Multiple sequence alignment - TraesCS2D01G447300

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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 TraesCS2D01G447300 chr2D 100.000 2531 0 0 1 2531 557174428 557171898 0.000000e+00 4674.0
1 TraesCS2D01G447300 chr2B 88.626 1943 110 50 641 2517 664414184 664412287 0.000000e+00 2261.0
2 TraesCS2D01G447300 chr2B 86.307 241 28 3 413 648 664429347 664429107 8.980000e-65 257.0
3 TraesCS2D01G447300 chr2B 95.455 44 2 0 990 1033 682194735 682194692 1.260000e-08 71.3
4 TraesCS2D01G447300 chr2B 100.000 37 0 0 1008 1044 682194268 682194232 4.520000e-08 69.4
5 TraesCS2D01G447300 chr2B 97.059 34 0 1 1 33 100739152 100739185 3.520000e-04 56.5
6 TraesCS2D01G447300 chr2A 89.245 1060 55 22 762 1798 697094790 697093767 0.000000e+00 1271.0
7 TraesCS2D01G447300 chr2A 89.564 642 32 9 1866 2497 697093767 697093151 0.000000e+00 782.0
8 TraesCS2D01G447300 chr2A 83.673 588 86 10 99 680 697095534 697094951 1.710000e-151 545.0
9 TraesCS2D01G447300 chr2A 89.474 57 2 2 707 763 697094863 697094811 4.520000e-08 69.4
10 TraesCS2D01G447300 chr2A 94.595 37 0 2 1 35 83104679 83104715 3.520000e-04 56.5
11 TraesCS2D01G447300 chr4B 92.414 145 11 0 1270 1414 216840015 216840159 9.180000e-50 207.0
12 TraesCS2D01G447300 chr3D 97.222 36 0 1 1 35 148502906 148502941 2.720000e-05 60.2
13 TraesCS2D01G447300 chr3D 96.970 33 1 0 1 33 516207444 516207412 3.520000e-04 56.5
14 TraesCS2D01G447300 chr1B 100.000 32 0 0 1 32 469501924 469501893 2.720000e-05 60.2
15 TraesCS2D01G447300 chr6D 100.000 31 0 0 1 31 69224885 69224855 9.780000e-05 58.4
16 TraesCS2D01G447300 chr7A 96.970 33 1 0 1 33 275699179 275699147 3.520000e-04 56.5
17 TraesCS2D01G447300 chr5B 97.059 34 0 1 1 34 228619720 228619752 3.520000e-04 56.5
18 TraesCS2D01G447300 chr5A 100.000 30 0 0 1 30 475194696 475194725 3.520000e-04 56.5


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 TraesCS2D01G447300 chr2D 557171898 557174428 2530 True 4674.00 4674 100.000 1 2531 1 chr2D.!!$R1 2530
1 TraesCS2D01G447300 chr2B 664412287 664414184 1897 True 2261.00 2261 88.626 641 2517 1 chr2B.!!$R1 1876
2 TraesCS2D01G447300 chr2A 697093151 697095534 2383 True 666.85 1271 87.989 99 2497 4 chr2A.!!$R1 2398

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
56 57 0.028902 GTCACGGTTGTTGGCAAGAC 59.971 55.0 0.0 2.35 34.94 3.01 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1818 1949 0.1791 CGAGATGCGTCACTGGGATT 60.179 55.0 8.99 0.0 34.64 3.01 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
21 22 4.982241 CCTCTAGGGCATATTTCCTTCA 57.018 45.455 0.00 0.00 34.75 3.02
22 23 5.511386 CCTCTAGGGCATATTTCCTTCAT 57.489 43.478 0.00 0.00 34.75 2.57
23 24 5.495640 CCTCTAGGGCATATTTCCTTCATC 58.504 45.833 0.00 0.00 34.75 2.92
24 25 5.013495 CCTCTAGGGCATATTTCCTTCATCA 59.987 44.000 0.00 0.00 34.75 3.07
25 26 6.296894 CCTCTAGGGCATATTTCCTTCATCAT 60.297 42.308 0.00 0.00 34.75 2.45
26 27 6.715280 TCTAGGGCATATTTCCTTCATCATC 58.285 40.000 0.00 0.00 34.75 2.92
27 28 5.329191 AGGGCATATTTCCTTCATCATCA 57.671 39.130 0.00 0.00 0.00 3.07
28 29 5.900437 AGGGCATATTTCCTTCATCATCAT 58.100 37.500 0.00 0.00 0.00 2.45
29 30 5.950549 AGGGCATATTTCCTTCATCATCATC 59.049 40.000 0.00 0.00 0.00 2.92
30 31 5.950549 GGGCATATTTCCTTCATCATCATCT 59.049 40.000 0.00 0.00 0.00 2.90
31 32 6.095160 GGGCATATTTCCTTCATCATCATCTC 59.905 42.308 0.00 0.00 0.00 2.75
32 33 6.095160 GGCATATTTCCTTCATCATCATCTCC 59.905 42.308 0.00 0.00 0.00 3.71
33 34 6.095160 GCATATTTCCTTCATCATCATCTCCC 59.905 42.308 0.00 0.00 0.00 4.30
34 35 4.443978 TTTCCTTCATCATCATCTCCCC 57.556 45.455 0.00 0.00 0.00 4.81
35 36 2.342659 TCCTTCATCATCATCTCCCCC 58.657 52.381 0.00 0.00 0.00 5.40
36 37 2.089753 TCCTTCATCATCATCTCCCCCT 60.090 50.000 0.00 0.00 0.00 4.79
