Multiple sequence alignment - TraesCS7A01G464000

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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 TraesCS7A01G464000 chr7A 100.000 4335 0 0 448 4782 660467431 660463097 0.000000e+00 8006.0
1 TraesCS7A01G464000 chr7A 89.609 1636 127 21 2156 3763 661158083 661159703 0.000000e+00 2039.0
2 TraesCS7A01G464000 chr7A 84.401 1077 90 45 930 1998 661157066 661158072 0.000000e+00 987.0
3 TraesCS7A01G464000 chr7A 100.000 222 0 0 1 222 660467878 660467657 1.240000e-110 411.0
4 TraesCS7A01G464000 chr7A 93.750 96 4 2 4128 4222 643550238 643550144 4.990000e-30 143.0
5 TraesCS7A01G464000 chr7B 94.278 2639 93 16 1536 4137 627446101 627443484 0.000000e+00 3984.0
6 TraesCS7A01G464000 chr7B 88.001 3042 235 61 934 3932 628451618 628454572 0.000000e+00 3476.0
7 TraesCS7A01G464000 chr7B 84.855 931 47 33 448 1314 627447032 627446132 0.000000e+00 852.0
8 TraesCS7A01G464000 chr7B 89.239 381 30 9 4289 4668 627443433 627443063 2.610000e-127 466.0
9 TraesCS7A01G464000 chr7B 92.391 92 6 1 74 164 627447203 627447112 3.880000e-26 130.0
10 TraesCS7A01G464000 chr7B 98.438 64 1 0 4719 4782 627443070 627443007 3.910000e-21 113.0
11 TraesCS7A01G464000 chr7D 87.657 3030 260 65 930 3932 571861877 571864819 0.000000e+00 3419.0
12 TraesCS7A01G464000 chr7D 93.007 2045 100 21 891 2909 571274685 571272658 0.000000e+00 2944.0
13 TraesCS7A01G464000 chr7D 94.262 1063 34 7 3025 4085 571272546 571271509 0.000000e+00 1600.0
14 TraesCS7A01G464000 chr7D 90.486 494 43 3 4289 4782 571271453 571270964 0.000000e+00 649.0
15 TraesCS7A01G464000 chr7D 92.000 100 7 1 4123 4222 21884019 21884117 6.450000e-29 139.0
16 TraesCS7A01G464000 chr7D 90.805 87 3 1 2959 3040 571272652 571272566 1.410000e-20 111.0
17 TraesCS7A01G464000 chr3D 86.692 526 45 9 3428 3944 17702298 17701789 1.160000e-155 560.0
18 TraesCS7A01G464000 chr3D 94.286 35 1 1 39 73 346016651 346016684 9.000000e-03 52.8
19 TraesCS7A01G464000 chr6D 94.175 103 5 1 4130 4232 27179454 27179555 6.410000e-34 156.0
20 TraesCS7A01G464000 chr2D 95.604 91 4 0 4134 4224 28843709 28843799 3.860000e-31 147.0
21 TraesCS7A01G464000 chr2D 92.308 52 4 0 4677 4728 37837709 37837658 1.850000e-09 75.0
22 TraesCS7A01G464000 chr3B 94.624 93 5 0 4136 4228 118309505 118309413 1.390000e-30 145.0
23 TraesCS7A01G464000 chr4D 93.750 96 4 2 4130 4224 101653923 101653829 4.990000e-30 143.0
24 TraesCS7A01G464000 chr4D 94.444 36 1 1 38 73 426621417 426621451 2.000000e-03 54.7
