Multiple sequence alignment - TraesCS6D01G049400

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 TraesCS6D01G049400 chr6D 100.000 3692 0 0 1 3692 24010801 24007110 0.000000e+00 6818
1 TraesCS6D01G049400 chr6D 86.863 510 62 5 1 508 93608714 93608208 1.920000e-157 566
2 TraesCS6D01G049400 chr6A 91.725 2864 181 26 582 3408 22531526 22528682 0.000000e+00 3925
3 TraesCS6D01G049400 chr6A 91.379 464 38 2 1 464 22532078 22531617 5.200000e-178 634
4 TraesCS6D01G049400 chr6B 91.802 2842 155 28 617 3408 38885862 38883049 0.000000e+00 3886
5 TraesCS6D01G049400 chr6B 82.214 551 91 7 13 559 54791109 54790562 5.580000e-128 468
6 TraesCS6D01G049400 chr6B 95.506 267 12 0 3403 3669 131732304 131732038 9.480000e-116 427
7 TraesCS6D01G049400 chr1A 81.867 557 95 6 1 554 213936481 213937034 7.220000e-127 464
8 TraesCS6D01G049400 chr7B 81.640 561 98 5 1 559 73479244 73479801 9.340000e-126 460
9 TraesCS6D01G049400 chr7B 94.366 284 14 2 3404 3686 544466426 544466708 5.660000e-118 435
10 TraesCS6D01G049400 chr7A 82.243 535 93 2 1 534 11082243 11082776 9.340000e-126 460
11 TraesCS6D01G049400 chr5B 82.000 550 92 7 13 558 59780139 59779593 9.340000e-126 460
12 TraesCS6D01G049400 chr3B 82.084 547 91 7 13 555 161678025 161677482 9.340000e-126 460
13 TraesCS6D01G049400 chr3B 95.472 265 10 2 3404 3667 590629263 590629000 4.410000e-114 422
14 TraesCS6D01G049400 chr4D 81.718 547 93 7 13 556 469445011 469444469 2.020000e-122 449
15 TraesCS6D01G049400 chr4B 96.226 265 8 2 3404 3668 453764571 453764833 2.040000e-117 433
16 TraesCS6D01G049400 chr1B 95.833 264 10 1 3404 3667 240431161 240431423 3.410000e-115 425
17 TraesCS6D01G049400 chr2B 95.167 269 11 2 3402 3669 441106652 441106385 1.230000e-114 424
18 TraesCS6D01G049400 chr2B 95.038 262 12 1 3408 3669 3922703 3922443 9.540000e-111 411
19 TraesCS6D01G049400 chr2B 95.038 262 12 1 3408 3669 4192437 4192177 9.540000e-111 411
20 TraesCS6D01G049400 chr7D 95.113 266 12 1 3405 3669 18847555 18847290 5.700000e-113 418


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 TraesCS6D01G049400 chr6D 24007110 24010801 3691 True 6818.0 6818 100.000 1 3692 1 chr6D.!!$R1 3691
1 TraesCS6D01G049400 chr6D 93608208 93608714 506 True 566.0 566 86.863 1 508 1 chr6D.!!$R2 507
2 TraesCS6D01G049400 chr6A 22528682 22532078 3396 True 2279.5 3925 91.552 1 3408 2 chr6A.!!$R1 3407
3 TraesCS6D01G049400 chr6B 38883049 38885862 2813 True 3886.0 3886 91.802 617 3408 1 chr6B.!!$R1 2791
4 TraesCS6D01G049400 chr6B 54790562 54791109 547 True 468.0 468 82.214 13 559 1 chr6B.!!$R2 546
5 TraesCS6D01G049400 chr1A 213936481 213937034 553 False 464.0 464 81.867 1 554 1 chr1A.!!$F1 553
6 TraesCS6D01G049400 chr7B 73479244 73479801 557 False 460.0 460 81.640 1 559 1 chr7B.!!$F1 558
7 TraesCS6D01G049400 chr7A 11082243 11082776 533 False 460.0 460 82.243 1 534 1 chr7A.!!$F1 533
8 TraesCS6D01G049400 chr5B 59779593 59780139 546 True 460.0 460 82.000 13 558 1 chr5B.!!$R1 545
9 TraesCS6D01G049400 chr3B 161677482 161678025 543 True 460.0 460 82.084 13 555 1 chr3B.!!$R1 542
10 TraesCS6D01G049400 chr4D 469444469 469445011 542 True 449.0 449 81.718 13 556 1 chr4D.!!$R1 543

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
956 1050 0.530870 GCGCGCCTAGATTTCTCCTT 60.531 55.0 23.24 0.00 0.00 3.36 F
1069 1163 0.039618 TCCAATTCCAGGTGGCTTCC 59.960 55.0 0.00 0.00 34.68 3.46 F
1070 1164 0.040204 CCAATTCCAGGTGGCTTCCT 59.960 55.0 0.00 0.00 38.51 3.36 F
1851 1945 0.319469 GCTCTCTAGATCTTGGGCGC 60.319 60.0 0.00 0.98 0.00 6.53 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1965 2059 1.140052 TCCTTCAACGGCACTTCTTCA 59.860 47.619 0.00 0.0 0.00 3.02 R
2385 2479 1.538666 CCCATCATCCCCTGGTTCC 59.461 63.158 0.00 0.0 0.00 3.62 R
2589 2683 2.778299 TCAATTCCTTCCAAGGTGTCG 58.222 47.619 5.24 0.0 46.54 4.35 R
3428 3530 1.549620 TGACCAAACCTAATACGCGGA 59.450 47.619 12.47 0.0 0.00 5.54 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
121 122 2.109181 GGGTACGATGGGAGCAGC 59.891 66.667 0.00 0.00 0.00 5.25
178 179 5.131475 GGGGTAATGGTAAGATTGACTGGTA 59.869 44.000 0.00 0.00 0.00 3.25
