Multiple sequence alignment - TraesCS3B01G048800

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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 TraesCS3B01G048800 chr3B 100.000 2837 0 0 1 2837 24790049 24787213 0.000000e+00 5240.0
1 TraesCS3B01G048800 chr3B 85.747 870 51 38 777 1598 24749387 24750231 0.000000e+00 852.0
2 TraesCS3B01G048800 chr3B 78.288 479 61 31 268 730 24748922 24749373 4.660000e-68 268.0
3 TraesCS3B01G048800 chr3B 89.130 138 7 4 575 704 24747549 24747686 6.290000e-37 165.0
4 TraesCS3B01G048800 chr3A 86.642 2126 174 49 761 2809 19559288 19561380 0.000000e+00 2252.0
5 TraesCS3B01G048800 chr3A 83.421 1146 98 49 777 1852 19609687 19608564 0.000000e+00 979.0
6 TraesCS3B01G048800 chr3A 80.563 355 20 26 420 731 19558936 19559284 7.910000e-56 228.0
7 TraesCS3B01G048800 chr3A 76.050 476 62 29 274 730 19610143 19609701 1.720000e-47 200.0
8 TraesCS3B01G048800 chr3A 87.671 146 6 4 2 139 19558459 19558600 2.930000e-35 159.0
9 TraesCS3B01G048800 chr3A 86.184 152 11 6 574 716 19632340 19632190 3.780000e-34 156.0
10 TraesCS3B01G048800 chr3A 87.234 94 9 2 268 361 19558844 19558934 1.390000e-18 104.0
11 TraesCS3B01G048800 chr3A 74.286 210 44 7 1246 1453 19467162 19467363 2.340000e-11 80.5
12 TraesCS3B01G048800 chr2D 79.856 139 23 5 2415 2550 427338519 427338655 2.330000e-16 97.1
13 TraesCS3B01G048800 chr4B 90.164 61 6 0 2324 2384 106969524 106969584 2.340000e-11 80.5
14 TraesCS3B01G048800 chr4B 100.000 30 0 0 2573 2602 14079492 14079521 3.950000e-04 56.5
15 TraesCS3B01G048800 chr5D 80.808 99 18 1 2415 2512 464931063 464930965 3.030000e-10 76.8
16 TraesCS3B01G048800 chr5D 77.519 129 19 5 2481 2608 532695136 532695017 5.070000e-08 69.4
17 TraesCS3B01G048800 chr3D 76.821 151 25 6 1263 1411 17433527 17433385 3.030000e-10 76.8
18 TraesCS3B01G048800 chrUn 76.101 159 29 6 1298 1453 38635193 38635041 1.090000e-09 75.0
19 TraesCS3B01G048800 chrUn 79.310 116 17 4 1298 1411 263451679 263451789 1.090000e-09 75.0
20 TraesCS3B01G048800 chrUn 79.310 116 17 4 1298 1411 329700841 329700951 1.090000e-09 75.0
21 TraesCS3B01G048800 chrUn 79.310 116 17 4 1298 1411 410968041 410967931 1.090000e-09 75.0
22 TraesCS3B01G048800 chr6B 79.439 107 20 1 2493 2599 633871355 633871459 1.090000e-09 75.0
23 TraesCS3B01G048800 chr5B 100.000 30 0 0 2493 2522 530927346 530927375 3.950000e-04 56.5
24 TraesCS3B01G048800 chr2A 90.476 42 4 0 2583 2624 565454165 565454206 3.950000e-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 TraesCS3B01G048800 chr3B 24787213 24790049 2836 True 5240.000000 5240 100.000000 1 2837 1 chr3B.!!$R1 2836
1 TraesCS3B01G048800 chr3B 24747549 24750231 2682 False 428.333333 852 84.388333 268 1598 3 chr3B.!!$F1 1330
2 TraesCS3B01G048800 chr3A 19558459 19561380 2921 False 685.750000 2252 85.527500 2 2809 4 chr3A.!!$F2 2807
3 TraesCS3B01G048800 chr3A 19608564 19610143 1579 True 589.500000 979 79.735500 274 1852 2 chr3A.!!$R2 1578

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
370 1477 0.249489 CCTCAACGTCGATGGGGATC 60.249 60.0 16.02 0.0 41.22 3.36 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2122 3421 0.035056 GTGAAGGAGGGGTGATGGTG 60.035 60.0 0.0 0.0 0.0 4.17 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
33 34 3.411351 CGGTGCACGTGTGGTAGC 61.411 66.667 18.38 9.91 37.93 3.58
34 35 2.030562 GGTGCACGTGTGGTAGCT 59.969 61.111 18.38 0.00 0.00 3.32
89 90 5.047021 GGACTATATTATGACTGCAGCTCCA 60.047 44.000 15.27 10.11 0.00 3.86
183 235 2.413371 GGTGACGCAGAAGCTTTGAATC 60.413 50.000 0.00 3.60 39.10 2.52
193 245 3.550437 AGCTTTGAATCTGATACGGCT 57.450 42.857 0.00 0.00 0.00 5.52
224 276 4.925390 AATGAGAAGCTCTCCCTTTTCT 57.075 40.909 9.71 0.00 42.73 2.52
270 322 4.074970 CTCACCAAATGTAACAGGAAGCT 58.925 43.478 0.00 0.00 0.00 3.74
291 1398 3.555917 AGAGGCTATAATCGTGCGTAC 57.444 47.619 0.00 0.00 0.00 3.67
296 1403 2.152489 GCTATAATCGTGCGTACAACCG 59.848 50.000 4.09 0.00 0.00 4.44
322 1429 1.463444 GAATACGCAGACCACACCAAC 59.537 52.381 0.00 0.00 0.00 3.77
366 1473 1.636988 GTTACCTCAACGTCGATGGG 58.363 55.000 9.90 0.00 0.00 4.00