25 TraesCS7A01G464000 chr1D 92.000 100 7 1 4123 4222 12153544 12153642 6.450000e-29 139.0
26 TraesCS7A01G464000 chr1D 92.000 100 7 1 4123 4222 13295834 13295736 6.450000e-29 139.0
27 TraesCS7A01G464000 chr6A 90.909 99 9 0 4135 4233 5647505 5647407 3.000000e-27 134.0
28 TraesCS7A01G464000 chr2B 81.308 107 18 2 4677 4782 66218757 66218652 8.530000e-13 86.1
29 TraesCS7A01G464000 chr6B 100.000 29 0 0 41 69 501500108 501500136 2.000000e-03 54.7


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 TraesCS7A01G464000 chr7A 660463097 660467878 4781 True 4208.5 8006 100.0000 1 4782 2 chr7A.!!$R2 4781
1 TraesCS7A01G464000 chr7A 661157066 661159703 2637 False 1513.0 2039 87.0050 930 3763 2 chr7A.!!$F1 2833
2 TraesCS7A01G464000 chr7B 628451618 628454572 2954 False 3476.0 3476 88.0010 934 3932 1 chr7B.!!$F1 2998
3 TraesCS7A01G464000 chr7B 627443007 627447203 4196 True 1109.0 3984 91.8402 74 4782 5 chr7B.!!$R1 4708
4 TraesCS7A01G464000 chr7D 571861877 571864819 2942 False 3419.0 3419 87.6570 930 3932 1 chr7D.!!$F2 3002
5 TraesCS7A01G464000 chr7D 571270964 571274685 3721 True 1326.0 2944 92.1400 891 4782 4 chr7D.!!$R1 3891
6 TraesCS7A01G464000 chr3D 17701789 17702298 509 True 560.0 560 86.6920 3428 3944 1 chr3D.!!$R1 516

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
888 961 0.191064 AAGTGGAGTGGAGACAGGGA 59.809 55.000 0.0 0.0 44.46 4.20 F
889 962 0.252012 AGTGGAGTGGAGACAGGGAG 60.252 60.000 0.0 0.0 44.46 4.30 F
1304 1406 0.750850 TCCCGCTCCCGAATTAGAAG 59.249 55.000 0.0 0.0 36.29 2.85 F
1333 1438 1.067706 TGCGATTTCTGCATGGTTTGG 60.068 47.619 0.0 0.0 37.44 3.28 F
2691 2826 1.956477 CTTTCTTGGGACCACCTGTTG 59.044 52.381 0.0 0.0 41.11 3.33 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2707 2842 2.360165 CAGCACAGGCAGAACTTTCTTT 59.640 45.455 0.0 0.0 44.61 2.52 R
2788 2926 4.487714 AATGCGGTCCTGATAGAAAAGA 57.512 40.909 0.0 0.0 0.00 2.52 R
2921 3067 2.981805 CACCATTTTCAGTTCGCATGTG 59.018 45.455 0.0 0.0 0.00 3.21 R
3044 3244 4.072131 GCTCAAGAAACCACACATTCCTA 58.928 43.478 0.0 0.0 0.00 2.94 R
4092 4339 0.042731 TTGGGAGGGAGGAGTGGTAG 59.957 60.000 0.0 0.0 0.00 3.18 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 48 8.888579 TTTTGTGTCTAGAGGTCTTTTAGAAG 57.111 34.615 0.00 0.00 0.00 2.85
48 49 6.591750 TGTGTCTAGAGGTCTTTTAGAAGG 57.408 41.667 0.00 0.00 33.56 3.46
49 50 6.312529 TGTGTCTAGAGGTCTTTTAGAAGGA 58.687 40.000 0.00 0.00 33.56 3.36