181 182 3.880047 TGGTAAGATTGACTGGTACGG 57.120 47.619 0.00 0.00 42.99 4.02
299 300 3.779738 TGGAGGTGATTGATACCATGACA 59.220 43.478 0.00 0.00 40.74 3.58
309 310 4.560739 TGATACCATGACAGAAGGAGGAT 58.439 43.478 0.00 0.00 0.00 3.24
425 427 6.024552 TCAAATAAAGTTGCCCATGAACTC 57.975 37.500 0.00 0.00 32.33 3.01
457 459 4.321230 GGCCAGATTTTCGTTCATTTCTGT 60.321 41.667 0.00 0.00 30.97 3.41
483 485 4.301628 GTTTGAGGAGCCAAATGTTGAAG 58.698 43.478 0.00 0.00 38.18 3.02
484 486 1.888512 TGAGGAGCCAAATGTTGAAGC 59.111 47.619 0.00 0.00 0.00 3.86
508 511 2.985896 ACCATCCTCATAAACGGTGTG 58.014 47.619 0.00 0.00 0.00 3.82
510 513 2.936498 CCATCCTCATAAACGGTGTGAC 59.064 50.000 0.00 0.00 0.00 3.67
512 515 1.067425 TCCTCATAAACGGTGTGACGG 60.067 52.381 0.00 0.00 38.39 4.79
514 517 2.094597 CCTCATAAACGGTGTGACGGTA 60.095 50.000 0.00 0.00 38.39 4.02
520 523 2.825861 ACGGTGTGACGGTAATTTCT 57.174 45.000 0.00 0.00 38.39 2.52
578 581 5.331876 AGATAACTCTTAGCTGGTGTGTC 57.668 43.478 0.00 0.00 29.32 3.67
579 582 4.772624 AGATAACTCTTAGCTGGTGTGTCA 59.227 41.667 0.00 0.00 29.32 3.58
593 621 3.559171 GGTGTGTCATGGCGGGAATATAT 60.559 47.826 0.00 0.00 0.00 0.86
674 715 3.691342 CCAGGAAGACACCGGCGA 61.691 66.667 9.30 0.00 34.73 5.54
691 732 2.676839 GGCGAGCTAGGGTTTTAAAGAC 59.323 50.000 0.00 0.00 0.00 3.01
694 735 3.332034 GAGCTAGGGTTTTAAAGACGCA 58.668 45.455 14.94 5.64 32.91 5.24
738 781 0.840722 GGAAACCACTCCCTCCCTCA 60.841 60.000 0.00 0.00 0.00 3.86
789 844 4.899239 CGTCATCCCCAGCTCCGC 62.899 72.222 0.00 0.00 0.00 5.54
863 923 3.765257 CTCCCTCTCTCCCCGCCAT 62.765 68.421 0.00 0.00 0.00 4.40
864 924 3.554342 CCCTCTCTCCCCGCCATG 61.554 72.222 0.00 0.00 0.00 3.66
867 927 1.414061 CCTCTCTCCCCGCCATGAAT 61.414 60.000 0.00 0.00 0.00 2.57
870 930 2.113986 CTCCCCGCCATGAATCCC 59.886 66.667 0.00 0.00 0.00 3.85
872 932 4.603535 CCCCGCCATGAATCCCCC 62.604 72.222 0.00 0.00 0.00 5.40
873 933 4.954970 CCCGCCATGAATCCCCCG 62.955 72.222 0.00 0.00 0.00 5.73
956 1050 0.530870 GCGCGCCTAGATTTCTCCTT 60.531 55.000 23.24 0.00 0.00 3.36
961 1055 2.805099 CGCCTAGATTTCTCCTTGCATC 59.195 50.000 0.00 0.00 0.00 3.91
970 1064 1.552337 TCTCCTTGCATCTGTCCAGAC 59.448 52.381 0.00 0.00 40.75 3.51
992 1086 3.621394 GACGAGCTGCGGCGATTC 61.621 66.667 21.09 5.70 46.49 2.52
1006 1100 1.056103 CGATTCGTCGCTGATGATCC 58.944 55.000 0.00 0.00 0.00 3.36
1043 1137 3.120304 CGCTTGCTAGTTTTCCCAGTAAC 60.120 47.826 0.00 0.00 0.00 2.50
1052 1146 1.880819 TTCCCAGTAACGTCGGCTCC 61.881 60.000 0.00 0.00 0.00 4.70
1066 1160 1.000396 GCTCCAATTCCAGGTGGCT 60.000 57.895 0.00 0.00 34.68 4.75
1067 1161 0.613012 GCTCCAATTCCAGGTGGCTT 60.613 55.000 0.00 0.00 34.68 4.35
1069 1163 0.039618 TCCAATTCCAGGTGGCTTCC 59.960 55.000 0.00 0.00 34.68 3.46
1070 1164 0.040204 CCAATTCCAGGTGGCTTCCT 59.960 55.000 0.00 0.00 38.51 3.36
1071 1165 1.550869 CCAATTCCAGGTGGCTTCCTT 60.551 52.381 0.00 0.00 35.37 3.36
1211 1305 0.320771 AACCAGTCCATCTCGTGCAC 60.321 55.000 6.82 6.82 0.00 4.57
1298 1392 2.593978 CCCGGACCTCGTCTCCTA 59.406 66.667 0.73 0.00 37.11 2.94
1363 1457 2.579201 CCATGTCCGCCTTCTCGT 59.421 61.111 0.00 0.00 0.00 4.18
1407 1501 0.673437 CCGATGGCTTTGTGGTTGTT 59.327 50.000 0.00 0.00 0.00 2.83
1410 1504 1.412343 GATGGCTTTGTGGTTGTTGGT 59.588 47.619 0.00 0.00 0.00 3.67
1413 1507 1.145162 GCTTTGTGGTTGTTGGTGCG 61.145 55.000 0.00 0.00 0.00 5.34
1467 1561 2.203773 GGTTTGGGGGTGCATGGT 60.204 61.111 0.00 0.00 0.00 3.55
1539 1633 3.211045 GGTTGATATGTATTGCCGGTGT 58.789 45.455 1.90 0.00 0.00 4.16
1667 1761 1.134220 AGCGTTGTCCTTCTTTGACCA 60.134 47.619 0.00 0.00 31.60 4.02
1755 1849 5.407084 GCCTATCCGAGCTCTAGAAATTTTC 59.593 44.000 12.85 0.66 0.00 2.29
1758 1852 2.285488 CCGAGCTCTAGAAATTTTCGGC 59.715 50.000 12.85 7.23 39.49 5.54
1788 1882 3.613527 GAGGGTCACCGTCCTACC 58.386 66.667 5.09 0.00 43.47 3.18
1806 1900 4.578928 CCTACCCATGTTACAATTGTAGGC 59.421 45.833 17.36 14.60 37.95 3.93
1812 1906 3.927854 TGTTACAATTGTAGGCGTGCTA 58.072 40.909 17.36 0.00 0.00 3.49
1851 1945 0.319469 GCTCTCTAGATCTTGGGCGC 60.319 60.000 0.00 0.98 0.00 6.53
