Multiple sequence alignment - TraesCS3A01G156100

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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 TraesCS3A01G156100 chr3A 100.000 8464 0 0 1 8464 150710395 150718858 0.000000e+00 15631
1 TraesCS3A01G156100 chr3A 90.090 111 11 0 5489 5599 130843939 130843829 2.460000e-30 145
2 TraesCS3A01G156100 chr3B 98.015 5038 62 14 2805 7821 193609008 193614028 0.000000e+00 8715
3 TraesCS3A01G156100 chr3B 97.110 1903 53 1 914 2814 193605389 193607291 0.000000e+00 3208
4 TraesCS3A01G156100 chr3B 95.686 649 11 7 7824 8464 193614335 193614974 0.000000e+00 1027
5 TraesCS3A01G156100 chr3B 92.079 101 6 2 5493 5593 609305093 609304995 3.190000e-29 141
6 TraesCS3A01G156100 chr3D 98.116 4141 48 14 3699 7826 135374738 135378861 0.000000e+00 7188
7 TraesCS3A01G156100 chr3D 98.296 2230 35 2 1472 3700 135372349 135374576 0.000000e+00 3904
8 TraesCS3A01G156100 chr3D 95.327 642 17 5 7824 8464 135379155 135379784 0.000000e+00 1007
9 TraesCS3A01G156100 chr3D 85.284 897 104 16 3 884 135369069 135369952 0.000000e+00 900
10 TraesCS3A01G156100 chr3D 95.564 541 18 4 877 1416 135371711 135372246 0.000000e+00 861
11 TraesCS3A01G156100 chr3D 88.000 100 12 0 5497 5596 336537981 336537882 1.490000e-22 119
12 TraesCS3A01G156100 chr5B 87.387 111 13 1 5484 5594 575975748 575975639 8.920000e-25 126
13 TraesCS3A01G156100 chr1A 84.956 113 15 2 5489 5599 64714438 64714326 6.940000e-21 113
14 TraesCS3A01G156100 chr5D 85.981 107 12 2 5487 5593 11305366 11305263 2.500000e-20 111
15 TraesCS3A01G156100 chr6A 86.139 101 13 1 5493 5593 34179545 34179644 3.230000e-19 108


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 TraesCS3A01G156100 chr3A 150710395 150718858 8463 False 15631.000000 15631 100.0000 1 8464 1 chr3A.!!$F1 8463
1 TraesCS3A01G156100 chr3B 193605389 193614974 9585 False 4316.666667 8715 96.9370 914 8464 3 chr3B.!!$F1 7550
2 TraesCS3A01G156100 chr3D 135369069 135379784 10715 False 2772.000000 7188 94.5174 3 8464 5 chr3D.!!$F1 8461


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
535 537 0.179240 GTTCGTGTTGAGCGATGCAG 60.179 55.000 0.00 0.0 38.21 4.41 F
680 682 0.391228 TTACGTGAGAGCAAGGCACA 59.609 50.000 0.00 0.0 32.96 4.57 F
964 2744 0.464452 CGCTCTAAAACCCCCGAGAT 59.536 55.000 0.00 0.0 0.00 2.75 F
1812 3645 1.203125 CCCCAACTGGTTGTAATGGGT 60.203 52.381 11.73 0.0 42.50 4.51 F
2054 3887 1.210931 CGCAAGGACACAATGCCAG 59.789 57.895 0.00 0.0 36.75 4.85 F
2132 3965 6.280643 AGCAGCAACATTATCGTGTTATCTA 58.719 36.000 0.00 0.0 40.17 1.98 F
3712 7434 6.312918 CGTTTCCTTACTAGCACATATGTTGT 59.687 38.462 5.37 5.8 39.91 3.32 F
5047 8771 2.645838 TCTAAGGCATCTCCAATGGC 57.354 50.000 0.00 3.6 43.88 4.40 F
5288 9012 6.635030 AAGACAACCTTCGCTCTTTTATTT 57.365 33.333 0.00 0.0 0.00 1.40 F
6870 10596 2.100749 CCGTGCTGATACATGAGGTACA 59.899 50.000 0.00 0.0 34.07 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1411 3194 0.035056 AAGCCCCACACATCTACTGC 60.035 55.000 0.00 0.00 0.00 4.40 R
2051 3884 3.119173 TGGTTGAAGCTTGAAAACACTGG 60.119 43.478 2.10 0.00 0.00 4.00 R
2054 3887 4.110036 AGTGGTTGAAGCTTGAAAACAC 57.890 40.909 23.19 23.19 40.94 3.32 R
3657 7216 4.217118 GCCTGTGAAAGTTCATGTTGAGAT 59.783 41.667 0.00 0.00 39.73 2.75 R
3809 7531 6.293626 GGATGAACCTATGAATGAAATGTCCG 60.294 42.308 0.00 0.00 35.41 4.79 R
4024 7746 8.078060 TCATCCAGTTCTGATAATCAACAGTA 57.922 34.615 1.00 0.00 35.84 2.74 R
5288 9012 3.306917 TTGCGTGAGTTCGAGGATAAA 57.693 42.857 0.00 0.00 0.00 1.40 R
5972 9698 1.178534 CCTTTGGGCGCTTTCTCCAA 61.179 55.000 7.64 9.39 38.62 3.53 R
7096 10822 1.539827 GCAACATGGTCACAACCTACC 59.460 52.381 0.00 0.00 46.60 3.18 R
7923 11972 0.546267 ACCACAGCCAGGAGAGATGT 60.546 55.000 0.00 0.00 0.00 3.06 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
34 35 6.326323 ACCTAAAATTCATGTTTTCTGGTGGT 59.674 34.615 13.46 7.30 37.02 4.16
36 37 4.605640 AATTCATGTTTTCTGGTGGTGG 57.394 40.909 0.00 0.00 0.00 4.61
