 0.00 5.01
3014 3281 1.228337 TCAGCAGTGCAATGTGGCT 60.228 52.632 19.20 3.61 34.64 4.75
3015 3282 0.036590 TCAGCAGTGCAATGTGGCTA 59.963 50.000 19.20 0.00 32.71 3.93
3016 3283 0.883153 CAGCAGTGCAATGTGGCTAA 59.117 50.000 19.20 0.00 32.71 3.09
3017 3284 1.270274 CAGCAGTGCAATGTGGCTAAA 59.730 47.619 19.20 0.00 32.71 1.85
3018 3285 2.094390 CAGCAGTGCAATGTGGCTAAAT 60.094 45.455 19.20 0.00 32.71 1.40
3019 3286 2.564062 AGCAGTGCAATGTGGCTAAATT 59.436 40.909 19.20 0.00 32.09 1.82
3020 3287 2.669434 GCAGTGCAATGTGGCTAAATTG 59.331 45.455 16.47 8.56 36.95 2.32
3021 3288 3.255725 CAGTGCAATGTGGCTAAATTGG 58.744 45.455 14.21 0.00 34.90 3.16
3022 3289 2.001872 GTGCAATGTGGCTAAATTGGC 58.998 47.619 14.21 7.56 34.90 4.52
3033 3300 4.660789 GCTAAATTGGCCATGTGATCTT 57.339 40.909 6.09 0.00 0.00 2.40
3034 3301 5.014808 GCTAAATTGGCCATGTGATCTTT 57.985 39.130 6.09 1.09 0.00 2.52
3035 3302 5.422145 GCTAAATTGGCCATGTGATCTTTT 58.578 37.500 6.09 0.00 0.00 2.27
3036 3303 5.292589 GCTAAATTGGCCATGTGATCTTTTG 59.707 40.000 6.09 1.19 0.00 2.44
3037 3304 4.895668 AATTGGCCATGTGATCTTTTGT 57.104 36.364 6.09 0.00 0.00 2.83
3038 3305 3.663995 TTGGCCATGTGATCTTTTGTG 57.336 42.857 6.09 0.00 0.00 3.33
3039 3306 2.596346 TGGCCATGTGATCTTTTGTGT 58.404 42.857 0.00 0.00 0.00 3.72
3040 3307 2.964464 TGGCCATGTGATCTTTTGTGTT 59.036 40.909 0.00 0.00 0.00 3.32
3041 3308 3.005684 TGGCCATGTGATCTTTTGTGTTC 59.994 43.478 0.00 0.00 0.00 3.18
3263 3686 2.176273 CATGTAGCAGCACGGGAGC 61.176 63.158 0.00 0.00 0.00 4.70
3274 3697 1.747206 GCACGGGAGCTAACCATGATT 60.747 52.381 7.14 0.00 0.00 2.57
3275 3698 2.484770 GCACGGGAGCTAACCATGATTA 60.485 50.000 7.14 0.00 0.00 1.75
3276 3699 3.807209 GCACGGGAGCTAACCATGATTAT 60.807 47.826 7.14 0.00 0.00 1.28
3277 3700 3.997021 CACGGGAGCTAACCATGATTATC 59.003 47.826 7.62 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
6 7 9.865321 ACGCTATGTATTCTCTTTGTAAACTAA 57.135 29.630 0.00 0.00 0.00 2.24
7 8 9.297586 CACGCTATGTATTCTCTTTGTAAACTA 57.702 33.333 0.00 0.00 0.00 2.24
9 10 6.900299 GCACGCTATGTATTCTCTTTGTAAAC 59.100 38.462 0.00 0.00 0.00 2.01
10 11 6.816640 AGCACGCTATGTATTCTCTTTGTAAA 59.183 34.615 0.00 0.00 0.00 2.01
11 12 6.338146 AGCACGCTATGTATTCTCTTTGTAA 58.662 36.000 0.00 0.00 0.00 2.41
12 13 5.902681 AGCACGCTATGTATTCTCTTTGTA 58.097 37.500 0.00 0.00 0.00 2.41
