Multiple sequence alignment - TraesCS2B01G208000

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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 TraesCS2B01G208000 chr2B 100.000 3835 0 0 1 3835 188718038 188721872 0.000000e+00 7083.0
1 TraesCS2B01G208000 chr2B 89.877 731 62 6 3092 3813 16235085 16235812 0.000000e+00 929.0
2 TraesCS2B01G208000 chr2B 97.561 41 0 1 452 491 237346141 237346181 6.870000e-08 69.4
3 TraesCS2B01G208000 chr2D 92.917 2146 91 19 968 3090 133039212 133041319 0.000000e+00 3064.0
4 TraesCS2B01G208000 chr2D 88.211 475 28 12 1 449 133038350 133038822 3.370000e-150 542.0
5 TraesCS2B01G208000 chr2D 95.000 100 5 0 876 975 649821920 649821821 1.430000e-34 158.0
6 TraesCS2B01G208000 chr2A 92.747 1558 93 13 968 2521 139964196 139962655 0.000000e+00 2233.0
7 TraesCS2B01G208000 chr2A 93.810 1470 78 6 968 2433 140505078 140506538 0.000000e+00 2198.0
8 TraesCS2B01G208000 chr2A 92.542 590 29 9 2516 3097 139942843 139942261 0.000000e+00 832.0
9 TraesCS2B01G208000 chr2A 89.792 480 21 4 2623 3094 140507089 140507548 1.190000e-164 590.0
10 TraesCS2B01G208000 chr2A 87.651 413 28 6 1 391 140504220 140504631 3.490000e-125 459.0
11 TraesCS2B01G208000 chr2A 84.416 308 19 11 1 308 139979392 139979114 3.770000e-70 276.0
12 TraesCS2B01G208000 chr2A 81.176 340 52 7 1736 2072 652151714 652152044 2.940000e-66 263.0
13 TraesCS2B01G208000 chr2A 95.122 82 4 0 2428 2509 140507079 140506998 3.110000e-26 130.0
14 TraesCS2B01G208000 chr2A 97.222 36 0 1 3799 3834 583841110 583841076 4.140000e-05 60.2
15 TraesCS2B01G208000 chr3D 90.137 730 61 5 3093 3813 15461359 15462086 0.000000e+00 939.0
16 TraesCS2B01G208000 chr3D 95.699 93 3 1 877 969 531044319 531044228 8.580000e-32 148.0
17 TraesCS2B01G208000 chr3D 91.489 47 2 2 444 489 317090744 317090699 3.200000e-06 63.9
18 TraesCS2B01G208000 chr7B 89.459 740 63 9 3084 3813 549594068 549594802 0.000000e+00 920.0
19 TraesCS2B01G208000 chr7B 89.281 737 70 5 3085 3813 747429307 747430042 0.000000e+00 915.0
20 TraesCS2B01G208000 chr7B 88.571 735 69 9 3089 3813 175736220 175735491 0.000000e+00 878.0
21 TraesCS2B01G208000 chr3B 90.057 704 61 4 3091 3792 59037790 59037094 0.000000e+00 904.0
22 TraesCS2B01G208000 chr3B 96.970 33 1 0 3803 3835 157227575 157227543 5.350000e-04 56.5
23 TraesCS2B01G208000 chr5B 89.071 732 67 10 3093 3813 308979882 308980611 0.000000e+00 896.0
24 TraesCS2B01G208000 chr5B 97.500 40 0 1 452 490 185511953 185511914 2.470000e-07 67.6
25 TraesCS2B01G208000 chr5B 100.000 36 0 0 455 490 562489566 562489601 2.470000e-07 67.6
26 TraesCS2B01G208000 chr5B 100.000 32 0 0 3801 3832 660863337 660863368 4.140000e-05 60.2
27 TraesCS2B01G208000 chr5B 100.000 32 0 0 3801 3832 660911941 660911972 4.140000e-05 60.2
28 TraesCS2B01G208000 chr6B 89.362 705 68 6 3090 3792 176968194 176968893 0.000000e+00 880.0
29 TraesCS2B01G208000 chr6B 95.789 95 3 1 884 978 115045680 115045773 6.640000e-33 152.0
30 TraesCS2B01G208000 chr6B 94.845 97 3 2 878 973 411556556 411556651 2.390000e-32 150.0
31 TraesCS2B01G208000 chr6B 77.820 266 37 13 1732 1994 7983824 7983578 1.110000e-30 145.0
32 TraesCS2B01G208000 chr4B 88.124 741 73 9 3084 3813 541452313 541453049 0.000000e+00 867.0
33 TraesCS2B01G208000 chr4B 100.000 31 0 0 3805 3835 28073084 28073054 1.490000e-04 58.4
34 TraesCS2B01G208000 chr4B 94.286 35 1 1 3801 3835 564660781 564660814 7.000000e-03 52.8
35 TraesCS2B01G208000 chr3A 90.411 292 14 8 2812 3094 403428205 403428491 4.680000e-99 372.0
36 TraesCS2B01G208000 chr5D 94.000 100 6 0 870 969 301581304 301581403 6.640000e-33 152.0
37 TraesCS2B01G208000 chr1D 94.898 98 4 1 885 982 437574222 437574318 6.640000e-33 152.0
38 TraesCS2B01G208000 chr1B 93.939 99 6 0 871 969 352885053 352884955 2.390000e-32 150.0
39 TraesCS2B01G208000 chr1B 86.992 123 10 6 855 973 384260567 384260447 2.400000e-27 134.0
40 TraesCS2B01G208000 chr1B 88.136 59 2 1 457 510 679763518 679763576 8.890000e-07 65.8
41 TraesCS2B01G208000 chr7A 96.629 89 3 0 884 972 616935456 616935544 8.580000e-32 148.0
42 TraesCS2B01G208000 chr7A 91.837 49 3 1 442 490 639360566 639360613 2.470000e-07 67.6
43 TraesCS2B01G208000 chr7A 89.796 49 4 1 442 490 639285369 639285322 1.150000e-05 62.1
44 TraesCS2B01G208000 chr7D 91.837 49 3 1 442 490 553460236 553460189 2.470000e-07 67.6
45 TraesCS2B01G208000 chr4D 97.436 39 1 0 458 496 252177075 252177113 2.470000e-07 67.6
46 TraesCS2B01G208000 chrUn 100.000 32 0 0 3801 3832 233419983 233420014 4.140000e-05 60.2
47 TraesCS2B01G208000 chrUn 100.000 32 0 0 3801 3832 358047492 358047523 4.140000e-05 60.2