1866 1960 1.641677 GCGCGTCATTCATGGGTAC 59.358 57.895 8.43 0.00 0.00 3.34
1957 2051 7.510685 AGAGTGGAAGTATAGAGATGGCATTTA 59.489 37.037 0.00 0.00 0.00 1.40
1959 2053 7.291182 AGTGGAAGTATAGAGATGGCATTTACT 59.709 37.037 0.00 4.45 0.00 2.24
1965 2059 8.267894 AGTATAGAGATGGCATTTACTGTGTTT 58.732 33.333 0.00 0.00 0.00 2.83
1986 2080 2.224523 TGAAGAAGTGCCGTTGAAGGAT 60.225 45.455 0.00 0.00 0.00 3.24
1989 2083 1.577328 AAGTGCCGTTGAAGGATGCG 61.577 55.000 0.00 0.00 0.00 4.73
2001 2095 0.740868 AGGATGCGTTCACATGGACG 60.741 55.000 8.39 8.39 0.00 4.79
2169 2263 5.693814 CAAGGCAGAGAGTTATTTGACAAC 58.306 41.667 0.00 0.00 0.00 3.32
2247 2341 3.006728 TTAGGACGGGGTGGGCTG 61.007 66.667 0.00 0.00 0.00 4.85
2385 2479 3.307059 CCGGGCAGGAGATTATAAAGAGG 60.307 52.174 0.00 0.00 45.00 3.69
2454 2548 4.502950 GCCTCATCAGATAGGTGGAAAGAG 60.503 50.000 7.41 0.00 35.16 2.85
2589 2683 5.066505 ACATGATGCTCGAAGGGAAATTTAC 59.933 40.000 0.00 0.00 0.00 2.01
2632 2726 6.994496 TGATAGGCAGTTAAAGATGGATCTTG 59.006 38.462 2.62 0.00 45.83 3.02
2643 2737 2.520188 TGGATCTTGGATCATCCCCT 57.480 50.000 0.00 0.00 38.29 4.79
2658 2752 3.508845 TCCCCTCTGGAAGAAAACTTG 57.491 47.619 0.00 0.00 46.34 3.16
2666 2760 7.094592 CCCTCTGGAAGAAAACTTGTTAATCTC 60.095 40.741 0.00 0.00 46.34 2.75
2718 2812 6.543465 TCTGTATACTGGCCATTTCTTCATTG 59.457 38.462 5.51 0.00 0.00 2.82
2751 2847 8.900983 ATATAAGAGATTTTCTGAGTTCCTGC 57.099 34.615 0.00 0.00 35.91 4.85
2838 2934 8.334632 CACTGTTCATATATTGTTATGCGTTGA 58.665 33.333 0.00 0.00 31.02 3.18
2844 2940 8.888716 TCATATATTGTTATGCGTTGACTTGTT 58.111 29.630 0.00 0.00 31.02 2.83
2927 3024 3.303938 TGTTGATTGGGGTTTCACATGT 58.696 40.909 0.00 0.00 0.00 3.21
2948 3045 7.177216 ACATGTTGTGGAGTCATTAACATTCAT 59.823 33.333 12.58 7.24 39.37 2.57
2949 3046 8.676401 CATGTTGTGGAGTCATTAACATTCATA 58.324 33.333 12.58 0.00 39.37 2.15
2950 3047 8.806429 TGTTGTGGAGTCATTAACATTCATAT 57.194 30.769 0.00 0.00 32.13 1.78
3037 3139 9.344772 AGAGTAGATAGGTAGTTGAGTTATGTG 57.655 37.037 0.00 0.00 0.00 3.21
3154 3256 7.939784 AACACCACTTCTAACTTTCTCTTTT 57.060 32.000 0.00 0.00 0.00 2.27
3155 3257 7.555306 ACACCACTTCTAACTTTCTCTTTTC 57.445 36.000 0.00 0.00 0.00 2.29
3156 3258 7.110155 ACACCACTTCTAACTTTCTCTTTTCA 58.890 34.615 0.00 0.00 0.00 2.69
3158 3260 7.281100 CACCACTTCTAACTTTCTCTTTTCACT 59.719 37.037 0.00 0.00 0.00 3.41
3188 3290 4.305524 AGATGTCTTCTGGAGATGGGATT 58.694 43.478 0.00 0.00 36.61 3.01
3199 3301 3.308259 GGAGATGGGATTGATGGAGATGG 60.308 52.174 0.00 0.00 0.00 3.51
3309 3411 0.890542 TCACATGGTTGCTCAGCACC 60.891 55.000 0.00 4.93 38.71 5.01
3383 3485 2.253452 GCTGAAAGGCAGTGTGCG 59.747 61.111 0.00 0.00 46.21 5.34
3408 3510 6.367695 GCCCATTTTTGGTTTAGTTGATGTAC 59.632 38.462 0.00 0.00 0.00 2.90
3409 3511 7.666623 CCCATTTTTGGTTTAGTTGATGTACT 58.333 34.615 0.00 0.00 0.00 2.73
3410 3512 7.812669 CCCATTTTTGGTTTAGTTGATGTACTC 59.187 37.037 0.00 0.00 0.00 2.59
3411 3513 7.812669 CCATTTTTGGTTTAGTTGATGTACTCC 59.187 37.037 0.00 0.00 0.00 3.85
3412 3514 6.887626 TTTTGGTTTAGTTGATGTACTCCC 57.112 37.500 0.00 0.00 0.00 4.30
3413 3515 5.836024 TTGGTTTAGTTGATGTACTCCCT 57.164 39.130 0.00 0.00 0.00 4.20
3414 3516 5.416271 TGGTTTAGTTGATGTACTCCCTC 57.584 43.478 0.00 0.00 0.00 4.30
3415 3517 4.224370 TGGTTTAGTTGATGTACTCCCTCC 59.776 45.833 0.00 0.00 0.00 4.30
3416 3518 4.430908 GTTTAGTTGATGTACTCCCTCCG 58.569 47.826 0.00 0.00 0.00 4.63
3417 3519 2.233305 AGTTGATGTACTCCCTCCGT 57.767 50.000 0.00 0.00 0.00 4.69
3418 3520 2.537143 AGTTGATGTACTCCCTCCGTT 58.463 47.619 0.00 0.00 0.00 4.44
3419 3521 2.904434 AGTTGATGTACTCCCTCCGTTT 59.096 45.455 0.00 0.00 0.00 3.60
3420 3522 3.326880 AGTTGATGTACTCCCTCCGTTTT 59.673 43.478 0.00 0.00 0.00 2.43
3421 3523 4.070009 GTTGATGTACTCCCTCCGTTTTT 58.930 43.478 0.00 0.00 0.00 1.94
3422 3524 5.012354 AGTTGATGTACTCCCTCCGTTTTTA 59.988 40.000 0.00 0.00 0.00 1.52
3423 3525 5.687166 TGATGTACTCCCTCCGTTTTTAT 57.313 39.130 0.00 0.00 0.00 1.40
3424 3526 6.057321 TGATGTACTCCCTCCGTTTTTATT 57.943 37.500 0.00 0.00 0.00 1.40
3425 3527 6.478129 TGATGTACTCCCTCCGTTTTTATTT 58.522 36.000 0.00 0.00 0.00 1.40
