Multiple sequence alignment - TraesCS2A01G461200

Loading Multiple Alignment...

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 TraesCS2A01G461200 chr2A 100.000 2252 0 0 1 2252 707221123 707223374 0.000000e+00 4159.0
1 TraesCS2A01G461200 chr2A 90.591 744 51 8 680 1417 707235504 707236234 0.000000e+00 968.0
2 TraesCS2A01G461200 chr2A 86.212 660 52 15 761 1411 707105018 707105647 0.000000e+00 678.0
3 TraesCS2A01G461200 chr2A 93.134 335 14 6 1553 1879 707236226 707236559 1.210000e-132 483.0
4 TraesCS2A01G461200 chr2A 83.473 478 62 12 935 1401 707077419 707077890 1.600000e-116 429.0
5 TraesCS2A01G461200 chr2A 77.326 516 66 32 890 1396 707064204 707064677 7.980000e-65 257.0
6 TraesCS2A01G461200 chr2D 90.879 899 38 18 532 1417 567677442 567678309 0.000000e+00 1166.0
7 TraesCS2A01G461200 chr2D 92.246 374 29 0 1879 2252 95532408 95532035 4.260000e-147 531.0
8 TraesCS2A01G461200 chr2D 93.636 330 15 3 1553 1879 567678301 567678627 2.600000e-134 488.0
9 TraesCS2A01G461200 chr2D 78.383 532 68 20 900 1414 567641939 567642440 3.630000e-78 302.0
10 TraesCS2A01G461200 chr2D 79.574 470 53 15 958 1414 567594818 567595257 1.690000e-76 296.0
11 TraesCS2A01G461200 chr2D 90.826 218 13 4 924 1141 567805955 567806165 3.660000e-73 285.0
12 TraesCS2A01G461200 chr2D 80.653 398 38 21 890 1280 567584593 567584958 2.850000e-69 272.0
13 TraesCS2A01G461200 chr2D 91.837 196 5 5 9 193 567676269 567676464 1.720000e-66 263.0
14 TraesCS2A01G461200 chr2D 96.053 152 4 2 1413 1563 638428246 638428396 1.730000e-61 246.0
15 TraesCS2A01G461200 chr2D 91.525 118 10 0 705 822 567802792 567802909 1.790000e-36 163.0
16 TraesCS2A01G461200 chr2D 97.590 83 2 0 814 896 567804072 567804154 2.330000e-30 143.0
17 TraesCS2A01G461200 chr2D 80.833 120 7 1 1760 1879 567806165 567806268 1.850000e-11 80.5
18 TraesCS2A01G461200 chr2B 93.499 723 30 8 705 1417 680445797 680446512 0.000000e+00 1059.0
19 TraesCS2A01G461200 chr2B 88.361 421 24 10 9 412 680442995 680443407 1.210000e-132 483.0
20 TraesCS2A01G461200 chr2B 91.239 331 22 4 1553 1879 680446504 680446831 5.710000e-121 444.0
21 TraesCS2A01G461200 chr2B 83.226 465 63 9 958 1414 680322499 680322956 1.610000e-111 412.0
22 TraesCS2A01G461200 chr2B 80.603 464 57 15 958 1414 680408945 680409382 6.000000e-86 327.0
23 TraesCS2A01G461200 chr4A 92.533 375 27 1 1879 2252 736582557 736582183 9.150000e-149 536.0
24 TraesCS2A01G461200 chr4A 91.421 373 31 1 1880 2251 736585134 736584762 5.550000e-141 510.0
25 TraesCS2A01G461200 chr4B 91.777 377 26 5 1879 2252 493619864 493620238 9.220000e-144 520.0
26 TraesCS2A01G461200 chrUn 91.733 375 27 4 1880 2252 287113013 287112641 3.320000e-143 518.0
27 TraesCS2A01G461200 chrUn 91.076 381 30 4 1874 2252 195659655 195660033 1.540000e-141 512.0
28 TraesCS2A01G461200 chrUn 91.223 376 27 6 1880 2252 233820674 233820302 7.180000e-140 507.0
29 TraesCS2A01G461200 chr7D 91.467 375 30 2 1879 2252 39586531 39586158 4.290000e-142 514.0
30 TraesCS2A01G461200 chr7D 96.711 152 3 2 1413 1563 231536715 231536565 3.710000e-63 252.0
31 TraesCS2A01G461200 chr3A 90.838 382 29 6 1874 2252 729967021 729967399 7.180000e-140 507.0
32 TraesCS2A01G461200 chr5D 96.711 152 3 2 1413 1563 512412986 512413136 3.710000e-63 252.0
33 TraesCS2A01G461200 chr5D 96.053 152 4 2 1413 1563 6173191 6173041 1.730000e-61 246.0
34 TraesCS2A01G461200 chr5D 96.053 152 4 2 1413 1563 6272262 6272112 1.730000e-61 246.0
35 TraesCS2A01G461200 chr5D 96.053 152 4 2 1413 1563 503295615 503295765 1.730000e-61 246.0
36 TraesCS2A01G461200 chr1D 96.711 152 3 2 1413 1563 491425194 491425044 3.710000e-63 252.0
37 TraesCS2A01G461200 chr5A 96.689 151 4 1 1414 1563 267860514 267860364 1.340000e-62 250.0
38 TraesCS2A01G461200 chr3D 96.053 152 4 2 1413 1563 80429344 80429494 1.730000e-61 246.0


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 TraesCS2A01G461200 chr2A 707221123 707223374 2251 False 4159.0 4159 100.000000 1 2252 1 chr2A.!!$F4 2251
1 TraesCS2A01G461200 chr2A 707235504 707236559 1055 False 725.5 968 91.862500 680 1879 2 chr2A.!!$F5 1199
2 TraesCS2A01G461200 chr2A 707105018 707105647 629 False 678.0 678 86.212000 761 1411 1 chr2A.!!$F3 650
3 TraesCS2A01G461200 chr2D 567676269 567678627 2358 False 639.0 1166 92.117333 9 1879 3 chr2D.!!$F5 1870
4 TraesCS2A01G461200 chr2D 567641939 567642440 501 False 302.0 302 78.383000 900 1414 1 chr2D.!!$F3 514
5 TraesCS2A01G461200 chr2B 680442995 680446831 3836 False 662.0 1059 91.033000 9 1879 3 chr2B.!!$F3 1870
6 TraesCS2A01G461200 chr4A 736582183 736585134 2951 True 523.0 536 91.977000 1879 2252 2 chr4A.!!$R1 373

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
488 1039 0.04109 ACCCCCTGCTGTTAATTGGG 59.959 55.0 0.0 0.0 37.68 4.12 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1467 4323 0.394352 CGGATTCTGGAACCCCAAGG 60.394 60.0 0.0 0.0 42.98 3.61 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