50 51 6.434652 TGTGTCTAGAGGTCTTTTAGAAGGAG 59.565 42.308 0.00 0.00 33.56 3.69
51 52 6.434965 GTGTCTAGAGGTCTTTTAGAAGGAGT 59.565 42.308 0.00 0.00 33.56 3.85
52 53 7.611079 GTGTCTAGAGGTCTTTTAGAAGGAGTA 59.389 40.741 0.00 0.00 33.56 2.59
53 54 7.611079 TGTCTAGAGGTCTTTTAGAAGGAGTAC 59.389 40.741 0.00 0.00 33.56 2.73
54 55 7.830697 GTCTAGAGGTCTTTTAGAAGGAGTACT 59.169 40.741 0.00 0.00 33.56 2.73
55 56 8.048514 TCTAGAGGTCTTTTAGAAGGAGTACTC 58.951 40.741 14.87 14.87 33.56 2.59
70 71 6.969993 GGAGTACTCCTCAATTAGTGATCT 57.030 41.667 31.12 0.00 46.16 2.75
71 72 6.977213 GGAGTACTCCTCAATTAGTGATCTC 58.023 44.000 31.12 1.68 46.16 2.75
72 73 6.293735 GGAGTACTCCTCAATTAGTGATCTCG 60.294 46.154 31.12 0.00 46.16 4.04
73 74 4.927978 ACTCCTCAATTAGTGATCTCGG 57.072 45.455 0.00 0.00 35.07 4.63
74 75 3.639094 ACTCCTCAATTAGTGATCTCGGG 59.361 47.826 0.00 0.00 35.07 5.14
75 76 2.965831 TCCTCAATTAGTGATCTCGGGG 59.034 50.000 0.00 0.00 35.07 5.73
76 77 2.700897 CCTCAATTAGTGATCTCGGGGT 59.299 50.000 0.00 0.00 35.07 4.95
77 78 3.895656 CCTCAATTAGTGATCTCGGGGTA 59.104 47.826 0.00 0.00 35.07 3.69
78 79 4.528596 CCTCAATTAGTGATCTCGGGGTAT 59.471 45.833 0.00 0.00 35.07 2.73
79 80 5.012148 CCTCAATTAGTGATCTCGGGGTATT 59.988 44.000 0.00 0.00 35.07 1.89
80 81 6.097915 TCAATTAGTGATCTCGGGGTATTC 57.902 41.667 0.00 0.00 0.00 1.75
81 82 5.011738 TCAATTAGTGATCTCGGGGTATTCC 59.988 44.000 0.00 0.00 0.00 3.01
82 83 9.619741 CTCAATTAGTGATCTCGGGGTATTCCC 62.620 48.148 0.00 0.00 43.69 3.97
128 130 3.524095 TCTGGGCCCCATAATGTTATG 57.476 47.619 22.27 5.90 40.10 1.90
152 154 1.092348 GATCTTTTGGCCCACGTACC 58.908 55.000 0.00 0.00 0.00 3.34
171 201 1.108727 CAAGTCCAGCCCAAACTGCA 61.109 55.000 0.00 0.00 36.29 4.41
201 231 1.140852 CCACTCACCAAACCAGACTCA 59.859 52.381 0.00 0.00 0.00 3.41
476 506 0.457681 GTTGTCTGGAGCGAGAGAGC 60.458 60.000 0.00 0.00 37.41 4.09
555 585 2.042831 GCAGCAAGCGATTCCAGGT 61.043 57.895 0.00 0.00 0.00 4.00
589 619 2.364448 GCTCTCCCTCGGTCCCTT 60.364 66.667 0.00 0.00 0.00 3.95
592 622 1.305887 TCTCCCTCGGTCCCTTTCC 60.306 63.158 0.00 0.00 0.00 3.13
594 624 0.910088 CTCCCTCGGTCCCTTTCCTT 60.910 60.000 0.00 0.00 0.00 3.36
697 764 2.183555 CGCCCTCCGACAAGGTAC 59.816 66.667 0.00 0.00 41.99 3.34
708 775 2.480416 CGACAAGGTACTCATCCTCTGC 60.480 54.545 0.00 0.00 38.49 4.26
715 782 2.399916 ACTCATCCTCTGCTTGCTTC 57.600 50.000 0.00 0.00 0.00 3.86
719 786 4.121317 CTCATCCTCTGCTTGCTTCTAAG 58.879 47.826 0.00 0.00 0.00 2.18
735 802 5.813157 GCTTCTAAGATGAACCTGAACTACC 59.187 44.000 0.00 0.00 0.00 3.18