370 1477 0.249489 CCTCAACGTCGATGGGGATC 60.249 60.000 16.02 0.00 41.22 3.36
377 1484 1.369625 GTCGATGGGGATCACAACAC 58.630 55.000 0.00 0.00 0.00 3.32
379 1486 1.349357 TCGATGGGGATCACAACACAA 59.651 47.619 0.00 0.00 0.00 3.33
380 1487 1.739466 CGATGGGGATCACAACACAAG 59.261 52.381 0.00 0.00 0.00 3.16
381 1488 1.474077 GATGGGGATCACAACACAAGC 59.526 52.381 0.00 0.00 0.00 4.01
382 1489 0.478072 TGGGGATCACAACACAAGCT 59.522 50.000 0.00 0.00 0.00 3.74
383 1490 1.702401 TGGGGATCACAACACAAGCTA 59.298 47.619 0.00 0.00 0.00 3.32
387 1494 3.369471 GGGATCACAACACAAGCTAGCTA 60.369 47.826 19.70 0.00 0.00 3.32
403 1510 4.083802 GCTAGCTAATCAATTAAGGGTGCG 60.084 45.833 7.70 0.00 0.00 5.34
404 1511 3.214328 AGCTAATCAATTAAGGGTGCGG 58.786 45.455 0.00 0.00 0.00 5.69
405 1512 2.287608 GCTAATCAATTAAGGGTGCGGC 60.288 50.000 0.00 0.00 0.00 6.53
406 1513 1.846007 AATCAATTAAGGGTGCGGCA 58.154 45.000 0.00 0.00 0.00 5.69
407 1514 1.102978 ATCAATTAAGGGTGCGGCAC 58.897 50.000 24.43 24.43 0.00 5.01
468 1575 2.842995 CGATCTTTCTCGTCGACGG 58.157 57.895 35.05 25.32 40.29 4.79
617 1787 0.386100 CGAGGTGACGAGGATATGCG 60.386 60.000 0.00 0.00 35.09 4.73
670 1850 2.914908 CGGAAAAGTTGTGCCGGGG 61.915 63.158 2.18 0.00 40.08 5.73
671 1851 1.529713 GGAAAAGTTGTGCCGGGGA 60.530 57.895 2.18 0.00 0.00 4.81
732 1915 7.136119 CGATATATTTTGGCGTAAAATGGTGT 58.864 34.615 17.22 8.39 45.90 4.16
734 1917 8.865590 ATATATTTTGGCGTAAAATGGTGTTC 57.134 30.769 17.22 0.00 45.90 3.18
736 1919 4.657436 TTTGGCGTAAAATGGTGTTCTT 57.343 36.364 0.00 0.00 0.00 2.52
737 1920 4.657436 TTGGCGTAAAATGGTGTTCTTT 57.343 36.364 0.00 0.00 0.00 2.52
738 1921 4.657436 TGGCGTAAAATGGTGTTCTTTT 57.343 36.364 0.00 0.00 0.00 2.27
739 1922 5.012328 TGGCGTAAAATGGTGTTCTTTTT 57.988 34.783 0.00 0.00 36.85 1.94
755 1938 3.133437 TTTTTCCAACCGGGCATGA 57.867 47.368 6.32 0.00 36.21 3.07
756 1939 1.638529 TTTTTCCAACCGGGCATGAT 58.361 45.000 6.32 0.00 36.21 2.45
757 1940 0.894141 TTTTCCAACCGGGCATGATG 59.106 50.000 6.32 0.00 36.21 3.07
758 1941 1.603236 TTTCCAACCGGGCATGATGC 61.603 55.000 9.33 9.33 44.08 3.91
775 1958 8.290663 GCATGATGCAGTAAAATAAGGATTTC 57.709 34.615 13.36 0.00 44.26 2.17
887 2083 1.065551 GCAAAGCAACGAAACTGACCT 59.934 47.619 0.00 0.00 0.00 3.85
889 2085 2.038387 AAGCAACGAAACTGACCTGT 57.962 45.000 0.00 0.00 0.00 4.00
924 2121 2.127118 CGCAAGCGCAAGGACAAG 60.127 61.111 11.47 0.00 38.40 3.16
982 2181 1.327303 CAAGGCAAAGTAGGTGGCAA 58.673 50.000 0.00 0.00 43.68 4.52
1014 2215 1.533338 CGTCGTCCATATATAGCCGGC 60.533 57.143 21.89 21.89 0.00 6.13
1056 2269 3.284793 AGAGGAAACGAGCTAGCTAGA 57.715 47.619 28.76 0.00 0.00 2.43
1088 2318 5.048294 TGGTACACAGCTACATACATATCCG 60.048 44.000 0.00 0.00 0.00 4.18
1089 2319 4.521130 ACACAGCTACATACATATCCGG 57.479 45.455 0.00 0.00 0.00 5.14
1125 2376 3.212450 GGTGAGGTTCTTCGACACC 57.788 57.895 3.66 3.66 42.83 4.16
1132 2383 2.144078 TTCTTCGACACCCTGGCCA 61.144 57.895 4.71 4.71 0.00 5.36
1157 2408 2.671963 GTGGAACCCCTTCGGCAC 60.672 66.667 0.00 0.00 33.26 5.01
1241 2492 0.248539 GCCGACACCTACATCGAGAC 60.249 60.000 0.00 0.00 40.86 3.36
1387 2638 4.168291 GGGAGGCCAAGAGCGAGG 62.168 72.222 5.01 0.00 45.17 4.63
1557 2808 4.101448 GTGACCATGCCCGAGCCT 62.101 66.667 0.00 0.00 38.69 4.58
1603 2854 3.818787 GCCCGTGCTGATTGGCTG 61.819 66.667 0.00 0.00 40.77 4.85
1604 2855 2.046023 CCCGTGCTGATTGGCTGA 60.046 61.111 0.00 0.00 0.00 4.26
1606 2857 1.033746 CCCGTGCTGATTGGCTGATT 61.034 55.000 0.00 0.00 0.00 2.57
1607 2858 0.099968 CCGTGCTGATTGGCTGATTG 59.900 55.000 0.00 0.00 0.00 2.67
1610 2861 1.065273 GCTGATTGGCTGATTGCGG 59.935 57.895 0.00 0.00 44.05 5.69
1611 2862 1.065273 CTGATTGGCTGATTGCGGC 59.935 57.895 0.00 0.00 45.89 6.53
1629 2880 2.181021 GTACTCCGGTGCCGACTG 59.819 66.667 12.71 4.32 42.83 3.51
1630 2881 3.755628 TACTCCGGTGCCGACTGC 61.756 66.667 12.71 0.00 42.83 4.40
1646 2897 2.126951 TGCAGACAGAGTGCAGACA 58.873 52.632 0.00 0.00 45.96 3.41
1651 2902 2.095008 CAGACAGAGTGCAGACATACGT 60.095 50.000 0.00 0.00 0.00 3.57
1752 3030 4.326278 CGTAACTACGTACTTGAGTCGGTA 59.674 45.833 1.07 0.00 44.13 4.02