3426 3528 7.622713 TGATGTACTCCCTCCGTTTTTATTTA 58.377 34.615 0.00 0.00 0.00 1.40
3427 3529 7.550196 TGATGTACTCCCTCCGTTTTTATTTAC 59.450 37.037 0.00 0.00 0.00 2.01
3428 3530 7.008021 TGTACTCCCTCCGTTTTTATTTACT 57.992 36.000 0.00 0.00 0.00 2.24
3429 3531 7.099120 TGTACTCCCTCCGTTTTTATTTACTC 58.901 38.462 0.00 0.00 0.00 2.59
3430 3532 5.494724 ACTCCCTCCGTTTTTATTTACTCC 58.505 41.667 0.00 0.00 0.00 3.85
3431 3533 4.506758 TCCCTCCGTTTTTATTTACTCCG 58.493 43.478 0.00 0.00 0.00 4.63
3432 3534 3.064408 CCCTCCGTTTTTATTTACTCCGC 59.936 47.826 0.00 0.00 0.00 5.54
3433 3535 3.242188 CCTCCGTTTTTATTTACTCCGCG 60.242 47.826 0.00 0.00 0.00 6.46
3434 3536 3.324993 TCCGTTTTTATTTACTCCGCGT 58.675 40.909 4.92 0.00 0.00 6.01
3435 3537 4.489810 TCCGTTTTTATTTACTCCGCGTA 58.510 39.130 4.92 0.00 0.00 4.42
3436 3538 5.108517 TCCGTTTTTATTTACTCCGCGTAT 58.891 37.500 4.92 0.00 0.00 3.06
3437 3539 5.580297 TCCGTTTTTATTTACTCCGCGTATT 59.420 36.000 4.92 0.00 0.00 1.89
3438 3540 6.754209 TCCGTTTTTATTTACTCCGCGTATTA 59.246 34.615 4.92 0.00 0.00 0.98
3439 3541 7.043458 TCCGTTTTTATTTACTCCGCGTATTAG 60.043 37.037 4.92 0.00 0.00 1.73
3440 3542 7.059212 CGTTTTTATTTACTCCGCGTATTAGG 58.941 38.462 4.92 0.00 0.00 2.69
3441 3543 7.254084 CGTTTTTATTTACTCCGCGTATTAGGT 60.254 37.037 4.92 0.00 0.00 3.08
3442 3544 8.390354 GTTTTTATTTACTCCGCGTATTAGGTT 58.610 33.333 4.92 0.00 0.00 3.50
3443 3545 8.491331 TTTTATTTACTCCGCGTATTAGGTTT 57.509 30.769 4.92 0.00 0.00 3.27
3444 3546 5.978934 ATTTACTCCGCGTATTAGGTTTG 57.021 39.130 4.92 0.00 0.00 2.93
3445 3547 2.304751 ACTCCGCGTATTAGGTTTGG 57.695 50.000 4.92 0.00 0.00 3.28
3446 3548 1.551883 ACTCCGCGTATTAGGTTTGGT 59.448 47.619 4.92 0.00 0.00 3.67
3447 3549 2.199236 CTCCGCGTATTAGGTTTGGTC 58.801 52.381 4.92 0.00 0.00 4.02
3448 3550 1.549620 TCCGCGTATTAGGTTTGGTCA 59.450 47.619 4.92 0.00 0.00 4.02
3449 3551 2.028294 TCCGCGTATTAGGTTTGGTCAA 60.028 45.455 4.92 0.00 0.00 3.18
3450 3552 2.743126 CCGCGTATTAGGTTTGGTCAAA 59.257 45.455 4.92 0.00 0.00 2.69
3451 3553 3.181514 CCGCGTATTAGGTTTGGTCAAAG 60.182 47.826 4.92 0.00 0.00 2.77
3452 3554 3.434299 CGCGTATTAGGTTTGGTCAAAGT 59.566 43.478 0.00 0.00 0.00 2.66
3453 3555 4.435121 CGCGTATTAGGTTTGGTCAAAGTC 60.435 45.833 0.00 0.00 0.00 3.01
3454 3556 4.453136 GCGTATTAGGTTTGGTCAAAGTCA 59.547 41.667 0.00 0.00 0.00 3.41
3455 3557 5.049267 GCGTATTAGGTTTGGTCAAAGTCAA 60.049 40.000 0.00 0.00 0.00 3.18
3456 3558 6.599437 CGTATTAGGTTTGGTCAAAGTCAAG 58.401 40.000 0.00 0.00 0.00 3.02
3457 3559 4.911514 TTAGGTTTGGTCAAAGTCAAGC 57.088 40.909 0.00 0.00 0.00 4.01
3458 3560 3.018423 AGGTTTGGTCAAAGTCAAGCT 57.982 42.857 0.00 0.00 0.00 3.74
3459 3561 3.365472 AGGTTTGGTCAAAGTCAAGCTT 58.635 40.909 0.00 0.00 39.52 3.74
3461 3563 4.953579 AGGTTTGGTCAAAGTCAAGCTTTA 59.046 37.500 0.00 0.00 44.95 1.85
3462 3564 5.598417 AGGTTTGGTCAAAGTCAAGCTTTAT 59.402 36.000 0.00 0.00 44.95 1.40
3463 3565 6.775629 AGGTTTGGTCAAAGTCAAGCTTTATA 59.224 34.615 0.00 0.00 44.95 0.98
3464 3566 7.286775 AGGTTTGGTCAAAGTCAAGCTTTATAA 59.713 33.333 0.00 0.00 44.95 0.98
3465 3567 7.923878 GGTTTGGTCAAAGTCAAGCTTTATAAA 59.076 33.333 0.00 0.00 44.95 1.40
3466 3568 9.476202 GTTTGGTCAAAGTCAAGCTTTATAAAT 57.524 29.630 0.00 0.00 44.95 1.40
3634 3736 9.832445 TTAGTAAGTTTGACTTCAATCAACTCT 57.168 29.630 0.00 2.38 39.51 3.24
3636 3738 9.832445 AGTAAGTTTGACTTCAATCAACTCTAA 57.168 29.630 0.00 0.00 39.51 2.10
3641 3743 9.495754 GTTTGACTTCAATCAACTCTAATATGC 57.504 33.333 0.00 0.00 38.31 3.14
3642 3744 7.468922 TGACTTCAATCAACTCTAATATGCG 57.531 36.000 0.00 0.00 0.00 4.73
3643 3745 6.479990 TGACTTCAATCAACTCTAATATGCGG 59.520 38.462 0.00 0.00 0.00 5.69
3644 3746 6.582636 ACTTCAATCAACTCTAATATGCGGA 58.417 36.000 0.00 0.00 0.00 5.54
3645 3747 6.703607 ACTTCAATCAACTCTAATATGCGGAG 59.296 38.462 0.00 0.00 0.00 4.63
3646 3748 6.161855 TCAATCAACTCTAATATGCGGAGT 57.838 37.500 0.00 0.00 41.37 3.85
3647 3749 7.284919 TCAATCAACTCTAATATGCGGAGTA 57.715 36.000 6.10 0.00 39.09 2.59
3648 3750 7.145985 TCAATCAACTCTAATATGCGGAGTAC 58.854 38.462 6.10 0.00 39.09 2.73