38 39 0.318120 CATGTTTTCTGGTGGTGGGC 59.682 55.000 0.00 0.00 0.00 5.36
51 52 2.436542 GTGGTGGGCCCTTAAAAACTTT 59.563 45.455 25.70 0.00 0.00 2.66
65 66 0.463654 AACTTTCTGCCAGCACACGA 60.464 50.000 0.00 0.00 0.00 4.35
71 72 0.461516 CTGCCAGCACACGATGAGAT 60.462 55.000 0.00 0.00 0.00 2.75
72 73 0.741927 TGCCAGCACACGATGAGATG 60.742 55.000 0.00 0.00 0.00 2.90
79 80 3.055591 GCACACGATGAGATGATTCGAT 58.944 45.455 0.00 0.00 36.73 3.59
88 89 6.143598 CGATGAGATGATTCGATGCCATATAC 59.856 42.308 0.00 0.00 34.92 1.47
91 92 5.724328 AGATGATTCGATGCCATATACGTT 58.276 37.500 0.00 0.00 0.00 3.99
100 101 5.291858 CGATGCCATATACGTTAAGATGCAT 59.708 40.000 0.00 0.00 0.00 3.96
103 104 7.270757 TGCCATATACGTTAAGATGCATTTT 57.729 32.000 7.70 7.70 0.00 1.82
129 130 4.436451 CCGATGTGTGATTGTGACAATGAG 60.436 45.833 16.52 0.00 0.00 2.90
130 131 4.152938 CGATGTGTGATTGTGACAATGAGT 59.847 41.667 16.52 0.00 0.00 3.41
152 153 4.272018 GTCATAAGTTCTGGTATGCAGCTG 59.728 45.833 10.11 10.11 0.00 4.24
154 155 3.641434 AAGTTCTGGTATGCAGCTGAT 57.359 42.857 20.43 10.74 31.31 2.90
155 156 2.915349 AGTTCTGGTATGCAGCTGATG 58.085 47.619 20.43 0.00 31.31 3.07
189 190 3.058293 GTCAAACTTTCACGGATGCATCA 60.058 43.478 27.25 4.61 0.00 3.07
201 202 3.306989 CGGATGCATCATAGTACATGGGT 60.307 47.826 27.25 0.00 0.00 4.51
206 207 3.557898 GCATCATAGTACATGGGTGAGGG 60.558 52.174 0.00 0.00 0.00 4.30
207 208 3.699025 TCATAGTACATGGGTGAGGGA 57.301 47.619 0.00 0.00 0.00 4.20
208 209 4.213531 TCATAGTACATGGGTGAGGGAT 57.786 45.455 0.00 0.00 0.00 3.85
209 210 5.348259 TCATAGTACATGGGTGAGGGATA 57.652 43.478 0.00 0.00 0.00 2.59
211 212 6.331032 TCATAGTACATGGGTGAGGGATATT 58.669 40.000 0.00 0.00 0.00 1.28
212 213 7.483881 TCATAGTACATGGGTGAGGGATATTA 58.516 38.462 0.00 0.00 0.00 0.98
213 214 7.959152 TCATAGTACATGGGTGAGGGATATTAA 59.041 37.037 0.00 0.00 0.00 1.40
218 219 5.612688 ACATGGGTGAGGGATATTAATGACT 59.387 40.000 0.00 0.00 0.00 3.41
227 228 7.500227 TGAGGGATATTAATGACTCAAGCTTTG 59.500 37.037 0.00 0.00 32.60 2.77
228 229 7.349598 AGGGATATTAATGACTCAAGCTTTGT 58.650 34.615 0.00 0.00 0.00 2.83
240 241 2.928757 CAAGCTTTGTGAGGAGAGATCG 59.071 50.000 0.00 0.00 0.00 3.69
245 246 1.387539 TGTGAGGAGAGATCGAGCAG 58.612 55.000 2.38 0.00 0.00 4.24
249 250 2.224744 TGAGGAGAGATCGAGCAGCTAT 60.225 50.000 2.38 0.00 0.00 2.97
254 255 5.101628 GGAGAGATCGAGCAGCTATTATTG 58.898 45.833 2.38 0.00 0.00 1.90
267 268 6.866770 GCAGCTATTATTGTCTCGGTTATGTA 59.133 38.462 0.00 0.00 0.00 2.29
269 270 8.297426 CAGCTATTATTGTCTCGGTTATGTAGA 58.703 37.037 0.00 0.00 0.00 2.59
277 278 5.163550 TGTCTCGGTTATGTAGACAATCTGG 60.164 44.000 2.09 0.00 44.89 3.86
285 286 2.418976 TGTAGACAATCTGGACGAGTCG 59.581 50.000 11.85 11.85 34.56 4.18
289 290 3.695060 AGACAATCTGGACGAGTCGTAAT 59.305 43.478 19.93 7.30 41.37 1.89
297 298 8.789825 ATCTGGACGAGTCGTAATAAGTATAT 57.210 34.615 19.93 1.51 41.37 0.86
299 300 7.658982 TCTGGACGAGTCGTAATAAGTATATGT 59.341 37.037 19.93 0.00 41.37 2.29
329 331 2.817901 ACATTACCAACCGCTACGATC 58.182 47.619 0.00 0.00 0.00 3.69
336 338 2.351835 CCAACCGCTACGATCTATGGAG 60.352 54.545 0.00 0.00 0.00 3.86
337 339 2.273538 ACCGCTACGATCTATGGAGT 57.726 50.000 0.00 0.00 0.00 3.85
358 360 6.408548 GGAGTTGATAAGGGAGTTCATCATGA 60.409 42.308 0.00 0.00 0.00 3.07
418 420 1.202510 TGAAGCATGTTTGGCAACCAC 60.203 47.619 0.00 0.00 30.78 4.16
421 423 2.037053 CATGTTTGGCAACCACCGA 58.963 52.632 0.00 0.00 30.78 4.69
424 426 0.180642 TGTTTGGCAACCACCGACTA 59.819 50.000 0.00 0.00 30.78 2.59
430 432 1.408266 GGCAACCACCGACTATTGGAT 60.408 52.381 0.00 0.00 36.28 3.41
432 434 2.679639 GCAACCACCGACTATTGGATGA 60.680 50.000 2.35 0.00 37.77 2.92
458 460 8.897752 ACTCAAACTAAATATTGATGGAGCTTC 58.102 33.333 0.00 0.00 35.20 3.86
477 479 1.697432 TCAGAATTTGAGACGGGGTGT 59.303 47.619 0.00 0.00 0.00 4.16
481 483 2.762535 ATTTGAGACGGGGTGTACAG 57.237 50.000 0.00 0.00 0.00 2.74
482 484 1.707106 TTTGAGACGGGGTGTACAGA 58.293 50.000 0.00 0.00 0.00 3.41
497 499 3.135712 TGTACAGAAACATGAGTGGTGGT 59.864 43.478 0.00 0.00 0.00 4.16