48 TraesCS2B01G208000 chr6D 96.875 32 0 1 483 514 3377992 3377962 7.000000e-03 52.8


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 TraesCS2B01G208000 chr2B 188718038 188721872 3834 False 7083.000000 7083 100.000000 1 3835 1 chr2B.!!$F2 3834
1 TraesCS2B01G208000 chr2B 16235085 16235812 727 False 929.000000 929 89.877000 3092 3813 1 chr2B.!!$F1 721
2 TraesCS2B01G208000 chr2D 133038350 133041319 2969 False 1803.000000 3064 90.564000 1 3090 2 chr2D.!!$F1 3089
3 TraesCS2B01G208000 chr2A 139962655 139964196 1541 True 2233.000000 2233 92.747000 968 2521 1 chr2A.!!$R2 1553
4 TraesCS2B01G208000 chr2A 140504220 140507548 3328 False 1082.333333 2198 90.417667 1 3094 3 chr2A.!!$F2 3093
5 TraesCS2B01G208000 chr2A 139942261 139942843 582 True 832.000000 832 92.542000 2516 3097 1 chr2A.!!$R1 581
6 TraesCS2B01G208000 chr3D 15461359 15462086 727 False 939.000000 939 90.137000 3093 3813 1 chr3D.!!$F1 720
7 TraesCS2B01G208000 chr7B 549594068 549594802 734 False 920.000000 920 89.459000 3084 3813 1 chr7B.!!$F1 729
8 TraesCS2B01G208000 chr7B 747429307 747430042 735 False 915.000000 915 89.281000 3085 3813 1 chr7B.!!$F2 728
9 TraesCS2B01G208000 chr7B 175735491 175736220 729 True 878.000000 878 88.571000 3089 3813 1 chr7B.!!$R1 724
10 TraesCS2B01G208000 chr3B 59037094 59037790 696 True 904.000000 904 90.057000 3091 3792 1 chr3B.!!$R1 701
11 TraesCS2B01G208000 chr5B 308979882 308980611 729 False 896.000000 896 89.071000 3093 3813 1 chr5B.!!$F1 720
12 TraesCS2B01G208000 chr6B 176968194 176968893 699 False 880.000000 880 89.362000 3090 3792 1 chr6B.!!$F2 702
13 TraesCS2B01G208000 chr4B 541452313 541453049 736 False 867.000000 867 88.124000 3084 3813 1 chr4B.!!$F1 729

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
899 1056 0.635009 ATTCTACTCCCTCCGTCCCA 59.365 55.0 0.0 0.0 0.0 4.37 F
1033 1190 0.111266 CGTCGCAAAACCTTCGTCAG 60.111 55.0 0.0 0.0 0.0 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1961 2126 0.329596 GAATCCTCACCCTGTTGGCT 59.670 55.0 0.00 0.0 37.83 4.75 R
2894 3582 1.174078 TTAGCAAAGCAGCAGCAGCA 61.174 50.0 12.92 0.0 45.49 4.41 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
127 136 3.048600 TCGATCCATTCCTTCCTTCCAT 58.951 45.455 0.00 0.00 0.00 3.41
151 160 2.493675 CTCTCAACTCATCGGAACTCCA 59.506 50.000 0.00 0.00 35.14 3.86
154 163 1.001974 CAACTCATCGGAACTCCACCA 59.998 52.381 0.00 0.00 35.14 4.17
253 262 1.005867 TTTCTCGACCCCGGTTTCG 60.006 57.895 14.26 14.26 36.55 3.46
394 434 3.554692 CGATCGTCGTGCAAGCCC 61.555 66.667 7.03 0.00 34.72 5.19
402 449 2.542907 CGTGCAAGCCCGTTCTTGT 61.543 57.895 13.22 0.00 43.92 3.16
413 460 2.351350 CCCGTTCTTGTGCAATGTTACC 60.351 50.000 0.00 0.00 0.00 2.85
417 464 3.222173 TCTTGTGCAATGTTACCTGGT 57.778 42.857 4.05 4.05 0.00 4.00
418 465 3.146066 TCTTGTGCAATGTTACCTGGTC 58.854 45.455 0.63 0.00 0.00 4.02
452 499 7.986085 ATATACTGGTCAAAATCATAGCACC 57.014 36.000 0.00 0.00 0.00 5.01
453 500 3.356290 ACTGGTCAAAATCATAGCACCC 58.644 45.455 0.00 0.00 0.00 4.61
454 501 2.689983 CTGGTCAAAATCATAGCACCCC 59.310 50.000 0.00 0.00 0.00 4.95
455 502 2.311542 TGGTCAAAATCATAGCACCCCT 59.688 45.455 0.00 0.00 0.00 4.79
456 503 2.689983 GGTCAAAATCATAGCACCCCTG 59.310 50.000 0.00 0.00 0.00 4.45
457 504 3.356290 GTCAAAATCATAGCACCCCTGT 58.644 45.455 0.00 0.00 0.00 4.00
458 505 4.523083 GTCAAAATCATAGCACCCCTGTA 58.477 43.478 0.00 0.00 0.00 2.74
459 506 4.947388 GTCAAAATCATAGCACCCCTGTAA 59.053 41.667 0.00 0.00 0.00 2.41
460 507 5.417580 GTCAAAATCATAGCACCCCTGTAAA 59.582 40.000 0.00 0.00 0.00 2.01
461 508 5.652014 TCAAAATCATAGCACCCCTGTAAAG 59.348 40.000 0.00 0.00 0.00 1.85
462 509 5.450818 AAATCATAGCACCCCTGTAAAGA 57.549 39.130 0.00 0.00 0.00 2.52
463 510 5.450818 AATCATAGCACCCCTGTAAAGAA 57.549 39.130 0.00 0.00 0.00 2.52
464 511 4.919774 TCATAGCACCCCTGTAAAGAAA 57.080 40.909 0.00 0.00 0.00 2.52
465 512 5.450818 TCATAGCACCCCTGTAAAGAAAT 57.549 39.130 0.00 0.00 0.00 2.17
466 513 6.569127 TCATAGCACCCCTGTAAAGAAATA 57.431 37.500 0.00 0.00 0.00 1.40
467 514 7.149202 TCATAGCACCCCTGTAAAGAAATAT 57.851 36.000 0.00 0.00 0.00 1.28
468 515 8.270137 TCATAGCACCCCTGTAAAGAAATATA 57.730 34.615 0.00 0.00 0.00 0.86
469 516 8.719596 TCATAGCACCCCTGTAAAGAAATATAA 58.280 33.333 0.00 0.00 0.00 0.98
470 517 9.003658 CATAGCACCCCTGTAAAGAAATATAAG 57.996 37.037 0.00 0.00 0.00 1.73
471 518 6.365520 AGCACCCCTGTAAAGAAATATAAGG 58.634 40.000 0.00 0.00 0.00 2.69
472 519 5.535030 GCACCCCTGTAAAGAAATATAAGGG 59.465 44.000 0.00 0.00 36.85 3.95
473 520 5.535030 CACCCCTGTAAAGAAATATAAGGGC 59.465 44.000 0.00 0.00 33.95 5.19
474 521 4.760204 CCCCTGTAAAGAAATATAAGGGCG 59.240 45.833 0.00 0.00 32.99 6.13