3649 3751 6.650427 ATCAACTCTAATATGCGGAGTACA 57.350 37.500 0.00 0.00 39.09 2.90
3650 3752 6.650427 TCAACTCTAATATGCGGAGTACAT 57.350 37.500 0.00 0.00 39.09 2.29
3651 3753 7.754851 TCAACTCTAATATGCGGAGTACATA 57.245 36.000 0.00 0.00 39.09 2.29
3652 3754 8.173542 TCAACTCTAATATGCGGAGTACATAA 57.826 34.615 0.00 0.00 39.09 1.90
3653 3755 8.635328 TCAACTCTAATATGCGGAGTACATAAA 58.365 33.333 0.00 0.00 39.09 1.40
3654 3756 9.256477 CAACTCTAATATGCGGAGTACATAAAA 57.744 33.333 0.00 0.00 39.09 1.52
3655 3757 9.826574 AACTCTAATATGCGGAGTACATAAAAA 57.173 29.630 0.00 0.00 39.09 1.94
3656 3758 9.998106 ACTCTAATATGCGGAGTACATAAAAAT 57.002 29.630 0.00 0.00 38.37 1.82
3658 3760 9.214957 TCTAATATGCGGAGTACATAAAAATGG 57.785 33.333 0.00 0.00 33.89 3.16
3659 3761 9.214957 CTAATATGCGGAGTACATAAAAATGGA 57.785 33.333 0.00 0.00 33.89 3.41
3660 3762 7.672983 ATATGCGGAGTACATAAAAATGGAG 57.327 36.000 0.00 0.00 33.89 3.86
3661 3763 4.196193 TGCGGAGTACATAAAAATGGAGG 58.804 43.478 0.00 0.00 0.00 4.30
3662 3764 3.564225 GCGGAGTACATAAAAATGGAGGG 59.436 47.826 0.00 0.00 0.00 4.30
3663 3765 4.685030 GCGGAGTACATAAAAATGGAGGGA 60.685 45.833 0.00 0.00 0.00 4.20
3664 3766 5.057149 CGGAGTACATAAAAATGGAGGGAG 58.943 45.833 0.00 0.00 0.00 4.30
3665 3767 5.396436 CGGAGTACATAAAAATGGAGGGAGT 60.396 44.000 0.00 0.00 0.00 3.85
3666 3768 6.183360 CGGAGTACATAAAAATGGAGGGAGTA 60.183 42.308 0.00 0.00 0.00 2.59
3667 3769 7.472945 CGGAGTACATAAAAATGGAGGGAGTAT 60.473 40.741 0.00 0.00 0.00 2.12
3668 3770 8.877195 GGAGTACATAAAAATGGAGGGAGTATA 58.123 37.037 0.00 0.00 0.00 1.47
3669 3771 9.930693 GAGTACATAAAAATGGAGGGAGTATAG 57.069 37.037 0.00 0.00 0.00 1.31
3670 3772 8.881262 AGTACATAAAAATGGAGGGAGTATAGG 58.119 37.037 0.00 0.00 0.00 2.57
3671 3773 7.707467 ACATAAAAATGGAGGGAGTATAGGT 57.293 36.000 0.00 0.00 0.00 3.08
3672 3774 7.518188 ACATAAAAATGGAGGGAGTATAGGTG 58.482 38.462 0.00 0.00 0.00 4.00
3673 3775 7.128883 ACATAAAAATGGAGGGAGTATAGGTGT 59.871 37.037 0.00 0.00 0.00 4.16
3674 3776 8.656806 CATAAAAATGGAGGGAGTATAGGTGTA 58.343 37.037 0.00 0.00 0.00 2.90
3675 3777 7.707467 AAAAATGGAGGGAGTATAGGTGTAT 57.293 36.000 0.00 0.00 0.00 2.29
3676 3778 6.936968 AAATGGAGGGAGTATAGGTGTATC 57.063 41.667 0.00 0.00 0.00 2.24
3677 3779 5.887480 ATGGAGGGAGTATAGGTGTATCT 57.113 43.478 0.00 0.00 0.00 1.98
3678 3780 5.681494 TGGAGGGAGTATAGGTGTATCTT 57.319 43.478 0.00 0.00 0.00 2.40
3679 3781 6.039415 TGGAGGGAGTATAGGTGTATCTTT 57.961 41.667 0.00 0.00 0.00 2.52
3680 3782 6.449956 TGGAGGGAGTATAGGTGTATCTTTT 58.550 40.000 0.00 0.00 0.00 2.27
3681 3783 6.553852 TGGAGGGAGTATAGGTGTATCTTTTC 59.446 42.308 0.00 0.00 0.00 2.29
3682 3784 6.783482 GGAGGGAGTATAGGTGTATCTTTTCT 59.217 42.308 0.00 0.00 0.00 2.52
3683 3785 7.256012 GGAGGGAGTATAGGTGTATCTTTTCTG 60.256 44.444 0.00 0.00 0.00 3.02
3684 3786 7.363031 AGGGAGTATAGGTGTATCTTTTCTGA 58.637 38.462 0.00 0.00 0.00 3.27
3685 3787 8.013667 AGGGAGTATAGGTGTATCTTTTCTGAT 58.986 37.037 0.00 0.00 0.00 2.90
3686 3788 8.652290 GGGAGTATAGGTGTATCTTTTCTGATT 58.348 37.037 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
121 122 5.640189 TCTACCTTTGTCGTCTCTTAAGG 57.360 43.478 1.85 0.00 40.88 2.69
178 179 1.134580 CAGCCATCAGAACATCTCCGT 60.135 52.381 0.00 0.00 0.00 4.69
181 182 2.613133 GCTTCAGCCATCAGAACATCTC 59.387 50.000 0.00 0.00 34.31 2.75
272 273 4.780815 TGGTATCAATCACCTCCATGTTC 58.219 43.478 0.00 0.00 36.96 3.18
299 300 3.249752 CCCTGATGATCATCCTCCTTCT 58.750 50.000 28.61 0.00 37.02 2.85
309 310 2.507452 CGCTGCCCCTGATGATCA 59.493 61.111 0.00 0.00 0.00 2.92
337 338 9.241317 CACAGGCTAAATAAAAGCAATCATTAG 57.759 33.333 0.00 0.00 41.93 1.73
379 381 4.471904 TCTCTGTTACAATGCTCGGATT 57.528 40.909 0.00 0.00 0.00 3.01
508 511 9.997482 TGCTTTATTCATTAAGAAATTACCGTC 57.003 29.630 0.00 0.00 40.22 4.79
510 513 8.943925 CGTGCTTTATTCATTAAGAAATTACCG 58.056 33.333 0.00 0.00 40.22 4.02
555 558 5.105716 TGACACACCAGCTAAGAGTTATCTC 60.106 44.000 0.00 0.00 40.70 2.75
558 561 5.423015 CATGACACACCAGCTAAGAGTTAT 58.577 41.667 0.00 0.00 0.00 1.89
560 563 3.557898 CCATGACACACCAGCTAAGAGTT 60.558 47.826 0.00 0.00 0.00 3.01