1765 3043 0.673644 GTCGGTATGTGGCTTGCTGT 60.674 55.000 0.00 0.00 0.00 4.40
1794 3085 0.607217 TGAGTGAGGTGCTTGCATGG 60.607 55.000 0.00 0.00 0.00 3.66
1822 3113 6.365518 GCCTGTACTGTTACTTGTTAGTTCTC 59.634 42.308 0.00 0.00 35.78 2.87
1854 3145 5.281376 CGCTCAAATTAATGAAGTGTTCACG 59.719 40.000 0.00 0.00 43.48 4.35
1860 3151 9.103048 CAAATTAATGAAGTGTTCACGAAGTAC 57.897 33.333 0.00 0.00 41.61 2.73
1887 3178 7.543172 TCGCTAATTAACTGTACTCGTTGAAAT 59.457 33.333 10.19 2.67 0.00 2.17
1900 3191 5.421056 ACTCGTTGAAATATGAGACCACCTA 59.579 40.000 0.00 0.00 35.56 3.08
1902 3193 7.287005 ACTCGTTGAAATATGAGACCACCTATA 59.713 37.037 0.00 0.00 35.56 1.31
1958 3257 9.585099 TCAAGCGCATGATTTATTTTATTTCTT 57.415 25.926 11.93 0.00 0.00 2.52
1972 3271 2.981400 TTTCTTTCGATTCGCCCAAC 57.019 45.000 0.00 0.00 0.00 3.77
1975 3274 0.676782 CTTTCGATTCGCCCAACCCT 60.677 55.000 0.00 0.00 0.00 4.34
1977 3276 0.250989 TTCGATTCGCCCAACCCTTT 60.251 50.000 0.00 0.00 0.00 3.11
1979 3278 1.800681 GATTCGCCCAACCCTTTCG 59.199 57.895 0.00 0.00 0.00 3.46
1984 3283 0.601057 CGCCCAACCCTTTCGATTTT 59.399 50.000 0.00 0.00 0.00 1.82
1997 3296 7.767198 ACCCTTTCGATTTTGATCTATTCGTAA 59.233 33.333 0.00 0.00 0.00 3.18
2034 3333 6.012658 TGTCATGACAGTTAAAAAGGCATC 57.987 37.500 24.56 0.00 36.21 3.91
2035 3334 5.088739 GTCATGACAGTTAAAAAGGCATCG 58.911 41.667 21.07 0.00 0.00 3.84
2056 3355 7.753132 GCATCGGAAGTGACAAAAATATAACAA 59.247 33.333 0.00 0.00 0.00 2.83
2085 3384 2.618053 GTCATGGACCACCTAGAAACG 58.382 52.381 0.00 0.00 37.04 3.60
2095 3394 3.992427 CCACCTAGAAACGACTAAACCAC 59.008 47.826 0.00 0.00 0.00 4.16
2097 3396 5.047802 CCACCTAGAAACGACTAAACCACTA 60.048 44.000 0.00 0.00 0.00 2.74
2102 3401 4.280174 AGAAACGACTAAACCACTAGAGCA 59.720 41.667 0.00 0.00 0.00 4.26
2110 3409 6.534634 ACTAAACCACTAGAGCAAGTCAAAT 58.465 36.000 0.00 0.00 0.00 2.32
2115 3414 4.877823 CCACTAGAGCAAGTCAAATGCATA 59.122 41.667 0.00 0.00 46.22 3.14
2116 3415 5.530171 CCACTAGAGCAAGTCAAATGCATAT 59.470 40.000 0.00 0.00 46.22 1.78
2117 3416 6.427974 CACTAGAGCAAGTCAAATGCATATG 58.572 40.000 0.00 0.00 46.22 1.78
2118 3417 6.037940 CACTAGAGCAAGTCAAATGCATATGT 59.962 38.462 0.00 0.00 46.22 2.29
2119 3418 5.496133 AGAGCAAGTCAAATGCATATGTC 57.504 39.130 0.00 0.00 46.22 3.06
2120 3419 4.945543 AGAGCAAGTCAAATGCATATGTCA 59.054 37.500 0.00 3.51 46.22 3.58
2121 3420 5.593095 AGAGCAAGTCAAATGCATATGTCAT 59.407 36.000 0.00 5.76 46.22 3.06
2122 3421 5.828747 AGCAAGTCAAATGCATATGTCATC 58.171 37.500 0.00 0.00 46.22 2.92
2123 3422 5.358725 AGCAAGTCAAATGCATATGTCATCA 59.641 36.000 0.00 0.00 46.22 3.07
2124 3423 5.457799 GCAAGTCAAATGCATATGTCATCAC 59.542 40.000 0.00 6.64 43.29 3.06
2135 3434 0.911769 TGTCATCACCATCACCCCTC 59.088 55.000 0.00 0.00 0.00 4.30
2143 3442 1.221840 CATCACCCCTCCTTCACCG 59.778 63.158 0.00 0.00 0.00 4.94
2162 3461 2.354403 CCGGAGTCGACCAAACCTTATT 60.354 50.000 13.01 0.00 39.00 1.40
2165 3464 5.221303 CCGGAGTCGACCAAACCTTATTATA 60.221 44.000 13.01 0.00 39.00 0.98
2196 3495 5.545658 TCGAGAAATTGTCATGTTAAGGC 57.454 39.130 0.00 0.00 0.00 4.35
2197 3496 5.245531 TCGAGAAATTGTCATGTTAAGGCT 58.754 37.500 0.00 0.00 0.00 4.58
2199 3498 6.206634 TCGAGAAATTGTCATGTTAAGGCTTT 59.793 34.615 4.45 0.00 0.00 3.51
2212 3511 0.106894 AGGCTTTATAGGACCAGCGC 59.893 55.000 0.00 0.00 32.68 5.92
2214 3513 0.938008 GCTTTATAGGACCAGCGCAC 59.062 55.000 11.47 0.00 0.00 5.34
2217 3516 3.555168 GCTTTATAGGACCAGCGCACTAT 60.555 47.826 11.47 11.41 0.00 2.12
2222 3521 1.137086 AGGACCAGCGCACTATAACAG 59.863 52.381 11.47 0.00 0.00 3.16
2230 3529 1.942657 CGCACTATAACAGCAGCCAAT 59.057 47.619 0.00 0.00 0.00 3.16
2231 3530 2.286595 CGCACTATAACAGCAGCCAATG 60.287 50.000 0.00 0.00 0.00 2.82
2245 3544 1.002366 CCAATGCCGACGAAGAGAAG 58.998 55.000 0.00 0.00 0.00 2.85
2277 3576 8.675705 TTGAAATGATCAAACTTGTAGACAGA 57.324 30.769 0.00 0.00 44.94 3.41
2278 3577 8.087982 TGAAATGATCAAACTTGTAGACAGAC 57.912 34.615 0.00 0.00 34.30 3.51
2279 3578 7.714813 TGAAATGATCAAACTTGTAGACAGACA 59.285 33.333 0.00 0.00 34.30 3.41
2280 3579 8.450578 AAATGATCAAACTTGTAGACAGACAA 57.549 30.769 0.00 0.00 36.98 3.18