753 820 4.641989 ACTACCTGCCATGTGATTCATTTC 59.358 41.667 0.00 0.00 34.09 2.17
766 833 6.017687 TGTGATTCATTTCCTGCTTATGATCG 60.018 38.462 0.00 0.00 0.00 3.69
773 840 3.807553 TCCTGCTTATGATCGCAAATGA 58.192 40.909 0.00 0.00 35.46 2.57
810 877 6.421377 TGTAAATCGATGGACATTGAACTG 57.579 37.500 0.00 0.00 35.05 3.16
826 899 6.889301 TTGAACTGCTTCTCTTGATCATTT 57.111 33.333 0.00 0.00 0.00 2.32
848 921 8.918658 CATTTTCACTGATTGTAAATTGTCCAG 58.081 33.333 0.00 0.00 34.04 3.86
850 923 6.558771 TCACTGATTGTAAATTGTCCAGTG 57.441 37.500 0.00 0.00 46.55 3.66
854 927 6.545666 ACTGATTGTAAATTGTCCAGTGTCAA 59.454 34.615 0.00 1.49 32.85 3.18
874 947 1.348064 TCAGTAGTGGGTGGAAGTGG 58.652 55.000 0.00 0.00 0.00 4.00
880 953 1.074090 TGGGTGGAAGTGGAGTGGA 60.074 57.895 0.00 0.00 0.00 4.02
881 954 1.127567 TGGGTGGAAGTGGAGTGGAG 61.128 60.000 0.00 0.00 0.00 3.86
882 955 0.836400 GGGTGGAAGTGGAGTGGAGA 60.836 60.000 0.00 0.00 0.00 3.71
883 956 0.321996 GGTGGAAGTGGAGTGGAGAC 59.678 60.000 0.00 0.00 0.00 3.36
884 957 1.048601 GTGGAAGTGGAGTGGAGACA 58.951 55.000 0.00 0.00 38.70 3.41
885 958 1.001406 GTGGAAGTGGAGTGGAGACAG 59.999 57.143 0.00 0.00 44.46 3.51
886 959 0.610687 GGAAGTGGAGTGGAGACAGG 59.389 60.000 0.00 0.00 44.46 4.00
887 960 0.610687 GAAGTGGAGTGGAGACAGGG 59.389 60.000 0.00 0.00 44.46 4.45
888 961 0.191064 AAGTGGAGTGGAGACAGGGA 59.809 55.000 0.00 0.00 44.46 4.20
889 962 0.252012 AGTGGAGTGGAGACAGGGAG 60.252 60.000 0.00 0.00 44.46 4.30
925 998 2.186602 TAATCGGGCGTTTGGAGGCA 62.187 55.000 0.00 0.00 38.38 4.75
926 999 3.561120 ATCGGGCGTTTGGAGGCAA 62.561 57.895 0.00 0.00 38.38 4.52
927 1000 3.291383 CGGGCGTTTGGAGGCAAA 61.291 61.111 0.00 0.00 38.38 3.68
928 1001 2.851071 CGGGCGTTTGGAGGCAAAA 61.851 57.895 0.00 0.00 38.38 2.44
972 1047 3.509266 GAAATCATCGAAACGCCCG 57.491 52.632 0.00 0.00 0.00 6.13
1143 1221 4.381612 CGCCCTGTAGATTTACTTCTGTCA 60.382 45.833 0.00 0.00 0.00 3.58
1149 1229 4.559862 AGATTTACTTCTGTCACCCCAG 57.440 45.455 0.00 0.00 0.00 4.45
1222 1318 7.023575 CGAATTCTTGTTCCTTTCAGGTAATG 58.976 38.462 3.52 0.00 36.53 1.90
1304 1406 0.750850 TCCCGCTCCCGAATTAGAAG 59.249 55.000 0.00 0.00 36.29 2.85
1310 1412 3.591023 GCTCCCGAATTAGAAGCCTATC 58.409 50.000 0.00 0.00 0.00 2.08
1316 1421 3.426859 CGAATTAGAAGCCTATCACTGCG 59.573 47.826 0.00 0.00 0.00 5.18
1333 1438 1.067706 TGCGATTTCTGCATGGTTTGG 60.068 47.619 0.00 0.00 37.44 3.28
1340 1446 2.203972 CTGCATGGTTTGGACGGCTG 62.204 60.000 0.00 0.00 0.00 4.85