561 564 2.027745 CCATGACACACCAGCTAAGAGT 60.028 50.000 0.00 0.00 0.00 3.24
562 565 2.625737 CCATGACACACCAGCTAAGAG 58.374 52.381 0.00 0.00 0.00 2.85
563 566 1.339055 GCCATGACACACCAGCTAAGA 60.339 52.381 0.00 0.00 0.00 2.10
564 567 1.089920 GCCATGACACACCAGCTAAG 58.910 55.000 0.00 0.00 0.00 2.18
567 570 2.359107 CGCCATGACACACCAGCT 60.359 61.111 0.00 0.00 0.00 4.24
568 571 3.434319 CCGCCATGACACACCAGC 61.434 66.667 0.00 0.00 0.00 4.85
569 572 2.746412 TTCCCGCCATGACACACCAG 62.746 60.000 0.00 0.00 0.00 4.00
571 574 0.107410 TATTCCCGCCATGACACACC 60.107 55.000 0.00 0.00 0.00 4.16
572 575 1.967319 ATATTCCCGCCATGACACAC 58.033 50.000 0.00 0.00 0.00 3.82
573 576 3.673902 CATATATTCCCGCCATGACACA 58.326 45.455 0.00 0.00 0.00 3.72
576 579 2.679837 CTGCATATATTCCCGCCATGAC 59.320 50.000 0.00 0.00 0.00 3.06
578 581 1.402968 GCTGCATATATTCCCGCCATG 59.597 52.381 0.00 0.00 0.00 3.66
579 582 1.283029 AGCTGCATATATTCCCGCCAT 59.717 47.619 1.02 0.00 0.00 4.40
674 715 3.072211 GTGCGTCTTTAAAACCCTAGCT 58.928 45.455 0.00 0.00 0.00 3.32
709 751 1.338020 GAGTGGTTTCCTTGGCTGTTG 59.662 52.381 0.00 0.00 0.00 3.33
802 857 2.361357 CTCGGAGGGTGGAGTCGT 60.361 66.667 0.00 0.00 0.00 4.34
803 858 2.361357 ACTCGGAGGGTGGAGTCG 60.361 66.667 10.23 0.00 39.18 4.18
805 860 2.037527 GGACTCGGAGGGTGGAGT 59.962 66.667 10.23 0.00 45.71 3.85
854 914 3.498071 GGGGATTCATGGCGGGGA 61.498 66.667 0.00 0.00 0.00 4.81
855 915 4.603535 GGGGGATTCATGGCGGGG 62.604 72.222 0.00 0.00 0.00 5.73
856 916 4.954970 CGGGGGATTCATGGCGGG 62.955 72.222 0.00 0.00 0.00 6.13
863 923 1.963464 GACTAACCGCGGGGGATTCA 61.963 60.000 31.76 4.74 39.97 2.57
864 924 1.227468 GACTAACCGCGGGGGATTC 60.227 63.158 31.76 14.86 39.97 2.52
900 974 1.469703 CTCGTGGAATGAAATGCAGCA 59.530 47.619 0.00 0.00 0.00 4.41
956 1050 2.981302 CGGGTCTGGACAGATGCA 59.019 61.111 5.19 0.00 39.97 3.96
961 1055 4.778415 CGTCGCGGGTCTGGACAG 62.778 72.222 6.13 0.00 0.00 3.51
992 1086 1.300465 CTGGGGATCATCAGCGACG 60.300 63.158 0.00 0.00 0.00 5.12
1006 1100 1.115467 AAGCGATCCACTCTACTGGG 58.885 55.000 0.00 0.00 31.41 4.45
1043 1137 1.815421 CCTGGAATTGGAGCCGACG 60.815 63.158 0.00 0.00 0.00 5.12
1052 1146 1.821136 GAAGGAAGCCACCTGGAATTG 59.179 52.381 0.00 0.00 40.49 2.32
1069 1163 3.148279 CCTCCCCTCGGACCGAAG 61.148 72.222 18.93 12.13 34.74 3.79
1070 1164 3.988678 ACCTCCCCTCGGACCGAA 61.989 66.667 18.93 1.48 34.74 4.30
1071 1165 4.753662 CACCTCCCCTCGGACCGA 62.754 72.222 17.28 17.28 33.32 4.69
1140 1234 1.000717 GCGTGGATTCTCTCTAGCTCC 60.001 57.143 0.00 0.00 0.00 4.70
1146 1240 2.427245 CCGGGCGTGGATTCTCTCT 61.427 63.158 0.00 0.00 0.00 3.10
1258 1352 2.496817 GATCTCGCCGAACAGCCT 59.503 61.111 0.00 0.00 0.00 4.58
1298 1392 2.046892 GCGACATGAGGCTGGTGT 60.047 61.111 0.00 0.00 0.00 4.16
1556 1650 1.180456 TTCGTCGAACACCCCTAGCA 61.180 55.000 2.90 0.00 0.00 3.49
1667 1761 1.078848 GTGCTCTTCACCGGCATCT 60.079 57.895 0.00 0.00 39.79 2.90
1689 1783 4.008933 ACCAGCGCTGTCCAGGAC 62.009 66.667 33.75 13.35 0.00 3.85
1702 1796 2.034066 AACATGGCCGGTCACCAG 59.966 61.111 13.07 7.25 41.46 4.00
1755 1849 4.100084 TCCAGCACCATCCTGCCG 62.100 66.667 0.00 0.00 37.96 5.69
1758 1852 2.262774 GACCCTCCAGCACCATCCTG 62.263 65.000 0.00 0.00 0.00 3.86
1788 1882 3.730662 GCACGCCTACAATTGTAACATGG 60.731 47.826 18.55 16.25 0.00 3.66
1851 1945 2.201732 CTTCCGTACCCATGAATGACG 58.798 52.381 0.00 0.00 0.00 4.35
1866 1960 7.015226 TGTGCTGATATTGAATTTACTTCCG 57.985 36.000 0.00 0.00 32.49 4.30
1957 2051 1.670811 CGGCACTTCTTCAAACACAGT 59.329 47.619 0.00 0.00 0.00 3.55
1959 2053 1.745232 ACGGCACTTCTTCAAACACA 58.255 45.000 0.00 0.00 0.00 3.72
1965 2059 1.140052 TCCTTCAACGGCACTTCTTCA 59.860 47.619 0.00 0.00 0.00 3.02
1986 2080 1.666553 GGTCGTCCATGTGAACGCA 60.667 57.895 7.44 0.00 0.00 5.24
2001 2095 2.100584 AGTGAAGCTCGAGATCATGGTC 59.899 50.000 18.75 4.28 0.00 4.02
2169 2263 7.345192 GTTTAATGTTGTAGATCCTACGCATG 58.655 38.462 11.70 0.00 0.00 4.06
2247 2341 1.557371 AGGGCTTCTGCTTCCTCTAAC 59.443 52.381 0.00 0.00 39.59 2.34
2385 2479 1.538666 CCCATCATCCCCTGGTTCC 59.461 63.158 0.00 0.00 0.00 3.62
