Multiple sequence alignment - TraesCS5D01G545300

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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 TraesCS5D01G545300 chr5D 100.000 3512 0 0 1 3512 554477683 554481194 0.000000e+00 6486.0
1 TraesCS5D01G545300 chr5D 89.325 918 96 2 1520 2436 554501248 554502164 0.000000e+00 1151.0
2 TraesCS5D01G545300 chr5D 88.037 326 35 4 1227 1550 554501048 554501371 1.980000e-102 383.0
3 TraesCS5D01G545300 chr5B 94.195 2050 91 13 539 2585 696186211 696184187 0.000000e+00 3101.0
4 TraesCS5D01G545300 chr5B 96.932 880 24 3 106 982 696187712 696186833 0.000000e+00 1472.0
5 TraesCS5D01G545300 chr5B 88.420 924 105 2 1520 2442 696181831 696180909 0.000000e+00 1112.0
6 TraesCS5D01G545300 chr5B 88.177 406 42 6 1148 1550 696182110 696181708 2.450000e-131 479.0
7 TraesCS5D01G545300 chr5B 92.236 322 22 2 2626 2945 696184191 696183871 1.490000e-123 453.0
8 TraesCS5D01G545300 chr5B 82.157 510 76 8 2521 3016 696180652 696180144 1.170000e-114 424.0
9 TraesCS5D01G545300 chr5B 77.155 232 41 8 3200 3423 696180112 696179885 1.320000e-24 124.0
10 TraesCS5D01G545300 chr4A 93.698 2047 115 5 539 2585 614103642 614101610 0.000000e+00 3053.0
11 TraesCS5D01G545300 chr4A 91.468 1758 120 13 1601 3331 614085199 614083445 0.000000e+00 2388.0
12 TraesCS5D01G545300 chr4A 91.141 1761 125 14 1601 3334 614064286 614062530 0.000000e+00 2359.0
13 TraesCS5D01G545300 chr4A 91.073 1445 100 11 1601 3018 614043377 614041935 0.000000e+00 1927.0
14 TraesCS5D01G545300 chr4A 89.325 918 96 2 1520 2436 614033179 614032263 0.000000e+00 1151.0
15 TraesCS5D01G545300 chr4A 92.523 321 22 2 2626 2945 614101614 614101295 3.190000e-125 459.0
16 TraesCS5D01G545300 chr4A 83.301 509 70 9 2521 3016 614032003 614031497 4.130000e-124 455.0
17 TraesCS5D01G545300 chr4A 93.421 304 20 0 3031 3334 614041764 614041461 5.350000e-123 451.0
18 TraesCS5D01G545300 chr4A 94.619 223 12 0 3105 3327 614056583 614056361 2.600000e-91 346.0
19 TraesCS5D01G545300 chr4A 93.722 223 14 0 3105 3327 614077495 614077273 5.620000e-88 335.0
20 TraesCS5D01G545300 chr4A 93.750 224 13 1 3105 3327 614098406 614098183 5.620000e-88 335.0
21 TraesCS5D01G545300 chr4A 95.833 48 1 1 2479 2525 111905458 111905505 3.760000e-10 76.8
22 TraesCS5D01G545300 chr4A 94.595 37 2 0 3181 3217 614101149 614101113 1.360000e-04 58.4
23 TraesCS5D01G545300 chr5A 93.373 166 9 2 3016 3180 320214408 320214244 9.740000e-61 244.0
24 TraesCS5D01G545300 chr5A 75.429 175 39 4 279 450 47533903 47534076 8.080000e-12 82.4
25 TraesCS5D01G545300 chr7D 91.667 168 14 0 3016 3183 397555080 397554913 2.110000e-57 233.0
26 TraesCS5D01G545300 chr7A 92.121 165 13 0 3016 3180 451519808 451519972 2.110000e-57 233.0
27 TraesCS5D01G545300 chr1B 92.169 166 11 2 3017 3181 666933702 666933538 2.110000e-57 233.0
28 TraesCS5D01G545300 chr1B 76.136 176 38 4 278 450 168327407 168327581 4.830000e-14 89.8
29 TraesCS5D01G545300 chr2A 91.617 167 14 0 3014 3180 419206811 419206977 7.580000e-57 231.0
30 TraesCS5D01G545300 chr6D 89.944 179 17 1 3010 3188 431160837 431160660 2.730000e-56 230.0
31 TraesCS5D01G545300 chr3B 93.277 119 8 0 3213 3331 74282561 74282679 3.600000e-40 176.0
32 TraesCS5D01G545300 chr3A 93.277 119 8 0 3213 3331 59519124 59519242 3.600000e-40 176.0
33 TraesCS5D01G545300 chr3A 92.683 41 3 0 2480 2520 265541765 265541805 3.790000e-05 60.2


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 TraesCS5D01G545300 chr5D 554477683 554481194 3511 False 6486.000000 6486 100.000000 1 3512 1 chr5D.!!$F1 3511
1 TraesCS5D01G545300 chr5D 554501048 554502164 1116 False 767.000000 1151 88.681000 1227 2436 2 chr5D.!!$F2 1209
2 TraesCS5D01G545300 chr5B 696179885 696187712 7827 True 1023.571429 3101 88.467429 106 3423 7 chr5B.!!$R1 3317
3 TraesCS5D01G545300 chr4A 614083445 614085199 1754 True 2388.000000 2388 91.468000 1601 3331 1 chr4A.!!$R4 1730
4 TraesCS5D01G545300 chr4A 614062530 614064286 1756 True 2359.000000 2359 91.141000 1601 3334 1 chr4A.!!$R2 1733
5 TraesCS5D01G545300 chr4A 614041461 614043377 1916 True 1189.000000 1927 92.247000 1601 3334 2 chr4A.!!$R6 1733