520 522 2.234908 AGAGACCATGAGGGAAAGTTCG 59.765 50.000 0.00 0.00 41.15 3.95
523 525 1.420138 ACCATGAGGGAAAGTTCGTGT 59.580 47.619 0.00 0.00 41.15 4.49
525 527 2.226437 CCATGAGGGAAAGTTCGTGTTG 59.774 50.000 0.00 0.00 40.01 3.33
526 528 2.992124 TGAGGGAAAGTTCGTGTTGA 57.008 45.000 0.00 0.00 0.00 3.18
528 530 1.531578 GAGGGAAAGTTCGTGTTGAGC 59.468 52.381 0.00 0.00 0.00 4.26
529 531 0.234884 GGGAAAGTTCGTGTTGAGCG 59.765 55.000 0.00 0.00 32.25 5.03
531 533 1.798813 GGAAAGTTCGTGTTGAGCGAT 59.201 47.619 0.00 0.00 38.21 4.58
532 534 2.411547 GGAAAGTTCGTGTTGAGCGATG 60.412 50.000 0.00 0.00 38.21 3.84
533 535 0.512952 AAGTTCGTGTTGAGCGATGC 59.487 50.000 0.00 0.00 38.21 3.91
534 536 0.599991 AGTTCGTGTTGAGCGATGCA 60.600 50.000 0.00 0.00 38.21 3.96
535 537 0.179240 GTTCGTGTTGAGCGATGCAG 60.179 55.000 0.00 0.00 38.21 4.41
537 539 1.737735 CGTGTTGAGCGATGCAGGA 60.738 57.895 0.00 0.00 0.00 3.86
550 552 5.816258 AGCGATGCAGGAAATATATGATCAG 59.184 40.000 0.09 0.00 0.00 2.90
567 569 2.846193 TCAGCTACGAGCCTTTTGTTT 58.154 42.857 0.00 0.00 43.77 2.83
579 581 6.074356 CGAGCCTTTTGTTTTGGAACTTAATG 60.074 38.462 0.00 0.00 36.70 1.90
582 584 5.522097 CCTTTTGTTTTGGAACTTAATGCGT 59.478 36.000 0.00 0.00 36.70 5.24
583 585 5.957910 TTTGTTTTGGAACTTAATGCGTG 57.042 34.783 0.00 0.00 36.70 5.34
596 598 2.223537 ATGCGTGTCGAGATGCAATA 57.776 45.000 30.12 10.42 41.22 1.90
603 605 5.034797 CGTGTCGAGATGCAATAGTTCTTA 58.965 41.667 0.00 0.00 0.00 2.10
606 608 7.194278 GTGTCGAGATGCAATAGTTCTTACTA 58.806 38.462 0.00 0.00 40.96 1.82
609 611 7.327275 GTCGAGATGCAATAGTTCTTACTATGG 59.673 40.741 0.00 0.00 44.85 2.74
618 620 7.863901 ATAGTTCTTACTATGGAGAATGGCT 57.136 36.000 0.00 0.00 44.12 4.75
624 626 6.382859 TCTTACTATGGAGAATGGCTACACAA 59.617 38.462 0.00 0.00 41.23 3.33
625 627 5.028549 ACTATGGAGAATGGCTACACAAG 57.971 43.478 0.00 0.00 41.23 3.16
662 664 7.903995 AACAAATTGTCAAACTGTTGTCATT 57.096 28.000 12.46 0.00 33.66 2.57
663 665 8.994429 AACAAATTGTCAAACTGTTGTCATTA 57.006 26.923 12.46 0.00 33.66 1.90
668 670 4.870991 TGTCAAACTGTTGTCATTACGTGA 59.129 37.500 0.00 0.00 36.07 4.35
674 676 3.723260 TGTTGTCATTACGTGAGAGCAA 58.277 40.909 0.00 0.00 38.17 3.91
680 682 0.391228 TTACGTGAGAGCAAGGCACA 59.609 50.000 0.00 0.00 32.96 4.57
681 683 0.391228 TACGTGAGAGCAAGGCACAA 59.609 50.000 0.00 0.00 32.96 3.33
697 699 2.799917 GCACAAATCGCTCGATAGGAGT 60.800 50.000 5.12 0.14 45.03 3.85
705 707 2.748605 GCTCGATAGGAGTCCACATTG 58.251 52.381 12.86 8.20 45.03 2.82
717 719 3.256631 AGTCCACATTGTTTTGGAGATGC 59.743 43.478 0.00 0.00 42.75 3.91
718 720 3.005684 GTCCACATTGTTTTGGAGATGCA 59.994 43.478 0.00 0.00 42.75 3.96
731 733 3.827008 GAGATGCACACCTATCTCCAA 57.173 47.619 1.95 0.00 42.10 3.53
738 740 3.821033 GCACACCTATCTCCAACACTTTT 59.179 43.478 0.00 0.00 0.00 2.27
741 743 6.464222 CACACCTATCTCCAACACTTTTAGA 58.536 40.000 0.00 0.00 0.00 2.10
742 744 6.591834 CACACCTATCTCCAACACTTTTAGAG 59.408 42.308 0.00 0.00 0.00 2.43
743 745 6.497259 ACACCTATCTCCAACACTTTTAGAGA 59.503 38.462 0.00 0.00 37.94 3.10
745 747 8.696374 CACCTATCTCCAACACTTTTAGAGATA 58.304 37.037 7.57 7.57 42.68 1.98
746 748 9.268282 ACCTATCTCCAACACTTTTAGAGATAA 57.732 33.333 8.81 0.00 42.80 1.75
749 751 7.884816 TCTCCAACACTTTTAGAGATAAACG 57.115 36.000 0.00 0.00 0.00 3.60
750 752 6.872020 TCTCCAACACTTTTAGAGATAAACGG 59.128 38.462 0.00 0.00 0.00 4.44
751 753 5.935789 TCCAACACTTTTAGAGATAAACGGG 59.064 40.000 0.00 0.00 0.00 5.28
774 788 4.787598 ACGAGAAGTTAATTTTGCTGCTG 58.212 39.130 0.00 0.00 0.00 4.41
823 837 8.410141 AGTTTTAGAGATATCAACCTCTCTTCG 58.590 37.037 5.32 0.00 44.51 3.79
849 863 7.729124 AATCCCTGATTTTCTGATTGACATT 57.271 32.000 0.00 0.00 0.00 2.71
964 2744 0.464452 CGCTCTAAAACCCCCGAGAT 59.536 55.000 0.00 0.00 0.00 2.75
1160 2943 3.151710 CATCCGCCCCCTCGTGTA 61.152 66.667 0.00 0.00 0.00 2.90
1161 2944 2.122989 ATCCGCCCCCTCGTGTAT 60.123 61.111 0.00 0.00 0.00 2.29
1165 2948 3.537874 GCCCCCTCGTGTATCGCT 61.538 66.667 0.00 0.00 39.67 4.93