37 38 2.040012 CCTTCATCATCATCTCCCCCTG 59.960 54.545 0.00 0.00 0.00 4.45
38 39 2.502068 TCATCATCATCTCCCCCTGT 57.498 50.000 0.00 0.00 0.00 4.00
39 40 2.333069 TCATCATCATCTCCCCCTGTC 58.667 52.381 0.00 0.00 0.00 3.51
40 41 2.052468 CATCATCATCTCCCCCTGTCA 58.948 52.381 0.00 0.00 0.00 3.58
41 42 1.500474 TCATCATCTCCCCCTGTCAC 58.500 55.000 0.00 0.00 0.00 3.67
42 43 0.105593 CATCATCTCCCCCTGTCACG 59.894 60.000 0.00 0.00 0.00 4.35
43 44 1.050988 ATCATCTCCCCCTGTCACGG 61.051 60.000 0.00 0.00 0.00 4.94
44 45 1.990060 CATCTCCCCCTGTCACGGT 60.990 63.158 0.00 0.00 0.00 4.83
45 46 1.229529 ATCTCCCCCTGTCACGGTT 60.230 57.895 0.00 0.00 0.00 4.44
46 47 1.553690 ATCTCCCCCTGTCACGGTTG 61.554 60.000 0.00 0.00 0.00 3.77
47 48 2.446994 TCCCCCTGTCACGGTTGT 60.447 61.111 0.00 0.00 0.00 3.32
48 49 2.052047 CTCCCCCTGTCACGGTTGTT 62.052 60.000 0.00 0.00 0.00 2.83
49 50 1.896660 CCCCCTGTCACGGTTGTTG 60.897 63.158 0.00 0.00 0.00 3.33
50 51 1.896660 CCCCTGTCACGGTTGTTGG 60.897 63.158 0.00 0.00 0.00 3.77
51 52 2.551912 CCCTGTCACGGTTGTTGGC 61.552 63.158 0.00 0.00 0.00 4.52
52 53 1.821759 CCTGTCACGGTTGTTGGCA 60.822 57.895 0.00 0.00 0.00 4.92
53 54 1.380403 CCTGTCACGGTTGTTGGCAA 61.380 55.000 0.00 0.00 0.00 4.52
54 55 0.029300 CTGTCACGGTTGTTGGCAAG 59.971 55.000 0.00 0.00 34.94 4.01
55 56 0.393132 TGTCACGGTTGTTGGCAAGA 60.393 50.000 0.00 0.00 34.94 3.02
56 57 0.028902 GTCACGGTTGTTGGCAAGAC 59.971 55.000 0.00 2.35 34.94 3.01
57 58 1.010125 CACGGTTGTTGGCAAGACG 60.010 57.895 0.00 2.68 40.06 4.18
58 59 2.184167 ACGGTTGTTGGCAAGACGG 61.184 57.895 0.00 9.66 39.17 4.79
59 60 2.903547 CGGTTGTTGGCAAGACGGG 61.904 63.158 0.00 0.00 34.94 5.28
60 61 2.561037 GGTTGTTGGCAAGACGGGG 61.561 63.158 0.00 0.00 34.94 5.73
61 62 1.527380 GTTGTTGGCAAGACGGGGA 60.527 57.895 0.00 0.00 34.94 4.81
62 63 1.104577 GTTGTTGGCAAGACGGGGAA 61.105 55.000 0.00 0.00 34.94 3.97
63 64 0.178975 TTGTTGGCAAGACGGGGAAT 60.179 50.000 0.00 0.00 0.00 3.01
64 65 0.693622 TGTTGGCAAGACGGGGAATA 59.306 50.000 0.00 0.00 0.00 1.75
65 66 1.092348 GTTGGCAAGACGGGGAATAC 58.908 55.000 0.00 0.00 0.00 1.89
66 67 0.693622 TTGGCAAGACGGGGAATACA 59.306 50.000 0.00 0.00 0.00 2.29
67 68 0.035820 TGGCAAGACGGGGAATACAC 60.036 55.000 0.00 0.00 0.00 2.90
68 69 0.746923 GGCAAGACGGGGAATACACC 60.747 60.000 0.00 0.00 35.98 4.16
79 80 3.775661 GGAATACACCCAAAACCGATG 57.224 47.619 0.00 0.00 0.00 3.84
80 81 3.086282 GGAATACACCCAAAACCGATGT 58.914 45.455 0.00 0.00 0.00 3.06
81 82 3.119637 GGAATACACCCAAAACCGATGTG 60.120 47.826 0.00 0.00 0.00 3.21
82 83 1.898902 TACACCCAAAACCGATGTGG 58.101 50.000 0.00 0.00 46.41 4.17
91 92 2.751436 CCGATGTGGTGCCCCTTG 60.751 66.667 0.00 0.00 0.00 3.61
92 93 2.751436 CGATGTGGTGCCCCTTGG 60.751 66.667 0.00 0.00 0.00 3.61
94 95 3.963124 GATGTGGTGCCCCTTGGGG 62.963 68.421 20.18 20.18 44.57 4.96
112 113 1.068125 GGGATAACAACCGCACCAAAC 60.068 52.381 0.00 0.00 0.00 2.93
120 122 3.669344 CGCACCAAACCACGGCAT 61.669 61.111 0.00 0.00 0.00 4.40
158 160 1.966451 GGGAGTGTTGGTTGGCTCG 60.966 63.158 0.00 0.00 0.00 5.03
159 161 1.966451 GGAGTGTTGGTTGGCTCGG 60.966 63.158 0.00 0.00 0.00 4.63
160 162 1.227853 GAGTGTTGGTTGGCTCGGT 60.228 57.895 0.00 0.00 0.00 4.69
161 163 0.034337 GAGTGTTGGTTGGCTCGGTA 59.966 55.000 0.00 0.00 0.00 4.02
162 164 0.690762 AGTGTTGGTTGGCTCGGTAT 59.309 50.000 0.00 0.00 0.00 2.73
164 166 1.199097 GTGTTGGTTGGCTCGGTATTG 59.801 52.381 0.00 0.00 0.00 1.90
165 167 1.202830 TGTTGGTTGGCTCGGTATTGT 60.203 47.619 0.00 0.00 0.00 2.71
169 171 2.294791 TGGTTGGCTCGGTATTGTTTTG 59.705 45.455 0.00 0.00 0.00 2.44
171 173 2.279935 TGGCTCGGTATTGTTTTGGT 57.720 45.000 0.00 0.00 0.00 3.67
172 174 1.883275 TGGCTCGGTATTGTTTTGGTG 59.117 47.619 0.00 0.00 0.00 4.17
173 175 1.402325 GGCTCGGTATTGTTTTGGTGC 60.402 52.381 0.00 0.00 0.00 5.01