47 50 6.774717 ATTCGCGAAAAGAAATATCAAACG 57.225 33.333 27.23 0.00 0.00 3.60
154 168 0.318441 CATGGAGGCCGACGACATAT 59.682 55.000 0.00 0.00 0.00 1.78
168 182 2.159379 CGACATATATAGGCGCTGCTGA 60.159 50.000 7.64 0.00 0.00 4.26
300 436 3.132289 CCATTCCGCTCTCCTAAACTACA 59.868 47.826 0.00 0.00 0.00 2.74
303 439 1.741706 CCGCTCTCCTAAACTACACGA 59.258 52.381 0.00 0.00 0.00 4.35
307 443 3.672781 GCTCTCCTAAACTACACGACACC 60.673 52.174 0.00 0.00 0.00 4.16
317 453 0.944311 ACACGACACCGCAGCTAAAG 60.944 55.000 0.00 0.00 39.95 1.85
346 482 6.317642 CACCATATGGATTAAACGAGGTGAAA 59.682 38.462 28.77 0.00 45.05 2.69
347 483 7.013274 CACCATATGGATTAAACGAGGTGAAAT 59.987 37.037 28.77 0.00 45.05 2.17
348 484 8.215050 ACCATATGGATTAAACGAGGTGAAATA 58.785 33.333 28.77 0.00 38.94 1.40
349 485 9.062524 CCATATGGATTAAACGAGGTGAAATAA 57.937 33.333 17.49 0.00 37.39 1.40
352 488 7.989416 TGGATTAAACGAGGTGAAATAAACT 57.011 32.000 0.00 0.00 0.00 2.66
353 489 8.398878 TGGATTAAACGAGGTGAAATAAACTT 57.601 30.769 0.00 0.00 0.00 2.66
381 932 3.625649 AGGCAGAGACCAGAAGAAATC 57.374 47.619 0.00 0.00 0.00 2.17
394 945 4.515191 CAGAAGAAATCGTGAAACCTTCCA 59.485 41.667 0.00 0.00 32.70 3.53
412 963 0.512952 CACCTTCTTCGGCTGTTTCG 59.487 55.000 0.00 0.00 0.00 3.46
414 965 1.226746 CCTTCTTCGGCTGTTTCGTT 58.773 50.000 0.00 0.00 0.00 3.85
416 967 1.864711 CTTCTTCGGCTGTTTCGTTGA 59.135 47.619 0.00 0.00 0.00 3.18
417 968 2.163818 TCTTCGGCTGTTTCGTTGAT 57.836 45.000 0.00 0.00 0.00 2.57
419 970 3.250744 TCTTCGGCTGTTTCGTTGATAG 58.749 45.455 0.00 0.00 0.00 2.08
421 972 2.602878 TCGGCTGTTTCGTTGATAGTC 58.397 47.619 0.00 0.00 0.00 2.59
422 973 1.659098 CGGCTGTTTCGTTGATAGTCC 59.341 52.381 0.00 0.00 0.00 3.85
423 974 2.695359 GGCTGTTTCGTTGATAGTCCA 58.305 47.619 0.00 0.00 0.00 4.02
424 975 2.673368 GGCTGTTTCGTTGATAGTCCAG 59.327 50.000 0.00 0.00 0.00 3.86
425 976 2.673368 GCTGTTTCGTTGATAGTCCAGG 59.327 50.000 0.00 0.00 0.00 4.45
426 977 3.262420 CTGTTTCGTTGATAGTCCAGGG 58.738 50.000 0.00 0.00 0.00 4.45
428 979 3.517901 TGTTTCGTTGATAGTCCAGGGAT 59.482 43.478 0.00 0.00 0.00 3.85
429 980 4.120589 GTTTCGTTGATAGTCCAGGGATC 58.879 47.826 0.00 0.00 0.00 3.36
430 981 3.314307 TCGTTGATAGTCCAGGGATCT 57.686 47.619 0.00 0.00 0.00 2.75
431 982 3.643237 TCGTTGATAGTCCAGGGATCTT 58.357 45.455 0.00 0.00 0.00 2.40
432 983 3.637229 TCGTTGATAGTCCAGGGATCTTC 59.363 47.826 0.00 0.00 0.00 2.87
434 985 2.598565 TGATAGTCCAGGGATCTTCGG 58.401 52.381 0.00 0.00 0.00 4.30
435 986 1.273886 GATAGTCCAGGGATCTTCGGC 59.726 57.143 0.00 0.00 0.00 5.54
436 987 0.759436 TAGTCCAGGGATCTTCGGCC 60.759 60.000 0.00 0.00 0.00 6.13
437 988 2.768344 TCCAGGGATCTTCGGCCC 60.768 66.667 0.00 0.00 45.04 5.80
442 993 4.237207 GGATCTTCGGCCCGACCC 62.237 72.222 4.70 0.79 34.89 4.46
443 994 3.467226 GATCTTCGGCCCGACCCA 61.467 66.667 4.70 0.00 34.89 4.51
444 995 3.735037 GATCTTCGGCCCGACCCAC 62.735 68.421 4.70 0.00 34.89 4.61
446 997 2.866523 ATCTTCGGCCCGACCCACTA 62.867 60.000 4.70 0.00 34.89 2.74
447 998 2.364579 TTCGGCCCGACCCACTAT 60.365 61.111 4.70 0.00 34.89 2.12
448 999 2.644555 CTTCGGCCCGACCCACTATG 62.645 65.000 4.70 0.00 34.89 2.23
450 1001 2.507854 CGGCCCGACCCACTATGAT 61.508 63.158 0.00 0.00 33.26 2.45
451 1002 1.071471 GGCCCGACCCACTATGATG 59.929 63.158 0.00 0.00 0.00 3.07
452 1003 1.407656 GGCCCGACCCACTATGATGA 61.408 60.000 0.00 0.00 0.00 2.92
453 1004 0.249911 GCCCGACCCACTATGATGAC 60.250 60.000 0.00 0.00 0.00 3.06
455 1006 0.597637 CCGACCCACTATGATGACGC 60.598 60.000 0.00 0.00 0.00 5.19
456 1007 0.597637 CGACCCACTATGATGACGCC 60.598 60.000 0.00 0.00 0.00 5.68
457 1008 0.597637 GACCCACTATGATGACGCCG 60.598 60.000 0.00 0.00 0.00 6.46
459 1010 0.318441 CCCACTATGATGACGCCGAT 59.682 55.000 0.00 0.00 0.00 4.18
460 1011 1.422388 CCACTATGATGACGCCGATG 58.578 55.000 0.00 0.00 0.00 3.84
462 1013 1.788886 CACTATGATGACGCCGATGTG 59.211 52.381 0.00 0.00 0.00 3.21
463 1014 1.269778 ACTATGATGACGCCGATGTGG 60.270 52.381 0.00 0.00 42.50 4.17
464 1015 0.750249 TATGATGACGCCGATGTGGT 59.250 50.000 0.00 0.00 41.21 4.16
465 1016 0.107703 ATGATGACGCCGATGTGGTT 60.108 50.000 0.00 0.00 41.21 3.67
468 1019 0.248012 ATGACGCCGATGTGGTTACA 59.752 50.000 0.00 0.00 41.89 2.41
470 1021 0.441145 GACGCCGATGTGGTTACAAC 59.559 55.000 0.00 0.00 40.84 3.32
479 1030 4.415783 GGTTACAACCCCCTGCTG 57.584 61.111 0.00 0.00 43.43 4.41
482 1033 1.074244 GGTTACAACCCCCTGCTGTTA 59.926 52.381 0.00 0.00 43.43 2.41
483 1034 2.489437 GGTTACAACCCCCTGCTGTTAA 60.489 50.000 0.00 0.00 43.43 2.01
484 1035 3.427573 GTTACAACCCCCTGCTGTTAAT 58.572 45.455 0.00 0.00 0.00 1.40
485 1036 2.694616 ACAACCCCCTGCTGTTAATT 57.305 45.000 0.00 0.00 0.00 1.40
487 1038 1.550072 CAACCCCCTGCTGTTAATTGG 59.450 52.381 0.00 0.00 0.00 3.16