2281 3580 8.450578 AATGATCAAACTTGTAGACAGACAAA 57.549 30.769 0.00 0.00 38.80 2.83
2291 3590 8.303876 ACTTGTAGACAGACAAAACAAACAAAT 58.696 29.630 0.00 0.00 38.80 2.32
2301 3600 6.801575 ACAAAACAAACAAATACGATGGACT 58.198 32.000 0.00 0.00 0.00 3.85
2331 3631 1.678627 AGATGATCCACCGAAGACGAG 59.321 52.381 0.00 0.00 42.66 4.18
2341 3641 1.335964 CCGAAGACGAGCAAAGACTGA 60.336 52.381 0.00 0.00 42.66 3.41
2365 3665 4.437682 TCAAACAGATCCACCAAAGACT 57.562 40.909 0.00 0.00 0.00 3.24
2382 3682 2.007608 GACTAGCACCGAACAAATCCC 58.992 52.381 0.00 0.00 0.00 3.85
2387 3687 1.076332 CACCGAACAAATCCCGAGAC 58.924 55.000 0.00 0.00 0.00 3.36
2391 3692 3.197116 ACCGAACAAATCCCGAGACTATT 59.803 43.478 0.00 0.00 0.00 1.73
2393 3694 3.555956 CGAACAAATCCCGAGACTATTGG 59.444 47.826 0.00 0.00 0.00 3.16
2405 3706 1.476891 GACTATTGGAGACACGCCTCA 59.523 52.381 0.00 0.00 42.67 3.86
2406 3707 1.899814 ACTATTGGAGACACGCCTCAA 59.100 47.619 0.00 0.00 42.67 3.02
2411 3712 0.321653 GGAGACACGCCTCAATGGTT 60.322 55.000 0.00 0.00 38.35 3.67
2413 3714 0.396435 AGACACGCCTCAATGGTTCA 59.604 50.000 0.00 0.00 38.35 3.18
2419 3720 0.169009 GCCTCAATGGTTCAAGACGC 59.831 55.000 0.00 0.00 38.35 5.19
2454 3755 3.005578 GGGCTAGGACGTAAGGACATTAG 59.994 52.174 0.00 0.00 46.39 1.73
2477 3778 0.912486 ATCTACAGGGAGGTGTTGCC 59.088 55.000 0.00 0.00 37.61 4.52
2488 3789 4.947147 TGTTGCCGCCTCGCCTTT 62.947 61.111 0.00 0.00 0.00 3.11
2493 3794 2.174319 GCCGCCTCGCCTTTCTAAG 61.174 63.158 0.00 0.00 0.00 2.18
2524 3825 7.093509 ACACAAATCCTAACCAAACTCAAAACT 60.094 33.333 0.00 0.00 0.00 2.66
2525 3826 7.435192 CACAAATCCTAACCAAACTCAAAACTC 59.565 37.037 0.00 0.00 0.00 3.01
2535 3836 9.850628 AACCAAACTCAAAACTCTAACTAAAAC 57.149 29.630 0.00 0.00 0.00 2.43
2544 3845 8.352942 CAAAACTCTAACTAAAACAAGGAGCAT 58.647 33.333 0.00 0.00 0.00 3.79
2546 3847 5.940470 ACTCTAACTAAAACAAGGAGCATGG 59.060 40.000 0.00 0.00 0.00 3.66
2550 3851 1.632589 AAAACAAGGAGCATGGTCCC 58.367 50.000 34.70 19.84 37.31 4.46
2552 3853 0.038744 AACAAGGAGCATGGTCCCTG 59.961 55.000 34.70 33.14 37.31 4.45
2557 3858 4.052518 AGCATGGTCCCTGCCACC 62.053 66.667 14.86 0.00 41.94 4.61
2579 3880 3.814504 ACAAGGTTTGGAGTCCATCAT 57.185 42.857 14.00 4.42 31.53 2.45
2608 3909 2.221918 CCCTAAGGCCACCGAAGAT 58.778 57.895 5.01 0.00 0.00 2.40
2613 3914 1.779061 AAGGCCACCGAAGATGTGGT 61.779 55.000 5.01 0.00 39.66 4.16
2618 3919 0.673644 CACCGAAGATGTGGTGGACC 60.674 60.000 3.48 0.00 43.93 4.46
2627 3933 3.004354 TGGTGGACCGGCGGTAAT 61.004 61.111 34.29 10.07 35.25 1.89
2629 3935 2.266689 GTGGACCGGCGGTAATGT 59.733 61.111 34.29 9.11 35.25 2.71
2635 3941 2.279252 CGGCGGTAATGTCGAGGG 60.279 66.667 0.00 0.00 39.90 4.30
2640 3946 0.822164 CGGTAATGTCGAGGGGAGTT 59.178 55.000 0.00 0.00 0.00 3.01
2642 3948 2.223665 CGGTAATGTCGAGGGGAGTTAC 60.224 54.545 0.00 0.00 0.00 2.50
2678 3984 0.108615 CTTGTTCGTCCGAGAGCCAT 60.109 55.000 0.00 0.00 0.00 4.40
2683 3989 1.064946 CGTCCGAGAGCCATGAGAC 59.935 63.158 0.00 0.00 0.00 3.36
2690 3996 1.144936 GAGCCATGAGACGAAGGGG 59.855 63.158 0.00 0.00 0.00 4.79
2700 4006 2.496470 GAGACGAAGGGGTAGACAATGT 59.504 50.000 0.00 0.00 0.00 2.71
2706 4012 3.782656 AGGGGTAGACAATGTCGTTTT 57.217 42.857 7.83 0.00 37.67 2.43
2710 4016 4.269363 GGGGTAGACAATGTCGTTTTATCG 59.731 45.833 7.83 0.00 37.67 2.92
2731 4037 0.256177 GTTGGTCATCTTCCTCCCCC 59.744 60.000 0.00 0.00 0.00 5.40
2732 4038 1.271840 TTGGTCATCTTCCTCCCCCG 61.272 60.000 0.00 0.00 0.00 5.73
2733 4039 1.382695 GGTCATCTTCCTCCCCCGA 60.383 63.158 0.00 0.00 0.00 5.14
2734 4040 0.764752 GGTCATCTTCCTCCCCCGAT 60.765 60.000 0.00 0.00 0.00 4.18
2735 4041 0.394565 GTCATCTTCCTCCCCCGATG 59.605 60.000 0.00 0.00 35.70 3.84
2736 4042 1.072159 CATCTTCCTCCCCCGATGC 59.928 63.158 0.00 0.00 0.00 3.91
2737 4043 1.384502 ATCTTCCTCCCCCGATGCA 60.385 57.895 0.00 0.00 0.00 3.96
2740 4048 0.820891 CTTCCTCCCCCGATGCATTG 60.821 60.000 6.99 6.99 0.00 2.82
2754 4062 4.142534 CGATGCATTGTTCTTCTCCAACAT 60.143 41.667 0.00 0.00 33.76 2.71
2761 4069 2.028420 TCTTCTCCAACATGATGGCG 57.972 50.000 16.87 11.30 40.46 5.69