6 TraesCS5D01G545300 chr4A 614098183 614103642 5459 True 976.350000 3053 93.641500 539 3327 4 chr4A.!!$R7 2788
7 TraesCS5D01G545300 chr4A 614031497 614033179 1682 True 803.000000 1151 86.313000 1520 3016 2 chr4A.!!$R5 1496

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
714 718 1.300931 TGGCTTCTGCGAGTGTGAC 60.301 57.895 0.0 0.0 40.82 3.67 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2511 3622 0.033366 GCTTCGCCCACCATTGTTTT 59.967 50.0 0.0 0.0 0.0 2.43 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
20 21 3.347958 TGTCGTCCAAAAGCATTTGTC 57.652 42.857 12.94 5.47 43.59 3.18
21 22 2.685388 TGTCGTCCAAAAGCATTTGTCA 59.315 40.909 12.94 0.00 43.59 3.58
22 23 3.129462 TGTCGTCCAAAAGCATTTGTCAA 59.871 39.130 12.94 0.00 43.59 3.18
23 24 3.485743 GTCGTCCAAAAGCATTTGTCAAC 59.514 43.478 12.94 7.47 43.59 3.18
24 25 2.794350 CGTCCAAAAGCATTTGTCAACC 59.206 45.455 12.94 0.00 43.59 3.77
25 26 3.736433 CGTCCAAAAGCATTTGTCAACCA 60.736 43.478 12.94 0.00 43.59 3.67
26 27 4.379652 GTCCAAAAGCATTTGTCAACCAT 58.620 39.130 12.94 0.00 43.59 3.55
27 28 4.448732 GTCCAAAAGCATTTGTCAACCATC 59.551 41.667 12.94 0.00 43.59 3.51
28 29 4.100653 TCCAAAAGCATTTGTCAACCATCA 59.899 37.500 12.94 0.00 43.59 3.07
29 30 4.998672 CCAAAAGCATTTGTCAACCATCAT 59.001 37.500 12.94 0.00 43.59 2.45
30 31 5.106869 CCAAAAGCATTTGTCAACCATCATG 60.107 40.000 12.94 0.00 43.59 3.07
31 32 5.471556 AAAGCATTTGTCAACCATCATGA 57.528 34.783 0.00 0.00 36.60 3.07
32 33 5.471556 AAGCATTTGTCAACCATCATGAA 57.528 34.783 0.00 0.00 0.00 2.57
33 34 5.471556 AGCATTTGTCAACCATCATGAAA 57.528 34.783 0.00 0.00 0.00 2.69
34 35 5.856156 AGCATTTGTCAACCATCATGAAAA 58.144 33.333 0.00 0.00 0.00 2.29
35 36 6.289834 AGCATTTGTCAACCATCATGAAAAA 58.710 32.000 0.00 0.00 38.14 1.94
90 91 7.112452 GGATTGTATTCCCAAGCTAATTTGT 57.888 36.000 0.00 0.00 31.58 2.83
91 92 6.980397 GGATTGTATTCCCAAGCTAATTTGTG 59.020 38.462 0.00 0.00 31.58 3.33
92 93 7.147915 GGATTGTATTCCCAAGCTAATTTGTGA 60.148 37.037 0.00 0.00 31.58 3.58
93 94 7.716799 TTGTATTCCCAAGCTAATTTGTGAT 57.283 32.000 0.00 0.00 0.00 3.06
94 95 7.333528 TGTATTCCCAAGCTAATTTGTGATC 57.666 36.000 0.00 0.00 0.00 2.92
95 96 7.118723 TGTATTCCCAAGCTAATTTGTGATCT 58.881 34.615 0.00 0.00 0.00 2.75
96 97 7.615365 TGTATTCCCAAGCTAATTTGTGATCTT 59.385 33.333 0.00 0.00 0.00 2.40
97 98 6.916360 TTCCCAAGCTAATTTGTGATCTTT 57.084 33.333 0.00 0.00 0.00 2.52
98 99 6.271488 TCCCAAGCTAATTTGTGATCTTTG 57.729 37.500 0.00 0.00 0.00 2.77
99 100 6.009589 TCCCAAGCTAATTTGTGATCTTTGA 58.990 36.000 0.00 0.00 0.00 2.69
100 101 6.071952 TCCCAAGCTAATTTGTGATCTTTGAC 60.072 38.462 0.00 0.00 0.00 3.18
101 102 6.095377 CCAAGCTAATTTGTGATCTTTGACC 58.905 40.000 0.00 0.00 0.00 4.02
102 103 6.071728 CCAAGCTAATTTGTGATCTTTGACCT 60.072 38.462 0.00 0.00 0.00 3.85
103 104 6.506500 AGCTAATTTGTGATCTTTGACCTG 57.493 37.500 0.00 0.00 0.00 4.00
104 105 6.240894 AGCTAATTTGTGATCTTTGACCTGA 58.759 36.000 0.00 0.00 0.00 3.86
173 174 1.596895 GGAGAGAAGGCGTCGAACCT 61.597 60.000 2.38 2.38 40.02 3.50
202 203 7.610865 TGGGTTCATTAATGCTTTCTTTAAGG 58.389 34.615 10.76 0.00 34.26 2.69
208 209 1.604604 TGCTTTCTTTAAGGCGTGCT 58.395 45.000 0.00 0.00 40.42 4.40
265 266 5.362143 TGTGGACAATTTTCATTGGTTCAGA 59.638 36.000 0.31 0.00 43.82 3.27
275 276 8.592529 TTTTCATTGGTTCAGATCCATCAATA 57.407 30.769 0.73 0.00 34.75 1.90
277 278 6.903516 TCATTGGTTCAGATCCATCAATACT 58.096 36.000 0.73 0.00 34.75 2.12
322 324 4.985409 GGGCTGAAGATATCTCAAACTACG 59.015 45.833 5.51 0.00 0.00 3.51
360 362 8.596271 TCATTTATGCCATTGCTAAAATCATG 57.404 30.769 0.00 0.00 38.71 3.07
361 363 6.847956 TTTATGCCATTGCTAAAATCATGC 57.152 33.333 0.00 0.00 38.71 4.06
363 365 2.500504 TGCCATTGCTAAAATCATGCCA 59.499 40.909 0.00 0.00 38.71 4.92
365 367 3.558418 GCCATTGCTAAAATCATGCCAAG 59.442 43.478 0.00 0.00 33.53 3.61
366 368 4.681244 GCCATTGCTAAAATCATGCCAAGA 60.681 41.667 0.00 0.00 33.53 3.02
367 369 5.607477 CCATTGCTAAAATCATGCCAAGAT 58.393 37.500 0.00 0.00 0.00 2.40
368 370 5.465390 CCATTGCTAAAATCATGCCAAGATG 59.535 40.000 0.00 0.00 0.00 2.90
405 409 1.967319 CCCCCACATGAATAACCTCG 58.033 55.000 0.00 0.00 0.00 4.63
483 487 2.871096 ATGTTAGGAACCTCGCCAAA 57.129 45.000 0.00 0.00 0.00 3.28
615 619 2.359850 TCCACCGATGCTGCAACC 60.360 61.111 6.36 0.41 0.00 3.77