475 522 5.374071 CCCTGTAAAGAAATATAAGGGCGT 58.626 41.667 0.00 0.00 0.00 5.68
476 523 5.826208 CCCTGTAAAGAAATATAAGGGCGTT 59.174 40.000 0.00 0.00 0.00 4.84
477 524 6.320418 CCCTGTAAAGAAATATAAGGGCGTTT 59.680 38.462 0.00 0.00 0.00 3.60
478 525 7.499895 CCCTGTAAAGAAATATAAGGGCGTTTA 59.500 37.037 0.00 0.00 0.00 2.01
479 526 8.557029 CCTGTAAAGAAATATAAGGGCGTTTAG 58.443 37.037 0.00 0.00 0.00 1.85
480 527 9.321562 CTGTAAAGAAATATAAGGGCGTTTAGA 57.678 33.333 0.00 0.00 0.00 2.10
481 528 9.841295 TGTAAAGAAATATAAGGGCGTTTAGAT 57.159 29.630 0.00 0.00 0.00 1.98
483 530 8.974060 AAAGAAATATAAGGGCGTTTAGATCA 57.026 30.769 0.00 0.00 0.00 2.92
484 531 7.964604 AGAAATATAAGGGCGTTTAGATCAC 57.035 36.000 0.00 0.00 0.00 3.06
485 532 7.736893 AGAAATATAAGGGCGTTTAGATCACT 58.263 34.615 0.00 0.00 0.00 3.41
486 533 8.867097 AGAAATATAAGGGCGTTTAGATCACTA 58.133 33.333 0.00 0.00 0.00 2.74
487 534 8.828688 AAATATAAGGGCGTTTAGATCACTAC 57.171 34.615 0.00 0.00 0.00 2.73
488 535 7.778185 ATATAAGGGCGTTTAGATCACTACT 57.222 36.000 0.00 0.00 0.00 2.57
489 536 4.820894 AAGGGCGTTTAGATCACTACTT 57.179 40.909 0.00 0.00 0.00 2.24
490 537 5.927281 AAGGGCGTTTAGATCACTACTTA 57.073 39.130 0.00 0.00 0.00 2.24
491 538 6.481434 AAGGGCGTTTAGATCACTACTTAT 57.519 37.500 0.00 0.00 0.00 1.73
492 539 7.592885 AAGGGCGTTTAGATCACTACTTATA 57.407 36.000 0.00 0.00 0.00 0.98
493 540 7.778185 AGGGCGTTTAGATCACTACTTATAT 57.222 36.000 0.00 0.00 0.00 0.86
494 541 8.191534 AGGGCGTTTAGATCACTACTTATATT 57.808 34.615 0.00 0.00 0.00 1.28
495 542 8.648693 AGGGCGTTTAGATCACTACTTATATTT 58.351 33.333 0.00 0.00 0.00 1.40
496 543 8.923683 GGGCGTTTAGATCACTACTTATATTTC 58.076 37.037 0.00 0.00 0.00 2.17
497 544 8.923683 GGCGTTTAGATCACTACTTATATTTCC 58.076 37.037 0.00 0.00 0.00 3.13
498 545 9.694137 GCGTTTAGATCACTACTTATATTTCCT 57.306 33.333 0.00 0.00 0.00 3.36
504 551 9.584008 AGATCACTACTTATATTTCCTTACGGA 57.416 33.333 0.00 0.00 37.60 4.69
505 552 9.843334 GATCACTACTTATATTTCCTTACGGAG 57.157 37.037 0.00 0.00 41.25 4.63
507 554 7.232127 TCACTACTTATATTTCCTTACGGAGGG 59.768 40.741 7.19 0.00 46.31 4.30
514 561 2.431954 TCCTTACGGAGGGAGTACAG 57.568 55.000 0.00 0.00 46.31 2.74
515 562 1.064166 TCCTTACGGAGGGAGTACAGG 60.064 57.143 0.00 0.00 46.31 4.00
527 574 4.283722 AGGGAGTACAGGTGTAGAACAAAG 59.716 45.833 0.00 0.00 0.00 2.77
533 580 2.221055 CAGGTGTAGAACAAAGTCACGC 59.779 50.000 0.00 0.00 0.00 5.34
563 619 9.974980 TTAACTAAGCATTTACCCTTTTTCTTG 57.025 29.630 0.00 0.00 0.00 3.02
570 626 6.710295 GCATTTACCCTTTTTCTTGGAATGTT 59.290 34.615 0.00 0.00 0.00 2.71
571 627 7.307930 GCATTTACCCTTTTTCTTGGAATGTTG 60.308 37.037 0.00 0.00 0.00 3.33
582 731 7.792374 TTCTTGGAATGTTGTAGATAGATGC 57.208 36.000 0.00 0.00 0.00 3.91
585 734 6.925610 TGGAATGTTGTAGATAGATGCAAC 57.074 37.500 0.00 0.00 43.54 4.17
589 738 7.443575 GGAATGTTGTAGATAGATGCAACTGAT 59.556 37.037 6.76 0.00 43.60 2.90
593 742 8.453320 TGTTGTAGATAGATGCAACTGATTTTG 58.547 33.333 6.76 0.00 43.60 2.44
595 744 8.969260 TGTAGATAGATGCAACTGATTTTGAT 57.031 30.769 6.76 0.00 0.00 2.57
605 754 6.533012 TGCAACTGATTTTGATTTTCGAAACA 59.467 30.769 10.79 3.39 32.99 2.83
622 773 8.725405 TTCGAAACATTTCAGGTATATAGCAA 57.275 30.769 14.11 0.67 37.01 3.91
626 777 9.599322 GAAACATTTCAGGTATATAGCAAATCG 57.401 33.333 14.11 9.00 37.15 3.34
630 781 6.665992 TTCAGGTATATAGCAAATCGACCT 57.334 37.500 14.11 0.00 36.25 3.85
644 795 2.905075 TCGACCTGCATCCACTATTTG 58.095 47.619 0.00 0.00 0.00 2.32
701 852 7.605691 CCTAAGAATGAGAATATCCACATGGTC 59.394 40.741 0.00 0.00 36.34 4.02
705 856 5.282055 TGAGAATATCCACATGGTCTCAC 57.718 43.478 12.59 0.70 38.15 3.51
706 857 4.716287 TGAGAATATCCACATGGTCTCACA 59.284 41.667 12.59 2.71 38.15 3.58
733 887 7.769272 TTTGAATTTCCAGTACTTTTTGCTG 57.231 32.000 0.00 0.00 37.67 4.41
735 889 6.872920 TGAATTTCCAGTACTTTTTGCTGTT 58.127 32.000 0.00 0.00 36.23 3.16
756 910 5.106712 TGTTTCATAGGTTTCATTCAGCGAC 60.107 40.000 0.00 0.00 0.00 5.19
769 923 4.703899 TTCAGCGACGTTTCTTAGTTTC 57.296 40.909 0.00 0.00 0.00 2.78
795 949 1.644509 TCAGCTTTCTACTGCTCCCA 58.355 50.000 0.00 0.00 37.44 4.37
797 951 2.093288 TCAGCTTTCTACTGCTCCCATG 60.093 50.000 0.00 0.00 37.44 3.66
798 952 1.020437 GCTTTCTACTGCTCCCATGC 58.980 55.000 0.00 0.00 0.00 4.06
801 955 0.991146 TTCTACTGCTCCCATGCCAA 59.009 50.000 0.00 0.00 0.00 4.52
826 983 3.921677 TGAATTAGACGTGGAGTTCACC 58.078 45.455 0.00 0.00 43.23 4.02
850 1007 6.348540 CCACTTTTATCTCCAGTAAACACAGC 60.349 42.308 0.00 0.00 0.00 4.40
853 1010 1.429930 TCTCCAGTAAACACAGCCCA 58.570 50.000 0.00 0.00 0.00 5.36
855 1012 1.072331 CTCCAGTAAACACAGCCCAGT 59.928 52.381 0.00 0.00 0.00 4.00