175 177 2.287909 GCTCGGTATTGTTTTGGTGCAA 60.288 45.455 0.00 0.00 0.00 4.08
184 186 4.364415 TGTTTTGGTGCAACTACTTGTC 57.636 40.909 2.04 0.00 36.74 3.18
187 189 2.605837 TGGTGCAACTACTTGTCGAA 57.394 45.000 2.04 0.00 36.74 3.71
206 208 2.214376 AGGCATGATTCGGTTTTCCA 57.786 45.000 0.00 0.00 40.70 3.53
213 215 1.818674 GATTCGGTTTTCCATGCTGGT 59.181 47.619 2.68 0.00 39.03 4.00
220 222 2.871633 GTTTTCCATGCTGGTGGTTTTG 59.128 45.455 2.68 0.00 39.03 2.44
222 224 1.786937 TCCATGCTGGTGGTTTTGTT 58.213 45.000 2.68 0.00 39.03 2.83
224 226 1.219646 CATGCTGGTGGTTTTGTTGC 58.780 50.000 0.00 0.00 0.00 4.17
250 252 1.081892 CGTTGGAGCTCCATCTTGTG 58.918 55.000 35.42 17.41 46.97 3.33
257 259 3.465871 GAGCTCCATCTTGTGATCTTCC 58.534 50.000 0.87 0.00 0.00 3.46
265 267 3.926616 TCTTGTGATCTTCCGAGTTTCC 58.073 45.455 0.00 0.00 0.00 3.13
275 277 2.106683 CGAGTTTCCCCCATGTCGC 61.107 63.158 0.00 0.00 0.00 5.19
279 281 1.923395 TTTCCCCCATGTCGCCTCT 60.923 57.895 0.00 0.00 0.00 3.69
280 282 0.619255 TTTCCCCCATGTCGCCTCTA 60.619 55.000 0.00 0.00 0.00 2.43
300 302 3.586430 GCATTTTGTTTGCCTCGGT 57.414 47.368 0.00 0.00 33.95 4.69
302 304 2.595386 GCATTTTGTTTGCCTCGGTAG 58.405 47.619 0.00 0.00 33.95 3.18
307 309 0.392461 TGTTTGCCTCGGTAGCATCC 60.392 55.000 0.00 0.00 40.59 3.51
311 313 0.760567 TGCCTCGGTAGCATCCATCT 60.761 55.000 0.00 0.00 34.69 2.90
313 315 1.202698 GCCTCGGTAGCATCCATCTTT 60.203 52.381 0.00 0.00 0.00 2.52
316 318 2.288666 TCGGTAGCATCCATCTTTTGC 58.711 47.619 0.00 0.00 36.63 3.68
320 322 4.455606 GGTAGCATCCATCTTTTGCTAGT 58.544 43.478 4.23 0.00 46.44 2.57
333 335 7.658179 TCTTTTGCTAGTGTTGTCTTCTATG 57.342 36.000 0.00 0.00 0.00 2.23
334 336 5.862924 TTTGCTAGTGTTGTCTTCTATGC 57.137 39.130 0.00 0.00 0.00 3.14
342 344 3.796717 TGTTGTCTTCTATGCGCTTATCG 59.203 43.478 9.73 0.00 42.12 2.92
363 365 1.987770 CAAAAGCGGTGTTGCATCATC 59.012 47.619 4.29 0.00 37.31 2.92
370 372 1.826720 GGTGTTGCATCATCCAACCAT 59.173 47.619 0.00 0.00 41.33 3.55
371 373 2.159198 GGTGTTGCATCATCCAACCATC 60.159 50.000 0.00 0.00 41.33 3.51
382 384 8.093307 GCATCATCCAACCATCGATATATCTAT 58.907 37.037 10.93 2.64 0.00 1.98
418 420 6.361768 TCTATGTGTTGTGTGGTAACCATA 57.638 37.500 0.00 0.00 35.28 2.74
420 422 8.080363 TCTATGTGTTGTGTGGTAACCATATA 57.920 34.615 0.00 0.00 35.28 0.86
425 427 7.502895 TGTGTTGTGTGGTAACCATATACTTTT 59.497 33.333 0.00 0.00 35.28 2.27
467 469 6.834959 TTTCTTGCTTCGATGAGATGTATC 57.165 37.500 1.89 0.00 0.00 2.24
468 470 4.540824 TCTTGCTTCGATGAGATGTATCG 58.459 43.478 1.89 0.00 46.45 2.92
471 473 2.352225 GCTTCGATGAGATGTATCGCCT 60.352 50.000 1.89 0.00 45.13 5.52
478 480 3.291584 TGAGATGTATCGCCTCTCAAGT 58.708 45.455 0.00 0.00 42.93 3.16
480 482 4.047822 GAGATGTATCGCCTCTCAAGTTG 58.952 47.826 0.00 0.00 38.32 3.16
481 483 3.449018 AGATGTATCGCCTCTCAAGTTGT 59.551 43.478 2.11 0.00 0.00 3.32
483 485 4.794278 TGTATCGCCTCTCAAGTTGTTA 57.206 40.909 2.11 0.00 0.00 2.41
485 487 5.730550 TGTATCGCCTCTCAAGTTGTTAAT 58.269 37.500 2.11 0.00 0.00 1.40
486 488 5.580691 TGTATCGCCTCTCAAGTTGTTAATG 59.419 40.000 2.11 0.00 0.00 1.90
487 489 4.002906 TCGCCTCTCAAGTTGTTAATGT 57.997 40.909 2.11 0.00 0.00 2.71
489 491 4.213270 TCGCCTCTCAAGTTGTTAATGTTG 59.787 41.667 2.11 0.00 0.00 3.33
497 499 8.286800 TCTCAAGTTGTTAATGTTGTTAATCCG 58.713 33.333 2.11 0.00 0.00 4.18
500 502 7.739498 AGTTGTTAATGTTGTTAATCCGACT 57.261 32.000 0.00 0.00 0.00 4.18
504 506 8.155821 TGTTAATGTTGTTAATCCGACTTTCA 57.844 30.769 0.00 0.00 0.00 2.69
507 509 6.627395 ATGTTGTTAATCCGACTTTCAACA 57.373 33.333 9.58 9.58 44.34 3.33
514 516 8.500773 TGTTAATCCGACTTTCAACATAAACTC 58.499 33.333 0.00 0.00 0.00 3.01
518 520 5.929992 TCCGACTTTCAACATAAACTCGATT 59.070 36.000 0.00 0.00 30.84 3.34
539 542 7.598869 TCGATTATGATTTCAATAAGGTCTCCG 59.401 37.037 0.00 0.00 0.00 4.63
543 546 2.396590 TTCAATAAGGTCTCCGGCAC 57.603 50.000 0.00 0.00 0.00 5.01