665 669 1.737029 CGGTGAGACGACAAGATGCAT 60.737 52.381 0.00 0.00 35.47 3.96
666 670 2.479560 CGGTGAGACGACAAGATGCATA 60.480 50.000 0.00 0.00 35.47 3.14
714 718 1.300931 TGGCTTCTGCGAGTGTGAC 60.301 57.895 0.00 0.00 40.82 3.67
730 734 2.665185 ACGAGCCAAGGAACGTGC 60.665 61.111 9.41 0.00 36.24 5.34
851 1917 3.869272 CTGATCCAACGGCTGCGC 61.869 66.667 0.00 0.00 0.00 6.09
928 1995 2.486966 GCTGAGCGTTGGCCATTC 59.513 61.111 6.09 1.70 41.24 2.67
1305 2382 0.324614 TGGACACCGTGATGCTTGAT 59.675 50.000 5.28 0.00 0.00 2.57
1410 2487 1.982938 GGTCTCAGGGTACTGCCGT 60.983 63.158 0.00 0.00 44.54 5.68
1526 2603 2.811514 GGATGATGAGGGAGGCGCA 61.812 63.158 10.83 0.00 0.00 6.09
1782 2859 2.386661 TGATCTCTGGTTTCTTCCGC 57.613 50.000 0.00 0.00 0.00 5.54
1920 2997 4.067896 GAGAGTTCTTTGACAGAATGCCA 58.932 43.478 0.00 0.00 43.72 4.92
2203 3280 0.461339 GCAAATCCATGGCTTGGCTG 60.461 55.000 18.67 7.20 46.01 4.85
2252 3329 3.457380 TCCTTAGGAAATGCTCTGCTCAT 59.543 43.478 0.00 0.00 0.00 2.90
2283 3360 3.941657 GAGCGGTGACCTGCACTCC 62.942 68.421 17.83 3.82 46.86 3.85
2352 3429 0.748450 CATTGATGATGCGGGCCTTT 59.252 50.000 0.84 0.00 0.00 3.11
2509 3620 3.246687 TCCAAGGTGGGACGCTTT 58.753 55.556 0.00 0.00 39.17 3.51
2510 3621 2.454369 TCCAAGGTGGGACGCTTTA 58.546 52.632 0.00 0.00 35.49 1.85
2511 3622 0.766131 TCCAAGGTGGGACGCTTTAA 59.234 50.000 0.00 0.00 35.49 1.52
2512 3623 1.143277 TCCAAGGTGGGACGCTTTAAA 59.857 47.619 0.00 0.00 35.49 1.52
2513 3624 1.957877 CCAAGGTGGGACGCTTTAAAA 59.042 47.619 0.00 0.00 35.49 1.52
2525 3777 2.478514 CGCTTTAAAAACAATGGTGGGC 59.521 45.455 0.00 0.00 0.00 5.36
2546 3798 3.070018 CGAAGCTCTTCCAAAGTGTGAT 58.930 45.455 4.23 0.00 36.27 3.06
2594 3846 3.933332 GCTACTACATGGTTCTGGTCAAC 59.067 47.826 0.00 0.00 0.00 3.18
2595 3847 4.322801 GCTACTACATGGTTCTGGTCAACT 60.323 45.833 0.00 0.00 0.00 3.16
2715 3967 1.971167 GATGCAAAGGACCCGCACA 60.971 57.895 3.14 0.00 38.73 4.57
2800 7697 1.561076 TGTCCCCCAGATGATGAAGTG 59.439 52.381 0.00 0.00 0.00 3.16
2905 7816 8.197439 TCGATCTCTTTGATGTCAAGCTTATTA 58.803 33.333 0.00 0.00 37.15 0.98
2963 7943 1.948721 ATGAGATGCTGGACGACGCA 61.949 55.000 0.00 0.00 40.87 5.24
2974 7954 2.143594 GACGACGCACTTGTCCCTCT 62.144 60.000 0.00 0.00 35.40 3.69
3024 9628 9.900112 ACCATATTCTACTTTCCTTATACTCCT 57.100 33.333 0.00 0.00 0.00 3.69
3029 9792 9.716556 ATTCTACTTTCCTTATACTCCTTCAGA 57.283 33.333 0.00 0.00 0.00 3.27
3123 10921 3.507233 GTGGATTCACTCATTTTGCTCCA 59.493 43.478 0.00 0.00 40.58 3.86
3132 10930 7.112122 TCACTCATTTTGCTCCATATGTAGTT 58.888 34.615 1.24 0.00 0.00 2.24
3340 11152 1.380785 ATGGGATGCTTGGTGCTGG 60.381 57.895 0.00 0.00 43.37 4.85
3341 11153 2.757099 GGGATGCTTGGTGCTGGG 60.757 66.667 0.00 0.00 43.37 4.45
3342 11154 2.356278 GGATGCTTGGTGCTGGGA 59.644 61.111 0.00 0.00 43.37 4.37
3343 11155 1.304381 GGATGCTTGGTGCTGGGAA 60.304 57.895 0.00 0.00 43.37 3.97
3344 11156 1.598701 GGATGCTTGGTGCTGGGAAC 61.599 60.000 0.00 0.00 43.37 3.62
3345 11157 0.895100 GATGCTTGGTGCTGGGAACA 60.895 55.000 0.00 0.00 43.37 3.18
3346 11158 1.181098 ATGCTTGGTGCTGGGAACAC 61.181 55.000 0.00 0.00 43.37 3.32
3348 11160 1.109323 GCTTGGTGCTGGGAACACTT 61.109 55.000 0.00 0.00 38.14 3.16
3349 11161 1.402787 CTTGGTGCTGGGAACACTTT 58.597 50.000 0.00 0.00 38.14 2.66
3352 11164 0.389025 GGTGCTGGGAACACTTTTGG 59.611 55.000 0.00 0.00 38.14 3.28
3353 11165 1.111277 GTGCTGGGAACACTTTTGGT 58.889 50.000 0.00 0.00 35.12 3.67
3368 11180 1.768684 TTGGTGGAGGTGCTGGAGAC 61.769 60.000 0.00 0.00 0.00 3.36
3376 11188 1.476007 GGTGCTGGAGACCTCACTGT 61.476 60.000 0.00 0.00 31.90 3.55
3378 11190 1.294780 GCTGGAGACCTCACTGTGG 59.705 63.158 8.11 0.00 0.00 4.17
3396 11208 3.133542 TGTGGTTTGTTGGCAATCAATGA 59.866 39.130 1.92 0.00 37.73 2.57
3398 11210 4.024977 GTGGTTTGTTGGCAATCAATGAAC 60.025 41.667 1.92 5.48 37.73 3.18
3404 11218 4.022935 TGTTGGCAATCAATGAACTCAGAC 60.023 41.667 1.92 0.00 37.73 3.51
3418 11232 4.613925 ACTCAGACAAAGCATGAGAAGA 57.386 40.909 8.32 0.00 42.48 2.87
3423 11237 5.187381 TCAGACAAAGCATGAGAAGATCTCT 59.813 40.000 8.68 0.00 43.73 3.10
3434 11248 5.850557 GAGAAGATCTCTCTCATTGTCCA 57.149 43.478 20.75 0.00 46.32 4.02