1239 3022 2.844839 GAGGGGATGGCTAGCGGT 60.845 66.667 9.00 0.00 0.00 5.68
1377 3160 2.448749 AACCTCCTACGTGCAGGTT 58.551 52.632 18.35 17.46 44.29 3.50
1411 3194 5.055642 TGCCTTATATACTTCGACGGATG 57.944 43.478 0.00 0.00 0.00 3.51
1447 3230 1.398390 GCTTGTTTCGCCTCGATTCAT 59.602 47.619 0.00 0.00 35.23 2.57
1451 3234 2.094234 TGTTTCGCCTCGATTCATCTCA 60.094 45.455 0.00 0.00 35.23 3.27
1464 3247 5.910166 CGATTCATCTCAGTTTAGGTAGACG 59.090 44.000 0.00 0.00 0.00 4.18
1506 3336 1.291132 GCATTCTGCCTAAGACGTCC 58.709 55.000 13.01 0.00 37.42 4.79
1664 3494 6.593382 AGTGCTCAACTGAGATCACTAATTTC 59.407 38.462 14.61 0.00 44.74 2.17
1667 3497 6.037786 TCAACTGAGATCACTAATTTCGGT 57.962 37.500 0.00 0.00 39.22 4.69
1812 3645 1.203125 CCCCAACTGGTTGTAATGGGT 60.203 52.381 11.73 0.00 42.50 4.51
2054 3887 1.210931 CGCAAGGACACAATGCCAG 59.789 57.895 0.00 0.00 36.75 4.85
2132 3965 6.280643 AGCAGCAACATTATCGTGTTATCTA 58.719 36.000 0.00 0.00 40.17 1.98
2467 4300 6.851222 ATCCTTCATCGCTAAAATGTAGTG 57.149 37.500 0.00 0.00 0.00 2.74
2912 6471 9.751542 GTAACATGCTATATTCTGTACTTCACT 57.248 33.333 0.00 0.00 0.00 3.41
3712 7434 6.312918 CGTTTCCTTACTAGCACATATGTTGT 59.687 38.462 5.37 5.80 39.91 3.32
4024 7746 4.647564 AGGTCCATCTTCTGTGACAAAT 57.352 40.909 0.00 0.00 30.81 2.32
4121 7843 8.628882 AGTTTCAGTTTCATTTACCTTTTTCG 57.371 30.769 0.00 0.00 0.00 3.46
4202 7924 9.010029 GTTTGAACTTTATTGATCCCACTAGAA 57.990 33.333 0.00 0.00 0.00 2.10
4871 8595 5.476945 ACCAGAGGTTGAATGTTGAAATACC 59.523 40.000 0.00 0.00 27.29 2.73
4890 8614 9.232473 GAAATACCTCCTTCTTGTTAACAGAAT 57.768 33.333 8.56 3.17 0.00 2.40
4893 8617 5.310857 ACCTCCTTCTTGTTAACAGAATCCT 59.689 40.000 8.56 0.00 0.00 3.24
5047 8771 2.645838 TCTAAGGCATCTCCAATGGC 57.354 50.000 0.00 3.60 43.88 4.40
5288 9012 6.635030 AAGACAACCTTCGCTCTTTTATTT 57.365 33.333 0.00 0.00 0.00 1.40
5304 9029 9.974750 CTCTTTTATTTTTATCCTCGAACTCAC 57.025 33.333 0.00 0.00 0.00 3.51
5926 9652 8.992349 TCTTCCTGATATTTTAGATGAACAGGA 58.008 33.333 0.00 0.00 46.78 3.86
5972 9698 6.640518 TGACAGTAGTTTGAGAGAAAGTGTT 58.359 36.000 0.00 0.00 0.00 3.32
6870 10596 2.100749 CCGTGCTGATACATGAGGTACA 59.899 50.000 0.00 0.00 34.07 2.90
6967 10693 3.169512 TGACCTCTGTCCATAGTGTCA 57.830 47.619 0.00 0.00 41.01 3.58
7094 10820 4.513198 TTTTAGCATGCTAAAAGGCGTT 57.487 36.364 41.60 15.82 46.92 4.84
7095 10821 5.630661 TTTTAGCATGCTAAAAGGCGTTA 57.369 34.783 41.60 27.98 46.92 3.18
7096 10822 4.875544 TTAGCATGCTAAAAGGCGTTAG 57.124 40.909 32.70 6.63 35.80 2.34
7097 10823 2.017049 AGCATGCTAAAAGGCGTTAGG 58.983 47.619 21.21 0.00 32.62 2.69
7310 11036 0.613853 TCCCGGTCTTTGACGAGGAT 60.614 55.000 0.00 0.00 34.56 3.24
7376 11102 2.822255 GCCGATTTGCCCGTGCTA 60.822 61.111 0.00 0.00 38.71 3.49
7480 11206 4.262808 GGTGTAGCGAGGGAGATAGTAGTA 60.263 50.000 0.00 0.00 0.00 1.82
7481 11207 4.931002 GTGTAGCGAGGGAGATAGTAGTAG 59.069 50.000 0.00 0.00 0.00 2.57
7482 11208 4.592351 TGTAGCGAGGGAGATAGTAGTAGT 59.408 45.833 0.00 0.00 0.00 2.73
7623 11350 8.091449 GGGGTCAGATAGAATAGAATACAGTTG 58.909 40.741 0.00 0.00 0.00 3.16
7630 11357 6.567602 AGAATAGAATACAGTTGGGCTCTT 57.432 37.500 0.00 0.00 0.00 2.85
7756 11501 7.742089 CAGAGTTAATTTCGTTTCTGACATGAC 59.258 37.037 0.00 0.00 35.28 3.06
7761 11506 5.666969 TTTCGTTTCTGACATGACGATTT 57.333 34.783 0.00 0.00 43.09 2.17
7762 11507 5.666969 TTCGTTTCTGACATGACGATTTT 57.333 34.783 0.00 0.00 43.09 1.82
7763 11508 5.264060 TCGTTTCTGACATGACGATTTTC 57.736 39.130 0.00 0.00 39.33 2.29
7822 11567 8.424918 AGAATTGGAGTAGACTGGTTATATGTG 58.575 37.037 0.00 0.00 0.00 3.21
7860 11909 0.766674 TGTTGCCCCTGTCCTACTGT 60.767 55.000 0.00 0.00 0.00 3.55
7907 11956 7.360575 ACCACGTGATATACTGAAACTTTTC 57.639 36.000 19.30 0.00 37.69 2.29
7942 11991 0.546267 ACATCTCTCCTGGCTGTGGT 60.546 55.000 0.00 0.00 0.00 4.16
7943 11992 0.107800 CATCTCTCCTGGCTGTGGTG 60.108 60.000 0.00 0.00 0.00 4.17
7944 11993 0.546267 ATCTCTCCTGGCTGTGGTGT 60.546 55.000 0.00 0.00 0.00 4.16