1437 1543 6.070424 TCCTAAGTTTGGTGACTATAACCTGG 60.070 42.308 3.19 0.00 38.60 4.45
1456 1562 6.500589 CCTGGAGGGTTCTTTATCTATTGA 57.499 41.667 0.00 0.00 0.00 2.57
1462 1568 9.579932 GGAGGGTTCTTTATCTATTGATGAAAT 57.420 33.333 0.00 0.00 34.32 2.17
1633 1740 9.643693 AATGATTGTTCTTTTTATTTCGCAGAT 57.356 25.926 0.00 0.00 35.04 2.90
1661 1769 5.106908 GGTCATGTGTGCTTCTTAAGTCTTC 60.107 44.000 1.63 0.00 0.00 2.87
1880 1988 6.108015 CCATGCCAATACTTATGCAGTTTTT 58.892 36.000 0.00 0.00 37.12 1.94
1914 2037 3.131755 ACCTTTTCCGATCCCTTACTACG 59.868 47.826 0.00 0.00 0.00 3.51
1931 2054 8.285394 CCTTACTACGCGATATTACTTTGACTA 58.715 37.037 15.93 0.00 0.00 2.59
2393 2522 3.563808 TCACAAGCAGAATAACAAGCGTT 59.436 39.130 0.00 0.00 39.24 4.84
2440 2569 8.757982 ACTTTGCTACATATCATCTCCAAATT 57.242 30.769 0.00 0.00 0.00 1.82
2485 2614 6.446318 GGCTTTTGATTTGTGTCAGTTATCA 58.554 36.000 0.00 0.00 0.00 2.15
2597 2726 4.873827 GTGAATCGTTGGCCAGAATTACTA 59.126 41.667 5.11 0.00 0.00 1.82
2691 2826 1.956477 CTTTCTTGGGACCACCTGTTG 59.044 52.381 0.00 0.00 41.11 3.33
2891 3029 4.901250 AGGTTGGGTTCTTGATCATTTTGT 59.099 37.500 0.00 0.00 0.00 2.83
2971 3129 6.368779 AGTAGCAACCTACATCCAGTTTTA 57.631 37.500 3.97 0.00 45.15 1.52
3023 3188 3.961408 GAGGAGAATCTTAGGTGCACCTA 59.039 47.826 36.63 36.63 46.33 3.08
3290 3509 1.299541 AGTGAATTTATCCCGCGCAG 58.700 50.000 8.75 0.00 0.00 5.18
3295 3514 1.967319 ATTTATCCCGCGCAGAACAT 58.033 45.000 8.75 0.00 0.00 2.71
3426 3645 3.045601 TGGCAGCTCTTTCTTGTCTAC 57.954 47.619 0.00 0.00 0.00 2.59
3818 4059 5.991328 GCTAATACTCAGCTGTTTGCATA 57.009 39.130 14.67 1.12 45.94 3.14
3868 4112 8.430801 TTGTCTTCAATTTTATTGTGTTTGGG 57.569 30.769 0.00 0.00 0.00 4.12
3909 4153 7.303998 GCAAGAGCCATTATGAAATATCAGAC 58.696 38.462 0.00 0.00 35.00 3.51
3977 4223 5.357878 TCTTGCTCATATGTTTTGGATCCAC 59.642 40.000 15.91 3.57 0.00 4.02
4085 4332 6.362016 TCAACACAAAAATCATTACATGTCGC 59.638 34.615 0.00 0.00 0.00 5.19
4087 4334 7.139896 ACACAAAAATCATTACATGTCGCTA 57.860 32.000 0.00 0.00 0.00 4.26
4088 4335 7.243487 ACACAAAAATCATTACATGTCGCTAG 58.757 34.615 0.00 0.00 0.00 3.42
4089 4336 7.094805 ACACAAAAATCATTACATGTCGCTAGT 60.095 33.333 0.00 0.00 0.00 2.57
4090 4337 8.387354 CACAAAAATCATTACATGTCGCTAGTA 58.613 33.333 0.00 0.00 0.00 1.82
4092 4339 7.478520 AAAATCATTACATGTCGCTAGTACC 57.521 36.000 0.00 0.00 0.00 3.34
4103 4352 2.158842 TCGCTAGTACCTACCACTCCTC 60.159 54.545 0.00 0.00 0.00 3.71
4106 4355 1.696333 AGTACCTACCACTCCTCCCT 58.304 55.000 0.00 0.00 0.00 4.20