13 14 4.759782 AGCACGCTATGTATTCTCTTTGT 58.240 39.130 0.00 0.00 0.00 2.83
14 15 4.805719 TGAGCACGCTATGTATTCTCTTTG 59.194 41.667 0.00 0.00 0.00 2.77
15 16 4.806247 GTGAGCACGCTATGTATTCTCTTT 59.194 41.667 0.00 0.00 0.00 2.52
16 17 4.363999 GTGAGCACGCTATGTATTCTCTT 58.636 43.478 0.00 0.00 0.00 2.85
17 18 3.243569 GGTGAGCACGCTATGTATTCTCT 60.244 47.826 0.00 0.00 0.00 3.10
18 19 3.053455 GGTGAGCACGCTATGTATTCTC 58.947 50.000 0.00 0.00 0.00 2.87
19 20 2.695666 AGGTGAGCACGCTATGTATTCT 59.304 45.455 0.00 0.00 0.00 2.40
20 21 3.053455 GAGGTGAGCACGCTATGTATTC 58.947 50.000 0.00 0.00 0.00 1.75
21 22 2.430694 TGAGGTGAGCACGCTATGTATT 59.569 45.455 0.00 0.00 0.00 1.89
22 23 2.031870 TGAGGTGAGCACGCTATGTAT 58.968 47.619 0.00 0.00 0.00 2.29
23 24 1.470051 TGAGGTGAGCACGCTATGTA 58.530 50.000 0.00 0.00 0.00 2.29
24 25 0.608130 TTGAGGTGAGCACGCTATGT 59.392 50.000 0.00 0.00 0.00 2.29
25 26 1.002366 GTTGAGGTGAGCACGCTATG 58.998 55.000 0.00 0.00 0.00 2.23
26 27 0.898320 AGTTGAGGTGAGCACGCTAT 59.102 50.000 0.00 0.00 0.00 2.97
27 28 1.541379 TAGTTGAGGTGAGCACGCTA 58.459 50.000 0.00 0.00 0.00 4.26
28 29 0.679505 TTAGTTGAGGTGAGCACGCT 59.320 50.000 0.00 0.00 0.00 5.07
29 30 1.508632 TTTAGTTGAGGTGAGCACGC 58.491 50.000 0.00 0.00 0.00 5.34
30 31 3.745975 TGATTTTAGTTGAGGTGAGCACG 59.254 43.478 0.00 0.00 0.00 5.34
31 32 4.997395 TCTGATTTTAGTTGAGGTGAGCAC 59.003 41.667 0.00 0.00 0.00 4.40
32 33 5.227569 TCTGATTTTAGTTGAGGTGAGCA 57.772 39.130 0.00 0.00 0.00 4.26
33 34 5.448360 GCATCTGATTTTAGTTGAGGTGAGC 60.448 44.000 0.00 0.00 0.00 4.26
34 35 5.065731 GGCATCTGATTTTAGTTGAGGTGAG 59.934 44.000 0.00 0.00 0.00 3.51
35 36 4.943705 GGCATCTGATTTTAGTTGAGGTGA 59.056 41.667 0.00 0.00 0.00 4.02
36 37 4.701651 TGGCATCTGATTTTAGTTGAGGTG 59.298 41.667 0.00 0.00 0.00 4.00
37 38 4.702131 GTGGCATCTGATTTTAGTTGAGGT 59.298 41.667 0.00 0.00 0.00 3.85
38 39 4.946157 AGTGGCATCTGATTTTAGTTGAGG 59.054 41.667 0.00 0.00 0.00 3.86
39 40 5.220548 CGAGTGGCATCTGATTTTAGTTGAG 60.221 44.000 0.00 0.00 0.00 3.02
40 41 4.631377 CGAGTGGCATCTGATTTTAGTTGA 59.369 41.667 0.00 0.00 0.00 3.18
41 42 4.728882 GCGAGTGGCATCTGATTTTAGTTG 60.729 45.833 0.00 0.00 42.87 3.16
42 43 3.375299 GCGAGTGGCATCTGATTTTAGTT 59.625 43.478 0.00 0.00 42.87 2.24