873 1030 5.104900 GCCCAGTATTCCTTTCTTCAGTCTA 60.105 44.000 0.00 0.00 0.00 2.59
889 1046 8.958506 TCTTCAGTCTACTTTACATTCTACTCC 58.041 37.037 0.00 0.00 0.00 3.85
890 1047 7.642082 TCAGTCTACTTTACATTCTACTCCC 57.358 40.000 0.00 0.00 0.00 4.30
891 1048 7.411808 TCAGTCTACTTTACATTCTACTCCCT 58.588 38.462 0.00 0.00 0.00 4.20
892 1049 7.556996 TCAGTCTACTTTACATTCTACTCCCTC 59.443 40.741 0.00 0.00 0.00 4.30
893 1050 6.834969 AGTCTACTTTACATTCTACTCCCTCC 59.165 42.308 0.00 0.00 0.00 4.30
894 1051 5.826737 TCTACTTTACATTCTACTCCCTCCG 59.173 44.000 0.00 0.00 0.00 4.63
895 1052 4.351127 ACTTTACATTCTACTCCCTCCGT 58.649 43.478 0.00 0.00 0.00 4.69
896 1053 4.401837 ACTTTACATTCTACTCCCTCCGTC 59.598 45.833 0.00 0.00 0.00 4.79
897 1054 1.777941 ACATTCTACTCCCTCCGTCC 58.222 55.000 0.00 0.00 0.00 4.79
898 1055 1.041437 CATTCTACTCCCTCCGTCCC 58.959 60.000 0.00 0.00 0.00 4.46
899 1056 0.635009 ATTCTACTCCCTCCGTCCCA 59.365 55.000 0.00 0.00 0.00 4.37
900 1057 0.635009 TTCTACTCCCTCCGTCCCAT 59.365 55.000 0.00 0.00 0.00 4.00
901 1058 1.526315 TCTACTCCCTCCGTCCCATA 58.474 55.000 0.00 0.00 0.00 2.74
902 1059 1.854939 TCTACTCCCTCCGTCCCATAA 59.145 52.381 0.00 0.00 0.00 1.90
903 1060 2.449730 TCTACTCCCTCCGTCCCATAAT 59.550 50.000 0.00 0.00 0.00 1.28
904 1061 3.659195 TCTACTCCCTCCGTCCCATAATA 59.341 47.826 0.00 0.00 0.00 0.98
905 1062 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
906 1063 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
907 1064 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
908 1065 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
909 1066 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
910 1067 5.657446 TCCCTCCGTCCCATAATATAAGAA 58.343 41.667 0.00 0.00 0.00 2.52
911 1068 5.482878 TCCCTCCGTCCCATAATATAAGAAC 59.517 44.000 0.00 0.00 0.00 3.01
912 1069 5.408356 CCTCCGTCCCATAATATAAGAACG 58.592 45.833 0.00 0.00 0.00 3.95
913 1070 5.047519 CCTCCGTCCCATAATATAAGAACGT 60.048 44.000 0.00 0.00 0.00 3.99
914 1071 6.409524 TCCGTCCCATAATATAAGAACGTT 57.590 37.500 0.00 0.00 0.00 3.99
915 1072 6.819284 TCCGTCCCATAATATAAGAACGTTT 58.181 36.000 0.46 0.00 0.00 3.60
916 1073 7.274447 TCCGTCCCATAATATAAGAACGTTTT 58.726 34.615 0.46 0.00 0.00 2.43
917 1074 7.769970 TCCGTCCCATAATATAAGAACGTTTTT 59.230 33.333 9.22 9.22 0.00 1.94
918 1075 8.066000 CCGTCCCATAATATAAGAACGTTTTTC 58.934 37.037 7.42 0.00 0.00 2.29
919 1076 8.605746 CGTCCCATAATATAAGAACGTTTTTCA 58.394 33.333 7.42 0.00 0.00 2.69
920 1077 9.712359 GTCCCATAATATAAGAACGTTTTTCAC 57.288 33.333 7.42 0.00 0.00 3.18
921 1078 9.451002 TCCCATAATATAAGAACGTTTTTCACA 57.549 29.630 7.42 0.00 0.00 3.58
922 1079 9.498307 CCCATAATATAAGAACGTTTTTCACAC 57.502 33.333 7.42 0.00 0.00 3.82
931 1088 7.838771 AGAACGTTTTTCACACTAGTTTAGT 57.161 32.000 0.46 0.00 40.28 2.24
961 1118 7.989416 AAACGTTCTTATATTTTGGGACAGA 57.011 32.000 0.00 0.00 42.39 3.41
962 1119 7.611213 AACGTTCTTATATTTTGGGACAGAG 57.389 36.000 0.00 0.00 42.39 3.35
963 1120 6.113411 ACGTTCTTATATTTTGGGACAGAGG 58.887 40.000 0.00 0.00 42.39 3.69
964 1121 5.527582 CGTTCTTATATTTTGGGACAGAGGG 59.472 44.000 0.00 0.00 42.39 4.30
965 1122 6.631766 CGTTCTTATATTTTGGGACAGAGGGA 60.632 42.308 0.00 0.00 42.39 4.20
966 1123 6.500589 TCTTATATTTTGGGACAGAGGGAG 57.499 41.667 0.00 0.00 42.39 4.30
1028 1185 0.306533 TCAAGCGTCGCAAAACCTTC 59.693 50.000 21.09 0.00 0.00 3.46
1032 1189 1.928653 CGTCGCAAAACCTTCGTCA 59.071 52.632 0.00 0.00 0.00 4.35
1033 1190 0.111266 CGTCGCAAAACCTTCGTCAG 60.111 55.000 0.00 0.00 0.00 3.51
1123 1280 3.516586 TCCAACTCAGTTGATCCTGGTA 58.483 45.455 19.75 0.00 45.28 3.25
1136 1293 0.819259 CCTGGTACCAATGGCCGATG 60.819 60.000 17.11 0.23 0.00 3.84
1195 1352 1.260538 ATCCGTGCAAGAGCTGGAGA 61.261 55.000 0.00 0.00 44.95 3.71
1288 1445 1.834263 AGGAGGATGCTACCAACACTC 59.166 52.381 0.00 0.00 31.62 3.51
1376 1533 1.560146 GGACCTTAGCAGGGTAAGCTT 59.440 52.381 3.48 3.48 46.01 3.74
1542 1707 3.215151 CCAGCAGTTATCTCGAGAGGTA 58.785 50.000 21.52 6.46 0.00 3.08
1546 1711 3.612955 GCAGTTATCTCGAGAGGTATGCC 60.613 52.174 24.12 12.91 0.00 4.40
1563 1728 2.259012 TGCCTTTTCATTGGGCTCAAT 58.741 42.857 5.81 5.81 45.45 2.57
1565 1730 2.419159 GCCTTTTCATTGGGCTCAATCC 60.419 50.000 9.42 0.00 41.29 3.01
1567 1732 3.453353 CCTTTTCATTGGGCTCAATCCAT 59.547 43.478 9.42 0.00 41.29 3.41
1575 1740 2.019984 GGGCTCAATCCATGTTGACTC 58.980 52.381 0.00 0.00 34.58 3.36
1590 1755 5.734720 TGTTGACTCTGAGTGTTCTCTTTT 58.265 37.500 16.28 0.00 40.98 2.27
1592 1757 6.313905 TGTTGACTCTGAGTGTTCTCTTTTTC 59.686 38.462 16.28 0.00 40.98 2.29
1759 1924 1.822371 GGTTCAGGTTTGTGTTGGTGT 59.178 47.619 0.00 0.00 0.00 4.16