2454 2548 8.000780 ACATTTGTTTTCTTATATCCAGAGCC 57.999 34.615 0.00 0.00 0.00 4.70
2541 2635 3.684788 CCTTGTCCTGTACCAAGAATTCG 59.315 47.826 10.18 0.00 40.36 3.34
2589 2683 2.778299 TCAATTCCTTCCAAGGTGTCG 58.222 47.619 5.24 0.00 46.54 4.35
2643 2737 7.993183 ACAGAGATTAACAAGTTTTCTTCCAGA 59.007 33.333 0.00 0.00 38.17 3.86
2657 2751 5.485353 AGTTCCTCATCCACAGAGATTAACA 59.515 40.000 0.00 0.00 35.09 2.41
2658 2752 5.983540 AGTTCCTCATCCACAGAGATTAAC 58.016 41.667 0.00 0.00 35.09 2.01
2666 2760 6.232581 AGAATAAGAGTTCCTCATCCACAG 57.767 41.667 0.00 0.00 32.06 3.66
2694 2788 6.543465 TCAATGAAGAAATGGCCAGTATACAG 59.457 38.462 13.05 0.00 0.00 2.74
2729 2825 5.047306 TCGCAGGAACTCAGAAAATCTCTTA 60.047 40.000 0.00 0.00 34.60 2.10
2730 2826 3.999663 CGCAGGAACTCAGAAAATCTCTT 59.000 43.478 0.00 0.00 34.60 2.85
2751 2847 3.056821 TGGGACAAGACACAAGACTATCG 60.057 47.826 0.00 0.00 31.92 2.92
2892 2988 6.239289 CCCCAATCAACAGAAAAATACAGTGT 60.239 38.462 0.00 0.00 0.00 3.55
3037 3139 5.600908 ACTGAAAATGATTGCAAACATGC 57.399 34.783 21.25 14.33 0.00 4.06
3154 3256 6.719829 TCCAGAAGACATCTAACAGTAAGTGA 59.280 38.462 0.00 0.00 36.32 3.41
3155 3257 6.925211 TCCAGAAGACATCTAACAGTAAGTG 58.075 40.000 0.00 0.00 36.32 3.16
3156 3258 6.948886 TCTCCAGAAGACATCTAACAGTAAGT 59.051 38.462 0.00 0.00 36.32 2.24
3158 3260 7.147828 CCATCTCCAGAAGACATCTAACAGTAA 60.148 40.741 0.00 0.00 36.65 2.24
3188 3290 4.779489 TCTTCAGACTTTCCATCTCCATCA 59.221 41.667 0.00 0.00 0.00 3.07
3199 3301 3.549873 GCTATGCGTCTCTTCAGACTTTC 59.450 47.826 0.90 0.00 46.31 2.62
3383 3485 5.304778 ACATCAACTAAACCAAAAATGGGC 58.695 37.500 0.00 0.00 0.00 5.36
3408 3510 4.569564 CGGAGTAAATAAAAACGGAGGGAG 59.430 45.833 0.00 0.00 0.00 4.30
3409 3511 4.506758 CGGAGTAAATAAAAACGGAGGGA 58.493 43.478 0.00 0.00 0.00 4.20
3410 3512 3.064408 GCGGAGTAAATAAAAACGGAGGG 59.936 47.826 0.00 0.00 0.00 4.30
3411 3513 3.242188 CGCGGAGTAAATAAAAACGGAGG 60.242 47.826 0.00 0.00 0.00 4.30
3412 3514 3.368843 ACGCGGAGTAAATAAAAACGGAG 59.631 43.478 12.47 0.00 0.00 4.63
3413 3515 3.324993 ACGCGGAGTAAATAAAAACGGA 58.675 40.909 12.47 0.00 0.00 4.69
3414 3516 3.727780 ACGCGGAGTAAATAAAAACGG 57.272 42.857 12.47 0.00 0.00 4.44
3415 3517 7.059212 CCTAATACGCGGAGTAAATAAAAACG 58.941 38.462 12.47 0.00 39.04 3.60
3416 3518 7.909267 ACCTAATACGCGGAGTAAATAAAAAC 58.091 34.615 12.47 0.00 39.04 2.43
3417 3519 8.491331 AACCTAATACGCGGAGTAAATAAAAA 57.509 30.769 12.47 0.00 39.04 1.94
3418 3520 8.389603 CAAACCTAATACGCGGAGTAAATAAAA 58.610 33.333 12.47 0.00 39.04 1.52
3419 3521 7.011295 CCAAACCTAATACGCGGAGTAAATAAA 59.989 37.037 12.47 0.00 39.04 1.40
3420 3522 6.479660 CCAAACCTAATACGCGGAGTAAATAA 59.520 38.462 12.47 0.00 39.04 1.40
3421 3523 5.984926 CCAAACCTAATACGCGGAGTAAATA 59.015 40.000 12.47 0.00 39.04 1.40
3422 3524 4.812626 CCAAACCTAATACGCGGAGTAAAT 59.187 41.667 12.47 0.00 39.04 1.40
3423 3525 4.183101 CCAAACCTAATACGCGGAGTAAA 58.817 43.478 12.47 0.00 39.04 2.01
3424 3526 3.195396 ACCAAACCTAATACGCGGAGTAA 59.805 43.478 12.47 0.00 39.04 2.24
3425 3527 2.760092 ACCAAACCTAATACGCGGAGTA 59.240 45.455 12.47 4.11 40.03 2.59
3426 3528 1.551883 ACCAAACCTAATACGCGGAGT 59.448 47.619 12.47 2.60 0.00 3.85
3427 3529 2.199236 GACCAAACCTAATACGCGGAG 58.801 52.381 12.47 1.44 0.00 4.63
3428 3530 1.549620 TGACCAAACCTAATACGCGGA 59.450 47.619 12.47 0.00 0.00 5.54
3429 3531 2.012937 TGACCAAACCTAATACGCGG 57.987 50.000 12.47 0.00 0.00 6.46
3430 3532 3.434299 ACTTTGACCAAACCTAATACGCG 59.566 43.478 3.53 3.53 0.00 6.01
3431 3533 4.453136 TGACTTTGACCAAACCTAATACGC 59.547 41.667 0.00 0.00 0.00 4.42
3432 3534 6.548441 TTGACTTTGACCAAACCTAATACG 57.452 37.500 0.00 0.00 0.00 3.06
3433 3535 6.206829 AGCTTGACTTTGACCAAACCTAATAC 59.793 38.462 0.00 0.00 0.00 1.89
3434 3536 6.303839 AGCTTGACTTTGACCAAACCTAATA 58.696 36.000 0.00 0.00 0.00 0.98
3435 3537 5.140454 AGCTTGACTTTGACCAAACCTAAT 58.860 37.500 0.00 0.00 0.00 1.73
3436 3538 4.532834 AGCTTGACTTTGACCAAACCTAA 58.467 39.130 0.00 0.00 0.00 2.69
3437 3539 4.164843 AGCTTGACTTTGACCAAACCTA 57.835 40.909 0.00 0.00 0.00 3.08