7946 11995 2.033141 CTCCTGGCTGTGGTGTGG 59.967 66.667 0.00 0.00 0.00 4.17
7947 11996 4.269523 TCCTGGCTGTGGTGTGGC 62.270 66.667 0.00 0.00 0.00 5.01
7950 12005 4.584518 TGGCTGTGGTGTGGCTGG 62.585 66.667 0.00 0.00 0.00 4.85
7952 12007 3.289834 GCTGTGGTGTGGCTGGTG 61.290 66.667 0.00 0.00 0.00 4.17
8006 12061 3.192001 GGTTAAAGCCTTAAAACTCCCCG 59.808 47.826 3.49 0.00 0.00 5.73
8007 12062 2.963599 AAAGCCTTAAAACTCCCCGA 57.036 45.000 0.00 0.00 0.00 5.14
8008 12063 2.195741 AAGCCTTAAAACTCCCCGAC 57.804 50.000 0.00 0.00 0.00 4.79
8009 12064 0.327259 AGCCTTAAAACTCCCCGACC 59.673 55.000 0.00 0.00 0.00 4.79
8010 12065 0.327259 GCCTTAAAACTCCCCGACCT 59.673 55.000 0.00 0.00 0.00 3.85
8206 12266 2.522193 CGGTAGCCTCCCTCCCTC 60.522 72.222 0.00 0.00 0.00 4.30
8207 12267 2.122769 GGTAGCCTCCCTCCCTCC 60.123 72.222 0.00 0.00 0.00 4.30
8208 12268 2.696893 GTAGCCTCCCTCCCTCCA 59.303 66.667 0.00 0.00 0.00 3.86
8209 12269 1.762858 GTAGCCTCCCTCCCTCCAC 60.763 68.421 0.00 0.00 0.00 4.02
8210 12270 1.941820 TAGCCTCCCTCCCTCCACT 60.942 63.158 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
3 4 7.384932 CAGAAAACATGAATTTTAGGTTGGACC 59.615 37.037 0.00 0.00 33.38 4.46
4 5 7.384932 CCAGAAAACATGAATTTTAGGTTGGAC 59.615 37.037 0.00 0.00 31.90 4.02
6 7 7.171337 CACCAGAAAACATGAATTTTAGGTTGG 59.829 37.037 0.00 6.12 37.68 3.77
7 8 7.171337 CCACCAGAAAACATGAATTTTAGGTTG 59.829 37.037 0.00 5.32 37.68 3.77
20 21 0.831711 GGCCCACCACCAGAAAACAT 60.832 55.000 0.00 0.00 35.26 2.71
34 35 2.367241 GCAGAAAGTTTTTAAGGGCCCA 59.633 45.455 27.56 0.00 0.00 5.36
36 37 2.367241 TGGCAGAAAGTTTTTAAGGGCC 59.633 45.455 0.00 0.00 39.29 5.80
38 39 3.069443 TGCTGGCAGAAAGTTTTTAAGGG 59.931 43.478 20.86 0.00 0.00 3.95
51 52 1.079612 CTCATCGTGTGCTGGCAGA 60.080 57.895 20.86 0.00 0.00 4.26
65 66 5.981915 CGTATATGGCATCGAATCATCTCAT 59.018 40.000 1.65 0.00 0.00 2.90
71 72 6.683715 TCTTAACGTATATGGCATCGAATCA 58.316 36.000 13.17 0.00 0.00 2.57
72 73 7.613146 CATCTTAACGTATATGGCATCGAATC 58.387 38.462 13.17 0.00 0.00 2.52
79 80 6.875948 AAATGCATCTTAACGTATATGGCA 57.124 33.333 0.00 0.00 0.00 4.92
100 101 1.959985 ACAATCACACATCGGGCAAAA 59.040 42.857 0.00 0.00 0.00 2.44
103 104 0.036022 TCACAATCACACATCGGGCA 59.964 50.000 0.00 0.00 0.00 5.36
129 130 4.272018 CAGCTGCATACCAGAACTTATGAC 59.728 45.833 0.00 0.00 44.64 3.06
130 131 4.162131 TCAGCTGCATACCAGAACTTATGA 59.838 41.667 9.47 0.00 44.64 2.15
131 132 4.445453 TCAGCTGCATACCAGAACTTATG 58.555 43.478 9.47 0.00 44.64 1.90
132 133 4.760530 TCAGCTGCATACCAGAACTTAT 57.239 40.909 9.47 0.00 44.64 1.73
164 165 3.058293 TGCATCCGTGAAAGTTTGACATC 60.058 43.478 6.03 0.00 0.00 3.06
179 180 3.264947 CCCATGTACTATGATGCATCCG 58.735 50.000 23.67 14.06 0.00 4.18
189 190 8.772250 CATTAATATCCCTCACCCATGTACTAT 58.228 37.037 0.00 0.00 0.00 2.12
201 202 6.753913 AGCTTGAGTCATTAATATCCCTCA 57.246 37.500 0.00 0.00 0.00 3.86
206 207 8.341173 CCTCACAAAGCTTGAGTCATTAATATC 58.659 37.037 11.91 0.00 39.15 1.63
207 208 8.049117 TCCTCACAAAGCTTGAGTCATTAATAT 58.951 33.333 11.91 0.00 39.15 1.28
208 209 7.394016 TCCTCACAAAGCTTGAGTCATTAATA 58.606 34.615 11.91 0.00 39.15 0.98
209 210 6.240894 TCCTCACAAAGCTTGAGTCATTAAT 58.759 36.000 11.91 0.00 39.15 1.40
211 212 5.012046 TCTCCTCACAAAGCTTGAGTCATTA 59.988 40.000 11.91 0.00 39.15 1.90
212 213 4.070716 CTCCTCACAAAGCTTGAGTCATT 58.929 43.478 11.91 0.00 39.15 2.57
213 214 3.326006 TCTCCTCACAAAGCTTGAGTCAT 59.674 43.478 11.91 0.00 39.15 3.06
218 219 3.367806 CGATCTCTCCTCACAAAGCTTGA 60.368 47.826 0.00 0.00 0.00 3.02
227 228 0.030638 GCTGCTCGATCTCTCCTCAC 59.969 60.000 0.00 0.00 0.00 3.51
228 229 0.106769 AGCTGCTCGATCTCTCCTCA 60.107 55.000 0.00 0.00 0.00 3.86
240 241 3.983741 ACCGAGACAATAATAGCTGCTC 58.016 45.455 4.91 0.00 0.00 4.26
245 246 8.080417 TGTCTACATAACCGAGACAATAATAGC 58.920 37.037 1.59 0.00 44.97 2.97
254 255 5.067413 TCCAGATTGTCTACATAACCGAGAC 59.933 44.000 0.00 0.00 40.07 3.36
267 268 1.535833 ACGACTCGTCCAGATTGTCT 58.464 50.000 0.00 0.00 33.69 3.41