43 44 2.939103 GCGAGTGGCATCTGATTTTAGT 59.061 45.455 0.00 0.00 42.87 2.24
44 45 2.289002 GGCGAGTGGCATCTGATTTTAG 59.711 50.000 0.00 0.00 46.16 1.85
45 46 2.288666 GGCGAGTGGCATCTGATTTTA 58.711 47.619 0.00 0.00 46.16 1.52
46 47 1.098050 GGCGAGTGGCATCTGATTTT 58.902 50.000 0.00 0.00 46.16 1.82
47 48 0.749454 GGGCGAGTGGCATCTGATTT 60.749 55.000 0.00 0.00 46.16 2.17
48 49 1.153086 GGGCGAGTGGCATCTGATT 60.153 57.895 0.00 0.00 46.16 2.57
49 50 2.507944 GGGCGAGTGGCATCTGAT 59.492 61.111 0.00 0.00 46.16 2.90
50 51 4.147449 CGGGCGAGTGGCATCTGA 62.147 66.667 0.00 0.00 46.16 3.27
51 52 3.664025 TTCGGGCGAGTGGCATCTG 62.664 63.158 0.00 0.00 46.16 2.90
52 53 3.376935 CTTCGGGCGAGTGGCATCT 62.377 63.158 0.00 0.00 46.16 2.90
53 54 2.892425 CTTCGGGCGAGTGGCATC 60.892 66.667 0.00 0.00 46.16 3.91
57 58 1.982073 GATTTGCTTCGGGCGAGTGG 61.982 60.000 0.00 0.00 45.43 4.00
58 59 1.298157 TGATTTGCTTCGGGCGAGTG 61.298 55.000 0.00 0.00 45.43 3.51
59 60 0.605319 TTGATTTGCTTCGGGCGAGT 60.605 50.000 0.00 0.00 45.43 4.18
60 61 0.734889 ATTGATTTGCTTCGGGCGAG 59.265 50.000 0.00 0.00 45.43 5.03
61 62 0.732571 GATTGATTTGCTTCGGGCGA 59.267 50.000 0.00 0.00 45.43 5.54
62 63 0.248621 GGATTGATTTGCTTCGGGCG 60.249 55.000 0.00 0.00 45.43 6.13
63 64 1.106285 AGGATTGATTTGCTTCGGGC 58.894 50.000 0.00 0.00 42.22 6.13
77 78 3.518303 GTGGAGGTGGTACTACAAGGATT 59.482 47.826 11.80 0.00 31.94 3.01
78 79 3.105283 GTGGAGGTGGTACTACAAGGAT 58.895 50.000 11.80 0.00 31.94 3.24
79 80 2.532843 GTGGAGGTGGTACTACAAGGA 58.467 52.381 11.80 0.00 31.94 3.36
80 81 1.553704 GGTGGAGGTGGTACTACAAGG 59.446 57.143 11.80 0.00 31.94 3.61
81 82 2.233922 CTGGTGGAGGTGGTACTACAAG 59.766 54.545 11.80 0.00 31.94 3.16
82 83 2.253610 CTGGTGGAGGTGGTACTACAA 58.746 52.381 11.80 0.00 31.94 2.41
83 84 1.551560 CCTGGTGGAGGTGGTACTACA 60.552 57.143 11.80 0.00 37.02 2.74
84 85 1.192428 CCTGGTGGAGGTGGTACTAC 58.808 60.000 0.00 0.00 37.02 2.73
85 86 1.086565 TCCTGGTGGAGGTGGTACTA 58.913 55.000 0.00 0.00 43.37 1.82
86 87 1.865845 TCCTGGTGGAGGTGGTACT 59.134 57.895 0.00 0.00 43.37 2.73
101 102 2.041755 GTGGGGATGGTTTTCTTCTCCT 59.958 50.000 0.00 0.00 40.01 3.69
102 103 2.447443 GTGGGGATGGTTTTCTTCTCC 58.553 52.381 0.00 0.00 39.82 3.71
198 209 3.445805 TCTTTCTTTTTGTGTCGCCCTTT 59.554 39.130 0.00 0.00 0.00 3.11