1799 1964 8.230486 GCATAAATTGGACCTAATGACTAATCG 58.770 37.037 0.00 0.00 0.00 3.34
1811 1976 6.949578 AATGACTAATCGCAAACCATTTTG 57.050 33.333 0.00 0.00 44.42 2.44
1939 2104 2.502163 CGTGCTTCGTCGACTTCAA 58.498 52.632 14.70 2.76 34.52 2.69
2012 2178 2.785713 TCGCACCCAAGTTAAAAAGC 57.214 45.000 0.00 0.00 0.00 3.51
2015 2181 3.068873 TCGCACCCAAGTTAAAAAGCATT 59.931 39.130 0.00 0.00 0.00 3.56
2081 2247 4.993705 TGGAATTGTACAGTCCTTTCCT 57.006 40.909 21.81 0.00 34.93 3.36
2103 2269 5.508994 CCTGGTTTGTTTATCAGTGGGTTTC 60.509 44.000 0.00 0.00 0.00 2.78
2435 2602 8.804688 AACATTTTAGCGCTTAAAACATAACA 57.195 26.923 23.55 0.65 42.39 2.41
2470 2637 1.798813 GTCTTCGCACAAGGTCGAAAT 59.201 47.619 0.00 0.00 42.99 2.17
2477 2644 1.262950 CACAAGGTCGAAATCGTGCAA 59.737 47.619 2.41 0.00 40.80 4.08
2479 2646 1.262950 CAAGGTCGAAATCGTGCAACA 59.737 47.619 2.41 0.00 40.80 3.33
2491 2658 3.934521 TGCAACACACATGGTTTCG 57.065 47.368 0.00 0.00 0.00 3.46
2579 2746 6.648310 GTGTTCCTAGTTACCTTTTACTGACC 59.352 42.308 0.00 0.00 0.00 4.02
2683 3371 8.533569 TTCCATTAGGACTTTTTCTTCTGTTT 57.466 30.769 0.00 0.00 45.73 2.83
2694 3382 4.782019 TTCTTCTGTTTTGTGCTTGTGT 57.218 36.364 0.00 0.00 0.00 3.72
2894 3582 5.534207 TGAGGTTGCAGAATCAAAACATT 57.466 34.783 0.00 0.00 0.00 2.71
2989 3691 5.122707 TCCCAAAATACATATGAGGTGCA 57.877 39.130 10.38 0.00 0.00 4.57
2990 3692 4.887071 TCCCAAAATACATATGAGGTGCAC 59.113 41.667 8.80 8.80 0.00 4.57
3006 3709 7.910584 TGAGGTGCACACATATATAATCATCT 58.089 34.615 20.43 0.00 0.00 2.90
3007 3710 9.034800 TGAGGTGCACACATATATAATCATCTA 57.965 33.333 20.43 0.00 0.00 1.98
3201 3904 7.226918 TGTGTTCACGTCCTTTATTTTCACATA 59.773 33.333 0.00 0.00 0.00 2.29
3232 3935 2.296792 TGTGTTGTTGATGGTGGTCTG 58.703 47.619 0.00 0.00 0.00 3.51
3289 3992 2.011222 AGTTCTAAGGCGTCTCTCTCG 58.989 52.381 0.00 0.00 0.00 4.04
3315 4018 4.643953 GCACACTCGCGTGAAATAAAATA 58.356 39.130 13.36 0.00 43.97 1.40
3357 4063 3.199677 CACGAGGTTTTTCACAGGTGTA 58.800 45.455 0.00 0.00 0.00 2.90
3379 4085 3.063452 ACATGCGTGGTTATCGATGTTTC 59.937 43.478 11.36 0.00 31.11 2.78
3640 4350 9.932699 TTTATGTTAAAACGAAAAATGAGTCGA 57.067 25.926 0.00 0.00 39.64 4.20
3645 4355 8.949953 GTTAAAACGAAAAATGAGTCGATTGAA 58.050 29.630 0.00 0.00 39.64 2.69
3658 4368 8.956533 TGAGTCGATTGAATTAAATATGGACA 57.043 30.769 12.78 0.93 0.00 4.02
3681 4391 8.584063 ACAACGGGTTGATTACCTAAAATATT 57.416 30.769 17.72 0.00 46.86 1.28
3739 4456 4.362279 GAGTGACTTAAACGTGTACCACA 58.638 43.478 12.10 0.00 33.40 4.17
3792 4510 6.612247 TTTGCAAAATATATGACGGACGAT 57.388 33.333 10.02 0.00 0.00 3.73
3813 4537 9.394477 GACGATCCCAATTTGCTTTATTATTAC 57.606 33.333 0.00 0.00 0.00 1.89
3814 4538 9.131791 ACGATCCCAATTTGCTTTATTATTACT 57.868 29.630 0.00 0.00 0.00 2.24
3815 4539 9.612620 CGATCCCAATTTGCTTTATTATTACTC 57.387 33.333 0.00 0.00 0.00 2.59
3816 4540 9.914131 GATCCCAATTTGCTTTATTATTACTCC 57.086 33.333 0.00 0.00 0.00 3.85
3817 4541 8.245195 TCCCAATTTGCTTTATTATTACTCCC 57.755 34.615 0.00 0.00 0.00 4.30
3818 4542 8.065007 TCCCAATTTGCTTTATTATTACTCCCT 58.935 33.333 0.00 0.00 0.00 4.20
3819 4543 8.360390 CCCAATTTGCTTTATTATTACTCCCTC 58.640 37.037 0.00 0.00 0.00 4.30
3820 4544 8.360390 CCAATTTGCTTTATTATTACTCCCTCC 58.640 37.037 0.00 0.00 0.00 4.30
3821 4545 7.745620 ATTTGCTTTATTATTACTCCCTCCG 57.254 36.000 0.00 0.00 0.00 4.63
3822 4546 5.881923 TGCTTTATTATTACTCCCTCCGT 57.118 39.130 0.00 0.00 0.00 4.69
3823 4547 6.243216 TGCTTTATTATTACTCCCTCCGTT 57.757 37.500 0.00 0.00 0.00 4.44
3824 4548 6.285990 TGCTTTATTATTACTCCCTCCGTTC 58.714 40.000 0.00 0.00 0.00 3.95
3825 4549 5.699915 GCTTTATTATTACTCCCTCCGTTCC 59.300 44.000 0.00 0.00 0.00 3.62
3826 4550 6.464039 GCTTTATTATTACTCCCTCCGTTCCT 60.464 42.308 0.00 0.00 0.00 3.36
3827 4551 7.256083 GCTTTATTATTACTCCCTCCGTTCCTA 60.256 40.741 0.00 0.00 0.00 2.94
3828 4552 8.551682 TTTATTATTACTCCCTCCGTTCCTAA 57.448 34.615 0.00 0.00 0.00 2.69
3829 4553 8.551682 TTATTATTACTCCCTCCGTTCCTAAA 57.448 34.615 0.00 0.00 0.00 1.85
3830 4554 7.628501 ATTATTACTCCCTCCGTTCCTAAAT 57.371 36.000 0.00 0.00 0.00 1.40
3831 4555 8.731591 ATTATTACTCCCTCCGTTCCTAAATA 57.268 34.615 0.00 0.00 0.00 1.40
3832 4556 8.731591 TTATTACTCCCTCCGTTCCTAAATAT 57.268 34.615 0.00 0.00 0.00 1.28
3833 4557 7.628501 ATTACTCCCTCCGTTCCTAAATATT 57.371 36.000 0.00 0.00 0.00 1.28
3834 4558 5.970501 ACTCCCTCCGTTCCTAAATATTT 57.029 39.130 5.89 5.89 0.00 1.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
127 136 3.691575 AGTTCCGATGAGTTGAGAGAGA 58.308 45.455 0.00 0.00 0.00 3.10
273 282 1.705997 ATAACGGCCTGGGATCCCAC 61.706 60.000 30.62 20.60 41.89 4.61