488 1039 0.041090 ACCCCCTGCTGTTAATTGGG 59.959 55.000 0.00 0.00 37.68 4.12
491 1042 2.256306 CCCCTGCTGTTAATTGGGTTT 58.744 47.619 0.00 0.00 36.26 3.27
493 1044 3.306710 CCCCTGCTGTTAATTGGGTTTTC 60.307 47.826 0.00 0.00 36.26 2.29
494 1045 3.323403 CCCTGCTGTTAATTGGGTTTTCA 59.677 43.478 0.00 0.00 33.49 2.69
495 1046 4.306600 CCTGCTGTTAATTGGGTTTTCAC 58.693 43.478 0.00 0.00 0.00 3.18
496 1047 4.039124 CCTGCTGTTAATTGGGTTTTCACT 59.961 41.667 0.00 0.00 0.00 3.41
497 1048 5.453198 CCTGCTGTTAATTGGGTTTTCACTT 60.453 40.000 0.00 0.00 0.00 3.16
498 1049 5.983540 TGCTGTTAATTGGGTTTTCACTTT 58.016 33.333 0.00 0.00 0.00 2.66
499 1050 6.045955 TGCTGTTAATTGGGTTTTCACTTTC 58.954 36.000 0.00 0.00 0.00 2.62
500 1051 5.465390 GCTGTTAATTGGGTTTTCACTTTCC 59.535 40.000 0.00 0.00 0.00 3.13
502 1053 7.189079 TGTTAATTGGGTTTTCACTTTCCTT 57.811 32.000 0.00 0.00 0.00 3.36
504 1055 8.759782 TGTTAATTGGGTTTTCACTTTCCTTTA 58.240 29.630 0.00 0.00 0.00 1.85
505 1056 9.037737 GTTAATTGGGTTTTCACTTTCCTTTAC 57.962 33.333 0.00 0.00 0.00 2.01
506 1057 4.904253 TGGGTTTTCACTTTCCTTTACG 57.096 40.909 0.00 0.00 0.00 3.18
507 1058 4.525024 TGGGTTTTCACTTTCCTTTACGA 58.475 39.130 0.00 0.00 0.00 3.43
508 1059 5.134661 TGGGTTTTCACTTTCCTTTACGAT 58.865 37.500 0.00 0.00 0.00 3.73
509 1060 5.009210 TGGGTTTTCACTTTCCTTTACGATG 59.991 40.000 0.00 0.00 0.00 3.84
513 1079 6.721571 TTTCACTTTCCTTTACGATGCTAG 57.278 37.500 0.00 0.00 0.00 3.42
520 2513 3.702548 TCCTTTACGATGCTAGTTGGCTA 59.297 43.478 0.00 0.00 0.00 3.93
531 2524 4.081642 TGCTAGTTGGCTACTCCTAAGTTG 60.082 45.833 4.51 0.00 38.33 3.16
547 2540 1.202592 AGTTGCCACGTGACACATGTA 60.203 47.619 19.30 0.00 31.85 2.29
555 2548 3.364920 CACGTGACACATGTACTAAGCAG 59.635 47.826 10.90 0.00 31.85 4.24
557 2550 3.987868 CGTGACACATGTACTAAGCAGTT 59.012 43.478 6.37 0.00 36.14 3.16
558 2551 4.090066 CGTGACACATGTACTAAGCAGTTC 59.910 45.833 6.37 0.00 36.14 3.01
562 2555 6.018262 TGACACATGTACTAAGCAGTTCAAAC 60.018 38.462 0.00 0.00 35.92 2.93
603 2714 7.335924 TGACTGTTCTTAAGTTGTTTTAGCTGT 59.664 33.333 1.63 0.00 0.00 4.40
610 2721 4.976540 AGTTGTTTTAGCTGTAGGAGGT 57.023 40.909 0.00 0.00 36.09 3.85
630 2749 3.569701 GGTCTGATTTTCCTTCTGCACAA 59.430 43.478 0.00 0.00 0.00 3.33
631 2750 4.219288 GGTCTGATTTTCCTTCTGCACAAT 59.781 41.667 0.00 0.00 0.00 2.71
632 2751 5.415701 GGTCTGATTTTCCTTCTGCACAATA 59.584 40.000 0.00 0.00 0.00 1.90
633 2752 6.404074 GGTCTGATTTTCCTTCTGCACAATAG 60.404 42.308 0.00 0.00 0.00 1.73
634 2753 6.150140 GTCTGATTTTCCTTCTGCACAATAGT 59.850 38.462 0.00 0.00 0.00 2.12
635 2754 7.334421 GTCTGATTTTCCTTCTGCACAATAGTA 59.666 37.037 0.00 0.00 0.00 1.82
636 2755 7.334421 TCTGATTTTCCTTCTGCACAATAGTAC 59.666 37.037 0.00 0.00 0.00 2.73
637 2756 6.939730 TGATTTTCCTTCTGCACAATAGTACA 59.060 34.615 0.00 0.00 0.00 2.90
638 2757 7.611467 TGATTTTCCTTCTGCACAATAGTACAT 59.389 33.333 0.00 0.00 0.00 2.29
639 2758 9.109393 GATTTTCCTTCTGCACAATAGTACATA 57.891 33.333 0.00 0.00 0.00 2.29
716 3520 5.688807 AGTCTTCAGCCTATGCATTATTGT 58.311 37.500 3.54 0.00 41.13 2.71
945 3755 0.884704 GCCCAAGCTCACTCAAACGA 60.885 55.000 0.00 0.00 35.50 3.85
973 3808 2.234908 ACAACACCATCTCCTCAGTAGC 59.765 50.000 0.00 0.00 0.00 3.58
975 3810 2.756907 ACACCATCTCCTCAGTAGCAT 58.243 47.619 0.00 0.00 0.00 3.79
976 3811 3.110705 ACACCATCTCCTCAGTAGCATT 58.889 45.455 0.00 0.00 0.00 3.56
1174 4024 2.281761 AGTTGCCGCTTGTGGGAG 60.282 61.111 2.21 0.00 0.00 4.30
1338 4194 2.867429 CACCGTCCGTAAGATAAACGT 58.133 47.619 0.00 0.00 38.67 3.99
1408 4264 8.180920 CGTCTGTATCAACTATCCTATCATCTG 58.819 40.741 0.00 0.00 0.00 2.90
1409 4265 9.019656 GTCTGTATCAACTATCCTATCATCTGT 57.980 37.037 0.00 0.00 0.00 3.41
1419 4275 9.041354 ACTATCCTATCATCTGTATTTTCTCCC 57.959 37.037 0.00 0.00 0.00 4.30
1420 4276 6.346477 TCCTATCATCTGTATTTTCTCCCG 57.654 41.667 0.00 0.00 0.00 5.14
1421 4277 4.932200 CCTATCATCTGTATTTTCTCCCGC 59.068 45.833 0.00 0.00 0.00 6.13
1422 4278 4.696479 ATCATCTGTATTTTCTCCCGCT 57.304 40.909 0.00 0.00 0.00 5.52
1423 4279 5.808366 ATCATCTGTATTTTCTCCCGCTA 57.192 39.130 0.00 0.00 0.00 4.26
1424 4280 5.201713 TCATCTGTATTTTCTCCCGCTAG 57.798 43.478 0.00 0.00 0.00 3.42
1425 4281 4.039245 TCATCTGTATTTTCTCCCGCTAGG 59.961 45.833 0.00 0.00 37.24 3.02
1426 4282 3.638860 TCTGTATTTTCTCCCGCTAGGA 58.361 45.455 0.00 0.00 44.91 2.94
1427 4283 4.223953 TCTGTATTTTCTCCCGCTAGGAT 58.776 43.478 0.00 0.00 46.33 3.24
1428 4284 4.281182 TCTGTATTTTCTCCCGCTAGGATC 59.719 45.833 0.00 0.00 46.33 3.36
1429 4285 2.821991 ATTTTCTCCCGCTAGGATCG 57.178 50.000 0.00 0.00 46.33 3.69
1430 4286 0.750850 TTTTCTCCCGCTAGGATCGG 59.249 55.000 0.67 0.67 46.33 4.18
1444 4300 8.480643 CGCTAGGATCGGAAATCTTATATTTT 57.519 34.615 0.00 0.00 0.00 1.82
1445 4301 8.596380 CGCTAGGATCGGAAATCTTATATTTTC 58.404 37.037 0.00 0.00 0.00 2.29
1446 4302 9.660180 GCTAGGATCGGAAATCTTATATTTTCT 57.340 33.333 0.00 0.00 33.38 2.52