2762 4070 1.278985 TCTTCTCCAACATGATGGCGT 59.721 47.619 16.87 0.00 40.46 5.68
2765 4073 4.343814 TCTTCTCCAACATGATGGCGTATA 59.656 41.667 16.87 0.00 40.46 1.47
2766 4074 4.890158 TCTCCAACATGATGGCGTATAT 57.110 40.909 16.87 0.00 40.46 0.86
2769 4077 3.582647 TCCAACATGATGGCGTATATCCT 59.417 43.478 16.87 0.00 40.46 3.24
2773 4081 2.623418 TGATGGCGTATATCCTCCCT 57.377 50.000 0.00 0.00 0.00 4.20
2776 4084 0.784495 TGGCGTATATCCTCCCTCCT 59.216 55.000 0.00 0.00 0.00 3.69
2779 4090 1.960953 GCGTATATCCTCCCTCCTCCC 60.961 61.905 0.00 0.00 0.00 4.30
2788 4099 1.153132 CTCCCTCCTCCCTTCCCATAT 59.847 57.143 0.00 0.00 0.00 1.78
2790 4101 1.153132 CCCTCCTCCCTTCCCATATCT 59.847 57.143 0.00 0.00 0.00 1.98
2803 4114 3.711704 TCCCATATCTTCAGTCCAACTCC 59.288 47.826 0.00 0.00 0.00 3.85
2809 4120 4.519906 TCTTCAGTCCAACTCCCTTTTT 57.480 40.909 0.00 0.00 0.00 1.94
2832 4143 3.787001 CCCCCTCCCTCGTCAAGC 61.787 72.222 0.00 0.00 0.00 4.01
2833 4144 4.148825 CCCCTCCCTCGTCAAGCG 62.149 72.222 0.00 0.00 43.01 4.68
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 0.537143 ACCGTGCATCTTTCAAGCCA 60.537 50.000 0.00 0.00 0.00 4.75
33 34 8.682710 ACACTAGATTCTAGAGTGCTTTTCTAG 58.317 37.037 24.24 11.24 43.60 2.43
34 35 8.582657 ACACTAGATTCTAGAGTGCTTTTCTA 57.417 34.615 24.24 0.00 43.60 2.10
56 57 9.360093 GCAGTCATAATATAGTCCAATCTACAC 57.640 37.037 0.00 0.00 0.00 2.90
75 76 1.376942 GCACTGGAGCTGCAGTCAT 60.377 57.895 34.91 14.32 34.56 3.06
89 90 2.049433 GTACGTGTCCGCTGCACT 60.049 61.111 0.00 0.00 37.70 4.40
110 119 1.785041 CGTTGTGCCCTTGACTGGTG 61.785 60.000 0.00 0.00 0.00 4.17
183 235 4.902443 TTAGTTCTCTGAGCCGTATCAG 57.098 45.455 7.60 7.60 46.70 2.90
193 245 5.359576 GGAGAGCTTCTCATTAGTTCTCTGA 59.640 44.000 13.77 0.00 45.12 3.27
201 253 5.988287 AGAAAAGGGAGAGCTTCTCATTAG 58.012 41.667 13.06 0.00 45.12 1.73
224 276 7.458397 AGTCCTCCATGTTCTTGTTACATTTA 58.542 34.615 0.00 0.00 34.11 1.40
270 322 4.067192 TGTACGCACGATTATAGCCTCTA 58.933 43.478 0.00 0.00 0.00 2.43
291 1398 2.927477 TCTGCGTATTCTTAAGCGGTTG 59.073 45.455 10.73 0.00 39.39 3.77
296 1403 3.062234 GTGTGGTCTGCGTATTCTTAAGC 59.938 47.826 0.00 0.00 33.93 3.09
299 1406 2.563620 TGGTGTGGTCTGCGTATTCTTA 59.436 45.455 0.00 0.00 0.00 2.10
322 1429 4.377021 TGGCTCAACAGTTGTACTACTTG 58.623 43.478 13.14 5.17 0.00 3.16
364 1471 2.359900 CTAGCTTGTGTTGTGATCCCC 58.640 52.381 0.00 0.00 0.00 4.81
366 1473 2.704572 AGCTAGCTTGTGTTGTGATCC 58.295 47.619 12.68 0.00 0.00 3.36
370 1477 5.611796 TTGATTAGCTAGCTTGTGTTGTG 57.388 39.130 24.88 0.00 0.00 3.33
377 1484 6.514048 GCACCCTTAATTGATTAGCTAGCTTG 60.514 42.308 24.88 10.63 0.00 4.01
379 1486 5.066593 GCACCCTTAATTGATTAGCTAGCT 58.933 41.667 23.12 23.12 0.00 3.32
380 1487 4.083802 CGCACCCTTAATTGATTAGCTAGC 60.084 45.833 6.62 6.62 0.00 3.42
381 1488 4.452455 CCGCACCCTTAATTGATTAGCTAG 59.548 45.833 0.00 0.00 0.00 3.42
382 1489 4.385825 CCGCACCCTTAATTGATTAGCTA 58.614 43.478 0.00 0.00 0.00 3.32
383 1490 3.214328 CCGCACCCTTAATTGATTAGCT 58.786 45.455 0.00 0.00 0.00 3.32
387 1494 1.476488 GTGCCGCACCCTTAATTGATT 59.524 47.619 12.80 0.00 0.00 2.57
403 1510 7.148573 ACGTATGTATACTGTATAGTACGTGCC 60.149 40.741 31.54 14.31 42.11 5.01
404 1511 7.685712 CACGTATGTATACTGTATAGTACGTGC 59.314 40.741 35.81 22.53 46.20 5.34
406 1513 7.148573 GCCACGTATGTATACTGTATAGTACGT 60.149 40.741 29.42 29.42 43.16 3.57
407 1514 7.176075 GCCACGTATGTATACTGTATAGTACG 58.824 42.308 28.65 28.65 41.92 3.67
408 1515 7.467623 GGCCACGTATGTATACTGTATAGTAC 58.532 42.308 7.75 11.97 41.92 2.73
409 1516 6.313658 CGGCCACGTATGTATACTGTATAGTA 59.686 42.308 2.24 1.45 38.32 1.82
410 1517 5.122869 CGGCCACGTATGTATACTGTATAGT 59.877 44.000 2.24 0.00 36.78 2.12
411 1518 5.448225 CCGGCCACGTATGTATACTGTATAG 60.448 48.000 2.24 0.00 38.78 1.31
412 1519 4.395854 CCGGCCACGTATGTATACTGTATA 59.604 45.833 2.24 3.44 38.78 1.47
413 1520 3.192001 CCGGCCACGTATGTATACTGTAT 59.808 47.826 2.24 5.53 38.78 2.29
414 1521 2.553602 CCGGCCACGTATGTATACTGTA 59.446 50.000 2.24 0.00 38.78 2.74
415 1522 1.338973 CCGGCCACGTATGTATACTGT 59.661 52.381 2.24 0.00 38.78 3.55