3435 11249 5.591099 GAGAAGATCTCTCTCATTGTCCAC 58.409 45.833 20.75 1.85 46.32 4.02
3436 11250 5.022122 AGAAGATCTCTCTCATTGTCCACA 58.978 41.667 0.00 0.00 0.00 4.17
3437 11251 4.734398 AGATCTCTCTCATTGTCCACAC 57.266 45.455 0.00 0.00 0.00 3.82
3438 11252 4.092279 AGATCTCTCTCATTGTCCACACA 58.908 43.478 0.00 0.00 0.00 3.72
3439 11253 3.949842 TCTCTCTCATTGTCCACACAG 57.050 47.619 0.00 0.00 32.71 3.66
3440 11254 3.500343 TCTCTCTCATTGTCCACACAGA 58.500 45.455 0.00 0.00 32.71 3.41
3441 11255 3.256879 TCTCTCTCATTGTCCACACAGAC 59.743 47.826 0.00 0.00 37.28 3.51
3442 11256 2.300152 TCTCTCATTGTCCACACAGACC 59.700 50.000 0.00 0.00 35.83 3.85
3443 11257 1.347707 TCTCATTGTCCACACAGACCC 59.652 52.381 0.00 0.00 35.83 4.46
3444 11258 1.349026 CTCATTGTCCACACAGACCCT 59.651 52.381 0.00 0.00 35.83 4.34
3445 11259 2.567169 CTCATTGTCCACACAGACCCTA 59.433 50.000 0.00 0.00 35.83 3.53
3446 11260 2.976185 TCATTGTCCACACAGACCCTAA 59.024 45.455 0.00 0.00 35.83 2.69
3447 11261 2.922740 TTGTCCACACAGACCCTAAC 57.077 50.000 0.00 0.00 35.83 2.34
3448 11262 2.097110 TGTCCACACAGACCCTAACT 57.903 50.000 0.00 0.00 35.83 2.24
3449 11263 3.247948 TGTCCACACAGACCCTAACTA 57.752 47.619 0.00 0.00 35.83 2.24
3450 11264 3.786553 TGTCCACACAGACCCTAACTAT 58.213 45.455 0.00 0.00 35.83 2.12
3451 11265 4.164981 TGTCCACACAGACCCTAACTATT 58.835 43.478 0.00 0.00 35.83 1.73
3452 11266 4.595781 TGTCCACACAGACCCTAACTATTT 59.404 41.667 0.00 0.00 35.83 1.40
3453 11267 5.781306 TGTCCACACAGACCCTAACTATTTA 59.219 40.000 0.00 0.00 35.83 1.40
3454 11268 6.104665 GTCCACACAGACCCTAACTATTTAC 58.895 44.000 0.00 0.00 0.00 2.01
3455 11269 5.188359 TCCACACAGACCCTAACTATTTACC 59.812 44.000 0.00 0.00 0.00 2.85
3456 11270 5.189145 CCACACAGACCCTAACTATTTACCT 59.811 44.000 0.00 0.00 0.00 3.08
3457 11271 6.296259 CCACACAGACCCTAACTATTTACCTT 60.296 42.308 0.00 0.00 0.00 3.50
3458 11272 7.166167 CACACAGACCCTAACTATTTACCTTT 58.834 38.462 0.00 0.00 0.00 3.11
3459 11273 7.664318 CACACAGACCCTAACTATTTACCTTTT 59.336 37.037 0.00 0.00 0.00 2.27
3460 11274 7.881751 ACACAGACCCTAACTATTTACCTTTTC 59.118 37.037 0.00 0.00 0.00 2.29
3461 11275 7.336176 CACAGACCCTAACTATTTACCTTTTCC 59.664 40.741 0.00 0.00 0.00 3.13
3462 11276 6.827251 CAGACCCTAACTATTTACCTTTTCCC 59.173 42.308 0.00 0.00 0.00 3.97
3463 11277 5.748402 ACCCTAACTATTTACCTTTTCCCG 58.252 41.667 0.00 0.00 0.00 5.14
3464 11278 5.251468 ACCCTAACTATTTACCTTTTCCCGT 59.749 40.000 0.00 0.00 0.00 5.28
3465 11279 5.819379 CCCTAACTATTTACCTTTTCCCGTC 59.181 44.000 0.00 0.00 0.00 4.79
3466 11280 5.521372 CCTAACTATTTACCTTTTCCCGTCG 59.479 44.000 0.00 0.00 0.00 5.12
3467 11281 3.865446 ACTATTTACCTTTTCCCGTCGG 58.135 45.455 3.60 3.60 0.00 4.79
3468 11282 3.515104 ACTATTTACCTTTTCCCGTCGGA 59.485 43.478 14.39 0.00 35.88 4.55
3469 11283 2.460757 TTTACCTTTTCCCGTCGGAG 57.539 50.000 14.39 1.22 40.10 4.63
3470 11284 1.631405 TTACCTTTTCCCGTCGGAGA 58.369 50.000 14.39 5.54 40.10 3.71
3471 11285 1.631405 TACCTTTTCCCGTCGGAGAA 58.369 50.000 14.39 11.77 40.10 2.87
3472 11286 0.320697 ACCTTTTCCCGTCGGAGAAG 59.679 55.000 14.39 12.73 45.78 2.85
3473 11287 0.320697 CCTTTTCCCGTCGGAGAAGT 59.679 55.000 14.39 0.00 45.09 3.01
3474 11288 1.270678 CCTTTTCCCGTCGGAGAAGTT 60.271 52.381 14.39 0.00 45.09 2.66
3475 11289 2.490991 CTTTTCCCGTCGGAGAAGTTT 58.509 47.619 14.39 0.00 42.75 2.66
3476 11290 3.555586 CCTTTTCCCGTCGGAGAAGTTTA 60.556 47.826 14.39 0.00 45.09 2.01
3477 11291 3.308438 TTTCCCGTCGGAGAAGTTTAG 57.692 47.619 14.39 0.00 40.10 1.85
3478 11292 0.529378 TCCCGTCGGAGAAGTTTAGC 59.471 55.000 14.39 0.00 39.69 3.09
3479 11293 0.801067 CCCGTCGGAGAAGTTTAGCG 60.801 60.000 14.39 0.00 39.69 4.26
3480 11294 1.411493 CCGTCGGAGAAGTTTAGCGC 61.411 60.000 4.91 0.00 39.69 5.92
3481 11295 0.456312 CGTCGGAGAAGTTTAGCGCT 60.456 55.000 17.26 17.26 39.69 5.92
3482 11296 0.992802 GTCGGAGAAGTTTAGCGCTG 59.007 55.000 22.90 0.00 39.69 5.18
3483 11297 0.736325 TCGGAGAAGTTTAGCGCTGC 60.736 55.000 22.90 10.35 0.00 5.25
3484 11298 0.737715 CGGAGAAGTTTAGCGCTGCT 60.738 55.000 22.90 12.68 43.41 4.24
3485 11299 1.443802 GGAGAAGTTTAGCGCTGCTT 58.556 50.000 22.90 20.40 40.44 3.91
3486 11300 2.618053 GGAGAAGTTTAGCGCTGCTTA 58.382 47.619 22.90 0.00 40.44 3.09