4117 4366 2.190488 CTCCTCCCTCCCAAGTGTGC 62.190 65.000 0.00 0.00 0.00 4.57
4129 4378 0.037697 AAGTGTGCGACGCTCCATTA 60.038 50.000 22.08 0.00 38.11 1.90
4135 4384 0.249489 GCGACGCTCCATTACATCCT 60.249 55.000 13.73 0.00 0.00 3.24
4136 4385 1.000607 GCGACGCTCCATTACATCCTA 60.001 52.381 13.73 0.00 0.00 2.94
4137 4386 2.662700 CGACGCTCCATTACATCCTAC 58.337 52.381 0.00 0.00 0.00 3.18
4138 4387 2.293677 CGACGCTCCATTACATCCTACT 59.706 50.000 0.00 0.00 0.00 2.57
4139 4388 3.609644 CGACGCTCCATTACATCCTACTC 60.610 52.174 0.00 0.00 0.00 2.59
4140 4389 2.628657 ACGCTCCATTACATCCTACTCC 59.371 50.000 0.00 0.00 0.00 3.85
4141 4390 2.028930 CGCTCCATTACATCCTACTCCC 60.029 54.545 0.00 0.00 0.00 4.30
4142 4391 3.243724 GCTCCATTACATCCTACTCCCT 58.756 50.000 0.00 0.00 0.00 4.20
4143 4392 3.259625 GCTCCATTACATCCTACTCCCTC 59.740 52.174 0.00 0.00 0.00 4.30
4144 4393 3.835395 CTCCATTACATCCTACTCCCTCC 59.165 52.174 0.00 0.00 0.00 4.30
4145 4394 2.563179 CCATTACATCCTACTCCCTCCG 59.437 54.545 0.00 0.00 0.00 4.63
4146 4395 3.231818 CATTACATCCTACTCCCTCCGT 58.768 50.000 0.00 0.00 0.00 4.69
4147 4396 3.393426 TTACATCCTACTCCCTCCGTT 57.607 47.619 0.00 0.00 0.00 4.44
4148 4397 1.777941 ACATCCTACTCCCTCCGTTC 58.222 55.000 0.00 0.00 0.00 3.95
4149 4398 1.041437 CATCCTACTCCCTCCGTTCC 58.959 60.000 0.00 0.00 0.00 3.62
4150 4399 0.635009 ATCCTACTCCCTCCGTTCCA 59.365 55.000 0.00 0.00 0.00 3.53
4151 4400 0.410663 TCCTACTCCCTCCGTTCCAA 59.589 55.000 0.00 0.00 0.00 3.53
4152 4401 1.203212 TCCTACTCCCTCCGTTCCAAA 60.203 52.381 0.00 0.00 0.00 3.28
4153 4402 1.626825 CCTACTCCCTCCGTTCCAAAA 59.373 52.381 0.00 0.00 0.00 2.44
4154 4403 2.238898 CCTACTCCCTCCGTTCCAAAAT 59.761 50.000 0.00 0.00 0.00 1.82
4155 4404 3.453353 CCTACTCCCTCCGTTCCAAAATA 59.547 47.826 0.00 0.00 0.00 1.40
4156 4405 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
4157 4406 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
4158 4407 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
4159 4408 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
4160 4409 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
4161 4410 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
4162 4411 4.384208 CCCTCCGTTCCAAAATAGATGACT 60.384 45.833 0.00 0.00 0.00 3.41
4163 4412 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
4164 4413 5.414789 TCCGTTCCAAAATAGATGACTCA 57.585 39.130 0.00 0.00 0.00 3.41
4165 4414 5.800296 TCCGTTCCAAAATAGATGACTCAA 58.200 37.500 0.00 0.00 0.00 3.02