200 211 2.650322 TCTTTCTTTTTGTGTCGCCCT 58.350 42.857 0.00 0.00 0.00 5.19
201 212 3.430333 TTCTTTCTTTTTGTGTCGCCC 57.570 42.857 0.00 0.00 0.00 6.13
202 213 5.099575 TCTTTTCTTTCTTTTTGTGTCGCC 58.900 37.500 0.00 0.00 0.00 5.54
203 214 6.626199 TTCTTTTCTTTCTTTTTGTGTCGC 57.374 33.333 0.00 0.00 0.00 5.19
204 215 7.678428 CGTTTTCTTTTCTTTCTTTTTGTGTCG 59.322 33.333 0.00 0.00 0.00 4.35
205 216 8.484799 ACGTTTTCTTTTCTTTCTTTTTGTGTC 58.515 29.630 0.00 0.00 0.00 3.67
207 218 9.937577 CTACGTTTTCTTTTCTTTCTTTTTGTG 57.062 29.630 0.00 0.00 0.00 3.33
208 219 9.902196 TCTACGTTTTCTTTTCTTTCTTTTTGT 57.098 25.926 0.00 0.00 0.00 2.83
211 222 9.350357 GGTTCTACGTTTTCTTTTCTTTCTTTT 57.650 29.630 0.00 0.00 0.00 2.27
212 223 7.972277 GGGTTCTACGTTTTCTTTTCTTTCTTT 59.028 33.333 0.00 0.00 0.00 2.52
213 224 7.121611 TGGGTTCTACGTTTTCTTTTCTTTCTT 59.878 33.333 0.00 0.00 0.00 2.52
214 225 6.600427 TGGGTTCTACGTTTTCTTTTCTTTCT 59.400 34.615 0.00 0.00 0.00 2.52
215 226 6.788243 TGGGTTCTACGTTTTCTTTTCTTTC 58.212 36.000 0.00 0.00 0.00 2.62
216 227 6.762702 TGGGTTCTACGTTTTCTTTTCTTT 57.237 33.333 0.00 0.00 0.00 2.52
217 228 6.405065 GGTTGGGTTCTACGTTTTCTTTTCTT 60.405 38.462 0.00 0.00 0.00 2.52
218 229 5.066893 GGTTGGGTTCTACGTTTTCTTTTCT 59.933 40.000 0.00 0.00 0.00 2.52
219 230 5.276270 GGTTGGGTTCTACGTTTTCTTTTC 58.724 41.667 0.00 0.00 0.00 2.29
220 231 4.201940 CGGTTGGGTTCTACGTTTTCTTTT 60.202 41.667 0.00 0.00 0.00 2.27
233 244 0.318699 GCTGCTTTTCGGTTGGGTTC 60.319 55.000 0.00 0.00 0.00 3.62
236 247 1.791103 TTCGCTGCTTTTCGGTTGGG 61.791 55.000 0.00 0.00 0.00 4.12
373 398 3.971702 GGAGTTGGGCTGTGGGCT 61.972 66.667 0.00 0.00 41.46 5.19
395 420 2.929398 GTGTTGACTGGCCAAGTTTTTG 59.071 45.455 7.01 0.00 40.07 2.44
396 421 2.416701 CGTGTTGACTGGCCAAGTTTTT 60.417 45.455 7.01 0.00 40.07 1.94
397 422 1.134175 CGTGTTGACTGGCCAAGTTTT 59.866 47.619 7.01 0.00 40.07 2.43
398 423 0.738389 CGTGTTGACTGGCCAAGTTT 59.262 50.000 7.01 0.00 40.07 2.66
399 424 0.107410 TCGTGTTGACTGGCCAAGTT 60.107 50.000 7.01 0.00 40.07 2.66
400 425 0.532862 CTCGTGTTGACTGGCCAAGT 60.533 55.000 7.01 7.28 43.85 3.16
401 426 0.249868 TCTCGTGTTGACTGGCCAAG 60.250 55.000 7.01 3.48 0.00 3.61
402 427 0.249868 CTCTCGTGTTGACTGGCCAA 60.250 55.000 7.01 0.00 0.00 4.52
403 428 1.367471 CTCTCGTGTTGACTGGCCA 59.633 57.895 4.71 4.71 0.00 5.36