3487 11301 3.198872 GGAGAAGTTTAGCGCTGCTTAT 58.801 45.455 22.90 17.86 40.44 1.73
3488 11302 3.246463 GGAGAAGTTTAGCGCTGCTTATC 59.754 47.826 22.90 23.94 40.44 1.75
3489 11303 3.861840 AGAAGTTTAGCGCTGCTTATCA 58.138 40.909 22.90 0.00 40.44 2.15
3490 11304 4.253685 AGAAGTTTAGCGCTGCTTATCAA 58.746 39.130 22.90 0.17 40.44 2.57
3491 11305 4.331168 AGAAGTTTAGCGCTGCTTATCAAG 59.669 41.667 22.90 0.00 40.44 3.02
3492 11306 2.939103 AGTTTAGCGCTGCTTATCAAGG 59.061 45.455 22.90 0.00 40.44 3.61
3493 11307 2.936498 GTTTAGCGCTGCTTATCAAGGA 59.064 45.455 22.90 0.00 40.44 3.36
3502 11316 4.881019 TGCTTATCAAGGAGATAGAGCC 57.119 45.455 0.02 0.00 40.20 4.70
3503 11317 4.226384 TGCTTATCAAGGAGATAGAGCCA 58.774 43.478 0.02 0.00 40.20 4.75
3504 11318 4.039730 TGCTTATCAAGGAGATAGAGCCAC 59.960 45.833 0.02 0.00 40.20 5.01
3505 11319 4.283212 GCTTATCAAGGAGATAGAGCCACT 59.717 45.833 0.00 0.00 40.20 4.00
3506 11320 5.782047 CTTATCAAGGAGATAGAGCCACTG 58.218 45.833 0.00 0.00 40.20 3.66
3507 11321 3.388552 TCAAGGAGATAGAGCCACTGA 57.611 47.619 0.00 0.00 0.00 3.41
3508 11322 3.027412 TCAAGGAGATAGAGCCACTGAC 58.973 50.000 0.00 0.00 0.00 3.51
3509 11323 2.762887 CAAGGAGATAGAGCCACTGACA 59.237 50.000 0.00 0.00 0.00 3.58
3510 11324 3.326946 AGGAGATAGAGCCACTGACAT 57.673 47.619 0.00 0.00 0.00 3.06
3511 11325 4.461450 AGGAGATAGAGCCACTGACATA 57.539 45.455 0.00 0.00 0.00 2.29
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 2.685388 TGACAAATGCTTTTGGACGACA 59.315 40.909 24.08 14.50 45.34 4.35
1 2 3.347958 TGACAAATGCTTTTGGACGAC 57.652 42.857 24.08 12.71 45.34 4.34
2 3 3.490078 GGTTGACAAATGCTTTTGGACGA 60.490 43.478 24.08 15.91 45.34 4.20
3 4 2.794350 GGTTGACAAATGCTTTTGGACG 59.206 45.455 24.08 4.70 45.34 4.79
4 5 3.791245 TGGTTGACAAATGCTTTTGGAC 58.209 40.909 24.08 18.75 45.34 4.02
5 6 4.100653 TGATGGTTGACAAATGCTTTTGGA 59.899 37.500 24.08 11.13 45.34 3.53
6 7 4.378774 TGATGGTTGACAAATGCTTTTGG 58.621 39.130 24.08 10.23 45.34 3.28
7 8 5.697178 TCATGATGGTTGACAAATGCTTTTG 59.303 36.000 20.19 20.19 46.27 2.44
8 9 5.856156 TCATGATGGTTGACAAATGCTTTT 58.144 33.333 0.00 0.00 31.01 2.27
9 10 5.471556 TCATGATGGTTGACAAATGCTTT 57.528 34.783 0.00 0.00 31.01 3.51
10 11 5.471556 TTCATGATGGTTGACAAATGCTT 57.528 34.783 0.00 0.00 31.01 3.91
11 12 5.471556 TTTCATGATGGTTGACAAATGCT 57.528 34.783 0.00 0.00 31.01 3.79
12 13 6.542574 TTTTTCATGATGGTTGACAAATGC 57.457 33.333 0.00 0.00 31.01 3.56
42 43 5.817296 CCAATTAAAATCCTTTTGCCTAGGC 59.183 40.000 27.71 27.71 42.35 3.93
43 44 6.156083 TCCCAATTAAAATCCTTTTGCCTAGG 59.844 38.462 3.67 3.67 34.19 3.02
44 45 7.181569 TCCCAATTAAAATCCTTTTGCCTAG 57.818 36.000 0.00 0.00 34.19 3.02
45 46 7.747809 ATCCCAATTAAAATCCTTTTGCCTA 57.252 32.000 0.00 0.00 34.19 3.93
46 47 6.641161 ATCCCAATTAAAATCCTTTTGCCT 57.359 33.333 0.00 0.00 34.19 4.75
47 48 6.658816 ACAATCCCAATTAAAATCCTTTTGCC 59.341 34.615 0.00 0.00 34.19 4.52
48 49 7.686438 ACAATCCCAATTAAAATCCTTTTGC 57.314 32.000 0.00 0.00 34.19 3.68
66 67 6.980397 CACAAATTAGCTTGGGAATACAATCC 59.020 38.462 0.00 0.00 38.86 3.01
67 68 7.771183 TCACAAATTAGCTTGGGAATACAATC 58.229 34.615 0.00 0.00 35.78 2.67
68 69 7.716799 TCACAAATTAGCTTGGGAATACAAT 57.283 32.000 0.00 0.00 35.78 2.71
69 70 7.615365 AGATCACAAATTAGCTTGGGAATACAA 59.385 33.333 0.00 0.00 41.90 2.41
70 71 7.118723 AGATCACAAATTAGCTTGGGAATACA 58.881 34.615 0.00 0.00 41.90 2.29
71 72 7.573968 AGATCACAAATTAGCTTGGGAATAC 57.426 36.000 0.00 0.00 41.90 1.89
72 73 8.469200 CAAAGATCACAAATTAGCTTGGGAATA 58.531 33.333 0.00 0.00 41.90 1.75
73 74 7.178983 TCAAAGATCACAAATTAGCTTGGGAAT 59.821 33.333 0.00 0.00 41.90 3.01
74 75 6.493115 TCAAAGATCACAAATTAGCTTGGGAA 59.507 34.615 0.00 0.00 41.90 3.97
75 76 6.009589 TCAAAGATCACAAATTAGCTTGGGA 58.990 36.000 0.00 0.00 42.75 4.37
76 77 6.095377 GTCAAAGATCACAAATTAGCTTGGG 58.905 40.000 0.00 0.00 0.00 4.12
77 78 6.071728 AGGTCAAAGATCACAAATTAGCTTGG 60.072 38.462 0.00 0.00 0.00 3.61
78 79 6.805271 CAGGTCAAAGATCACAAATTAGCTTG 59.195 38.462 0.00 0.00 0.00 4.01
79 80 6.716628 TCAGGTCAAAGATCACAAATTAGCTT 59.283 34.615 0.00 0.00 0.00 3.74
80 81 6.240894 TCAGGTCAAAGATCACAAATTAGCT 58.759 36.000 0.00 0.00 0.00 3.32
81 82 6.372659 TCTCAGGTCAAAGATCACAAATTAGC 59.627 38.462 0.00 0.00 0.00 3.09