1469 4325 9.488762 TTCTATATCCATATACCGTTGAATCCT 57.511 33.333 0.00 0.00 0.00 3.24
1470 4326 9.488762 TCTATATCCATATACCGTTGAATCCTT 57.511 33.333 0.00 0.00 0.00 3.36
1471 4327 9.534565 CTATATCCATATACCGTTGAATCCTTG 57.465 37.037 0.00 0.00 0.00 3.61
1472 4328 4.968259 TCCATATACCGTTGAATCCTTGG 58.032 43.478 0.00 0.00 0.00 3.61
1473 4329 4.072131 CCATATACCGTTGAATCCTTGGG 58.928 47.826 0.00 0.00 0.00 4.12
1474 4330 2.729028 ATACCGTTGAATCCTTGGGG 57.271 50.000 0.00 0.00 0.00 4.96
1475 4331 1.364269 TACCGTTGAATCCTTGGGGT 58.636 50.000 0.00 0.00 0.00 4.95
1476 4332 0.481128 ACCGTTGAATCCTTGGGGTT 59.519 50.000 0.00 0.00 0.00 4.11
1477 4333 1.173913 CCGTTGAATCCTTGGGGTTC 58.826 55.000 2.87 2.87 0.00 3.62
1478 4334 1.173913 CGTTGAATCCTTGGGGTTCC 58.826 55.000 7.06 0.00 0.00 3.62
1479 4335 1.546773 CGTTGAATCCTTGGGGTTCCA 60.547 52.381 7.06 0.00 42.25 3.53
1480 4336 2.171003 GTTGAATCCTTGGGGTTCCAG 58.829 52.381 7.06 0.00 45.04 3.86
1481 4337 1.753903 TGAATCCTTGGGGTTCCAGA 58.246 50.000 7.06 0.00 45.04 3.86
1482 4338 2.069775 TGAATCCTTGGGGTTCCAGAA 58.930 47.619 7.06 0.00 45.04 3.02
1483 4339 2.654385 TGAATCCTTGGGGTTCCAGAAT 59.346 45.455 7.06 0.00 45.04 2.40
1484 4340 3.291584 GAATCCTTGGGGTTCCAGAATC 58.708 50.000 0.00 0.00 45.04 2.52
1485 4341 0.999712 TCCTTGGGGTTCCAGAATCC 59.000 55.000 0.68 0.68 45.04 3.01
1486 4342 0.394352 CCTTGGGGTTCCAGAATCCG 60.394 60.000 3.63 0.00 45.04 4.18
1487 4343 1.001393 TTGGGGTTCCAGAATCCGC 60.001 57.895 3.63 6.42 45.04 5.54
1488 4344 2.124278 GGGGTTCCAGAATCCGCC 60.124 66.667 3.63 0.00 42.53 6.13
1489 4345 2.680370 GGGGTTCCAGAATCCGCCT 61.680 63.158 3.63 0.00 42.53 5.52
1490 4346 1.342672 GGGGTTCCAGAATCCGCCTA 61.343 60.000 3.63 0.00 42.53 3.93
1491 4347 0.765510 GGGTTCCAGAATCCGCCTAT 59.234 55.000 0.00 0.00 30.99 2.57
1492 4348 1.143073 GGGTTCCAGAATCCGCCTATT 59.857 52.381 0.00 0.00 30.99 1.73
1493 4349 2.422945 GGGTTCCAGAATCCGCCTATTT 60.423 50.000 0.00 0.00 30.99 1.40
1494 4350 3.288092 GGTTCCAGAATCCGCCTATTTT 58.712 45.455 0.00 0.00 0.00 1.82
1495 4351 4.457466 GGTTCCAGAATCCGCCTATTTTA 58.543 43.478 0.00 0.00 0.00 1.52
1496 4352 4.275196 GGTTCCAGAATCCGCCTATTTTAC 59.725 45.833 0.00 0.00 0.00 2.01
1497 4353 5.123936 GTTCCAGAATCCGCCTATTTTACT 58.876 41.667 0.00 0.00 0.00 2.24
1498 4354 6.285990 GTTCCAGAATCCGCCTATTTTACTA 58.714 40.000 0.00 0.00 0.00 1.82
1499 4355 6.097915 TCCAGAATCCGCCTATTTTACTAG 57.902 41.667 0.00 0.00 0.00 2.57
1500 4356 5.601313 TCCAGAATCCGCCTATTTTACTAGT 59.399 40.000 0.00 0.00 0.00 2.57
1501 4357 5.927115 CCAGAATCCGCCTATTTTACTAGTC 59.073 44.000 0.00 0.00 0.00 2.59
1502 4358 6.239345 CCAGAATCCGCCTATTTTACTAGTCT 60.239 42.308 0.00 0.00 0.00 3.24
1503 4359 7.210873 CAGAATCCGCCTATTTTACTAGTCTT 58.789 38.462 0.00 0.00 0.00 3.01
1504 4360 7.382759 CAGAATCCGCCTATTTTACTAGTCTTC 59.617 40.741 0.00 0.00 0.00 2.87
1505 4361 5.179045 TCCGCCTATTTTACTAGTCTTCG 57.821 43.478 0.00 0.00 0.00 3.79
1506 4362 4.037208 TCCGCCTATTTTACTAGTCTTCGG 59.963 45.833 0.00 3.02 0.00 4.30
1507 4363 4.037208 CCGCCTATTTTACTAGTCTTCGGA 59.963 45.833 0.00 0.00 34.50 4.55
1508 4364 5.450965 CCGCCTATTTTACTAGTCTTCGGAA 60.451 44.000 0.00 0.00 34.50 4.30
1509 4365 6.038356 CGCCTATTTTACTAGTCTTCGGAAA 58.962 40.000 0.00 0.00 0.00 3.13
1510 4366 6.020041 CGCCTATTTTACTAGTCTTCGGAAAC 60.020 42.308 0.00 0.00 0.00 2.78
1525 4381 3.088194 GGAAACGAAAAACCCTGAACC 57.912 47.619 0.00 0.00 0.00 3.62
1526 4382 2.427812 GGAAACGAAAAACCCTGAACCA 59.572 45.455 0.00 0.00 0.00 3.67
1527 4383 3.119065 GGAAACGAAAAACCCTGAACCAA 60.119 43.478 0.00 0.00 0.00 3.67
1528 4384 3.793797 AACGAAAAACCCTGAACCAAG 57.206 42.857 0.00 0.00 0.00 3.61
1529 4385 3.007473 ACGAAAAACCCTGAACCAAGA 57.993 42.857 0.00 0.00 0.00 3.02
1530 4386 3.358118 ACGAAAAACCCTGAACCAAGAA 58.642 40.909 0.00 0.00 0.00 2.52
1531 4387 3.380320 ACGAAAAACCCTGAACCAAGAAG 59.620 43.478 0.00 0.00 0.00 2.85
1532 4388 3.630312 CGAAAAACCCTGAACCAAGAAGA 59.370 43.478 0.00 0.00 0.00 2.87
1533 4389 4.261197 CGAAAAACCCTGAACCAAGAAGAG 60.261 45.833 0.00 0.00 0.00 2.85
1534 4390 3.953542 AAACCCTGAACCAAGAAGAGT 57.046 42.857 0.00 0.00 0.00 3.24
1535 4391 3.953542 AACCCTGAACCAAGAAGAGTT 57.046 42.857 0.00 0.00 0.00 3.01
1536 4392 3.214696 ACCCTGAACCAAGAAGAGTTG 57.785 47.619 0.00 0.00 0.00 3.16
1551 4407 9.265901 CAAGAAGAGTTGGATATGTTATGTAGG 57.734 37.037 0.00 0.00 0.00 3.18
1589 4445 8.504005 CAGTTCATGTTCTAGTATTTTCCGTTT 58.496 33.333 0.00 0.00 0.00 3.60
1709 4568 3.733224 CAGCTTGCATCATCGTACTACTC 59.267 47.826 0.00 0.00 0.00 2.59
1742 4601 1.152096 AAGGTCCCAACTCCGGAGT 60.152 57.895 31.69 31.69 44.94 3.85
1791 4658 4.878397 AGCTTCCTCACCGATTTTCATTAG 59.122 41.667 0.00 0.00 0.00 1.73
1854 4721 5.401531 AGCAGAAATACTAGGAAACGACA 57.598 39.130 0.00 0.00 0.00 4.35
1866 4733 3.997021 AGGAAACGACAACACATGATCTC 59.003 43.478 0.00 0.00 0.00 2.75