404 429 2.029844 GCTCTCGTGTTGACTGGCC 61.030 63.158 0.00 0.00 0.00 5.36
1032 1256 4.988598 AGCTGGTTGTCGTGCGGG 62.989 66.667 0.00 0.00 0.00 6.13
1401 1638 1.473278 GACTTGAGGTCGAGGTACCAG 59.527 57.143 15.94 7.92 42.40 4.00
1465 1702 3.574445 CTGGCTCTGCATCTGCGC 61.574 66.667 0.00 0.00 45.83 6.09
1496 1733 0.463295 CTTCATCACCATCTGCGGCT 60.463 55.000 0.00 0.00 0.00 5.52
1499 1736 0.656259 CTGCTTCATCACCATCTGCG 59.344 55.000 0.00 0.00 0.00 5.18
1500 1737 1.022735 CCTGCTTCATCACCATCTGC 58.977 55.000 0.00 0.00 0.00 4.26
1501 1738 2.169978 TCTCCTGCTTCATCACCATCTG 59.830 50.000 0.00 0.00 0.00 2.90
1504 1741 1.134580 CGTCTCCTGCTTCATCACCAT 60.135 52.381 0.00 0.00 0.00 3.55
2486 2733 0.819582 ATTTTGGATTGAGCTGGCGG 59.180 50.000 0.00 0.00 0.00 6.13
2494 2741 8.527810 GTTAACCCATACTGAATTTTGGATTGA 58.472 33.333 0.00 0.00 0.00 2.57
2495 2742 8.310382 TGTTAACCCATACTGAATTTTGGATTG 58.690 33.333 2.48 0.00 0.00 2.67
2496 2743 8.429237 TGTTAACCCATACTGAATTTTGGATT 57.571 30.769 2.48 0.00 0.00 3.01
2501 2760 8.164070 AGACTCTGTTAACCCATACTGAATTTT 58.836 33.333 2.48 0.00 0.00 1.82
2589 2852 5.788531 CACAATAACGAATTCCAACTTCGAC 59.211 40.000 11.87 0.00 46.36 4.20
2592 2855 6.899114 AGACACAATAACGAATTCCAACTTC 58.101 36.000 0.00 0.00 0.00 3.01
2593 2856 6.877611 AGACACAATAACGAATTCCAACTT 57.122 33.333 0.00 0.00 0.00 2.66
2637 2900 7.279981 CCAAAAACTTCTTCTAAACAAAAGGGG 59.720 37.037 0.00 0.00 0.00 4.79
2678 2945 5.023533 TCCTAGTTGCATATCACAGAACC 57.976 43.478 0.00 0.00 0.00 3.62
2847 3114 6.158598 GGCAACAACATAATCAACTCAACAT 58.841 36.000 0.00 0.00 0.00 2.71
2925 3192 9.186837 GGATATTTGCATCCTCATTCATATCTT 57.813 33.333 0.00 0.00 41.24 2.40
2926 3193 7.778853 GGGATATTTGCATCCTCATTCATATCT 59.221 37.037 4.14 0.00 43.56 1.98
2927 3194 7.558807 TGGGATATTTGCATCCTCATTCATATC 59.441 37.037 4.14 0.00 43.56 1.63
2928 3195 7.415908 TGGGATATTTGCATCCTCATTCATAT 58.584 34.615 4.14 0.00 43.56 1.78
2929 3196 6.792424 TGGGATATTTGCATCCTCATTCATA 58.208 36.000 4.14 0.00 43.56 2.15
2930 3197 5.647230 TGGGATATTTGCATCCTCATTCAT 58.353 37.500 4.14 0.00 43.56 2.57
2931 3198 5.064314 TGGGATATTTGCATCCTCATTCA 57.936 39.130 4.14 0.00 43.56 2.57
2932 3199 5.048224 CACTGGGATATTTGCATCCTCATTC 60.048 44.000 4.14 0.00 43.56 2.67