276 285 0.602905 CGAATAACGGCCTGGGATCC 60.603 60.000 1.92 1.92 38.46 3.36
290 316 2.309693 GTGACACGAACGACACGAATA 58.690 47.619 0.14 0.00 34.70 1.75
353 393 3.007182 ACAACATCCCTGCAAAAATCCTG 59.993 43.478 0.00 0.00 0.00 3.86
394 434 3.554524 CAGGTAACATTGCACAAGAACG 58.445 45.455 0.00 0.00 41.41 3.95
402 449 6.308015 AGTTATAGACCAGGTAACATTGCA 57.692 37.500 5.87 0.00 41.41 4.08
436 483 3.356290 ACAGGGGTGCTATGATTTTGAC 58.644 45.455 0.00 0.00 0.00 3.18
444 491 8.918202 TTATATTTCTTTACAGGGGTGCTATG 57.082 34.615 0.00 0.00 0.00 2.23
449 496 5.535030 GCCCTTATATTTCTTTACAGGGGTG 59.465 44.000 3.54 0.00 40.09 4.61
451 498 4.760204 CGCCCTTATATTTCTTTACAGGGG 59.240 45.833 3.54 0.00 40.09 4.79
452 499 5.374071 ACGCCCTTATATTTCTTTACAGGG 58.626 41.667 0.00 0.00 42.31 4.45
453 500 6.937436 AACGCCCTTATATTTCTTTACAGG 57.063 37.500 0.00 0.00 0.00 4.00
454 501 9.321562 TCTAAACGCCCTTATATTTCTTTACAG 57.678 33.333 0.00 0.00 0.00 2.74
455 502 9.841295 ATCTAAACGCCCTTATATTTCTTTACA 57.159 29.630 0.00 0.00 0.00 2.41
458 505 8.837389 GTGATCTAAACGCCCTTATATTTCTTT 58.163 33.333 0.00 0.00 0.00 2.52
459 506 8.211629 AGTGATCTAAACGCCCTTATATTTCTT 58.788 33.333 0.00 0.00 0.00 2.52
460 507 7.736893 AGTGATCTAAACGCCCTTATATTTCT 58.263 34.615 0.00 0.00 0.00 2.52
461 508 7.964604 AGTGATCTAAACGCCCTTATATTTC 57.035 36.000 0.00 0.00 0.00 2.17
462 509 8.648693 AGTAGTGATCTAAACGCCCTTATATTT 58.351 33.333 0.00 0.00 0.00 1.40
463 510 8.191534 AGTAGTGATCTAAACGCCCTTATATT 57.808 34.615 0.00 0.00 0.00 1.28
464 511 7.778185 AGTAGTGATCTAAACGCCCTTATAT 57.222 36.000 0.00 0.00 0.00 0.86
465 512 7.592885 AAGTAGTGATCTAAACGCCCTTATA 57.407 36.000 0.00 0.00 0.00 0.98
466 513 6.481434 AAGTAGTGATCTAAACGCCCTTAT 57.519 37.500 0.00 0.00 0.00 1.73
467 514 5.927281 AAGTAGTGATCTAAACGCCCTTA 57.073 39.130 0.00 0.00 0.00 2.69
468 515 4.820894 AAGTAGTGATCTAAACGCCCTT 57.179 40.909 0.00 0.00 0.00 3.95
469 516 7.778185 ATATAAGTAGTGATCTAAACGCCCT 57.222 36.000 0.00 0.00 0.00 5.19
470 517 8.828688 AAATATAAGTAGTGATCTAAACGCCC 57.171 34.615 0.00 0.00 0.00 6.13
471 518 8.923683 GGAAATATAAGTAGTGATCTAAACGCC 58.076 37.037 0.00 0.00 0.00 5.68
472 519 9.694137 AGGAAATATAAGTAGTGATCTAAACGC 57.306 33.333 0.00 0.00 0.00 4.84
497 544 1.749634 CACCTGTACTCCCTCCGTAAG 59.250 57.143 0.00 0.00 0.00 2.34
498 545 1.076024 ACACCTGTACTCCCTCCGTAA 59.924 52.381 0.00 0.00 0.00 3.18
499 546 0.700564 ACACCTGTACTCCCTCCGTA 59.299 55.000 0.00 0.00 0.00 4.02
500 547 0.700564 TACACCTGTACTCCCTCCGT 59.299 55.000 0.00 0.00 0.00 4.69
501 548 1.064906 TCTACACCTGTACTCCCTCCG 60.065 57.143 0.00 0.00 0.00 4.63
502 549 2.759535 GTTCTACACCTGTACTCCCTCC 59.240 54.545 0.00 0.00 0.00 4.30
503 550 3.428532 TGTTCTACACCTGTACTCCCTC 58.571 50.000 0.00 0.00 0.00 4.30
504 551 3.537795 TGTTCTACACCTGTACTCCCT 57.462 47.619 0.00 0.00 0.00 4.20
505 552 4.040095 ACTTTGTTCTACACCTGTACTCCC 59.960 45.833 0.00 0.00 0.00 4.30
506 553 5.211174 ACTTTGTTCTACACCTGTACTCC 57.789 43.478 0.00 0.00 0.00 3.85
507 554 5.690857 GTGACTTTGTTCTACACCTGTACTC 59.309 44.000 0.00 0.00 0.00 2.59
514 561 1.191647 CGCGTGACTTTGTTCTACACC 59.808 52.381 0.00 0.00 0.00 4.16
515 562 1.856597 ACGCGTGACTTTGTTCTACAC 59.143 47.619 12.93 0.00 0.00 2.90
527 574 3.508648 TGCTTAGTTAAAACGCGTGAC 57.491 42.857 14.98 9.91 0.00 3.67
533 580 8.806177 AAAAGGGTAAATGCTTAGTTAAAACG 57.194 30.769 0.00 0.00 0.00 3.60
563 619 6.763135 TCAGTTGCATCTATCTACAACATTCC 59.237 38.462 7.39 0.00 43.74 3.01
570 626 8.969260 ATCAAAATCAGTTGCATCTATCTACA 57.031 30.769 0.00 0.00 0.00 2.74
582 731 9.919348 AAATGTTTCGAAAATCAAAATCAGTTG 57.081 25.926 13.10 0.00 0.00 3.16
585 734 9.787626 CTGAAATGTTTCGAAAATCAAAATCAG 57.212 29.630 13.10 15.98 40.01 2.90
589 738 9.757227 ATACCTGAAATGTTTCGAAAATCAAAA 57.243 25.926 13.10 4.38 40.01 2.44
595 744 9.168451 TGCTATATACCTGAAATGTTTCGAAAA 57.832 29.630 13.10 3.75 40.01 2.29
605 754 7.680730 AGGTCGATTTGCTATATACCTGAAAT 58.319 34.615 0.00 0.00 34.64 2.17
622 773 3.845781 AATAGTGGATGCAGGTCGATT 57.154 42.857 0.00 0.00 0.00 3.34
626 777 4.572389 CAGTACAAATAGTGGATGCAGGTC 59.428 45.833 0.00 0.00 0.00 3.85
630 781 5.675684 TCTCAGTACAAATAGTGGATGCA 57.324 39.130 0.00 0.00 33.17 3.96
631 782 8.662781 TTAATCTCAGTACAAATAGTGGATGC 57.337 34.615 0.00 0.00 33.17 3.91
663 814 9.972106 ATTCTCATTCTTAGGAAATTCAGAAGT 57.028 29.630 0.00 0.00 34.90 3.01
680 831 6.426328 GTGAGACCATGTGGATATTCTCATTC 59.574 42.308 17.73 7.40 42.09 2.67
692 843 3.678289 TCAAATCTGTGAGACCATGTGG 58.322 45.455 0.00 0.00 42.17 4.17
701 852 7.678947 AGTACTGGAAATTCAAATCTGTGAG 57.321 36.000 0.00 0.00 0.00 3.51
705 856 8.490355 GCAAAAAGTACTGGAAATTCAAATCTG 58.510 33.333 0.00 0.00 0.00 2.90