1879 4746 5.479375 ACACATGATCTCAAGGAGCAAAATT 59.521 36.000 0.00 0.00 43.87 1.82
1880 4747 5.805486 CACATGATCTCAAGGAGCAAAATTG 59.195 40.000 0.00 0.00 43.87 2.32
1881 4748 5.479375 ACATGATCTCAAGGAGCAAAATTGT 59.521 36.000 0.00 0.00 43.87 2.71
1882 4749 6.014840 ACATGATCTCAAGGAGCAAAATTGTT 60.015 34.615 0.00 0.00 43.87 2.83
1883 4750 7.177216 ACATGATCTCAAGGAGCAAAATTGTTA 59.823 33.333 0.00 0.00 43.87 2.41
1884 4751 7.149569 TGATCTCAAGGAGCAAAATTGTTAG 57.850 36.000 0.00 0.00 37.41 2.34
1889 4756 8.950210 TCTCAAGGAGCAAAATTGTTAGAATAG 58.050 33.333 0.00 0.00 0.00 1.73
1911 4778 0.249073 CGAGGCCACCGTTGATCTAG 60.249 60.000 5.01 0.00 0.00 2.43
1925 4792 2.233676 TGATCTAGCGAAGACCAAGCAA 59.766 45.455 0.00 0.00 36.93 3.91
1935 4802 4.393062 CGAAGACCAAGCAATCACATAAGT 59.607 41.667 0.00 0.00 0.00 2.24
1940 4807 5.428253 ACCAAGCAATCACATAAGTACGAT 58.572 37.500 0.00 0.00 0.00 3.73
1965 7410 6.180472 ACCGAGATTTGTTAATGAGGTTCAT 58.820 36.000 0.00 0.00 39.09 2.57
1967 7412 6.316140 CCGAGATTTGTTAATGAGGTTCATCA 59.684 38.462 0.00 0.00 35.76 3.07
1980 7425 6.604171 TGAGGTTCATCAATATGGCTACATT 58.396 36.000 0.00 0.00 38.53 2.71
1981 7426 7.062322 TGAGGTTCATCAATATGGCTACATTT 58.938 34.615 0.00 0.00 38.53 2.32
1986 7431 4.698201 TCAATATGGCTACATTTCCGGA 57.302 40.909 0.00 0.00 38.53 5.14
1989 7434 0.532862 ATGGCTACATTTCCGGAGCG 60.533 55.000 3.34 0.00 35.71 5.03
2007 7453 2.678934 TGACTACGGGCGCTCCTT 60.679 61.111 7.64 3.00 0.00 3.36
2023 7469 0.462047 CCTTCCCATGACACCGCTAC 60.462 60.000 0.00 0.00 0.00 3.58
2107 7553 6.371548 CGTGCTATTATGTTGGCATAGGTTAT 59.628 38.462 0.00 0.00 38.64 1.89
2120 7566 6.091437 GGCATAGGTTATATCGTGTGTCTAC 58.909 44.000 0.00 0.00 0.00 2.59
2122 7568 6.072064 GCATAGGTTATATCGTGTGTCTACCT 60.072 42.308 0.00 0.00 38.28 3.08
2141 7587 4.475345 ACCTCCGATATATATGAGAGGCC 58.525 47.826 24.93 0.00 43.87 5.19
2151 7597 9.461312 GATATATATGAGAGGCCTAGGATACAG 57.539 40.741 14.75 0.00 41.41 2.74
2186 7632 4.611564 ACAGAACTCCTACCCTGTCTAT 57.388 45.455 0.00 0.00 35.15 1.98
2188 7634 5.697067 ACAGAACTCCTACCCTGTCTATAG 58.303 45.833 0.00 0.00 35.15 1.31
2245 7691 8.662141 ACCTTGTACAATAATATTCGACACAAC 58.338 33.333 9.13 0.00 0.00 3.32
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 9.726034 GCGAATAAAAACTGTTTGATATTGTTG 57.274 29.630 20.30 14.05 0.00 3.33
5 6 8.018520 TCGCGAATAAAAACTGTTTGATATTGT 58.981 29.630 20.30 4.77 0.00 2.71
6 7 8.375717 TCGCGAATAAAAACTGTTTGATATTG 57.624 30.769 20.30 15.46 0.00 1.90
7 8 8.958175 TTCGCGAATAAAAACTGTTTGATATT 57.042 26.923 19.38 17.47 0.00 1.28
47 50 6.400834 GGTCGAGAGATAAAGAAAACGAAACC 60.401 42.308 0.00 0.00 45.19 3.27
154 168 1.613925 CTAGGTTCAGCAGCGCCTATA 59.386 52.381 2.29 0.00 33.64 1.31
168 182 6.598503 AGTAACAGTTTGCTAAACCTAGGTT 58.401 36.000 21.96 21.96 42.34 3.50
271 407 1.070758 GGAGAGCGGAATGGAGCATAA 59.929 52.381 0.00 0.00 35.48 1.90
272 408 0.681733 GGAGAGCGGAATGGAGCATA 59.318 55.000 0.00 0.00 35.48 3.14
300 436 0.599558 TACTTTAGCTGCGGTGTCGT 59.400 50.000 0.00 0.00 38.89 4.34
317 453 5.408604 CCTCGTTTAATCCATATGGTGCTAC 59.591 44.000 21.28 12.55 36.34 3.58
346 482 8.107095 TGGTCTCTGCCTTGTTTATAAGTTTAT 58.893 33.333 0.00 0.00 0.00 1.40
347 483 7.455058 TGGTCTCTGCCTTGTTTATAAGTTTA 58.545 34.615 0.00 0.00 0.00 2.01
348 484 6.303839 TGGTCTCTGCCTTGTTTATAAGTTT 58.696 36.000 0.00 0.00 0.00 2.66
349 485 5.876357 TGGTCTCTGCCTTGTTTATAAGTT 58.124 37.500 0.00 0.00 0.00 2.66
350 486 5.248477 TCTGGTCTCTGCCTTGTTTATAAGT 59.752 40.000 0.00 0.00 0.00 2.24
351 487 5.734720 TCTGGTCTCTGCCTTGTTTATAAG 58.265 41.667 0.00 0.00 0.00 1.73
352 488 5.755409 TCTGGTCTCTGCCTTGTTTATAA 57.245 39.130 0.00 0.00 0.00 0.98
353 489 5.483937 TCTTCTGGTCTCTGCCTTGTTTATA 59.516 40.000 0.00 0.00 0.00 0.98
381 932 2.256117 AGAAGGTGGAAGGTTTCACG 57.744 50.000 0.00 0.00 34.93 4.35
394 945 0.106149 ACGAAACAGCCGAAGAAGGT 59.894 50.000 0.00 0.00 0.00 3.50
412 963 3.243907 CCGAAGATCCCTGGACTATCAAC 60.244 52.174 0.00 0.00 0.00 3.18
414 965 2.598565 CCGAAGATCCCTGGACTATCA 58.401 52.381 0.00 0.00 0.00 2.15
416 967 1.343069 GCCGAAGATCCCTGGACTAT 58.657 55.000 0.00 0.00 0.00 2.12
417 968 0.759436 GGCCGAAGATCCCTGGACTA 60.759 60.000 0.00 0.00 0.00 2.59
419 970 2.506472 GGCCGAAGATCCCTGGAC 59.494 66.667 0.00 0.00 0.00 4.02
421 972 4.241555 CGGGCCGAAGATCCCTGG 62.242 72.222 24.41 0.00 37.84 4.45
422 973 3.154473 TCGGGCCGAAGATCCCTG 61.154 66.667 29.11 0.00 37.84 4.45
423 974 3.155167 GTCGGGCCGAAGATCCCT 61.155 66.667 32.91 0.00 37.72 4.20
424 975 4.237207 GGTCGGGCCGAAGATCCC 62.237 72.222 32.91 23.26 37.72 3.85
425 976 4.237207 GGGTCGGGCCGAAGATCC 62.237 72.222 32.91 26.33 37.72 3.36
426 977 3.467226 TGGGTCGGGCCGAAGATC 61.467 66.667 32.91 18.30 37.72 2.75
428 979 2.866523 ATAGTGGGTCGGGCCGAAGA 62.867 60.000 32.91 14.69 37.72 2.87
429 980 2.432300 ATAGTGGGTCGGGCCGAAG 61.432 63.158 32.91 0.00 37.72 3.79