2933 3200 4.831155 CACTGGGATATTTGCATCCTCATT 59.169 41.667 4.14 0.00 43.56 2.57
2934 3201 4.105217 TCACTGGGATATTTGCATCCTCAT 59.895 41.667 4.14 0.00 43.56 2.90
2935 3202 3.459227 TCACTGGGATATTTGCATCCTCA 59.541 43.478 4.14 0.74 43.56 3.86
2936 3203 4.090761 TCACTGGGATATTTGCATCCTC 57.909 45.455 4.14 0.00 43.56 3.71
2937 3204 4.467769 CTTCACTGGGATATTTGCATCCT 58.532 43.478 4.14 0.00 43.56 3.24
2938 3205 3.005155 GCTTCACTGGGATATTTGCATCC 59.995 47.826 0.00 0.00 43.36 3.51
2939 3206 3.887716 AGCTTCACTGGGATATTTGCATC 59.112 43.478 0.00 0.00 0.00 3.91
2940 3207 3.887716 GAGCTTCACTGGGATATTTGCAT 59.112 43.478 0.00 0.00 0.00 3.96
2941 3208 3.282021 GAGCTTCACTGGGATATTTGCA 58.718 45.455 0.00 0.00 0.00 4.08
2942 3209 2.620585 GGAGCTTCACTGGGATATTTGC 59.379 50.000 0.00 0.00 0.00 3.68
2943 3210 4.162040 AGGAGCTTCACTGGGATATTTG 57.838 45.455 0.00 0.00 0.00 2.32
2944 3211 6.521527 AATAGGAGCTTCACTGGGATATTT 57.478 37.500 0.00 0.00 0.00 1.40
2945 3212 7.821134 ATAATAGGAGCTTCACTGGGATATT 57.179 36.000 0.00 0.00 0.00 1.28
2946 3213 7.821134 AATAATAGGAGCTTCACTGGGATAT 57.179 36.000 0.00 0.00 0.00 1.63
2947 3214 7.072454 ACAAATAATAGGAGCTTCACTGGGATA 59.928 37.037 0.00 0.00 0.00 2.59
2948 3215 6.126361 ACAAATAATAGGAGCTTCACTGGGAT 60.126 38.462 0.00 0.00 0.00 3.85
2949 3216 5.191722 ACAAATAATAGGAGCTTCACTGGGA 59.808 40.000 0.00 0.00 0.00 4.37
2950 3217 5.440610 ACAAATAATAGGAGCTTCACTGGG 58.559 41.667 0.00 0.00 0.00 4.45
2951 3218 8.562892 CATAACAAATAATAGGAGCTTCACTGG 58.437 37.037 0.00 0.00 0.00 4.00
2952 3219 9.113838 ACATAACAAATAATAGGAGCTTCACTG 57.886 33.333 0.00 0.00 0.00 3.66
2953 3220 9.686683 AACATAACAAATAATAGGAGCTTCACT 57.313 29.630 0.00 0.00 0.00 3.41
2974 3241 8.344831 GCTGACATTGACATTAGCAATAACATA 58.655 33.333 0.00 0.00 34.41 2.29
2975 3242 7.148035 TGCTGACATTGACATTAGCAATAACAT 60.148 33.333 0.00 0.00 38.12 2.71
2976 3243 6.150809 TGCTGACATTGACATTAGCAATAACA 59.849 34.615 0.00 0.00 38.12 2.41
2977 3244 6.554419 TGCTGACATTGACATTAGCAATAAC 58.446 36.000 0.00 0.00 38.12 1.89
2978 3245 6.375174 ACTGCTGACATTGACATTAGCAATAA 59.625 34.615 0.00 0.00 40.23 1.40
2979 3246 5.882000 ACTGCTGACATTGACATTAGCAATA 59.118 36.000 0.00 0.00 40.23 1.90
2980 3247 4.703575 ACTGCTGACATTGACATTAGCAAT 59.296 37.500 0.00 0.00 40.23 3.56
2981 3248 4.074259 ACTGCTGACATTGACATTAGCAA 58.926 39.130 0.00 0.00 40.23 3.91