82 83 7.912056 TCTCAGGTCAAAGATCACAAATTAG 57.088 36.000 0.00 0.00 0.00 1.73
83 84 8.733458 CAATCTCAGGTCAAAGATCACAAATTA 58.267 33.333 0.00 0.00 31.03 1.40
84 85 7.600065 CAATCTCAGGTCAAAGATCACAAATT 58.400 34.615 0.00 0.00 31.03 1.82
85 86 6.349944 GCAATCTCAGGTCAAAGATCACAAAT 60.350 38.462 0.00 0.00 31.03 2.32
86 87 5.048504 GCAATCTCAGGTCAAAGATCACAAA 60.049 40.000 0.00 0.00 31.03 2.83
87 88 4.456911 GCAATCTCAGGTCAAAGATCACAA 59.543 41.667 0.00 0.00 31.03 3.33
88 89 4.005650 GCAATCTCAGGTCAAAGATCACA 58.994 43.478 0.00 0.00 31.03 3.58
89 90 4.260170 AGCAATCTCAGGTCAAAGATCAC 58.740 43.478 0.00 0.00 31.03 3.06
90 91 4.564782 AGCAATCTCAGGTCAAAGATCA 57.435 40.909 0.00 0.00 31.03 2.92
91 92 5.647225 AGAAAGCAATCTCAGGTCAAAGATC 59.353 40.000 0.00 0.00 31.03 2.75
92 93 5.568392 AGAAAGCAATCTCAGGTCAAAGAT 58.432 37.500 0.00 0.00 33.67 2.40
93 94 4.978099 AGAAAGCAATCTCAGGTCAAAGA 58.022 39.130 0.00 0.00 0.00 2.52
94 95 4.155644 GGAGAAAGCAATCTCAGGTCAAAG 59.844 45.833 17.37 0.00 46.24 2.77
95 96 4.074970 GGAGAAAGCAATCTCAGGTCAAA 58.925 43.478 17.37 0.00 46.24 2.69
96 97 3.679389 GGAGAAAGCAATCTCAGGTCAA 58.321 45.455 17.37 0.00 46.24 3.18
97 98 2.354103 CGGAGAAAGCAATCTCAGGTCA 60.354 50.000 17.37 0.00 46.24 4.02
98 99 2.093973 TCGGAGAAAGCAATCTCAGGTC 60.094 50.000 17.37 3.06 46.24 3.85
99 100 1.902508 TCGGAGAAAGCAATCTCAGGT 59.097 47.619 17.37 0.00 46.24 4.00
100 101 2.548875 CTCGGAGAAAGCAATCTCAGG 58.451 52.381 17.37 10.38 46.24 3.86
101 102 2.167281 TCCTCGGAGAAAGCAATCTCAG 59.833 50.000 17.37 14.21 46.24 3.35
102 103 2.167281 CTCCTCGGAGAAAGCAATCTCA 59.833 50.000 17.37 1.30 46.24 3.27
103 104 2.482839 CCTCCTCGGAGAAAGCAATCTC 60.483 54.545 14.45 9.60 44.53 2.75
104 105 1.484240 CCTCCTCGGAGAAAGCAATCT 59.516 52.381 14.45 0.00 44.53 2.40
173 174 6.855763 AGAAAGCATTAATGAACCCATCAA 57.144 33.333 19.73 0.00 42.54 2.57
202 203 2.221981 GCTTGACAATATCCTAGCACGC 59.778 50.000 0.00 0.00 35.24 5.34
208 209 5.129320 TGAGAAGCAGCTTGACAATATCCTA 59.871 40.000 13.91 0.00 0.00 2.94
265 266 4.019501 GGGATGAGAGCAGTATTGATGGAT 60.020 45.833 0.00 0.00 0.00 3.41
275 276 3.328931 TCTTTCTTTGGGATGAGAGCAGT 59.671 43.478 0.00 0.00 0.00 4.40
277 278 4.267536 CATCTTTCTTTGGGATGAGAGCA 58.732 43.478 0.00 0.00 39.12 4.26
304 306 6.145338 TGGTCCGTAGTTTGAGATATCTTC 57.855 41.667 6.70 1.22 0.00 2.87
322 324 4.021981 GGCATAAATGAGGCTTATTGGTCC 60.022 45.833 5.17 1.97 34.44 4.46
363 365 4.625800 GCGAGAGGCCAACATCTT 57.374 55.556 5.01 0.00 34.80 2.40
405 409 0.173255 GCACTCTGAGCTGAGGAGAC 59.827 60.000 4.19 0.00 38.32 3.36
463 467 3.985019 TTTGGCGAGGTTCCTAACATA 57.015 42.857 0.00 0.00 0.00 2.29
483 487 1.874872 GTTTTGTTGCAATGCAGCCAT 59.125 42.857 18.92 0.00 40.61 4.40
665 669 1.002746 TGGCATGTCGCTTGGCTTA 60.003 52.632 15.71 0.59 41.91 3.09
666 670 2.282391 TGGCATGTCGCTTGGCTT 60.282 55.556 15.71 0.00 41.91 4.35
714 718 2.357517 AGCACGTTCCTTGGCTCG 60.358 61.111 0.00 0.00 28.71 5.03
851 1917 1.944676 GCCGTTAGATGGTCTCGCG 60.945 63.158 0.00 0.00 0.00 5.87
928 1995 5.737290 CCGGAATTTTATGCACGTTTAGAAG 59.263 40.000 0.00 0.00 0.00 2.85
1305 2382 3.074281 CCGGCCTTGAAGTACCCA 58.926 61.111 0.00 0.00 0.00 4.51
1437 2514 1.503542 CGGCATCACCTCAAACAGC 59.496 57.895 0.00 0.00 35.61 4.40
1560 2637 1.141665 CATCGCCGTCCATGAGACA 59.858 57.895 12.80 0.00 46.69 3.41
1782 2859 4.351938 TCGTCCACGTTCCCAGCG 62.352 66.667 0.00 0.00 40.80 5.18
1920 2997 2.668550 GCGGCGTCCCTGTTTTCT 60.669 61.111 9.37 0.00 0.00 2.52
2203 3280 2.262915 CAGGAGACCTCGTGTGGC 59.737 66.667 10.57 0.00 39.75 5.01
2252 3329 2.499693 TCACCGCTCCTTGAATACATGA 59.500 45.455 0.00 0.00 0.00 3.07
2283 3360 1.933247 TTTTGAAAACTTGCCAGGCG 58.067 45.000 7.03 0.00 0.00 5.52
2505 3616 2.478514 CGCCCACCATTGTTTTTAAAGC 59.521 45.455 0.00 0.00 0.00 3.51
2506 3617 3.983741 TCGCCCACCATTGTTTTTAAAG 58.016 40.909 0.00 0.00 0.00 1.85
2507 3618 4.372656 CTTCGCCCACCATTGTTTTTAAA 58.627 39.130 0.00 0.00 0.00 1.52
2508 3619 3.800604 GCTTCGCCCACCATTGTTTTTAA 60.801 43.478 0.00 0.00 0.00 1.52
2509 3620 2.288518 GCTTCGCCCACCATTGTTTTTA 60.289 45.455 0.00 0.00 0.00 1.52
2510 3621 1.540146 GCTTCGCCCACCATTGTTTTT 60.540 47.619 0.00 0.00 0.00 1.94