416 1523 1.933500 GCCGGCCACGTATGTATACTG 60.934 57.143 18.11 0.00 38.78 2.74
417 1524 0.316204 GCCGGCCACGTATGTATACT 59.684 55.000 18.11 0.00 38.78 2.12
418 1525 0.668401 GGCCGGCCACGTATGTATAC 60.668 60.000 40.73 7.78 38.78 1.47
468 1575 1.135803 ACTCACACGTTGTTGTTGTGC 60.136 47.619 0.00 0.00 37.11 4.57
590 1760 2.504244 CGTCACCTCGCTTCGGAC 60.504 66.667 0.00 0.00 0.00 4.79
595 1765 1.338337 CATATCCTCGTCACCTCGCTT 59.662 52.381 0.00 0.00 0.00 4.68
617 1787 1.681825 GACGTCGCCCAAATTTGTTC 58.318 50.000 16.73 7.07 0.00 3.18
670 1850 5.684550 AAATTGAGTTACAAACGGTCCTC 57.315 39.130 0.00 0.00 42.03 3.71
671 1851 6.459670 AAAAATTGAGTTACAAACGGTCCT 57.540 33.333 0.00 0.00 42.03 3.85
737 1920 1.274728 CATCATGCCCGGTTGGAAAAA 59.725 47.619 0.00 0.00 37.49 1.94
738 1921 0.894141 CATCATGCCCGGTTGGAAAA 59.106 50.000 0.00 0.00 37.49 2.29
739 1922 1.603236 GCATCATGCCCGGTTGGAAA 61.603 55.000 0.00 0.00 37.42 3.13
740 1923 2.051518 GCATCATGCCCGGTTGGAA 61.052 57.895 0.00 0.00 37.42 3.53
741 1924 2.440065 GCATCATGCCCGGTTGGA 60.440 61.111 0.00 0.00 37.42 3.53
742 1925 2.755064 TGCATCATGCCCGGTTGG 60.755 61.111 7.30 0.00 44.23 3.77
743 1926 0.747644 TACTGCATCATGCCCGGTTG 60.748 55.000 7.30 0.00 44.23 3.77
744 1927 0.034574 TTACTGCATCATGCCCGGTT 60.035 50.000 7.30 0.00 44.23 4.44
745 1928 0.034574 TTTACTGCATCATGCCCGGT 60.035 50.000 7.30 6.22 44.23 5.28
746 1929 1.102154 TTTTACTGCATCATGCCCGG 58.898 50.000 7.30 0.00 44.23 5.73
747 1930 4.539870 CTTATTTTACTGCATCATGCCCG 58.460 43.478 7.30 0.33 44.23 6.13
748 1931 4.584325 TCCTTATTTTACTGCATCATGCCC 59.416 41.667 7.30 0.00 44.23 5.36
749 1932 5.772825 TCCTTATTTTACTGCATCATGCC 57.227 39.130 7.30 0.00 44.23 4.40
750 1933 8.139989 AGAAATCCTTATTTTACTGCATCATGC 58.860 33.333 1.35 1.35 38.47 4.06
798 1981 1.656652 CAGACCCGATGCACCTAAAG 58.343 55.000 0.00 0.00 0.00 1.85
887 2083 3.659786 CGGGAGTAATGTGAAGTGAACA 58.340 45.455 0.00 0.00 0.00 3.18
889 2085 2.037902 TGCGGGAGTAATGTGAAGTGAA 59.962 45.455 0.00 0.00 0.00 3.18
924 2121 2.928731 GCACCTGTCTCTGTAGCTTGAC 60.929 54.545 0.00 0.00 0.00 3.18
1014 2215 2.202932 AGTGCTAATGGCGAGGCG 60.203 61.111 0.00 0.00 45.43 5.52
1029 2230 1.689273 AGCTCGTTTCCTCTTGTGAGT 59.311 47.619 0.00 0.00 38.61 3.41
1030 2231 2.447244 AGCTCGTTTCCTCTTGTGAG 57.553 50.000 0.00 0.00 39.92 3.51
1056 2269 5.097742 TGTAGCTGTGTACCAAATGCTAT 57.902 39.130 0.00 0.00 35.82 2.97
1088 2318 1.078759 CAACGACATCCTCTCGTGCC 61.079 60.000 0.00 0.00 43.49 5.01
1089 2319 1.078759 CCAACGACATCCTCTCGTGC 61.079 60.000 0.00 0.00 43.49 5.34
1125 2376 2.124983 CACGAGTCCATGGCCAGG 60.125 66.667 13.05 12.17 0.00 4.45
1132 2383 0.840722 AAGGGGTTCCACGAGTCCAT 60.841 55.000 0.00 0.00 34.83 3.41
1157 2408 2.819595 CCGTGGTGCCGAAGATGG 60.820 66.667 0.00 0.00 0.00 3.51
1290 2541 0.105194 TGACCTCCTCCTTGGTGACA 60.105 55.000 0.00 0.00 36.59 3.58
1562 2813 4.570663 CGACGACCTCGATGGCCC 62.571 72.222 0.00 0.00 46.14 5.80
1600 2851 2.526120 GGAGTACGCCGCAATCAGC 61.526 63.158 0.00 0.00 40.87 4.26
1601 2852 2.230940 CGGAGTACGCCGCAATCAG 61.231 63.158 25.05 0.00 45.38 2.90
1602 2853 2.202690 CGGAGTACGCCGCAATCA 60.203 61.111 25.05 0.00 45.38 2.57
1611 2862 3.437795 AGTCGGCACCGGAGTACG 61.438 66.667 9.46 10.30 43.80 3.67
1612 2863 2.181021 CAGTCGGCACCGGAGTAC 59.819 66.667 9.46 0.22 40.25 2.73
1613 2864 3.755628 GCAGTCGGCACCGGAGTA 61.756 66.667 9.46 0.00 43.97 2.59
1629 2880 2.266554 GTATGTCTGCACTCTGTCTGC 58.733 52.381 0.00 0.00 35.03 4.26
1630 2881 2.095008 ACGTATGTCTGCACTCTGTCTG 60.095 50.000 0.00 0.00 0.00 3.51
1631 2882 2.095008 CACGTATGTCTGCACTCTGTCT 60.095 50.000 0.00 0.00 0.00 3.41
1632 2883 2.254459 CACGTATGTCTGCACTCTGTC 58.746 52.381 0.00 0.00 0.00 3.51
1633 2884 1.670087 GCACGTATGTCTGCACTCTGT 60.670 52.381 0.00 0.00 33.31 3.41
1634 2885 0.994995 GCACGTATGTCTGCACTCTG 59.005 55.000 0.00 0.00 33.31 3.35
1635 2886 0.456824 CGCACGTATGTCTGCACTCT 60.457 55.000 0.00 0.00 32.57 3.24
1636 2887 1.413767 CCGCACGTATGTCTGCACTC 61.414 60.000 0.00 0.00 32.57 3.51
1637 2888 1.446099 CCGCACGTATGTCTGCACT 60.446 57.895 0.00 0.00 32.57 4.40
1646 2897 1.079875 CGGCAACTTACCGCACGTAT 61.080 55.000 0.00 0.00 44.90 3.06