269 270 5.125097 ACTTATTACGACTCGTCCAGATTGT 59.875 40.000 7.52 0.00 41.54 2.71
277 278 9.208169 GCATACATATACTTATTACGACTCGTC 57.792 37.037 7.52 0.00 41.54 4.20
297 298 4.871557 GGTTGGTAATGTACTTCGCATACA 59.128 41.667 0.00 0.00 36.98 2.29
299 300 4.114073 CGGTTGGTAATGTACTTCGCATA 58.886 43.478 0.00 0.00 0.00 3.14
312 314 3.005050 CCATAGATCGTAGCGGTTGGTAA 59.995 47.826 0.00 0.00 0.00 2.85
329 331 6.485830 TGAACTCCCTTATCAACTCCATAG 57.514 41.667 0.00 0.00 0.00 2.23
336 338 6.352516 AGTCATGATGAACTCCCTTATCAAC 58.647 40.000 0.00 0.00 33.71 3.18
337 339 6.566079 AGTCATGATGAACTCCCTTATCAA 57.434 37.500 0.00 0.00 33.71 2.57
358 360 7.438564 TGCCGTTGTACATGTATATTCATAGT 58.561 34.615 9.18 0.01 0.00 2.12
418 420 4.759782 AGTTTGAGTCATCCAATAGTCGG 58.240 43.478 0.00 0.00 0.00 4.79
430 432 8.049117 AGCTCCATCAATATTTAGTTTGAGTCA 58.951 33.333 0.00 0.00 35.47 3.41
432 434 8.814038 AAGCTCCATCAATATTTAGTTTGAGT 57.186 30.769 0.00 0.00 35.47 3.41
446 448 5.413833 GTCTCAAATTCTGAAGCTCCATCAA 59.586 40.000 0.00 0.00 32.17 2.57
458 460 2.185004 ACACCCCGTCTCAAATTCTG 57.815 50.000 0.00 0.00 0.00 3.02
477 479 5.305902 TCTTACCACCACTCATGTTTCTGTA 59.694 40.000 0.00 0.00 0.00 2.74
481 483 4.691216 GTCTCTTACCACCACTCATGTTTC 59.309 45.833 0.00 0.00 0.00 2.78
482 484 4.642429 GTCTCTTACCACCACTCATGTTT 58.358 43.478 0.00 0.00 0.00 2.83
497 499 4.081642 CGAACTTTCCCTCATGGTCTCTTA 60.082 45.833 0.00 0.00 34.77 2.10
511 513 1.214367 TCGCTCAACACGAACTTTCC 58.786 50.000 0.00 0.00 36.44 3.13
520 522 0.874390 TTTCCTGCATCGCTCAACAC 59.126 50.000 0.00 0.00 0.00 3.32
523 525 5.550290 TCATATATTTCCTGCATCGCTCAA 58.450 37.500 0.00 0.00 0.00 3.02
525 527 5.814188 TGATCATATATTTCCTGCATCGCTC 59.186 40.000 0.00 0.00 0.00 5.03
526 528 5.737860 TGATCATATATTTCCTGCATCGCT 58.262 37.500 0.00 0.00 0.00 4.93
528 530 5.816258 AGCTGATCATATATTTCCTGCATCG 59.184 40.000 0.00 0.00 0.00 3.84
529 531 7.042858 CGTAGCTGATCATATATTTCCTGCATC 60.043 40.741 0.00 0.00 0.00 3.91
531 533 6.071391 TCGTAGCTGATCATATATTTCCTGCA 60.071 38.462 0.00 0.00 0.00 4.41
532 534 6.333416 TCGTAGCTGATCATATATTTCCTGC 58.667 40.000 0.00 0.00 0.00 4.85
533 535 6.475076 GCTCGTAGCTGATCATATATTTCCTG 59.525 42.308 0.00 0.00 38.45 3.86
534 536 6.406400 GGCTCGTAGCTGATCATATATTTCCT 60.406 42.308 0.00 0.00 41.99 3.36
535 537 5.751028 GGCTCGTAGCTGATCATATATTTCC 59.249 44.000 0.00 0.00 41.99 3.13
537 539 6.537453 AGGCTCGTAGCTGATCATATATTT 57.463 37.500 0.00 0.00 41.99 1.40
550 552 2.292292 TCCAAAACAAAAGGCTCGTAGC 59.708 45.455 0.00 0.00 41.46 3.58
567 569 2.734606 CTCGACACGCATTAAGTTCCAA 59.265 45.455 0.00 0.00 0.00 3.53
579 581 1.560923 ACTATTGCATCTCGACACGC 58.439 50.000 0.00 0.00 0.00 5.34
582 584 6.208988 AGTAAGAACTATTGCATCTCGACA 57.791 37.500 0.00 0.00 32.84 4.35
583 585 7.327275 CCATAGTAAGAACTATTGCATCTCGAC 59.673 40.741 0.00 0.00 44.88 4.20
596 598 6.611642 TGTAGCCATTCTCCATAGTAAGAACT 59.388 38.462 0.00 0.00 39.91 3.01
603 605 4.684485 GCTTGTGTAGCCATTCTCCATAGT 60.684 45.833 0.00 0.00 44.48 2.12
606 608 2.648059 GCTTGTGTAGCCATTCTCCAT 58.352 47.619 0.00 0.00 44.48 3.41
632 634 9.086336 ACAACAGTTTGACAATTTGTTTCTATG 57.914 29.630 12.55 3.95 36.48 2.23
633 635 9.301153 GACAACAGTTTGACAATTTGTTTCTAT 57.699 29.630 12.55 3.22 36.48 1.98
634 636 8.300286 TGACAACAGTTTGACAATTTGTTTCTA 58.700 29.630 12.55 3.32 34.96 2.10
644 646 5.351740 TCACGTAATGACAACAGTTTGACAA 59.648 36.000 0.00 0.00 40.13 3.18
651 653 3.243737 TGCTCTCACGTAATGACAACAGT 60.244 43.478 0.00 0.00 32.37 3.55
662 664 0.391228 TTGTGCCTTGCTCTCACGTA 59.609 50.000 0.00 0.00 33.69 3.57
663 665 0.463654 TTTGTGCCTTGCTCTCACGT 60.464 50.000 0.00 0.00 33.69 4.49
668 670 0.607489 AGCGATTTGTGCCTTGCTCT 60.607 50.000 0.00 0.00 0.00 4.09
674 676 1.539065 CCTATCGAGCGATTTGTGCCT 60.539 52.381 10.89 0.00 36.17 4.75
680 682 2.034812 GTGGACTCCTATCGAGCGATTT 59.965 50.000 10.89 0.00 43.01 2.17
681 683 1.609555 GTGGACTCCTATCGAGCGATT 59.390 52.381 10.89 0.00 43.01 3.34
697 699 3.005684 GTGCATCTCCAAAACAATGTGGA 59.994 43.478 0.00 0.00 41.72 4.02