560 563 1.782044 CACAAGCCAACCCAATTTCG 58.218 50.000 0.00 0.00 0.00 3.46
562 565 1.339929 ACAAGCCAACCCAATTTCGTC 59.660 47.619 0.00 0.00 0.00 4.20
568 571 3.306019 GCCAACCCAATTTCGTCTGAATT 60.306 43.478 0.00 0.00 33.20 2.17
578 581 8.615211 CCAATTTCGTCTGAATTGAGATCAATA 58.385 33.333 8.42 0.00 45.06 1.90
588 591 6.712095 TGAATTGAGATCAATATACAGGTGCC 59.288 38.462 8.42 0.00 45.06 5.01
589 592 4.257267 TGAGATCAATATACAGGTGCCG 57.743 45.455 0.00 0.00 0.00 5.69
590 593 3.895041 TGAGATCAATATACAGGTGCCGA 59.105 43.478 0.00 0.00 0.00 5.54
593 596 1.414919 TCAATATACAGGTGCCGACCC 59.585 52.381 0.00 0.00 44.40 4.46
621 625 2.933906 GTGACCGACTGAAACAGTGAAA 59.066 45.455 9.15 0.00 45.44 2.69
623 627 4.035208 GTGACCGACTGAAACAGTGAAAAT 59.965 41.667 9.15 0.00 45.44 1.82
639 643 6.808212 CAGTGAAAATGTGAAACCATACATCC 59.192 38.462 0.00 0.00 36.56 3.51
667 671 6.431543 TCACCATTTTACATACCACGACAATT 59.568 34.615 0.00 0.00 0.00 2.32
737 802 3.130633 GTTGTTGGCAAGATGGAAAACC 58.869 45.455 0.00 0.00 34.94 3.27
800 887 3.623703 GAGAAACTCCGTGGGCCCC 62.624 68.421 22.27 10.05 0.00 5.80
823 922 1.336056 CCCCGCTTATAAGAGAGACGC 60.336 57.143 16.85 0.00 0.00 5.19
844 943 3.764466 CTCTGCTTCCCCGCGTCT 61.764 66.667 4.92 0.00 0.00 4.18
887 986 2.685380 CCGCAACTCCCTCCCTCT 60.685 66.667 0.00 0.00 0.00 3.69
889 988 1.684049 CGCAACTCCCTCCCTCTCT 60.684 63.158 0.00 0.00 0.00 3.10
890 989 1.671901 CGCAACTCCCTCCCTCTCTC 61.672 65.000 0.00 0.00 0.00 3.20
891 990 1.334384 GCAACTCCCTCCCTCTCTCC 61.334 65.000 0.00 0.00 0.00 3.71
892 991 1.040339 CAACTCCCTCCCTCTCTCCG 61.040 65.000 0.00 0.00 0.00 4.63
1717 1842 0.925720 ATCCCATTCTTCCCCAGCCA 60.926 55.000 0.00 0.00 0.00 4.75
1729 1854 3.223226 CAGCCATGGAAATGGGGC 58.777 61.111 18.40 0.00 46.77 5.80
1743 1868 2.439156 GGGCTCCACATCCACAGC 60.439 66.667 0.00 0.00 0.00 4.40
1787 1918 4.443725 CGATCGATTTCTCAACTGATCTGG 59.556 45.833 10.26 0.00 32.17 3.86
1803 1934 0.721718 CTGGGCGACGTTTCAATCTC 59.278 55.000 0.00 0.00 0.00 2.75
1811 1942 5.220381 GCGACGTTTCAATCTCCATAGATA 58.780 41.667 0.00 0.00 41.81 1.98
1816 1947 9.227490 GACGTTTCAATCTCCATAGATATATCG 57.773 37.037 7.08 0.00 41.81 2.92
1824 1955 9.883293 AATCTCCATAGATATATCGTAATCCCA 57.117 33.333 7.08 0.00 41.81 4.37
1825 1956 8.926092 TCTCCATAGATATATCGTAATCCCAG 57.074 38.462 7.08 0.00 0.00 4.45
1826 1957 8.503573 TCTCCATAGATATATCGTAATCCCAGT 58.496 37.037 7.08 0.00 0.00 4.00
1827 1958 8.465273 TCCATAGATATATCGTAATCCCAGTG 57.535 38.462 7.08 0.00 0.00 3.66
1828 1959 8.279361 TCCATAGATATATCGTAATCCCAGTGA 58.721 37.037 7.08 0.00 0.00 3.41
1829 1960 8.353684 CCATAGATATATCGTAATCCCAGTGAC 58.646 40.741 7.08 0.00 0.00 3.67
1830 1961 6.438259 AGATATATCGTAATCCCAGTGACG 57.562 41.667 7.08 0.00 36.66 4.35
1831 1962 2.787601 TATCGTAATCCCAGTGACGC 57.212 50.000 0.00 0.00 35.33 5.19
1832 1963 0.821517 ATCGTAATCCCAGTGACGCA 59.178 50.000 0.00 0.00 35.33 5.24
1833 1964 0.821517 TCGTAATCCCAGTGACGCAT 59.178 50.000 0.00 0.00 35.33 4.73
1834 1965 1.202371 TCGTAATCCCAGTGACGCATC 60.202 52.381 0.00 0.00 35.33 3.91
1835 1966 1.202417 CGTAATCCCAGTGACGCATCT 60.202 52.381 0.00 0.00 0.00 2.90
1836 1967 2.474816 GTAATCCCAGTGACGCATCTC 58.525 52.381 0.00 0.00 0.00 2.75
1837 1968 0.179100 AATCCCAGTGACGCATCTCG 60.179 55.000 0.00 0.00 45.38 4.04
1849 1980 1.490693 GCATCTCGTGGCATGTACGG 61.491 60.000 19.51 12.71 41.58 4.02
1850 1981 1.227263 ATCTCGTGGCATGTACGGC 60.227 57.895 19.51 0.95 41.58 5.68
1967 2098 3.869272 CTTCTGCATGCCGCCGTC 61.869 66.667 16.68 0.00 41.33 4.79
2142 2283 2.579201 CTGTCCCGTTCGATGCCT 59.421 61.111 0.00 0.00 0.00 4.75
2268 2421 2.819422 CGTGGATACGTTCGAAGAGA 57.181 50.000 0.00 0.00 44.99 3.10
2269 2422 2.438583 CGTGGATACGTTCGAAGAGAC 58.561 52.381 0.00 0.00 44.99 3.36