706 857 8.424133 AGCAAAAAGTACTGGAAATTCAAATCT 58.576 29.630 0.00 0.00 0.00 2.40
733 887 5.324697 GTCGCTGAATGAAACCTATGAAAC 58.675 41.667 0.00 0.00 0.00 2.78
735 889 3.616821 CGTCGCTGAATGAAACCTATGAA 59.383 43.478 0.00 0.00 0.00 2.57
756 910 5.418310 TGAAAGCCTGAAACTAAGAAACG 57.582 39.130 0.00 0.00 0.00 3.60
795 949 6.061441 TCCACGTCTAATTCATAATTGGCAT 58.939 36.000 0.00 0.00 32.38 4.40
797 951 5.527582 ACTCCACGTCTAATTCATAATTGGC 59.472 40.000 0.00 0.00 32.38 4.52
798 952 7.279981 TGAACTCCACGTCTAATTCATAATTGG 59.720 37.037 0.00 0.00 32.38 3.16
801 955 6.761714 GGTGAACTCCACGTCTAATTCATAAT 59.238 38.462 5.43 0.00 46.62 1.28
826 983 6.348540 GGCTGTGTTTACTGGAGATAAAAGTG 60.349 42.308 0.00 0.00 0.00 3.16
850 1007 5.428184 AGACTGAAGAAAGGAATACTGGG 57.572 43.478 0.00 0.00 0.00 4.45
873 1030 4.351127 ACGGAGGGAGTAGAATGTAAAGT 58.649 43.478 0.00 0.00 0.00 2.66
886 1043 5.269991 TCTTATATTATGGGACGGAGGGAG 58.730 45.833 0.00 0.00 0.00 4.30
887 1044 5.279562 TCTTATATTATGGGACGGAGGGA 57.720 43.478 0.00 0.00 0.00 4.20
888 1045 5.623824 CGTTCTTATATTATGGGACGGAGGG 60.624 48.000 0.00 0.00 0.00 4.30
889 1046 5.047519 ACGTTCTTATATTATGGGACGGAGG 60.048 44.000 13.18 0.00 0.00 4.30
890 1047 6.022163 ACGTTCTTATATTATGGGACGGAG 57.978 41.667 13.18 0.00 0.00 4.63
891 1048 6.409524 AACGTTCTTATATTATGGGACGGA 57.590 37.500 0.00 0.00 0.00 4.69
892 1049 7.486802 AAAACGTTCTTATATTATGGGACGG 57.513 36.000 0.00 1.76 0.00 4.79
893 1050 8.605746 TGAAAAACGTTCTTATATTATGGGACG 58.394 33.333 0.00 9.33 0.00 4.79
894 1051 9.712359 GTGAAAAACGTTCTTATATTATGGGAC 57.288 33.333 0.00 0.00 0.00 4.46
895 1052 9.451002 TGTGAAAAACGTTCTTATATTATGGGA 57.549 29.630 0.00 0.00 0.00 4.37
896 1053 9.498307 GTGTGAAAAACGTTCTTATATTATGGG 57.502 33.333 0.00 0.00 0.00 4.00
905 1062 9.369904 ACTAAACTAGTGTGAAAAACGTTCTTA 57.630 29.630 0.00 0.00 37.69 2.10
906 1063 8.260270 ACTAAACTAGTGTGAAAAACGTTCTT 57.740 30.769 0.00 0.00 37.69 2.52
907 1064 7.838771 ACTAAACTAGTGTGAAAAACGTTCT 57.161 32.000 0.00 0.00 37.69 3.01
935 1092 8.852135 TCTGTCCCAAAATATAAGAACGTTTTT 58.148 29.630 9.22 9.22 0.00 1.94
936 1093 8.398878 TCTGTCCCAAAATATAAGAACGTTTT 57.601 30.769 0.46 0.00 0.00 2.43
937 1094 7.120726 CCTCTGTCCCAAAATATAAGAACGTTT 59.879 37.037 0.46 0.00 0.00 3.60
938 1095 6.598064 CCTCTGTCCCAAAATATAAGAACGTT 59.402 38.462 0.00 0.00 0.00 3.99
939 1096 6.113411 CCTCTGTCCCAAAATATAAGAACGT 58.887 40.000 0.00 0.00 0.00 3.99
940 1097 5.527582 CCCTCTGTCCCAAAATATAAGAACG 59.472 44.000 0.00 0.00 0.00 3.95
941 1098 6.659824 TCCCTCTGTCCCAAAATATAAGAAC 58.340 40.000 0.00 0.00 0.00 3.01
942 1099 6.447084 ACTCCCTCTGTCCCAAAATATAAGAA 59.553 38.462 0.00 0.00 0.00 2.52
943 1100 5.970640 ACTCCCTCTGTCCCAAAATATAAGA 59.029 40.000 0.00 0.00 0.00 2.10
944 1101 6.253946 ACTCCCTCTGTCCCAAAATATAAG 57.746 41.667 0.00 0.00 0.00 1.73
945 1102 7.404980 AGTTACTCCCTCTGTCCCAAAATATAA 59.595 37.037 0.00 0.00 0.00 0.98
946 1103 6.906901 AGTTACTCCCTCTGTCCCAAAATATA 59.093 38.462 0.00 0.00 0.00 0.86
947 1104 5.731678 AGTTACTCCCTCTGTCCCAAAATAT 59.268 40.000 0.00 0.00 0.00 1.28
948 1105 5.098663 AGTTACTCCCTCTGTCCCAAAATA 58.901 41.667 0.00 0.00 0.00 1.40
949 1106 3.916989 AGTTACTCCCTCTGTCCCAAAAT 59.083 43.478 0.00 0.00 0.00 1.82
950 1107 3.323775 AGTTACTCCCTCTGTCCCAAAA 58.676 45.455 0.00 0.00 0.00 2.44
951 1108 2.986050 AGTTACTCCCTCTGTCCCAAA 58.014 47.619 0.00 0.00 0.00 3.28
952 1109 2.715763 AGTTACTCCCTCTGTCCCAA 57.284 50.000 0.00 0.00 0.00 4.12
953 1110 3.839323 TTAGTTACTCCCTCTGTCCCA 57.161 47.619 0.00 0.00 0.00 4.37
954 1111 6.383436 ACTTAATTAGTTACTCCCTCTGTCCC 59.617 42.308 0.00 0.00 31.29 4.46
955 1112 7.421087 ACTTAATTAGTTACTCCCTCTGTCC 57.579 40.000 0.00 0.00 31.29 4.02
956 1113 8.312564 ACAACTTAATTAGTTACTCCCTCTGTC 58.687 37.037 0.00 0.00 45.29 3.51
957 1114 8.203681 ACAACTTAATTAGTTACTCCCTCTGT 57.796 34.615 0.00 0.00 45.29 3.41
958 1115 7.488471 CGACAACTTAATTAGTTACTCCCTCTG 59.512 40.741 0.00 0.00 45.29 3.35
959 1116 7.545489 CGACAACTTAATTAGTTACTCCCTCT 58.455 38.462 0.00 0.00 45.29 3.69
960 1117 6.255237 GCGACAACTTAATTAGTTACTCCCTC 59.745 42.308 0.00 0.00 45.29 4.30
961 1118 6.070938 AGCGACAACTTAATTAGTTACTCCCT 60.071 38.462 0.00 0.00 45.29 4.20
962 1119 6.104665 AGCGACAACTTAATTAGTTACTCCC 58.895 40.000 0.00 0.00 45.29 4.30
963 1120 7.044445 CGTAGCGACAACTTAATTAGTTACTCC 60.044 40.741 0.00 0.00 45.29 3.85
964 1121 7.693951 TCGTAGCGACAACTTAATTAGTTACTC 59.306 37.037 0.00 0.00 45.29 2.59
965 1122 7.530010 TCGTAGCGACAACTTAATTAGTTACT 58.470 34.615 0.00 0.00 45.29 2.24
966 1123 7.725610 TCGTAGCGACAACTTAATTAGTTAC 57.274 36.000 0.00 0.00 45.29 2.50
983 1140 1.324736 GCATCTTTCCTGTTCGTAGCG 59.675 52.381 0.00 0.00 0.00 4.26