430 981 2.364579 ATAGTGGGTCGGGCCGAA 60.365 61.111 32.91 15.02 37.72 4.30
431 982 2.939760 ATCATAGTGGGTCGGGCCGA 62.940 60.000 27.46 27.46 38.44 5.54
432 983 2.507854 ATCATAGTGGGTCGGGCCG 61.508 63.158 22.51 22.51 38.44 6.13
434 985 0.249911 GTCATCATAGTGGGTCGGGC 60.250 60.000 0.00 0.00 0.00 6.13
435 986 0.032130 CGTCATCATAGTGGGTCGGG 59.968 60.000 0.00 0.00 0.00 5.14
436 987 0.597637 GCGTCATCATAGTGGGTCGG 60.598 60.000 0.00 0.00 0.00 4.79
437 988 0.597637 GGCGTCATCATAGTGGGTCG 60.598 60.000 0.00 0.00 0.00 4.79
438 989 0.597637 CGGCGTCATCATAGTGGGTC 60.598 60.000 0.00 0.00 0.00 4.46
439 990 1.040893 TCGGCGTCATCATAGTGGGT 61.041 55.000 6.85 0.00 0.00 4.51
440 991 0.318441 ATCGGCGTCATCATAGTGGG 59.682 55.000 6.85 0.00 0.00 4.61
442 993 1.788886 CACATCGGCGTCATCATAGTG 59.211 52.381 6.85 1.95 0.00 2.74
443 994 1.269778 CCACATCGGCGTCATCATAGT 60.270 52.381 6.85 0.00 0.00 2.12
444 995 1.269778 ACCACATCGGCGTCATCATAG 60.270 52.381 6.85 0.00 39.03 2.23
445 996 0.750249 ACCACATCGGCGTCATCATA 59.250 50.000 6.85 0.00 39.03 2.15
446 997 0.107703 AACCACATCGGCGTCATCAT 60.108 50.000 6.85 0.00 39.03 2.45
447 998 0.533032 TAACCACATCGGCGTCATCA 59.467 50.000 6.85 0.00 39.03 3.07
448 999 0.928229 GTAACCACATCGGCGTCATC 59.072 55.000 6.85 0.00 39.03 2.92
450 1001 0.033642 TTGTAACCACATCGGCGTCA 59.966 50.000 6.85 0.00 39.03 4.35
451 1002 0.441145 GTTGTAACCACATCGGCGTC 59.559 55.000 6.85 0.00 39.03 5.19
452 1003 2.535588 GTTGTAACCACATCGGCGT 58.464 52.632 6.85 0.00 39.03 5.68
463 1014 2.572209 TAACAGCAGGGGGTTGTAAC 57.428 50.000 0.00 0.00 40.35 2.50
464 1015 3.818295 ATTAACAGCAGGGGGTTGTAA 57.182 42.857 0.00 0.00 40.35 2.41
465 1016 3.426615 CAATTAACAGCAGGGGGTTGTA 58.573 45.455 0.00 0.00 40.35 2.41
468 1019 1.552254 CCCAATTAACAGCAGGGGGTT 60.552 52.381 0.00 0.00 35.83 4.11
470 1021 0.041090 ACCCAATTAACAGCAGGGGG 59.959 55.000 0.00 0.00 43.96 5.40
471 1022 1.937191 AACCCAATTAACAGCAGGGG 58.063 50.000 0.00 0.00 43.96 4.79
472 1023 3.323403 TGAAAACCCAATTAACAGCAGGG 59.677 43.478 0.00 0.00 45.20 4.45
473 1024 4.039124 AGTGAAAACCCAATTAACAGCAGG 59.961 41.667 0.00 0.00 0.00 4.85
475 1026 5.606348 AAGTGAAAACCCAATTAACAGCA 57.394 34.783 0.00 0.00 0.00 4.41
476 1027 5.465390 GGAAAGTGAAAACCCAATTAACAGC 59.535 40.000 0.00 0.00 0.00 4.40
478 1029 6.800072 AGGAAAGTGAAAACCCAATTAACA 57.200 33.333 0.00 0.00 0.00 2.41
479 1030 9.037737 GTAAAGGAAAGTGAAAACCCAATTAAC 57.962 33.333 0.00 0.00 0.00 2.01
482 1033 6.097129 TCGTAAAGGAAAGTGAAAACCCAATT 59.903 34.615 0.00 0.00 0.00 2.32
483 1034 5.595133 TCGTAAAGGAAAGTGAAAACCCAAT 59.405 36.000 0.00 0.00 0.00 3.16
484 1035 4.948621 TCGTAAAGGAAAGTGAAAACCCAA 59.051 37.500 0.00 0.00 0.00 4.12
485 1036 4.525024 TCGTAAAGGAAAGTGAAAACCCA 58.475 39.130 0.00 0.00 0.00 4.51
487 1038 4.915667 GCATCGTAAAGGAAAGTGAAAACC 59.084 41.667 0.00 0.00 0.00 3.27
488 1039 5.758924 AGCATCGTAAAGGAAAGTGAAAAC 58.241 37.500 0.00 0.00 0.00 2.43
491 1042 5.790593 ACTAGCATCGTAAAGGAAAGTGAA 58.209 37.500 0.00 0.00 0.00 3.18
493 1044 5.163854 CCAACTAGCATCGTAAAGGAAAGTG 60.164 44.000 0.00 0.00 0.00 3.16
494 1045 4.935808 CCAACTAGCATCGTAAAGGAAAGT 59.064 41.667 0.00 0.00 0.00 2.66
495 1046 4.201822 GCCAACTAGCATCGTAAAGGAAAG 60.202 45.833 0.00 0.00 0.00 2.62
496 1047 3.687698 GCCAACTAGCATCGTAAAGGAAA 59.312 43.478 0.00 0.00 0.00 3.13
497 1048 3.055385 AGCCAACTAGCATCGTAAAGGAA 60.055 43.478 0.00 0.00 34.23 3.36
498 1049 2.500098 AGCCAACTAGCATCGTAAAGGA 59.500 45.455 0.00 0.00 34.23 3.36
499 1050 2.906354 AGCCAACTAGCATCGTAAAGG 58.094 47.619 0.00 0.00 34.23 3.11
500 1051 4.683832 AGTAGCCAACTAGCATCGTAAAG 58.316 43.478 0.00 0.00 36.36 1.85
502 1053 3.067742 GGAGTAGCCAACTAGCATCGTAA 59.932 47.826 0.00 0.00 39.07 3.18
504 1055 1.409427 GGAGTAGCCAACTAGCATCGT 59.591 52.381 0.00 0.00 39.07 3.73
505 1056 1.683917 AGGAGTAGCCAACTAGCATCG 59.316 52.381 0.00 0.00 39.07 3.84
506 1057 4.342665 ACTTAGGAGTAGCCAACTAGCATC 59.657 45.833 0.00 0.00 39.07 3.91
507 1058 4.290942 ACTTAGGAGTAGCCAACTAGCAT 58.709 43.478 0.00 0.00 39.07 3.79
508 1059 3.709587 ACTTAGGAGTAGCCAACTAGCA 58.290 45.455 0.00 0.00 39.07 3.49
509 1060 4.434520 CAACTTAGGAGTAGCCAACTAGC 58.565 47.826 0.00 0.00 39.07 3.42
513 1079 2.357075 GGCAACTTAGGAGTAGCCAAC 58.643 52.381 0.00 0.00 41.63 3.77
520 2513 1.045407 TCACGTGGCAACTTAGGAGT 58.955 50.000 17.00 0.00 37.87 3.85
531 2524 2.357327 TAGTACATGTGTCACGTGGC 57.643 50.000 25.31 14.58 39.36 5.01
575 2686 8.903820 AGCTAAAACAACTTAAGAACAGTCAAT 58.096 29.630 10.09 0.00 0.00 2.57
583 2694 7.660208 CCTCCTACAGCTAAAACAACTTAAGAA 59.340 37.037 10.09 0.00 0.00 2.52
586 2697 6.834107 ACCTCCTACAGCTAAAACAACTTAA 58.166 36.000 0.00 0.00 0.00 1.85
598 2709 3.198853 GGAAAATCAGACCTCCTACAGCT 59.801 47.826 0.00 0.00 0.00 4.24
603 2714 4.080863 GCAGAAGGAAAATCAGACCTCCTA 60.081 45.833 0.00 0.00 37.31 2.94
610 2721 6.240894 ACTATTGTGCAGAAGGAAAATCAGA 58.759 36.000 1.68 0.00 0.00 3.27