2270 2423 2.438583 GTGGATACGTTCGAAGAGACG 58.561 52.381 0.00 1.09 43.02 4.18
2400 2576 4.377708 ACGTCCGCTCTGCATGCA 62.378 61.111 21.29 21.29 0.00 3.96
2401 2577 3.857854 CGTCCGCTCTGCATGCAC 61.858 66.667 18.46 6.49 0.00 4.57
2402 2578 3.503363 GTCCGCTCTGCATGCACC 61.503 66.667 18.46 7.23 0.00 5.01
2464 2640 2.868331 CGTACCACGTCGTGAGCG 60.868 66.667 26.53 20.74 36.74 5.03
2494 2670 1.815421 GCCCCACACGCATCTACAG 60.815 63.158 0.00 0.00 0.00 2.74
2508 2684 0.168348 CTACAGTCGCACGCTACACT 59.832 55.000 0.00 0.00 0.00 3.55
2518 2694 1.037493 ACGCTACACTGTGTTCCAGA 58.963 50.000 19.73 0.00 44.49 3.86
2519 2695 1.000163 ACGCTACACTGTGTTCCAGAG 60.000 52.381 19.73 14.11 44.49 3.35
2520 2696 1.670087 CGCTACACTGTGTTCCAGAGG 60.670 57.143 19.73 3.00 44.49 3.69
2521 2697 1.338200 GCTACACTGTGTTCCAGAGGG 60.338 57.143 19.73 1.57 44.49 4.30
2522 2698 1.971357 CTACACTGTGTTCCAGAGGGT 59.029 52.381 19.73 1.75 43.74 4.34
2523 2699 0.469917 ACACTGTGTTCCAGAGGGTG 59.530 55.000 7.80 0.00 39.93 4.61
2524 2700 2.928681 ACACTGTGTTCCAGAGGGTGG 61.929 57.143 7.80 0.00 39.93 4.61
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 4.982241 TGAAGGAAATATGCCCTAGAGG 57.018 45.455 0.00 0.00 39.47 3.69
1 2 6.119240 TGATGAAGGAAATATGCCCTAGAG 57.881 41.667 0.00 0.00 31.36 2.43
2 3 6.273026 TGATGATGAAGGAAATATGCCCTAGA 59.727 38.462 0.00 0.00 31.36 2.43
3 4 6.479006 TGATGATGAAGGAAATATGCCCTAG 58.521 40.000 0.00 0.00 31.36 3.02
4 5 6.452757 TGATGATGAAGGAAATATGCCCTA 57.547 37.500 0.00 0.00 31.36 3.53
5 6 5.329191 TGATGATGAAGGAAATATGCCCT 57.671 39.130 0.00 0.00 0.00 5.19
6 7 5.950549 AGATGATGATGAAGGAAATATGCCC 59.049 40.000 0.00 0.00 0.00 5.36
7 8 6.095160 GGAGATGATGATGAAGGAAATATGCC 59.905 42.308 0.00 0.00 0.00 4.40
8 9 6.095160 GGGAGATGATGATGAAGGAAATATGC 59.905 42.308 0.00 0.00 0.00 3.14
9 10 6.602406 GGGGAGATGATGATGAAGGAAATATG 59.398 42.308 0.00 0.00 0.00 1.78
10 11 6.297477 GGGGGAGATGATGATGAAGGAAATAT 60.297 42.308 0.00 0.00 0.00 1.28
11 12 5.014544 GGGGGAGATGATGATGAAGGAAATA 59.985 44.000 0.00 0.00 0.00 1.40
12 13 4.202652 GGGGGAGATGATGATGAAGGAAAT 60.203 45.833 0.00 0.00 0.00 2.17
13 14 3.139025 GGGGGAGATGATGATGAAGGAAA 59.861 47.826 0.00 0.00 0.00 3.13
14 15 2.713167 GGGGGAGATGATGATGAAGGAA 59.287 50.000 0.00 0.00 0.00 3.36
15 16 2.089753 AGGGGGAGATGATGATGAAGGA 60.090 50.000 0.00 0.00 0.00 3.36
16 17 2.040012 CAGGGGGAGATGATGATGAAGG 59.960 54.545 0.00 0.00 0.00 3.46
17 18 2.709934 ACAGGGGGAGATGATGATGAAG 59.290 50.000 0.00 0.00 0.00 3.02
18 19 2.707791 GACAGGGGGAGATGATGATGAA 59.292 50.000 0.00 0.00 0.00 2.57
19 20 2.333069 GACAGGGGGAGATGATGATGA 58.667 52.381 0.00 0.00 0.00 2.92
20 21 2.052468 TGACAGGGGGAGATGATGATG 58.948 52.381 0.00 0.00 0.00 3.07
21 22 2.053244 GTGACAGGGGGAGATGATGAT 58.947 52.381 0.00 0.00 0.00 2.45
22 23 1.500474 GTGACAGGGGGAGATGATGA 58.500 55.000 0.00 0.00 0.00 2.92
23 24 0.105593 CGTGACAGGGGGAGATGATG 59.894 60.000 0.00 0.00 0.00 3.07
24 25 1.050988 CCGTGACAGGGGGAGATGAT 61.051 60.000 6.27 0.00 0.00 2.45
25 26 1.685765 CCGTGACAGGGGGAGATGA 60.686 63.158 6.27 0.00 0.00 2.92
26 27 1.553690 AACCGTGACAGGGGGAGATG 61.554 60.000 18.09 0.00 35.02 2.90
27 28 1.229529 AACCGTGACAGGGGGAGAT 60.230 57.895 18.09 0.00 35.02 2.75
28 29 2.203182 AACCGTGACAGGGGGAGA 59.797 61.111 18.09 0.00 35.02 3.71
29 30 2.052047 AACAACCGTGACAGGGGGAG 62.052 60.000 18.09 9.59 35.02 4.30
30 31 2.073716 AACAACCGTGACAGGGGGA 61.074 57.895 18.09 0.00 35.02 4.81
31 32 1.896660 CAACAACCGTGACAGGGGG 60.897 63.158 18.09 11.88 35.02 5.40
32 33 1.896660 CCAACAACCGTGACAGGGG 60.897 63.158 18.09 5.08 35.02 4.79
33 34 2.551912 GCCAACAACCGTGACAGGG 61.552 63.158 12.66 12.66 35.02 4.45
34 35 1.380403 TTGCCAACAACCGTGACAGG 61.380 55.000 0.00 0.00 37.30 4.00
35 36 0.029300 CTTGCCAACAACCGTGACAG 59.971 55.000 0.00 0.00 0.00 3.51