1028 1185 4.662145 GAATGGATTTGGTTTAGCTGACG 58.338 43.478 0.00 0.00 0.00 4.35
1032 1189 5.067805 GGAATCGAATGGATTTGGTTTAGCT 59.932 40.000 0.00 0.00 45.33 3.32
1033 1190 5.281727 GGAATCGAATGGATTTGGTTTAGC 58.718 41.667 0.00 0.00 45.33 3.09
1123 1280 0.611618 TTCTTGCATCGGCCATTGGT 60.612 50.000 2.24 0.00 40.13 3.67
1195 1352 2.301346 GGCCTTGTATGCAACATAGCT 58.699 47.619 0.00 0.00 38.10 3.32
1200 1357 0.676466 CCTCGGCCTTGTATGCAACA 60.676 55.000 0.00 0.00 35.88 3.33
1288 1445 1.136147 GCTTGTGCAAGGCGATCAG 59.864 57.895 13.07 0.00 38.80 2.90
1312 1469 5.296151 TCATGGGTCCTATTCATCTGTTC 57.704 43.478 0.00 0.00 0.00 3.18
1376 1533 1.066908 CAAAAGAAACTGCCGGCTTCA 59.933 47.619 29.70 6.34 0.00 3.02
1546 1711 4.081309 ACATGGATTGAGCCCAATGAAAAG 60.081 41.667 0.00 0.00 42.66 2.27
1563 1728 3.643320 AGAACACTCAGAGTCAACATGGA 59.357 43.478 0.00 0.00 0.00 3.41
1565 1730 4.880759 AGAGAACACTCAGAGTCAACATG 58.119 43.478 0.00 0.00 33.55 3.21
1567 1732 5.344743 AAAGAGAACACTCAGAGTCAACA 57.655 39.130 0.00 0.00 33.55 3.33
1575 1740 5.118990 TGTCAGGAAAAAGAGAACACTCAG 58.881 41.667 0.00 0.00 33.55 3.35
1759 1924 2.752075 TTATGCTGCATGGATCCCAA 57.248 45.000 24.59 6.52 36.95 4.12
1811 1976 1.981256 TCTTTCTCCACCTGCCAAAC 58.019 50.000 0.00 0.00 0.00 2.93
1939 2104 9.812347 TGGCTAATGAAATAAGATATGGTGAAT 57.188 29.630 0.00 0.00 0.00 2.57
1961 2126 0.329596 GAATCCTCACCCTGTTGGCT 59.670 55.000 0.00 0.00 37.83 4.75
2012 2178 3.631686 TGTTTGACAACAGGGTGAGAATG 59.368 43.478 0.00 0.00 38.03 2.67
2015 2181 2.238646 AGTGTTTGACAACAGGGTGAGA 59.761 45.455 0.00 0.00 43.83 3.27
2081 2247 4.036971 CGAAACCCACTGATAAACAAACCA 59.963 41.667 0.00 0.00 0.00 3.67
2162 2329 3.228188 ACTTGGTGAGCAATCTCCAAA 57.772 42.857 11.60 0.00 41.07 3.28
2253 2420 9.793252 CATTAATTTATTGTCAGACTTCTTGGG 57.207 33.333 1.31 0.00 0.00 4.12
2317 2484 9.630098 ATTTAGCTTAAAATCATGACACTGTTG 57.370 29.630 0.00 0.00 0.00 3.33
2353 2520 4.115401 TGCACACAAGCATAAACACAAA 57.885 36.364 0.00 0.00 40.11 2.83
2435 2602 2.952978 CGAAGACCCTATCTGCACTAGT 59.047 50.000 0.00 0.00 37.88 2.57
2477 2644 2.094494 TGTTTTGCGAAACCATGTGTGT 60.094 40.909 23.75 0.00 43.57 3.72
2479 2646 2.949451 TGTTTTGCGAAACCATGTGT 57.051 40.000 23.75 0.00 43.57 3.72
2541 2708 6.374417 ACTAGGAACACAAGATTATGGTGT 57.626 37.500 0.00 0.00 46.92 4.16
2683 3371 2.153645 CAGCAGGATACACAAGCACAA 58.846 47.619 0.00 0.00 41.41 3.33
2694 3382 3.719268 ACAACACCATTCAGCAGGATA 57.281 42.857 0.00 0.00 0.00 2.59
2753 3441 3.452264 CCTCCACATCATCTTGTAGACCA 59.548 47.826 0.00 0.00 0.00 4.02
2894 3582 1.174078 TTAGCAAAGCAGCAGCAGCA 61.174 50.000 12.92 0.00 45.49 4.41
2916 3613 7.501225 CCTTCCCAAGAGAAGTTACAAAAGTAA 59.499 37.037 1.04 0.00 41.45 2.24
2920 3617 6.008696 TCCTTCCCAAGAGAAGTTACAAAA 57.991 37.500 1.04 0.00 41.45 2.44
2921 3618 5.640158 TCCTTCCCAAGAGAAGTTACAAA 57.360 39.130 1.04 0.00 41.45 2.83
3006 3709 5.245075 GGTTGATCACAAACCAGGGAAAATA 59.755 40.000 9.74 0.00 37.71 1.40
3007 3710 4.040339 GGTTGATCACAAACCAGGGAAAAT 59.960 41.667 9.74 0.00 37.71 1.82
3011 3714 1.496857 TGGTTGATCACAAACCAGGGA 59.503 47.619 12.78 0.00 42.42 4.20
3013 3716 4.605640 ATTTGGTTGATCACAAACCAGG 57.394 40.909 15.56 0.00 42.42 4.45
3014 3717 4.211794 GCAATTTGGTTGATCACAAACCAG 59.788 41.667 15.56 7.49 42.42 4.00
3015 3718 4.125703 GCAATTTGGTTGATCACAAACCA 58.874 39.130 12.78 12.78 42.42 3.67
3016 3719 4.379652 AGCAATTTGGTTGATCACAAACC 58.620 39.130 12.26 10.22 42.42 3.27
3154 3857 4.080863 ACATTAGGGTCTTGAGTCATGGTC 60.081 45.833 6.21 0.00 0.00 4.02
3201 3904 6.071221 ACCATCAACAACACAAATATGATGCT 60.071 34.615 7.80 0.00 41.59 3.79
3232 3935 1.333258 GCTTTCGTTGTGTGAGCACTC 60.333 52.381 1.99 0.00 45.44 3.51
3315 4018 8.356000 TCGTGGGGAAAAATAACATATTTCTT 57.644 30.769 0.00 0.00 34.34 2.52
3327 4033 3.707102 TGAAAAACCTCGTGGGGAAAAAT 59.293 39.130 8.63 0.00 40.03 1.82
3357 4063 2.309528 ACATCGATAACCACGCATGT 57.690 45.000 0.00 0.00 32.00 3.21
3379 4085 8.299990 TCTTTCTTACTGATAGAGAGGAAAGG 57.700 38.462 0.00 0.00 36.67 3.11
3493 4199 9.744468 ATGAAACTTGGTTAGAAAAATGTGTAC 57.256 29.630 0.00 0.00 0.00 2.90
3636 4346 7.586300 CCGTTGTCCATATTTAATTCAATCGAC 59.414 37.037 0.00 0.00 0.00 4.20
3640 4350 7.654022 ACCCGTTGTCCATATTTAATTCAAT 57.346 32.000 0.00 0.00 0.00 2.57
3645 4355 7.654022 AATCAACCCGTTGTCCATATTTAAT 57.346 32.000 7.42 0.00 41.16 1.40
3739 4456 7.509318 GCCCCTCTATTTTCCATAAATAAACCT 59.491 37.037 0.00 0.00 0.00 3.50
3792 4510 8.065007 AGGGAGTAATAATAAAGCAAATTGGGA 58.935 33.333 0.00 0.00 0.00 4.37


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

AutoCloner maintained by Alex Coulton.