716 3520 3.056465 TGTTCGTATGGCTGTGTGTATCA 60.056 43.478 0.00 0.00 0.00 2.15
945 3755 1.609208 GAGATGGTGTTGTGTGGCTT 58.391 50.000 0.00 0.00 0.00 4.35
973 3808 1.207791 ACTGGGAGGCTCTGGTAATG 58.792 55.000 15.23 1.16 0.00 1.90
975 3810 2.467880 CTAACTGGGAGGCTCTGGTAA 58.532 52.381 15.23 0.00 0.00 2.85
976 3811 1.965318 GCTAACTGGGAGGCTCTGGTA 60.965 57.143 15.23 7.29 0.00 3.25
1134 3984 1.704641 GCAACCCCAAAACCTTCTCT 58.295 50.000 0.00 0.00 0.00 3.10
1174 4024 0.108472 GTACTGGTCCCTGTAACGGC 60.108 60.000 4.83 0.00 33.37 5.68
1299 4150 5.186409 ACGGTGCTACCTAGAAGTCATAAAA 59.814 40.000 0.00 0.00 35.66 1.52
1419 4275 8.480643 AAAATATAAGATTTCCGATCCTAGCG 57.519 34.615 0.00 0.00 0.00 4.26
1420 4276 9.660180 AGAAAATATAAGATTTCCGATCCTAGC 57.340 33.333 0.00 0.00 36.44 3.42
1443 4299 9.488762 AGGATTCAACGGTATATGGATATAGAA 57.511 33.333 0.00 0.00 0.00 2.10
1444 4300 9.488762 AAGGATTCAACGGTATATGGATATAGA 57.511 33.333 0.00 0.00 0.00 1.98
1445 4301 9.534565 CAAGGATTCAACGGTATATGGATATAG 57.465 37.037 0.00 0.00 0.00 1.31
1446 4302 8.482943 CCAAGGATTCAACGGTATATGGATATA 58.517 37.037 0.00 0.00 0.00 0.86
1447 4303 7.338710 CCAAGGATTCAACGGTATATGGATAT 58.661 38.462 0.00 0.00 0.00 1.63
1448 4304 6.296202 CCCAAGGATTCAACGGTATATGGATA 60.296 42.308 0.00 0.00 0.00 2.59
1449 4305 5.514834 CCCAAGGATTCAACGGTATATGGAT 60.515 44.000 0.00 0.00 0.00 3.41
1450 4306 4.202419 CCCAAGGATTCAACGGTATATGGA 60.202 45.833 0.00 0.00 0.00 3.41
1451 4307 4.072131 CCCAAGGATTCAACGGTATATGG 58.928 47.826 0.00 0.00 0.00 2.74
1452 4308 4.072131 CCCCAAGGATTCAACGGTATATG 58.928 47.826 0.00 0.00 33.47 1.78
1453 4309 3.720002 ACCCCAAGGATTCAACGGTATAT 59.280 43.478 0.00 0.00 36.73 0.86
1454 4310 3.116959 ACCCCAAGGATTCAACGGTATA 58.883 45.455 0.00 0.00 36.73 1.47
1455 4311 1.920351 ACCCCAAGGATTCAACGGTAT 59.080 47.619 0.00 0.00 36.73 2.73
1456 4312 1.364269 ACCCCAAGGATTCAACGGTA 58.636 50.000 0.00 0.00 36.73 4.02
1457 4313 0.481128 AACCCCAAGGATTCAACGGT 59.519 50.000 0.00 0.00 36.73 4.83
1458 4314 1.173913 GAACCCCAAGGATTCAACGG 58.826 55.000 0.00 0.00 36.73 4.44
1459 4315 1.173913 GGAACCCCAAGGATTCAACG 58.826 55.000 0.00 0.00 36.73 4.10
1460 4316 2.171003 CTGGAACCCCAAGGATTCAAC 58.829 52.381 0.00 0.00 42.98 3.18
1461 4317 2.069775 TCTGGAACCCCAAGGATTCAA 58.930 47.619 0.00 0.00 42.98 2.69
1462 4318 1.753903 TCTGGAACCCCAAGGATTCA 58.246 50.000 0.00 0.00 42.98 2.57
1463 4319 2.899303 TTCTGGAACCCCAAGGATTC 57.101 50.000 0.00 0.00 42.98 2.52
1464 4320 2.023984 GGATTCTGGAACCCCAAGGATT 60.024 50.000 0.00 0.00 42.98 3.01
1465 4321 1.570979 GGATTCTGGAACCCCAAGGAT 59.429 52.381 0.00 0.00 42.98 3.24
1466 4322 0.999712 GGATTCTGGAACCCCAAGGA 59.000 55.000 0.00 0.00 42.98 3.36
1467 4323 0.394352 CGGATTCTGGAACCCCAAGG 60.394 60.000 0.00 0.00 42.98 3.61
1468 4324 1.032114 GCGGATTCTGGAACCCCAAG 61.032 60.000 0.00 0.00 42.98 3.61
1469 4325 1.001393 GCGGATTCTGGAACCCCAA 60.001 57.895 0.00 0.00 42.98 4.12
1470 4326 2.674754 GCGGATTCTGGAACCCCA 59.325 61.111 0.00 0.00 40.95 4.96
1471 4327 1.342672 TAGGCGGATTCTGGAACCCC 61.343 60.000 0.00 0.00 0.00 4.95
1472 4328 0.765510 ATAGGCGGATTCTGGAACCC 59.234 55.000 0.00 0.00 0.00 4.11
1473 4329 2.640316 AATAGGCGGATTCTGGAACC 57.360 50.000 0.00 0.00 0.00 3.62
1474 4330 5.123936 AGTAAAATAGGCGGATTCTGGAAC 58.876 41.667 0.00 0.00 0.00 3.62
1475 4331 5.367945 AGTAAAATAGGCGGATTCTGGAA 57.632 39.130 0.00 0.00 0.00 3.53
1476 4332 5.601313 ACTAGTAAAATAGGCGGATTCTGGA 59.399 40.000 0.00 0.00 0.00 3.86
1477 4333 5.855045 ACTAGTAAAATAGGCGGATTCTGG 58.145 41.667 0.00 0.00 0.00 3.86
1478 4334 6.750148 AGACTAGTAAAATAGGCGGATTCTG 58.250 40.000 0.00 0.00 35.80 3.02
1479 4335 6.980416 AGACTAGTAAAATAGGCGGATTCT 57.020 37.500 0.00 0.00 35.80 2.40
1480 4336 6.362820 CGAAGACTAGTAAAATAGGCGGATTC 59.637 42.308 0.00 0.00 35.80 2.52
1481 4337 6.214399 CGAAGACTAGTAAAATAGGCGGATT 58.786 40.000 0.00 0.00 35.80 3.01
1482 4338 5.278858 CCGAAGACTAGTAAAATAGGCGGAT 60.279 44.000 0.00 0.00 35.80 4.18
1483 4339 4.037208 CCGAAGACTAGTAAAATAGGCGGA 59.963 45.833 0.00 0.00 35.80 5.54
1484 4340 4.037208 TCCGAAGACTAGTAAAATAGGCGG 59.963 45.833 0.00 0.00 35.80 6.13
1485 4341 5.179045 TCCGAAGACTAGTAAAATAGGCG 57.821 43.478 0.00 0.00 35.80 5.52
1486 4342 6.020041 CGTTTCCGAAGACTAGTAAAATAGGC 60.020 42.308 0.00 0.00 35.63 3.93
1487 4343 7.253422 TCGTTTCCGAAGACTAGTAAAATAGG 58.747 38.462 0.00 0.00 40.86 2.57
1503 4359 2.328819 TCAGGGTTTTTCGTTTCCGA 57.671 45.000 0.00 0.00 42.41 4.55
1504 4360 2.542205 GGTTCAGGGTTTTTCGTTTCCG 60.542 50.000 0.00 0.00 0.00 4.30
1505 4361 2.427812 TGGTTCAGGGTTTTTCGTTTCC 59.572 45.455 0.00 0.00 0.00 3.13
1506 4362 3.786516 TGGTTCAGGGTTTTTCGTTTC 57.213 42.857 0.00 0.00 0.00 2.78
1507 4363 3.764972 TCTTGGTTCAGGGTTTTTCGTTT 59.235 39.130 0.00 0.00 0.00 3.60
1508 4364 3.358118 TCTTGGTTCAGGGTTTTTCGTT 58.642 40.909 0.00 0.00 0.00 3.85