36 37 0.393132 TCTTGCCAACAACCGTGACA 60.393 50.000 0.00 0.00 0.00 3.58
37 38 0.028902 GTCTTGCCAACAACCGTGAC 59.971 55.000 0.00 0.00 0.00 3.67
38 39 1.433053 CGTCTTGCCAACAACCGTGA 61.433 55.000 0.00 0.00 0.00 4.35
39 40 1.010125 CGTCTTGCCAACAACCGTG 60.010 57.895 0.00 0.00 0.00 4.94
40 41 2.184167 CCGTCTTGCCAACAACCGT 61.184 57.895 0.00 0.00 0.00 4.83
41 42 2.637025 CCGTCTTGCCAACAACCG 59.363 61.111 0.00 0.00 0.00 4.44
42 43 2.561037 CCCCGTCTTGCCAACAACC 61.561 63.158 0.00 0.00 0.00 3.77
43 44 1.104577 TTCCCCGTCTTGCCAACAAC 61.105 55.000 0.00 0.00 0.00 3.32
44 45 0.178975 ATTCCCCGTCTTGCCAACAA 60.179 50.000 0.00 0.00 0.00 2.83
45 46 0.693622 TATTCCCCGTCTTGCCAACA 59.306 50.000 0.00 0.00 0.00 3.33
46 47 1.092348 GTATTCCCCGTCTTGCCAAC 58.908 55.000 0.00 0.00 0.00 3.77
47 48 0.693622 TGTATTCCCCGTCTTGCCAA 59.306 50.000 0.00 0.00 0.00 4.52
48 49 0.035820 GTGTATTCCCCGTCTTGCCA 60.036 55.000 0.00 0.00 0.00 4.92
49 50 0.746923 GGTGTATTCCCCGTCTTGCC 60.747 60.000 0.00 0.00 0.00 4.52
50 51 0.746923 GGGTGTATTCCCCGTCTTGC 60.747 60.000 0.00 0.00 41.54 4.01
51 52 0.616371 TGGGTGTATTCCCCGTCTTG 59.384 55.000 0.00 0.00 45.86 3.02
52 53 1.364269 TTGGGTGTATTCCCCGTCTT 58.636 50.000 0.00 0.00 45.86 3.01
53 54 1.364269 TTTGGGTGTATTCCCCGTCT 58.636 50.000 0.00 0.00 45.86 4.18
54 55 1.814394 GTTTTGGGTGTATTCCCCGTC 59.186 52.381 0.00 0.00 45.86 4.79
55 56 1.548355 GGTTTTGGGTGTATTCCCCGT 60.548 52.381 0.00 0.00 45.86 5.28
56 57 1.179152 GGTTTTGGGTGTATTCCCCG 58.821 55.000 0.00 0.00 45.86 5.73
57 58 1.179152 CGGTTTTGGGTGTATTCCCC 58.821 55.000 0.00 0.00 46.48 4.81
59 60 3.086282 ACATCGGTTTTGGGTGTATTCC 58.914 45.455 0.00 0.00 0.00 3.01
60 61 3.119637 CCACATCGGTTTTGGGTGTATTC 60.120 47.826 0.00 0.00 0.00 1.75
61 62 2.823154 CCACATCGGTTTTGGGTGTATT 59.177 45.455 0.00 0.00 0.00 1.89
62 63 2.442413 CCACATCGGTTTTGGGTGTAT 58.558 47.619 0.00 0.00 0.00 2.29
63 64 1.898902 CCACATCGGTTTTGGGTGTA 58.101 50.000 0.00 0.00 0.00 2.90
64 65 2.727103 CCACATCGGTTTTGGGTGT 58.273 52.632 0.00 0.00 0.00 4.16
86 87 1.035385 GCGGTTGTTATCCCCAAGGG 61.035 60.000 0.00 0.00 46.11 3.95
87 88 0.322997 TGCGGTTGTTATCCCCAAGG 60.323 55.000 0.00 0.00 0.00 3.61
88 89 0.808755 GTGCGGTTGTTATCCCCAAG 59.191 55.000 0.00 0.00 0.00 3.61
89 90 0.609681 GGTGCGGTTGTTATCCCCAA 60.610 55.000 0.00 0.00 0.00 4.12
90 91 1.001887 GGTGCGGTTGTTATCCCCA 60.002 57.895 0.00 0.00 0.00 4.96
91 92 0.609681 TTGGTGCGGTTGTTATCCCC 60.610 55.000 0.00 0.00 0.00 4.81
92 93 1.068125 GTTTGGTGCGGTTGTTATCCC 60.068 52.381 0.00 0.00 0.00 3.85
93 94 1.068125 GGTTTGGTGCGGTTGTTATCC 60.068 52.381 0.00 0.00 0.00 2.59
94 95 1.609555 TGGTTTGGTGCGGTTGTTATC 59.390 47.619 0.00 0.00 0.00 1.75
95 96 1.338655 GTGGTTTGGTGCGGTTGTTAT 59.661 47.619 0.00 0.00 0.00 1.89
96 97 0.739561 GTGGTTTGGTGCGGTTGTTA 59.260 50.000 0.00 0.00 0.00 2.41
97 98 1.513622 GTGGTTTGGTGCGGTTGTT 59.486 52.632 0.00 0.00 0.00 2.83
124 126 2.348243 CCCGAAACGGTGGCCTTA 59.652 61.111 3.32 0.00 46.80 2.69
138 140 2.983592 GCCAACCAACACTCCCCG 60.984 66.667 0.00 0.00 0.00 5.73
141 143 1.966451 CCGAGCCAACCAACACTCC 60.966 63.158 0.00 0.00 0.00 3.85
158 160 5.447624 AGTAGTTGCACCAAAACAATACC 57.552 39.130 0.00 0.00 0.00 2.73
159 161 6.270064 ACAAGTAGTTGCACCAAAACAATAC 58.730 36.000 10.30 0.00 37.14 1.89
160 162 6.458232 ACAAGTAGTTGCACCAAAACAATA 57.542 33.333 10.30 0.00 37.14 1.90
161 163 5.337578 ACAAGTAGTTGCACCAAAACAAT 57.662 34.783 10.30 0.00 37.14 2.71
162 164 4.673061 CGACAAGTAGTTGCACCAAAACAA 60.673 41.667 10.30 0.00 37.14 2.83
164 166 3.064271 TCGACAAGTAGTTGCACCAAAAC 59.936 43.478 10.30 0.00 37.14 2.43
165 167 3.271729 TCGACAAGTAGTTGCACCAAAA 58.728 40.909 10.30 0.00 37.14 2.44
169 171 1.798813 CCTTCGACAAGTAGTTGCACC 59.201 52.381 10.30 0.00 37.14 5.01
171 173 1.202592 TGCCTTCGACAAGTAGTTGCA 60.203 47.619 10.30 0.00 37.14 4.08