705 707 4.265073 AGATAGGTGTGCATCTCCAAAAC 58.735 43.478 0.00 0.00 32.63 2.43
717 719 6.464222 TCTAAAAGTGTTGGAGATAGGTGTG 58.536 40.000 0.00 0.00 0.00 3.82
718 720 6.497259 TCTCTAAAAGTGTTGGAGATAGGTGT 59.503 38.462 5.05 0.00 0.00 4.16
730 732 5.636543 CGTCCCGTTTATCTCTAAAAGTGTT 59.363 40.000 0.00 0.00 0.00 3.32
731 733 5.047802 TCGTCCCGTTTATCTCTAAAAGTGT 60.048 40.000 0.00 0.00 0.00 3.55
738 740 4.521146 ACTTCTCGTCCCGTTTATCTCTA 58.479 43.478 0.00 0.00 0.00 2.43
741 743 5.649782 TTAACTTCTCGTCCCGTTTATCT 57.350 39.130 0.00 0.00 0.00 1.98
742 744 6.898912 AATTAACTTCTCGTCCCGTTTATC 57.101 37.500 0.00 0.00 0.00 1.75
743 745 7.524065 CAAAATTAACTTCTCGTCCCGTTTAT 58.476 34.615 0.00 0.00 0.00 1.40
745 747 5.754778 CAAAATTAACTTCTCGTCCCGTTT 58.245 37.500 0.00 0.00 0.00 3.60
746 748 4.319984 GCAAAATTAACTTCTCGTCCCGTT 60.320 41.667 0.00 0.00 0.00 4.44
747 749 3.187842 GCAAAATTAACTTCTCGTCCCGT 59.812 43.478 0.00 0.00 0.00 5.28
748 750 3.435671 AGCAAAATTAACTTCTCGTCCCG 59.564 43.478 0.00 0.00 0.00 5.14
749 751 4.723248 CAGCAAAATTAACTTCTCGTCCC 58.277 43.478 0.00 0.00 0.00 4.46
750 752 4.083271 AGCAGCAAAATTAACTTCTCGTCC 60.083 41.667 0.00 0.00 0.00 4.79
751 753 4.848299 CAGCAGCAAAATTAACTTCTCGTC 59.152 41.667 0.00 0.00 0.00 4.20
759 773 6.671402 GCACATGAATCAGCAGCAAAATTAAC 60.671 38.462 0.00 0.00 0.00 2.01
760 774 5.349270 GCACATGAATCAGCAGCAAAATTAA 59.651 36.000 0.00 0.00 0.00 1.40
769 783 5.556355 TCTTTTAGCACATGAATCAGCAG 57.444 39.130 0.00 0.00 0.00 4.24
770 784 5.556355 CTCTTTTAGCACATGAATCAGCA 57.444 39.130 0.00 0.00 0.00 4.41
804 818 7.309920 GGATTACGAAGAGAGGTTGATATCTC 58.690 42.308 3.98 0.00 41.90 2.75
806 820 6.209788 AGGGATTACGAAGAGAGGTTGATATC 59.790 42.308 0.00 0.00 0.00 1.63
807 821 6.015010 CAGGGATTACGAAGAGAGGTTGATAT 60.015 42.308 0.00 0.00 0.00 1.63
812 826 3.709587 TCAGGGATTACGAAGAGAGGTT 58.290 45.455 0.00 0.00 0.00 3.50
813 827 3.383698 TCAGGGATTACGAAGAGAGGT 57.616 47.619 0.00 0.00 0.00 3.85
814 828 4.946478 AATCAGGGATTACGAAGAGAGG 57.054 45.455 0.00 0.00 29.72 3.69
815 829 6.478344 CAGAAAATCAGGGATTACGAAGAGAG 59.522 42.308 0.00 0.00 31.46 3.20
816 830 6.154534 TCAGAAAATCAGGGATTACGAAGAGA 59.845 38.462 0.00 0.00 31.46 3.10
817 831 6.341316 TCAGAAAATCAGGGATTACGAAGAG 58.659 40.000 0.00 0.00 31.46 2.85
818 832 6.294361 TCAGAAAATCAGGGATTACGAAGA 57.706 37.500 0.00 0.00 31.46 2.87
823 837 7.630242 TGTCAATCAGAAAATCAGGGATTAC 57.370 36.000 0.00 0.00 31.46 1.89
866 880 9.950496 TTTAGGCATTTTATTAATTTTGGCAGA 57.050 25.926 0.00 0.00 32.64 4.26
900 2680 5.476945 GGGGTGCTCATCTTTTTCTTTTAGA 59.523 40.000 0.00 0.00 0.00 2.10
901 2681 5.619981 CGGGGTGCTCATCTTTTTCTTTTAG 60.620 44.000 0.00 0.00 0.00 1.85
902 2682 4.217550 CGGGGTGCTCATCTTTTTCTTTTA 59.782 41.667 0.00 0.00 0.00 1.52
907 2687 0.811281 CCGGGGTGCTCATCTTTTTC 59.189 55.000 0.00 0.00 0.00 2.29
1033 2813 0.845102 GTTTGGGAGAGGGGGAGGAA 60.845 60.000 0.00 0.00 0.00 3.36
1041 2821 0.833949 GAGCTAGGGTTTGGGAGAGG 59.166 60.000 0.00 0.00 0.00 3.69
1194 2977 4.641645 CTGGCCGTGCTGTTCCCA 62.642 66.667 0.00 0.00 0.00 4.37
1411 3194 0.035056 AAGCCCCACACATCTACTGC 60.035 55.000 0.00 0.00 0.00 4.40
1440 3223 5.910166 CGTCTACCTAAACTGAGATGAATCG 59.090 44.000 0.00 0.00 0.00 3.34
1447 3230 4.660168 AGGAACGTCTACCTAAACTGAGA 58.340 43.478 7.05 0.00 34.47 3.27
1451 3234 3.095332 GGGAGGAACGTCTACCTAAACT 58.905 50.000 8.51 0.00 34.87 2.66
1464 3247 4.029809 CACCACCGGGGGAGGAAC 62.030 72.222 34.83 0.00 41.63 3.62
1502 3332 5.428496 AATGTGCATTATTCATCTGGACG 57.572 39.130 0.00 0.00 34.38 4.79
1506 3336 9.338291 GCTACAATAATGTGCATTATTCATCTG 57.662 33.333 20.83 15.07 45.72 2.90
1545 3375 3.837213 ATGCTACACAGTGCATGAAAC 57.163 42.857 0.00 0.00 46.58 2.78
2051 3884 3.119173 TGGTTGAAGCTTGAAAACACTGG 60.119 43.478 2.10 0.00 0.00 4.00
2054 3887 4.110036 AGTGGTTGAAGCTTGAAAACAC 57.890 40.909 23.19 23.19 40.94 3.32
2354 4187 5.570320 ACATACACCTTTGTTAAGCCTCAT 58.430 37.500 0.00 0.00 37.15 2.90