2511 3622 0.033366 GCTTCGCCCACCATTGTTTT 59.967 50.000 0.00 0.00 0.00 2.43
2512 3623 0.827507 AGCTTCGCCCACCATTGTTT 60.828 50.000 0.00 0.00 0.00 2.83
2513 3624 1.228552 AGCTTCGCCCACCATTGTT 60.229 52.632 0.00 0.00 0.00 2.83
2525 3777 2.483876 TCACACTTTGGAAGAGCTTCG 58.516 47.619 4.32 0.00 40.37 3.79
2542 3794 0.984230 TGAACCAGAGGGACCATCAC 59.016 55.000 9.17 0.00 38.05 3.06
2546 3798 0.401395 AACCTGAACCAGAGGGACCA 60.401 55.000 0.00 0.00 38.05 4.02
2594 3846 0.817634 TCCCACCTGACGCAAACAAG 60.818 55.000 0.00 0.00 0.00 3.16
2595 3847 0.179004 ATCCCACCTGACGCAAACAA 60.179 50.000 0.00 0.00 0.00 2.83
2695 3947 3.508840 GCGGGTCCTTTGCATCCG 61.509 66.667 0.00 0.00 43.13 4.18
2715 3967 5.946942 TGCATCTTATCCTTGAGAAGAGT 57.053 39.130 7.19 0.00 42.00 3.24
2800 7697 2.744202 CAGCTCACACTGTTACAATCCC 59.256 50.000 0.00 0.00 32.78 3.85
2853 7759 8.848474 TTACCCTAAAAGTTCAAAGAGATCAG 57.152 34.615 0.00 0.00 0.00 2.90
2867 7773 8.768955 CATCAAAGAGATCGATTACCCTAAAAG 58.231 37.037 0.00 0.00 33.72 2.27
2905 7816 0.465460 AAGCATTGTGTGTGGGACGT 60.465 50.000 0.00 0.00 0.00 4.34
2963 7943 1.059913 CCTTCACCAGAGGGACAAGT 58.940 55.000 0.00 0.00 43.42 3.16
2974 7954 8.145122 GGTATTTTGTTAAATTCACCTTCACCA 58.855 33.333 0.00 0.00 35.61 4.17
3103 10808 4.996788 ATGGAGCAAAATGAGTGAATCC 57.003 40.909 0.00 0.00 0.00 3.01
3152 10950 5.556006 CCCCCGTTCCTAAATATAAGTCA 57.444 43.478 0.00 0.00 0.00 3.41
3172 10971 2.677325 GCGTTCCTCTTTTCTACTCCCC 60.677 54.545 0.00 0.00 0.00 4.81
3340 11152 1.681264 CACCTCCACCAAAAGTGTTCC 59.319 52.381 0.00 0.00 45.74 3.62
3341 11153 1.067060 GCACCTCCACCAAAAGTGTTC 59.933 52.381 0.00 0.00 45.74 3.18
3342 11154 1.111277 GCACCTCCACCAAAAGTGTT 58.889 50.000 0.00 0.00 45.74 3.32
3343 11155 0.258774 AGCACCTCCACCAAAAGTGT 59.741 50.000 0.00 0.00 45.74 3.55
3344 11156 0.670162 CAGCACCTCCACCAAAAGTG 59.330 55.000 0.00 0.00 46.83 3.16
3345 11157 0.468029 CCAGCACCTCCACCAAAAGT 60.468 55.000 0.00 0.00 0.00 2.66
3346 11158 0.178992 TCCAGCACCTCCACCAAAAG 60.179 55.000 0.00 0.00 0.00 2.27
3348 11160 1.059584 TCTCCAGCACCTCCACCAAA 61.060 55.000 0.00 0.00 0.00 3.28
3349 11161 1.461268 TCTCCAGCACCTCCACCAA 60.461 57.895 0.00 0.00 0.00 3.67
3352 11164 1.915769 AGGTCTCCAGCACCTCCAC 60.916 63.158 0.00 0.00 40.54 4.02
3353 11165 2.533435 AGGTCTCCAGCACCTCCA 59.467 61.111 0.00 0.00 40.54 3.86
3368 11180 0.385390 GCCAACAAACCACAGTGAGG 59.615 55.000 4.89 4.89 0.00 3.86
3376 11188 4.125703 GTTCATTGATTGCCAACAAACCA 58.874 39.130 0.00 0.00 39.77 3.67
3378 11190 5.049167 TGAGTTCATTGATTGCCAACAAAC 58.951 37.500 0.00 0.00 39.77 2.93
3396 11208 4.965814 TCTTCTCATGCTTTGTCTGAGTT 58.034 39.130 0.00 0.00 38.05 3.01
3398 11210 5.421277 AGATCTTCTCATGCTTTGTCTGAG 58.579 41.667 0.00 0.00 38.18 3.35
3418 11232 4.081752 GTCTGTGTGGACAATGAGAGAGAT 60.082 45.833 0.00 0.00 36.35 2.75
3423 11237 1.347707 GGGTCTGTGTGGACAATGAGA 59.652 52.381 0.00 0.00 37.91 3.27
3424 11238 1.349026 AGGGTCTGTGTGGACAATGAG 59.651 52.381 0.00 0.00 37.91 2.90
3425 11239 1.434188 AGGGTCTGTGTGGACAATGA 58.566 50.000 0.00 0.00 37.91 2.57
3426 11240 3.074412 GTTAGGGTCTGTGTGGACAATG 58.926 50.000 0.00 0.00 37.91 2.82
3427 11241 2.979678 AGTTAGGGTCTGTGTGGACAAT 59.020 45.455 0.00 0.00 37.91 2.71
3428 11242 2.404559 AGTTAGGGTCTGTGTGGACAA 58.595 47.619 0.00 0.00 37.91 3.18
3429 11243 2.097110 AGTTAGGGTCTGTGTGGACA 57.903 50.000 0.00 0.00 37.91 4.02
3430 11244 4.820894 AATAGTTAGGGTCTGTGTGGAC 57.179 45.455 0.00 0.00 35.66 4.02
3431 11245 5.188359 GGTAAATAGTTAGGGTCTGTGTGGA 59.812 44.000 0.00 0.00 0.00 4.02
3432 11246 5.189145 AGGTAAATAGTTAGGGTCTGTGTGG 59.811 44.000 0.00 0.00 0.00 4.17
3433 11247 6.295719 AGGTAAATAGTTAGGGTCTGTGTG 57.704 41.667 0.00 0.00 0.00 3.82
3434 11248 6.947376 AAGGTAAATAGTTAGGGTCTGTGT 57.053 37.500 0.00 0.00 0.00 3.72
3435 11249 7.336176 GGAAAAGGTAAATAGTTAGGGTCTGTG 59.664 40.741 0.00 0.00 0.00 3.66
3436 11250 7.400439 GGAAAAGGTAAATAGTTAGGGTCTGT 58.600 38.462 0.00 0.00 0.00 3.41
3437 11251 6.827251 GGGAAAAGGTAAATAGTTAGGGTCTG 59.173 42.308 0.00 0.00 0.00 3.51
3438 11252 6.352479 CGGGAAAAGGTAAATAGTTAGGGTCT 60.352 42.308 0.00 0.00 0.00 3.85
3439 11253 5.819379 CGGGAAAAGGTAAATAGTTAGGGTC 59.181 44.000 0.00 0.00 0.00 4.46