2982 3249 3.437741 CACTGCTGACATTGACATTAGCA 59.562 43.478 0.00 0.00 38.68 3.49
2983 3250 3.730061 GCACTGCTGACATTGACATTAGC 60.730 47.826 0.00 0.00 0.00 3.09
2984 3251 3.437741 TGCACTGCTGACATTGACATTAG 59.562 43.478 1.98 0.00 0.00 1.73
2985 3252 3.410508 TGCACTGCTGACATTGACATTA 58.589 40.909 1.98 0.00 0.00 1.90
2986 3253 2.232399 TGCACTGCTGACATTGACATT 58.768 42.857 1.98 0.00 0.00 2.71
2987 3254 1.900245 TGCACTGCTGACATTGACAT 58.100 45.000 1.98 0.00 0.00 3.06
2988 3255 1.677942 TTGCACTGCTGACATTGACA 58.322 45.000 1.98 0.00 0.00 3.58
2989 3256 2.030540 ACATTGCACTGCTGACATTGAC 60.031 45.455 3.61 0.00 0.00 3.18
2990 3257 2.030628 CACATTGCACTGCTGACATTGA 60.031 45.455 3.61 0.00 0.00 2.57
2991 3258 2.324860 CACATTGCACTGCTGACATTG 58.675 47.619 3.61 4.97 0.00 2.82
2992 3259 1.271379 CCACATTGCACTGCTGACATT 59.729 47.619 3.61 0.00 0.00 2.71
2993 3260 0.885879 CCACATTGCACTGCTGACAT 59.114 50.000 3.61 0.00 0.00 3.06
2994 3261 1.798234 GCCACATTGCACTGCTGACA 61.798 55.000 3.61 0.00 0.00 3.58
2995 3262 1.080974 GCCACATTGCACTGCTGAC 60.081 57.895 3.61 0.00 0.00 3.51
2996 3263 0.036590 TAGCCACATTGCACTGCTGA 59.963 50.000 3.61 0.00 33.63 4.26
2997 3264 0.883153 TTAGCCACATTGCACTGCTG 59.117 50.000 3.61 2.30 33.63 4.41
2998 3265 1.619654 TTTAGCCACATTGCACTGCT 58.380 45.000 3.61 2.15 36.11 4.24
2999 3266 2.660189 ATTTAGCCACATTGCACTGC 57.340 45.000 3.61 0.00 0.00 4.40
3000 3267 3.255725 CCAATTTAGCCACATTGCACTG 58.744 45.455 1.95 1.95 0.00 3.66
3001 3268 2.354003 GCCAATTTAGCCACATTGCACT 60.354 45.455 0.00 0.00 0.00 4.40
3002 3269 2.001872 GCCAATTTAGCCACATTGCAC 58.998 47.619 0.00 0.00 0.00 4.57
3003 3270 2.383368 GCCAATTTAGCCACATTGCA 57.617 45.000 0.00 0.00 0.00 4.08
3012 3279 4.660789 AAGATCACATGGCCAATTTAGC 57.339 40.909 10.96 0.00 0.00 3.09
3013 3280 6.311935 CACAAAAGATCACATGGCCAATTTAG 59.688 38.462 10.96 0.00 0.00 1.85
3014 3281 6.164876 CACAAAAGATCACATGGCCAATTTA 58.835 36.000 10.96 0.00 0.00 1.40
3015 3282 4.998672 CACAAAAGATCACATGGCCAATTT 59.001 37.500 10.96 0.00 0.00 1.82
3016 3283 4.040706 ACACAAAAGATCACATGGCCAATT 59.959 37.500 10.96 0.00 0.00 2.32
3017 3284 3.579586 ACACAAAAGATCACATGGCCAAT 59.420 39.130 10.96 0.00 0.00 3.16
3018 3285 2.964464 ACACAAAAGATCACATGGCCAA 59.036 40.909 10.96 0.00 0.00 4.52