1688 2951 1.886542 GTGGAATCACACCCAAAGGAC 59.113 52.381 0.00 0.00 43.13 3.85
1752 3030 0.670162 GTCACAACAGCAAGCCACAT 59.330 50.000 0.00 0.00 0.00 3.21
1765 3043 2.905075 CACCTCACTCACAAGTCACAA 58.095 47.619 0.00 0.00 31.71 3.33
1794 3085 5.756833 ACTAACAAGTAACAGTACAGGCAAC 59.243 40.000 0.00 0.00 32.12 4.17
1854 3145 7.372918 CGAGTACAGTTAATTAGCGAGTACTTC 59.627 40.741 25.71 20.38 40.29 3.01
1860 3151 6.025896 TCAACGAGTACAGTTAATTAGCGAG 58.974 40.000 6.45 0.00 0.00 5.03
1887 3178 5.246203 GGCTTGATGTATAGGTGGTCTCATA 59.754 44.000 0.00 0.00 0.00 2.15
1958 3257 0.250989 AAAGGGTTGGGCGAATCGAA 60.251 50.000 6.91 0.00 0.00 3.71
1972 3271 6.604735 ACGAATAGATCAAAATCGAAAGGG 57.395 37.500 14.39 0.00 36.97 3.95
2010 3309 6.594788 ATGCCTTTTTAACTGTCATGACAT 57.405 33.333 28.00 17.16 41.01 3.06
2012 3311 5.088739 CGATGCCTTTTTAACTGTCATGAC 58.911 41.667 19.27 19.27 0.00 3.06
2018 3317 4.023193 CACTTCCGATGCCTTTTTAACTGT 60.023 41.667 0.00 0.00 0.00 3.55
2029 3328 3.575965 ATTTTTGTCACTTCCGATGCC 57.424 42.857 0.00 0.00 0.00 4.40
2034 3333 8.964420 ACATTGTTATATTTTTGTCACTTCCG 57.036 30.769 0.00 0.00 0.00 4.30
2085 3384 5.135508 TGACTTGCTCTAGTGGTTTAGTC 57.864 43.478 0.00 0.00 33.25 2.59
2095 3394 6.259387 TGACATATGCATTTGACTTGCTCTAG 59.741 38.462 21.91 0.00 40.77 2.43
2097 3396 4.945543 TGACATATGCATTTGACTTGCTCT 59.054 37.500 21.91 0.00 40.77 4.09
2102 3401 5.653330 TGGTGATGACATATGCATTTGACTT 59.347 36.000 21.91 14.15 0.00 3.01
2110 3409 3.479489 GGTGATGGTGATGACATATGCA 58.521 45.455 1.58 2.39 0.00 3.96
2115 3414 1.492176 GAGGGGTGATGGTGATGACAT 59.508 52.381 0.00 0.00 0.00 3.06
2116 3415 0.911769 GAGGGGTGATGGTGATGACA 59.088 55.000 0.00 0.00 0.00 3.58
2117 3416 0.181350 GGAGGGGTGATGGTGATGAC 59.819 60.000 0.00 0.00 0.00 3.06
2118 3417 0.044702 AGGAGGGGTGATGGTGATGA 59.955 55.000 0.00 0.00 0.00 2.92
2119 3418 0.921896 AAGGAGGGGTGATGGTGATG 59.078 55.000 0.00 0.00 0.00 3.07
2120 3419 1.216990 GAAGGAGGGGTGATGGTGAT 58.783 55.000 0.00 0.00 0.00 3.06
2121 3420 0.178876 TGAAGGAGGGGTGATGGTGA 60.179 55.000 0.00 0.00 0.00 4.02
2122 3421 0.035056 GTGAAGGAGGGGTGATGGTG 60.035 60.000 0.00 0.00 0.00 4.17
2123 3422 1.208165 GGTGAAGGAGGGGTGATGGT 61.208 60.000 0.00 0.00 0.00 3.55
2124 3423 1.609783 GGTGAAGGAGGGGTGATGG 59.390 63.158 0.00 0.00 0.00 3.51
2135 3434 1.812686 TTGGTCGACTCCGGTGAAGG 61.813 60.000 16.46 0.00 36.24 3.46
2143 3442 9.420551 CTATTATAATAAGGTTTGGTCGACTCC 57.579 37.037 16.46 12.55 0.00 3.85
2181 3480 7.502561 GGTCCTATAAAGCCTTAACATGACAAT 59.497 37.037 0.00 0.00 0.00 2.71
2184 3483 6.354130 TGGTCCTATAAAGCCTTAACATGAC 58.646 40.000 0.00 0.00 0.00 3.06
2189 3488 3.808174 CGCTGGTCCTATAAAGCCTTAAC 59.192 47.826 0.00 0.00 31.84 2.01
2196 3495 2.604046 AGTGCGCTGGTCCTATAAAG 57.396 50.000 9.73 0.00 0.00 1.85
2197 3496 5.069383 TGTTATAGTGCGCTGGTCCTATAAA 59.931 40.000 10.80 5.86 35.35 1.40
2199 3498 4.146564 TGTTATAGTGCGCTGGTCCTATA 58.853 43.478 10.80 7.90 0.00 1.31
2230 3529 3.014623 TCTATTCTTCTCTTCGTCGGCA 58.985 45.455 0.00 0.00 0.00 5.69
2231 3530 3.694535 TCTATTCTTCTCTTCGTCGGC 57.305 47.619 0.00 0.00 0.00 5.54
2267 3566 9.562583 GTATTTGTTTGTTTTGTCTGTCTACAA 57.437 29.630 0.00 0.00 37.58 2.41
2269 3568 8.117988 TCGTATTTGTTTGTTTTGTCTGTCTAC 58.882 33.333 0.00 0.00 0.00 2.59
2276 3575 6.915843 AGTCCATCGTATTTGTTTGTTTTGTC 59.084 34.615 0.00 0.00 0.00 3.18
2277 3576 6.695278 CAGTCCATCGTATTTGTTTGTTTTGT 59.305 34.615 0.00 0.00 0.00 2.83
2278 3577 6.345723 GCAGTCCATCGTATTTGTTTGTTTTG 60.346 38.462 0.00 0.00 0.00 2.44
2279 3578 5.689961 GCAGTCCATCGTATTTGTTTGTTTT 59.310 36.000 0.00 0.00 0.00 2.43
2280 3579 5.219633 GCAGTCCATCGTATTTGTTTGTTT 58.780 37.500 0.00 0.00 0.00 2.83
2281 3580 4.320935 GGCAGTCCATCGTATTTGTTTGTT 60.321 41.667 0.00 0.00 0.00 2.83
2291 3590 1.107945 TGATTCGGCAGTCCATCGTA 58.892 50.000 0.00 0.00 0.00 3.43
2301 3600 2.564771 GTGGATCATCTTGATTCGGCA 58.435 47.619 0.00 0.00 37.20 5.69
2331 3631 5.860716 GGATCTGTTTGAATTCAGTCTTTGC 59.139 40.000 8.41 0.00 33.89 3.68
2341 3641 5.835280 AGTCTTTGGTGGATCTGTTTGAATT 59.165 36.000 0.00 0.00 0.00 2.17