172 174 1.508632 TGCCTTCGACAAGTAGTTGC 58.491 50.000 10.30 2.85 37.14 4.17
173 175 3.325870 TCATGCCTTCGACAAGTAGTTG 58.674 45.455 8.81 8.81 39.82 3.16
175 177 3.895232 ATCATGCCTTCGACAAGTAGT 57.105 42.857 0.00 0.00 0.00 2.73
184 186 2.477863 GGAAAACCGAATCATGCCTTCG 60.478 50.000 17.99 17.99 43.82 3.79
187 189 2.214376 TGGAAAACCGAATCATGCCT 57.786 45.000 0.00 0.00 0.00 4.75
206 208 0.829333 TGCAACAAAACCACCAGCAT 59.171 45.000 0.00 0.00 0.00 3.79
209 211 0.461135 AGCTGCAACAAAACCACCAG 59.539 50.000 1.02 0.00 0.00 4.00
213 215 1.143620 GGCAGCTGCAACAAAACCA 59.856 52.632 37.63 0.00 44.36 3.67
220 222 3.259425 CTCCAACGGCAGCTGCAAC 62.259 63.158 37.63 21.66 44.36 4.17
224 226 3.123620 GAGCTCCAACGGCAGCTG 61.124 66.667 10.11 10.11 46.31 4.24
250 252 0.909623 TGGGGGAAACTCGGAAGATC 59.090 55.000 0.00 0.00 40.84 2.75
257 259 2.106683 GCGACATGGGGGAAACTCG 61.107 63.158 0.00 0.00 0.00 4.18
265 267 3.142393 CCTAGAGGCGACATGGGG 58.858 66.667 0.00 0.00 0.00 4.96
287 289 1.448985 GATGCTACCGAGGCAAACAA 58.551 50.000 0.00 0.00 43.14 2.83
288 290 0.392461 GGATGCTACCGAGGCAAACA 60.392 55.000 0.00 0.00 43.14 2.83
297 299 2.763249 GCAAAAGATGGATGCTACCG 57.237 50.000 0.00 0.00 37.12 4.02
302 304 4.082571 ACAACACTAGCAAAAGATGGATGC 60.083 41.667 0.00 0.00 40.34 3.91
307 309 6.551385 AGAAGACAACACTAGCAAAAGATG 57.449 37.500 0.00 0.00 0.00 2.90
311 313 5.107104 CGCATAGAAGACAACACTAGCAAAA 60.107 40.000 0.00 0.00 0.00 2.44
313 315 3.926527 CGCATAGAAGACAACACTAGCAA 59.073 43.478 0.00 0.00 0.00 3.91
316 318 3.775202 AGCGCATAGAAGACAACACTAG 58.225 45.455 11.47 0.00 0.00 2.57
317 319 3.868757 AGCGCATAGAAGACAACACTA 57.131 42.857 11.47 0.00 0.00 2.74
320 322 3.796717 CGATAAGCGCATAGAAGACAACA 59.203 43.478 11.47 0.00 0.00 3.33
342 344 0.597118 TGATGCAACACCGCTTTTGC 60.597 50.000 0.00 6.24 46.88 3.68
345 347 0.527565 GGATGATGCAACACCGCTTT 59.472 50.000 0.00 0.00 0.00 3.51
348 350 0.456653 GTTGGATGATGCAACACCGC 60.457 55.000 22.35 0.00 46.14 5.68
349 351 3.700577 GTTGGATGATGCAACACCG 57.299 52.632 22.35 0.00 46.14 4.94
363 365 7.708322 CACCAAGATAGATATATCGATGGTTGG 59.292 40.741 25.58 26.12 42.95 3.77
370 372 8.595362 ATCAACCACCAAGATAGATATATCGA 57.405 34.615 7.08 2.41 0.00 3.59
371 373 8.690884 AGATCAACCACCAAGATAGATATATCG 58.309 37.037 7.08 0.00 0.00 2.92
382 384 4.908601 ACACATAGATCAACCACCAAGA 57.091 40.909 0.00 0.00 0.00 3.02
425 427 9.804547 GCAAGAAATTCATAAAACGCAAAATAA 57.195 25.926 0.00 0.00 0.00 1.40
442 444 7.307042 CGATACATCTCATCGAAGCAAGAAATT 60.307 37.037 0.00 0.00 46.39 1.82
443 445 6.145209 CGATACATCTCATCGAAGCAAGAAAT 59.855 38.462 0.00 0.00 46.39 2.17
467 469 4.024048 ACAACATTAACAACTTGAGAGGCG 60.024 41.667 0.00 0.00 0.00 5.52
468 470 5.438761 ACAACATTAACAACTTGAGAGGC 57.561 39.130 0.00 0.00 0.00 4.70
471 473 8.286800 CGGATTAACAACATTAACAACTTGAGA 58.713 33.333 0.00 0.00 0.00 3.27
478 480 8.622157 TGAAAGTCGGATTAACAACATTAACAA 58.378 29.630 0.00 0.00 0.00 2.83
480 482 8.898792 GTTGAAAGTCGGATTAACAACATTAAC 58.101 33.333 13.43 0.00 36.95 2.01
481 483 8.622157 TGTTGAAAGTCGGATTAACAACATTAA 58.378 29.630 15.54 0.00 40.25 1.40
483 485 7.033530 TGTTGAAAGTCGGATTAACAACATT 57.966 32.000 15.54 0.00 40.25 2.71
485 487 6.627395 ATGTTGAAAGTCGGATTAACAACA 57.373 33.333 19.04 19.04 45.76 3.33
486 488 8.898792 GTTTATGTTGAAAGTCGGATTAACAAC 58.101 33.333 0.00 0.00 37.31 3.32
487 489 8.842280 AGTTTATGTTGAAAGTCGGATTAACAA 58.158 29.630 0.00 0.00 32.58 2.83
489 491 8.876248 GAGTTTATGTTGAAAGTCGGATTAAC 57.124 34.615 0.00 0.00 31.05 2.01
514 516 7.148573 CCGGAGACCTTATTGAAATCATAATCG 60.149 40.741 0.00 0.00 0.00 3.34
518 520 5.163248 TGCCGGAGACCTTATTGAAATCATA 60.163 40.000 5.05 0.00 0.00 2.15
543 546 1.613437 AGACGAAATTGGGTTGGCTTG 59.387 47.619 0.00 0.00 0.00 4.01
552 555 6.426980 TGATCTCAATTCAGACGAAATTGG 57.573 37.500 12.66 6.68 34.01 3.16