1509 4365 3.007473 TCTTGGTTCAGGGTTTTTCGT 57.993 42.857 0.00 0.00 0.00 3.85
1510 4366 3.630312 TCTTCTTGGTTCAGGGTTTTTCG 59.370 43.478 0.00 0.00 0.00 3.46
1511 4367 4.645136 ACTCTTCTTGGTTCAGGGTTTTTC 59.355 41.667 0.00 0.00 0.00 2.29
1512 4368 4.610333 ACTCTTCTTGGTTCAGGGTTTTT 58.390 39.130 0.00 0.00 0.00 1.94
1513 4369 4.251103 ACTCTTCTTGGTTCAGGGTTTT 57.749 40.909 0.00 0.00 0.00 2.43
1514 4370 3.953542 ACTCTTCTTGGTTCAGGGTTT 57.046 42.857 0.00 0.00 0.00 3.27
1515 4371 3.555966 CAACTCTTCTTGGTTCAGGGTT 58.444 45.455 0.00 0.00 0.00 4.11
1516 4372 2.158608 CCAACTCTTCTTGGTTCAGGGT 60.159 50.000 0.00 0.00 36.65 4.34
1517 4373 2.106511 TCCAACTCTTCTTGGTTCAGGG 59.893 50.000 0.00 0.00 41.49 4.45
1518 4374 3.492102 TCCAACTCTTCTTGGTTCAGG 57.508 47.619 0.00 0.00 41.49 3.86
1519 4375 6.176183 ACATATCCAACTCTTCTTGGTTCAG 58.824 40.000 0.00 0.00 41.49 3.02
1520 4376 6.126863 ACATATCCAACTCTTCTTGGTTCA 57.873 37.500 0.00 0.00 41.49 3.18
1521 4377 8.616076 CATAACATATCCAACTCTTCTTGGTTC 58.384 37.037 0.00 0.00 41.49 3.62
1522 4378 8.109634 ACATAACATATCCAACTCTTCTTGGTT 58.890 33.333 0.00 0.00 41.49 3.67
1523 4379 7.633789 ACATAACATATCCAACTCTTCTTGGT 58.366 34.615 0.00 0.00 41.49 3.67
1524 4380 9.265901 CTACATAACATATCCAACTCTTCTTGG 57.734 37.037 0.00 0.00 42.04 3.61
1525 4381 9.265901 CCTACATAACATATCCAACTCTTCTTG 57.734 37.037 0.00 0.00 0.00 3.02
1526 4382 8.432805 CCCTACATAACATATCCAACTCTTCTT 58.567 37.037 0.00 0.00 0.00 2.52
1527 4383 7.569111 ACCCTACATAACATATCCAACTCTTCT 59.431 37.037 0.00 0.00 0.00 2.85
1528 4384 7.736893 ACCCTACATAACATATCCAACTCTTC 58.263 38.462 0.00 0.00 0.00 2.87
1529 4385 7.691993 ACCCTACATAACATATCCAACTCTT 57.308 36.000 0.00 0.00 0.00 2.85
1530 4386 8.974292 ATACCCTACATAACATATCCAACTCT 57.026 34.615 0.00 0.00 0.00 3.24
1540 4396 9.975218 ACTGAAAGAAAATACCCTACATAACAT 57.025 29.630 0.00 0.00 37.43 2.71
1541 4397 9.802039 AACTGAAAGAAAATACCCTACATAACA 57.198 29.630 0.00 0.00 37.43 2.41
1545 4401 8.960591 CATGAACTGAAAGAAAATACCCTACAT 58.039 33.333 0.00 0.00 37.43 2.29
1546 4402 7.942341 ACATGAACTGAAAGAAAATACCCTACA 59.058 33.333 0.00 0.00 37.43 2.74
1547 4403 8.336801 ACATGAACTGAAAGAAAATACCCTAC 57.663 34.615 0.00 0.00 37.43 3.18
1548 4404 8.934023 AACATGAACTGAAAGAAAATACCCTA 57.066 30.769 0.00 0.00 37.43 3.53
1549 4405 7.725844 AGAACATGAACTGAAAGAAAATACCCT 59.274 33.333 0.00 0.00 37.43 4.34
1550 4406 7.886338 AGAACATGAACTGAAAGAAAATACCC 58.114 34.615 0.00 0.00 37.43 3.69
1589 4445 8.908786 ACATGAACTGAAAGAAAATACAGAGA 57.091 30.769 0.00 0.00 37.43 3.10
1709 4568 3.012518 GGACCTTGTGATCAAGTGATGG 58.987 50.000 0.00 0.00 46.70 3.51
1764 4631 0.827368 AATCGGTGAGGAAGCTCTCC 59.173 55.000 6.79 6.79 45.81 3.71
1777 4644 4.764823 TGGTTTCTGCTAATGAAAATCGGT 59.235 37.500 0.00 0.00 35.54 4.69
1791 4658 6.743575 ATAACAAGATACTGTGGTTTCTGC 57.256 37.500 0.00 0.00 34.77 4.26
1854 4721 3.708403 TGCTCCTTGAGATCATGTGTT 57.292 42.857 0.00 0.00 0.00 3.32
1866 4733 7.970614 GGACTATTCTAACAATTTTGCTCCTTG 59.029 37.037 0.00 0.00 0.00 3.61
1879 4746 2.429610 GTGGCCTCGGACTATTCTAACA 59.570 50.000 3.32 0.00 0.00 2.41
1880 4747 2.223994 GGTGGCCTCGGACTATTCTAAC 60.224 54.545 3.32 0.00 0.00 2.34
1881 4748 2.037144 GGTGGCCTCGGACTATTCTAA 58.963 52.381 3.32 0.00 0.00 2.10
1882 4749 1.700955 GGTGGCCTCGGACTATTCTA 58.299 55.000 3.32 0.00 0.00 2.10
1883 4750 1.392710 CGGTGGCCTCGGACTATTCT 61.393 60.000 3.32 0.00 0.00 2.40
1884 4751 1.067582 CGGTGGCCTCGGACTATTC 59.932 63.158 3.32 0.00 0.00 1.75
1889 4756 3.310860 ATCAACGGTGGCCTCGGAC 62.311 63.158 18.10 0.56 0.00 4.79
1911 4778 0.874390 TGTGATTGCTTGGTCTTCGC 59.126 50.000 0.00 0.00 0.00 4.70
1925 4792 7.450124 AATCTCGGTATCGTACTTATGTGAT 57.550 36.000 0.00 0.00 37.69 3.06
1935 4802 7.143340 CCTCATTAACAAATCTCGGTATCGTA 58.857 38.462 0.00 0.00 37.69 3.43
1940 4807 6.703319 TGAACCTCATTAACAAATCTCGGTA 58.297 36.000 0.00 0.00 0.00 4.02
1956 4823 5.628797 TGTAGCCATATTGATGAACCTCA 57.371 39.130 0.00 0.00 34.73 3.86
1965 7410 4.641396 CTCCGGAAATGTAGCCATATTGA 58.359 43.478 5.23 0.00 0.00 2.57
1967 7412 3.412386 GCTCCGGAAATGTAGCCATATT 58.588 45.455 5.23 0.00 0.00 1.28
1980 7425 2.872557 CGTAGTCACGCTCCGGAA 59.127 61.111 5.23 0.00 42.05 4.30
1989 7434 2.885774 GAAGGAGCGCCCGTAGTCAC 62.886 65.000 2.29 0.00 40.87 3.67
2007 7453 0.908910 ATTGTAGCGGTGTCATGGGA 59.091 50.000 0.00 0.00 0.00 4.37
2107 7553 2.696989 TCGGAGGTAGACACACGATA 57.303 50.000 0.00 0.00 0.00 2.92
2120 7566 4.735369 AGGCCTCTCATATATATCGGAGG 58.265 47.826 23.42 23.42 42.08 4.30
2122 7568 5.611408 TCCTAGGCCTCTCATATATATCGGA 59.389 44.000 9.68 0.00 0.00 4.55
2186 7632 3.456644 TGGACTTGGTTTTGGACTGTCTA 59.543 43.478 7.85 0.00 0.00 2.59
2188 7634 2.650322 TGGACTTGGTTTTGGACTGTC 58.350 47.619 0.00 0.00 0.00 3.51


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

AutoCloner maintained by Alex Coulton.