3019 3286 2.596346 ACACAAAAGATCACATGGCCA 58.404 42.857 8.56 8.56 0.00 5.36
3020 3287 3.256631 AGAACACAAAAGATCACATGGCC 59.743 43.478 0.00 0.00 0.00 5.36
3021 3288 4.510038 AGAACACAAAAGATCACATGGC 57.490 40.909 0.00 0.00 0.00 4.40
3022 3289 5.626543 CGAAAGAACACAAAAGATCACATGG 59.373 40.000 0.00 0.00 0.00 3.66
3023 3290 6.429624 TCGAAAGAACACAAAAGATCACATG 58.570 36.000 0.00 0.00 37.03 3.21
3024 3291 6.618287 TCGAAAGAACACAAAAGATCACAT 57.382 33.333 0.00 0.00 37.03 3.21
3025 3292 6.429791 TTCGAAAGAACACAAAAGATCACA 57.570 33.333 0.00 0.00 46.92 3.58
3026 3293 5.396654 GCTTCGAAAGAACACAAAAGATCAC 59.603 40.000 0.00 0.00 46.92 3.06
3027 3294 5.065859 TGCTTCGAAAGAACACAAAAGATCA 59.934 36.000 0.00 0.00 46.92 2.92
3028 3295 5.510671 TGCTTCGAAAGAACACAAAAGATC 58.489 37.500 0.00 0.00 46.92 2.75
3029 3296 5.499139 TGCTTCGAAAGAACACAAAAGAT 57.501 34.783 0.00 0.00 46.92 2.40
3030 3297 4.955925 TGCTTCGAAAGAACACAAAAGA 57.044 36.364 0.00 0.00 46.92 2.52
3031 3298 5.331902 TCTTGCTTCGAAAGAACACAAAAG 58.668 37.500 0.00 0.00 46.92 2.27
3032 3299 5.303747 TCTTGCTTCGAAAGAACACAAAA 57.696 34.783 0.00 0.00 46.92 2.44
3033 3300 4.955925 TCTTGCTTCGAAAGAACACAAA 57.044 36.364 0.00 0.00 46.92 2.83
3034 3301 6.426633 TCATATCTTGCTTCGAAAGAACACAA 59.573 34.615 0.00 0.00 46.92 3.33
3035 3302 5.931724 TCATATCTTGCTTCGAAAGAACACA 59.068 36.000 0.00 0.00 46.92 3.72
3036 3303 6.408858 TCATATCTTGCTTCGAAAGAACAC 57.591 37.500 0.00 0.00 46.92 3.32
3037 3304 7.615582 ATTCATATCTTGCTTCGAAAGAACA 57.384 32.000 0.00 0.00 46.92 3.18
3038 3305 8.177663 TCAATTCATATCTTGCTTCGAAAGAAC 58.822 33.333 0.00 0.00 46.92 3.01
3040 3307 7.011763 CCTCAATTCATATCTTGCTTCGAAAGA 59.988 37.037 0.00 0.00 38.01 2.52
3041 3308 7.011763 TCCTCAATTCATATCTTGCTTCGAAAG 59.988 37.037 0.00 0.00 0.00 2.62
3263 3686 9.958234 CCGACATAGATAGATAATCATGGTTAG 57.042 37.037 4.46 0.00 37.03 2.34
3274 3697 4.663334 ACCACAGCCGACATAGATAGATA 58.337 43.478 0.00 0.00 0.00 1.98
3275 3698 3.501349 ACCACAGCCGACATAGATAGAT 58.499 45.455 0.00 0.00 0.00 1.98
3276 3699 2.945456 ACCACAGCCGACATAGATAGA 58.055 47.619 0.00 0.00 0.00 1.98
3277 3700 3.735237 AACCACAGCCGACATAGATAG 57.265 47.619 0.00 0.00 0.00 2.08


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

AutoCloner maintained by Alex Coulton.