2365 3665 0.609151 TCGGGATTTGTTCGGTGCTA 59.391 50.000 0.00 0.00 0.00 3.49
2382 3682 1.534175 GGCGTGTCTCCAATAGTCTCG 60.534 57.143 0.00 0.00 34.70 4.04
2387 3687 2.672961 TTGAGGCGTGTCTCCAATAG 57.327 50.000 0.00 0.00 33.04 1.73
2391 3692 1.296392 CCATTGAGGCGTGTCTCCA 59.704 57.895 0.00 0.00 33.04 3.86
2393 3694 1.079503 GAACCATTGAGGCGTGTCTC 58.920 55.000 0.00 0.00 43.14 3.36
2405 3706 1.674322 CGGGGCGTCTTGAACCATT 60.674 57.895 0.00 0.00 0.00 3.16
2406 3707 2.046314 CGGGGCGTCTTGAACCAT 60.046 61.111 0.00 0.00 0.00 3.55
2454 3755 1.867363 ACACCTCCCTGTAGATGGAC 58.133 55.000 0.00 0.00 0.00 4.02
2477 3778 1.424493 CTGCTTAGAAAGGCGAGGCG 61.424 60.000 0.00 0.00 0.00 5.52
2484 3785 4.156739 GGATTTGTGTCCTGCTTAGAAAGG 59.843 45.833 0.00 0.00 35.32 3.11
2516 3817 8.070769 GCTCCTTGTTTTAGTTAGAGTTTTGAG 58.929 37.037 0.00 0.00 0.00 3.02
2524 3825 5.876357 ACCATGCTCCTTGTTTTAGTTAGA 58.124 37.500 0.00 0.00 0.00 2.10
2525 3826 5.123979 GGACCATGCTCCTTGTTTTAGTTAG 59.876 44.000 0.00 0.00 0.00 2.34
2535 3836 1.751927 GCAGGGACCATGCTCCTTG 60.752 63.158 23.54 13.54 39.82 3.61
2544 3845 2.638981 CTTGTTGGTGGCAGGGACCA 62.639 60.000 0.00 0.00 41.93 4.02
2546 3847 1.903404 CCTTGTTGGTGGCAGGGAC 60.903 63.158 0.00 0.00 35.40 4.46
2557 3858 3.221771 TGATGGACTCCAAACCTTGTTG 58.778 45.455 0.66 0.00 36.95 3.33
2558 3859 3.593442 TGATGGACTCCAAACCTTGTT 57.407 42.857 0.66 0.00 36.95 2.83
2560 3861 2.165030 GCATGATGGACTCCAAACCTTG 59.835 50.000 0.66 4.82 36.95 3.61
2565 3866 2.041485 TGAAGGCATGATGGACTCCAAA 59.959 45.455 0.66 0.00 36.95 3.28
2566 3867 1.634973 TGAAGGCATGATGGACTCCAA 59.365 47.619 0.66 0.00 36.95 3.53
2602 3903 1.447838 CCGGTCCACCACATCTTCG 60.448 63.158 0.00 0.00 35.14 3.79
2613 3914 2.580276 GACATTACCGCCGGTCCA 59.420 61.111 14.44 0.00 37.09 4.02
2618 3919 2.279252 CCCTCGACATTACCGCCG 60.279 66.667 0.00 0.00 0.00 6.46
2627 3933 1.679977 CCCGTAACTCCCCTCGACA 60.680 63.158 0.00 0.00 0.00 4.35
2629 3935 0.251742 TTTCCCGTAACTCCCCTCGA 60.252 55.000 0.00 0.00 0.00 4.04
2678 3984 2.297698 TTGTCTACCCCTTCGTCTCA 57.702 50.000 0.00 0.00 0.00 3.27
2683 3989 1.203994 ACGACATTGTCTACCCCTTCG 59.796 52.381 14.54 1.69 0.00 3.79
2690 3996 6.385537 ACACGATAAAACGACATTGTCTAC 57.614 37.500 14.54 0.00 37.03 2.59
2700 4006 4.562082 AGATGACCAACACGATAAAACGA 58.438 39.130 0.00 0.00 37.03 3.85
2706 4012 3.132289 GGAGGAAGATGACCAACACGATA 59.868 47.826 0.00 0.00 0.00 2.92
2710 4016 1.340114 GGGGAGGAAGATGACCAACAC 60.340 57.143 0.00 0.00 0.00 3.32
2731 4037 3.189080 TGTTGGAGAAGAACAATGCATCG 59.811 43.478 0.00 0.00 30.35 3.84
2732 4038 4.771590 TGTTGGAGAAGAACAATGCATC 57.228 40.909 0.00 0.00 30.35 3.91
2733 4039 4.768448 TCATGTTGGAGAAGAACAATGCAT 59.232 37.500 0.00 0.00 36.90 3.96
2734 4040 4.143543 TCATGTTGGAGAAGAACAATGCA 58.856 39.130 0.00 0.00 36.90 3.96
2735 4041 4.771590 TCATGTTGGAGAAGAACAATGC 57.228 40.909 0.00 0.00 36.90 3.56
2736 4042 5.647589 CCATCATGTTGGAGAAGAACAATG 58.352 41.667 16.58 0.00 39.25 2.82
2737 4043 4.159135 GCCATCATGTTGGAGAAGAACAAT 59.841 41.667 24.23 0.00 39.25 2.71
2740 4048 2.096496 CGCCATCATGTTGGAGAAGAAC 59.904 50.000 24.23 5.78 38.71 3.01
2754 4062 2.457598 GAGGGAGGATATACGCCATCA 58.542 52.381 16.51 0.00 31.92 3.07
2761 4069 3.566997 GGAAGGGAGGAGGGAGGATATAC 60.567 56.522 0.00 0.00 0.00 1.47
2762 4070 2.660556 GGAAGGGAGGAGGGAGGATATA 59.339 54.545 0.00 0.00 0.00 0.86
2765 4073 1.635051 GGAAGGGAGGAGGGAGGAT 59.365 63.158 0.00 0.00 0.00 3.24
2766 4074 2.647949 GGGAAGGGAGGAGGGAGGA 61.648 68.421 0.00 0.00 0.00 3.71
2769 4077 1.152271 GATATGGGAAGGGAGGAGGGA 59.848 57.143 0.00 0.00 0.00 4.20
2773 4081 3.051032 ACTGAAGATATGGGAAGGGAGGA 60.051 47.826 0.00 0.00 0.00 3.71
2776 4084 3.311327 TGGACTGAAGATATGGGAAGGGA 60.311 47.826 0.00 0.00 0.00 4.20
2779 4090 5.363939 GAGTTGGACTGAAGATATGGGAAG 58.636 45.833 0.00 0.00 0.00 3.46
2788 4099 4.519906 AAAAAGGGAGTTGGACTGAAGA 57.480 40.909 0.00 0.00 0.00 2.87
2815 4126 3.787001 GCTTGACGAGGGAGGGGG 61.787 72.222 0.00 0.00 0.00 5.40


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

AutoCloner maintained by Alex Coulton.