3440 11254 5.251468 ACGGGAAAAGGTAAATAGTTAGGGT 59.749 40.000 0.00 0.00 0.00 4.34
3441 11255 5.748402 ACGGGAAAAGGTAAATAGTTAGGG 58.252 41.667 0.00 0.00 0.00 3.53
3442 11256 5.521372 CGACGGGAAAAGGTAAATAGTTAGG 59.479 44.000 0.00 0.00 0.00 2.69
3443 11257 5.521372 CCGACGGGAAAAGGTAAATAGTTAG 59.479 44.000 5.81 0.00 34.06 2.34
3444 11258 5.186797 TCCGACGGGAAAAGGTAAATAGTTA 59.813 40.000 15.25 0.00 40.15 2.24
3445 11259 4.020307 TCCGACGGGAAAAGGTAAATAGTT 60.020 41.667 15.25 0.00 40.15 2.24
3446 11260 3.515104 TCCGACGGGAAAAGGTAAATAGT 59.485 43.478 15.25 0.00 40.15 2.12
3447 11261 4.117685 CTCCGACGGGAAAAGGTAAATAG 58.882 47.826 15.25 0.00 43.27 1.73
3448 11262 3.768757 TCTCCGACGGGAAAAGGTAAATA 59.231 43.478 15.25 0.00 43.27 1.40
3449 11263 2.568509 TCTCCGACGGGAAAAGGTAAAT 59.431 45.455 15.25 0.00 43.27 1.40
3450 11264 1.969923 TCTCCGACGGGAAAAGGTAAA 59.030 47.619 15.25 0.00 43.27 2.01
3451 11265 1.631405 TCTCCGACGGGAAAAGGTAA 58.369 50.000 15.25 0.00 43.27 2.85
3452 11266 1.547372 CTTCTCCGACGGGAAAAGGTA 59.453 52.381 15.25 0.00 43.27 3.08
3453 11267 0.320697 CTTCTCCGACGGGAAAAGGT 59.679 55.000 15.25 0.00 43.27 3.50
3454 11268 0.320697 ACTTCTCCGACGGGAAAAGG 59.679 55.000 15.25 7.50 43.49 3.11
3455 11269 2.165319 AACTTCTCCGACGGGAAAAG 57.835 50.000 15.25 16.34 44.54 2.27
3456 11270 2.625695 AAACTTCTCCGACGGGAAAA 57.374 45.000 15.25 5.26 43.27 2.29
3457 11271 2.611224 GCTAAACTTCTCCGACGGGAAA 60.611 50.000 15.25 7.82 43.27 3.13
3458 11272 1.067354 GCTAAACTTCTCCGACGGGAA 60.067 52.381 15.25 14.79 43.27 3.97
3459 11273 0.529378 GCTAAACTTCTCCGACGGGA 59.471 55.000 15.25 7.53 41.08 5.14
3460 11274 0.801067 CGCTAAACTTCTCCGACGGG 60.801 60.000 15.25 4.97 0.00 5.28
3461 11275 1.411493 GCGCTAAACTTCTCCGACGG 61.411 60.000 7.84 7.84 0.00 4.79
3462 11276 0.456312 AGCGCTAAACTTCTCCGACG 60.456 55.000 8.99 0.00 0.00 5.12
3463 11277 0.992802 CAGCGCTAAACTTCTCCGAC 59.007 55.000 10.99 0.00 0.00 4.79
3464 11278 0.736325 GCAGCGCTAAACTTCTCCGA 60.736 55.000 10.99 0.00 0.00 4.55
3465 11279 0.737715 AGCAGCGCTAAACTTCTCCG 60.738 55.000 10.99 0.00 36.99 4.63
3466 11280 1.443802 AAGCAGCGCTAAACTTCTCC 58.556 50.000 10.99 0.00 38.25 3.71
3467 11281 3.865745 TGATAAGCAGCGCTAAACTTCTC 59.134 43.478 19.21 18.49 38.25 2.87
3468 11282 3.861840 TGATAAGCAGCGCTAAACTTCT 58.138 40.909 19.21 12.08 38.25 2.85
3469 11283 4.494855 CCTTGATAAGCAGCGCTAAACTTC 60.495 45.833 19.21 11.14 38.25 3.01
3470 11284 3.375299 CCTTGATAAGCAGCGCTAAACTT 59.625 43.478 10.99 16.70 38.25 2.66
3471 11285 2.939103 CCTTGATAAGCAGCGCTAAACT 59.061 45.455 10.99 5.07 38.25 2.66
3472 11286 2.936498 TCCTTGATAAGCAGCGCTAAAC 59.064 45.455 10.99 2.19 38.25 2.01
3473 11287 3.118775 TCTCCTTGATAAGCAGCGCTAAA 60.119 43.478 10.99 0.00 38.25 1.85
3474 11288 2.430694 TCTCCTTGATAAGCAGCGCTAA 59.569 45.455 10.99 0.00 38.25 3.09
3475 11289 2.031870 TCTCCTTGATAAGCAGCGCTA 58.968 47.619 10.99 0.00 38.25 4.26
3476 11290 0.826715 TCTCCTTGATAAGCAGCGCT 59.173 50.000 2.64 2.64 42.56 5.92
3477 11291 1.876322 ATCTCCTTGATAAGCAGCGC 58.124 50.000 0.00 0.00 32.79 5.92
3478 11292 4.484236 CTCTATCTCCTTGATAAGCAGCG 58.516 47.826 0.00 0.00 37.22 5.18
3479 11293 4.244862 GCTCTATCTCCTTGATAAGCAGC 58.755 47.826 0.00 0.00 39.18 5.25
3480 11294 4.282957 TGGCTCTATCTCCTTGATAAGCAG 59.717 45.833 14.89 0.00 40.02 4.24
3481 11295 4.039730 GTGGCTCTATCTCCTTGATAAGCA 59.960 45.833 14.89 0.00 40.02 3.91
3482 11296 4.283212 AGTGGCTCTATCTCCTTGATAAGC 59.717 45.833 0.00 0.00 38.95 3.09
3483 11297 5.538053 TCAGTGGCTCTATCTCCTTGATAAG 59.462 44.000 0.00 0.00 37.22 1.73
3484 11298 5.303078 GTCAGTGGCTCTATCTCCTTGATAA 59.697 44.000 0.00 0.00 37.22 1.75
3485 11299 4.830046 GTCAGTGGCTCTATCTCCTTGATA 59.170 45.833 0.00 0.00 36.65 2.15
3486 11300 3.640967 GTCAGTGGCTCTATCTCCTTGAT 59.359 47.826 0.00 0.00 39.11 2.57
3487 11301 3.027412 GTCAGTGGCTCTATCTCCTTGA 58.973 50.000 0.00 0.00 0.00 3.02
3488 11302 2.762887 TGTCAGTGGCTCTATCTCCTTG 59.237 50.000 0.00 0.00 0.00 3.61
3489 11303 3.107402 TGTCAGTGGCTCTATCTCCTT 57.893 47.619 0.00 0.00 0.00 3.36
3490 11304 2.836636 TGTCAGTGGCTCTATCTCCT 57.163 50.000 0.00 0.00 0.00 3.69


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

AutoCloner maintained by Alex Coulton.