560 563 8.986847 CACCTGTATATTGATCTCAATTCAGAC 58.013 37.037 20.71 10.96 43.48 3.51
562 565 7.094890 GGCACCTGTATATTGATCTCAATTCAG 60.095 40.741 10.47 14.32 43.48 3.02
568 571 3.895041 TCGGCACCTGTATATTGATCTCA 59.105 43.478 0.00 0.00 0.00 3.27
578 581 3.087906 GGGGGTCGGCACCTGTAT 61.088 66.667 8.94 0.00 43.22 2.29
605 609 5.155509 TCACATTTTCACTGTTTCAGTCG 57.844 39.130 0.00 0.00 43.43 4.18
609 613 6.030548 TGGTTTCACATTTTCACTGTTTCA 57.969 33.333 0.00 0.00 0.00 2.69
614 618 6.808212 GGATGTATGGTTTCACATTTTCACTG 59.192 38.462 0.00 0.00 35.55 3.66
621 625 5.296780 GTGATCGGATGTATGGTTTCACATT 59.703 40.000 0.00 0.00 35.55 2.71
623 627 4.188462 GTGATCGGATGTATGGTTTCACA 58.812 43.478 0.00 0.00 34.01 3.58
639 643 4.806775 TCGTGGTATGTAAAATGGTGATCG 59.193 41.667 0.00 0.00 0.00 3.69
742 807 2.951458 CCGCACCGGTTTTCTTCC 59.049 61.111 2.97 0.00 42.73 3.46
800 887 0.038159 CTCTCTTATAAGCGGGGCCG 60.038 60.000 7.67 0.00 43.09 6.13
823 922 4.785453 GCGGGGAAGCAGAGGGTG 62.785 72.222 0.00 0.00 37.05 4.61
844 943 0.963856 TTCGTTGGCTCGGCTCTAGA 60.964 55.000 0.00 0.00 0.00 2.43
1152 1259 2.725008 GAGGACGCCGAGGATGAG 59.275 66.667 0.00 0.00 0.00 2.90
1316 1423 0.463474 GCTCTCCAACTCCATGCTCC 60.463 60.000 0.00 0.00 0.00 4.70
1318 1425 1.220206 CGCTCTCCAACTCCATGCT 59.780 57.895 0.00 0.00 0.00 3.79
1521 1634 2.710902 CCGGCGATCTCACCTCACA 61.711 63.158 9.30 0.00 0.00 3.58
1717 1842 0.638292 ATGTGGAGCCCCATTTCCAT 59.362 50.000 0.00 0.00 44.74 3.41
1729 1854 2.027377 AGAAAGAGCTGTGGATGTGGAG 60.027 50.000 0.00 0.00 0.00 3.86
1743 1868 1.470098 CCATTGCCGAACCAGAAAGAG 59.530 52.381 0.00 0.00 0.00 2.85
1787 1918 1.369625 ATGGAGATTGAAACGTCGCC 58.630 50.000 0.00 0.00 35.22 5.54
1803 1934 8.353684 GTCACTGGGATTACGATATATCTATGG 58.646 40.741 10.93 0.00 0.00 2.74
1811 1942 2.626266 TGCGTCACTGGGATTACGATAT 59.374 45.455 0.00 0.00 37.53 1.63
1816 1947 2.474816 GAGATGCGTCACTGGGATTAC 58.525 52.381 8.99 0.00 0.00 1.89
1818 1949 0.179100 CGAGATGCGTCACTGGGATT 60.179 55.000 8.99 0.00 34.64 3.01
1819 1950 1.439228 CGAGATGCGTCACTGGGAT 59.561 57.895 8.99 0.00 34.64 3.85
1820 1951 2.885113 CGAGATGCGTCACTGGGA 59.115 61.111 8.99 0.00 34.64 4.37
1830 1961 1.490693 CCGTACATGCCACGAGATGC 61.491 60.000 18.96 0.00 41.91 3.91
1831 1962 1.490693 GCCGTACATGCCACGAGATG 61.491 60.000 18.96 6.17 41.91 2.90
1832 1963 1.227263 GCCGTACATGCCACGAGAT 60.227 57.895 18.96 0.00 41.91 2.75
1833 1964 2.183300 GCCGTACATGCCACGAGA 59.817 61.111 18.96 0.00 41.91 4.04
1859 1990 2.169789 CACATTCTCCTCGCAGCGG 61.170 63.158 16.42 5.58 0.00 5.52
1863 1994 0.247460 CAGGACACATTCTCCTCGCA 59.753 55.000 0.00 0.00 35.83 5.10
1864 1995 0.247736 ACAGGACACATTCTCCTCGC 59.752 55.000 0.00 0.00 35.83 5.03
1913 2044 0.395173 AACTGTTGGCAAAGGACGGT 60.395 50.000 0.00 0.00 34.52 4.83
2229 2377 0.320247 CCACCGCCAGCAGATATCTC 60.320 60.000 1.03 0.00 0.00 2.75
2230 2378 1.750930 CCACCGCCAGCAGATATCT 59.249 57.895 0.00 0.00 0.00 1.98
2252 2405 2.094894 TGACGTCTCTTCGAACGTATCC 59.905 50.000 17.92 2.51 39.02 2.59
2267 2420 3.558411 GAGCAGCCGCATGACGTC 61.558 66.667 9.11 9.11 42.27 4.34
2268 2421 4.074526 AGAGCAGCCGCATGACGT 62.075 61.111 0.00 0.00 42.27 4.34
2269 2422 3.561213 CAGAGCAGCCGCATGACG 61.561 66.667 0.00 0.00 42.27 4.35
2270 2423 1.580845 AAACAGAGCAGCCGCATGAC 61.581 55.000 0.00 0.00 42.27 3.06
2271 2424 1.300971 GAAACAGAGCAGCCGCATGA 61.301 55.000 0.00 0.00 42.27 3.07
2476 2652 1.815421 CTGTAGATGCGTGTGGGGC 60.815 63.158 0.00 0.00 0.00 5.80
2489 2665 0.168348 AGTGTAGCGTGCGACTGTAG 59.832 55.000 6.65 0.00 0.00 2.74
2494 2670 1.213094 AACACAGTGTAGCGTGCGAC 61.213 55.000 6.63 0.00 36.57 5.19
2508 2684 1.754380 CGACCACCCTCTGGAACACA 61.754 60.000 0.00 0.00 43.95 3.72


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

AutoCloner maintained by Alex Coulton.