2909 6468 7.173907 AGTGAAAAAGATGTGGTCAATCTAGTG 59.826 37.037 0.00 0.00 0.00 2.74
2912 6471 6.368791 CGAGTGAAAAAGATGTGGTCAATCTA 59.631 38.462 0.00 0.00 32.62 1.98
3657 7216 4.217118 GCCTGTGAAAGTTCATGTTGAGAT 59.783 41.667 0.00 0.00 39.73 2.75
3809 7531 6.293626 GGATGAACCTATGAATGAAATGTCCG 60.294 42.308 0.00 0.00 35.41 4.79
4024 7746 8.078060 TCATCCAGTTCTGATAATCAACAGTA 57.922 34.615 1.00 0.00 35.84 2.74
4121 7843 8.243426 TGCATGAGAACAAATTAAACCATAGAC 58.757 33.333 0.00 0.00 0.00 2.59
4494 8218 6.419710 TGAGTTAATGACACTAAACGTCACAG 59.580 38.462 0.00 0.00 45.64 3.66
4871 8595 7.371126 GAAGGATTCTGTTAACAAGAAGGAG 57.629 40.000 10.03 0.00 43.23 3.69
4890 8614 6.688073 ACTCTGAAAGGACAATAAGAAGGA 57.312 37.500 0.00 0.00 0.00 3.36
4893 8617 8.647796 TGAAGTACTCTGAAAGGACAATAAGAA 58.352 33.333 0.00 0.00 41.87 2.52
5288 9012 3.306917 TTGCGTGAGTTCGAGGATAAA 57.693 42.857 0.00 0.00 0.00 1.40
5304 9029 3.945285 AGGTACCACATAGGATTTTTGCG 59.055 43.478 15.94 0.00 41.22 4.85
5568 9293 6.652205 ACTCCCTCCAATCCAAATTAAGTA 57.348 37.500 0.00 0.00 0.00 2.24
5926 9652 7.663081 TGTCATCTTGAAACTTAGCTGAATTCT 59.337 33.333 7.05 0.00 0.00 2.40
5972 9698 1.178534 CCTTTGGGCGCTTTCTCCAA 61.179 55.000 7.64 9.39 38.62 3.53
6967 10693 7.754924 CACATTAATTAAACGTGAAGAATGCCT 59.245 33.333 19.20 0.00 0.00 4.75
7094 10820 3.558321 GCAACATGGTCACAACCTACCTA 60.558 47.826 0.00 0.00 46.60 3.08
7095 10821 2.814097 GCAACATGGTCACAACCTACCT 60.814 50.000 0.00 0.00 46.60 3.08
7096 10822 1.539827 GCAACATGGTCACAACCTACC 59.460 52.381 0.00 0.00 46.60 3.18
7097 10823 1.539827 GGCAACATGGTCACAACCTAC 59.460 52.381 0.00 0.00 46.60 3.18
7310 11036 0.179023 TGCAGGTCTTGTGCATGTCA 60.179 50.000 0.00 0.00 45.96 3.58
7480 11206 5.112220 CAATGTGCATTGTTGTGTCTACT 57.888 39.130 14.75 0.00 42.32 2.57
7598 11325 8.091449 CCAACTGTATTCTATTCTATCTGACCC 58.909 40.741 0.00 0.00 0.00 4.46
7623 11350 0.543749 AGGTATGACAGCAAGAGCCC 59.456 55.000 0.00 0.00 43.56 5.19
7666 11401 4.729227 TGCAGTACTTCGGATGACAATA 57.271 40.909 0.00 0.00 0.00 1.90
7667 11402 3.610040 TGCAGTACTTCGGATGACAAT 57.390 42.857 0.00 0.00 0.00 2.71
7668 11403 3.394674 TTGCAGTACTTCGGATGACAA 57.605 42.857 0.00 0.00 0.00 3.18
7738 11483 5.862924 AATCGTCATGTCAGAAACGAAAT 57.137 34.783 8.83 0.15 45.93 2.17
7746 11491 8.777865 ATAAAGAAGAAAATCGTCATGTCAGA 57.222 30.769 0.00 0.00 0.00 3.27
7783 11528 6.155475 ACTCCAATTCTAGCTCATACTCAC 57.845 41.667 0.00 0.00 0.00 3.51
7860 11909 2.554462 GAGATGAGATGCTACACCGCTA 59.446 50.000 0.00 0.00 0.00 4.26
7913 11962 3.431486 CCAGGAGAGATGTAGTGGAAAGC 60.431 52.174 0.00 0.00 0.00 3.51
7923 11972 0.546267 ACCACAGCCAGGAGAGATGT 60.546 55.000 0.00 0.00 0.00 3.06
7942 11991 2.431683 GAGGAAGCACCAGCCACA 59.568 61.111 2.96 0.00 43.56 4.17
7943 11992 2.360475 GGAGGAAGCACCAGCCAC 60.360 66.667 2.96 0.00 43.56 5.01
7944 11993 3.650950 GGGAGGAAGCACCAGCCA 61.651 66.667 11.57 0.00 43.56 4.75
7950 12005 4.373116 TGTCGCGGGAGGAAGCAC 62.373 66.667 6.13 0.00 0.00 4.40
7952 12007 3.708220 CTCTGTCGCGGGAGGAAGC 62.708 68.421 6.13 0.00 0.00 3.86
8006 12061 4.083862 GGCGGGTCAGGTCAGGTC 62.084 72.222 0.00 0.00 0.00 3.85
8007 12062 4.954118 TGGCGGGTCAGGTCAGGT 62.954 66.667 0.00 0.00 0.00 4.00
8008 12063 4.394712 GTGGCGGGTCAGGTCAGG 62.395 72.222 0.00 0.00 0.00 3.86
8009 12064 3.302347 GAGTGGCGGGTCAGGTCAG 62.302 68.421 0.00 0.00 0.00 3.51
8010 12065 3.311110 GAGTGGCGGGTCAGGTCA 61.311 66.667 0.00 0.00 0.00 4.02
8150 12209 1.152943 CGGGGAGGTCGAGATCTGA 60.153 63.158 0.00 0.00 0.00 3.27
8206 12266 3.995809 TAAGGGAGGGCGGGAGTGG 62.996 68.421 0.00 0.00 0.00 4.00
8207 12267 2.365105 TAAGGGAGGGCGGGAGTG 60.365 66.667 0.00 0.00 0.00 3.51
8208 12268 2.041819 CTAAGGGAGGGCGGGAGT 60.042 66.667 0.00 0.00 0.00 3.85
8209 12269 2.844839 CCTAAGGGAGGGCGGGAG 60.845 72.222 0.00 0.00 42.39 4.30
8336 12396 3.820467 CAGATCTCCTCGAGCTTGTAGAT 59.180 47.826 6.99 9.20 35.90 1.98



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

AutoCloner maintained by Alex Coulton.