3438 3540 3.018423 AGCTTGACTTTGACCAAACCT 57.982 42.857 0.00 0.00 0.00 3.50
3439 3541 3.801114 AAGCTTGACTTTGACCAAACC 57.199 42.857 0.00 0.00 33.71 3.27
3608 3710 9.832445 AGAGTTGATTGAAGTCAAACTTACTAA 57.168 29.630 0.00 0.00 38.80 2.24
3610 3712 9.832445 TTAGAGTTGATTGAAGTCAAACTTACT 57.168 29.630 0.00 4.15 38.80 2.24
3615 3717 9.495754 GCATATTAGAGTTGATTGAAGTCAAAC 57.504 33.333 0.00 0.00 39.61 2.93
3616 3718 8.390354 CGCATATTAGAGTTGATTGAAGTCAAA 58.610 33.333 0.00 0.00 39.61 2.69
3617 3719 7.011389 CCGCATATTAGAGTTGATTGAAGTCAA 59.989 37.037 0.00 0.00 36.57 3.18
3618 3720 6.479990 CCGCATATTAGAGTTGATTGAAGTCA 59.520 38.462 0.00 0.00 36.57 3.41
3619 3721 6.701841 TCCGCATATTAGAGTTGATTGAAGTC 59.298 38.462 0.00 0.00 34.56 3.01
3620 3722 6.582636 TCCGCATATTAGAGTTGATTGAAGT 58.417 36.000 0.00 0.00 0.00 3.01
3621 3723 6.703607 ACTCCGCATATTAGAGTTGATTGAAG 59.296 38.462 0.00 0.00 37.60 3.02
3622 3724 6.582636 ACTCCGCATATTAGAGTTGATTGAA 58.417 36.000 0.00 0.00 37.60 2.69
3623 3725 6.161855 ACTCCGCATATTAGAGTTGATTGA 57.838 37.500 0.00 0.00 37.60 2.57
3624 3726 6.923508 TGTACTCCGCATATTAGAGTTGATTG 59.076 38.462 4.78 0.00 41.09 2.67
3625 3727 7.050970 TGTACTCCGCATATTAGAGTTGATT 57.949 36.000 4.78 0.00 41.09 2.57
3626 3728 6.650427 TGTACTCCGCATATTAGAGTTGAT 57.350 37.500 4.78 0.00 41.09 2.57
3627 3729 6.650427 ATGTACTCCGCATATTAGAGTTGA 57.350 37.500 4.78 0.00 41.09 3.18
3628 3730 8.812147 TTTATGTACTCCGCATATTAGAGTTG 57.188 34.615 4.78 0.00 41.09 3.16
3629 3731 9.826574 TTTTTATGTACTCCGCATATTAGAGTT 57.173 29.630 4.78 0.00 41.09 3.01
3630 3732 9.998106 ATTTTTATGTACTCCGCATATTAGAGT 57.002 29.630 0.00 0.00 43.17 3.24
3632 3734 9.214957 CCATTTTTATGTACTCCGCATATTAGA 57.785 33.333 0.00 0.00 0.00 2.10
3633 3735 9.214957 TCCATTTTTATGTACTCCGCATATTAG 57.785 33.333 0.00 0.00 0.00 1.73
3634 3736 9.214957 CTCCATTTTTATGTACTCCGCATATTA 57.785 33.333 0.00 0.00 0.00 0.98
3635 3737 7.174946 CCTCCATTTTTATGTACTCCGCATATT 59.825 37.037 0.00 0.00 0.00 1.28
3636 3738 6.655003 CCTCCATTTTTATGTACTCCGCATAT 59.345 38.462 0.00 0.00 0.00 1.78
3637 3739 5.995282 CCTCCATTTTTATGTACTCCGCATA 59.005 40.000 0.00 0.00 0.00 3.14
3638 3740 4.821805 CCTCCATTTTTATGTACTCCGCAT 59.178 41.667 0.00 0.00 0.00 4.73
3639 3741 4.196193 CCTCCATTTTTATGTACTCCGCA 58.804 43.478 0.00 0.00 0.00 5.69
3640 3742 3.564225 CCCTCCATTTTTATGTACTCCGC 59.436 47.826 0.00 0.00 0.00 5.54
3641 3743 5.031066 TCCCTCCATTTTTATGTACTCCG 57.969 43.478 0.00 0.00 0.00 4.63
3642 3744 6.002653 ACTCCCTCCATTTTTATGTACTCC 57.997 41.667 0.00 0.00 0.00 3.85
3643 3745 9.930693 CTATACTCCCTCCATTTTTATGTACTC 57.069 37.037 0.00 0.00 0.00 2.59
3644 3746 8.881262 CCTATACTCCCTCCATTTTTATGTACT 58.119 37.037 0.00 0.00 0.00 2.73
3645 3747 8.657712 ACCTATACTCCCTCCATTTTTATGTAC 58.342 37.037 0.00 0.00 0.00 2.90
3646 3748 8.656806 CACCTATACTCCCTCCATTTTTATGTA 58.343 37.037 0.00 0.00 0.00 2.29
3647 3749 7.128883 ACACCTATACTCCCTCCATTTTTATGT 59.871 37.037 0.00 0.00 0.00 2.29
3648 3750 7.518188 ACACCTATACTCCCTCCATTTTTATG 58.482 38.462 0.00 0.00 0.00 1.90
3649 3751 7.707467 ACACCTATACTCCCTCCATTTTTAT 57.293 36.000 0.00 0.00 0.00 1.40
3650 3752 8.808240 ATACACCTATACTCCCTCCATTTTTA 57.192 34.615 0.00 0.00 0.00 1.52
3651 3753 7.572861 AGATACACCTATACTCCCTCCATTTTT 59.427 37.037 0.00 0.00 0.00 1.94
3652 3754 7.082972 AGATACACCTATACTCCCTCCATTTT 58.917 38.462 0.00 0.00 0.00 1.82
3653 3755 6.635021 AGATACACCTATACTCCCTCCATTT 58.365 40.000 0.00 0.00 0.00 2.32
3654 3756 6.234404 AGATACACCTATACTCCCTCCATT 57.766 41.667 0.00 0.00 0.00 3.16
3655 3757 5.887480 AGATACACCTATACTCCCTCCAT 57.113 43.478 0.00 0.00 0.00 3.41
3656 3758 5.681494 AAGATACACCTATACTCCCTCCA 57.319 43.478 0.00 0.00 0.00 3.86
3657 3759 6.783482 AGAAAAGATACACCTATACTCCCTCC 59.217 42.308 0.00 0.00 0.00 4.30
3658 3760 7.506261 TCAGAAAAGATACACCTATACTCCCTC 59.494 40.741 0.00 0.00 0.00 4.30
3659 3761 7.363031 TCAGAAAAGATACACCTATACTCCCT 58.637 38.462 0.00 0.00 0.00 4.20
3660 3762 7.598759 TCAGAAAAGATACACCTATACTCCC 57.401 40.000 0.00 0.00 0.00 4.30


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

AutoCloner maintained by Alex Coulton.