4166 4415 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
4167 4416 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
4168 4417 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
4169 4418 7.308589 CCGTTCCAAAATAGATGACTCAACTTT 60.309 37.037 0.00 0.00 0.00 2.66
4170 4419 8.717821 CGTTCCAAAATAGATGACTCAACTTTA 58.282 33.333 0.00 0.00 0.00 1.85
4213 4462 9.793259 AAGTTAGGTCATCTATTTTGAAACTGA 57.207 29.630 0.00 0.00 27.72 3.41
4214 4463 9.442047 AGTTAGGTCATCTATTTTGAAACTGAG 57.558 33.333 0.00 0.00 0.00 3.35
4215 4464 8.669243 GTTAGGTCATCTATTTTGAAACTGAGG 58.331 37.037 0.00 0.00 0.00 3.86
4216 4465 6.183347 AGGTCATCTATTTTGAAACTGAGGG 58.817 40.000 0.00 0.00 0.00 4.30
4217 4466 6.012508 AGGTCATCTATTTTGAAACTGAGGGA 60.013 38.462 0.00 0.00 0.00 4.20
4218 4467 6.317391 GGTCATCTATTTTGAAACTGAGGGAG 59.683 42.308 0.00 0.00 0.00 4.30
4234 4483 3.238597 AGGGAGTAGATGCCAAGATCTC 58.761 50.000 0.00 0.00 43.31 2.75
4237 4486 2.625790 GAGTAGATGCCAAGATCTCCGT 59.374 50.000 0.00 0.00 34.42 4.69
4240 4489 0.465705 GATGCCAAGATCTCCGTCCA 59.534 55.000 0.00 0.00 0.00 4.02
4242 4491 1.191489 TGCCAAGATCTCCGTCCACA 61.191 55.000 0.00 0.00 0.00 4.17
4250 4499 2.143876 TCTCCGTCCACATCATCTCA 57.856 50.000 0.00 0.00 0.00 3.27
4251 4500 2.670939 TCTCCGTCCACATCATCTCAT 58.329 47.619 0.00 0.00 0.00 2.90
4253 4502 4.411013 TCTCCGTCCACATCATCTCATAT 58.589 43.478 0.00 0.00 0.00 1.78
4254 4503 4.219288 TCTCCGTCCACATCATCTCATATG 59.781 45.833 0.00 0.00 0.00 1.78
4255 4504 3.897505 TCCGTCCACATCATCTCATATGT 59.102 43.478 1.90 0.00 36.78 2.29
4256 4505 4.021981 TCCGTCCACATCATCTCATATGTC 60.022 45.833 1.90 0.00 34.12 3.06
4257 4506 4.021632 CCGTCCACATCATCTCATATGTCT 60.022 45.833 1.90 0.00 34.12 3.41
4258 4507 5.159925 CGTCCACATCATCTCATATGTCTC 58.840 45.833 1.90 0.00 34.12 3.36
4259 4508 5.278660 CGTCCACATCATCTCATATGTCTCA 60.279 44.000 1.90 0.00 34.12 3.27
4260 4509 6.571925 CGTCCACATCATCTCATATGTCTCAT 60.572 42.308 1.90 0.00 34.12 2.90
4261 4510 6.812656 GTCCACATCATCTCATATGTCTCATC 59.187 42.308 1.90 0.00 34.12 2.92
4263 4512 6.814146 CCACATCATCTCATATGTCTCATCTG 59.186 42.308 1.90 0.00 34.12 2.90
4264 4513 6.814146 CACATCATCTCATATGTCTCATCTGG 59.186 42.308 1.90 0.00 34.12 3.86
4265 4514 5.997384 TCATCTCATATGTCTCATCTGGG 57.003 43.478 1.90 0.00 0.00 4.45
4267 4516 5.479724 TCATCTCATATGTCTCATCTGGGTC 59.520 44.000 1.90 0.00 0.00 4.46
4268 4517 4.155709 TCTCATATGTCTCATCTGGGTCC 58.844 47.826 1.90 0.00 0.00 4.46
4269 4518 3.899980 CTCATATGTCTCATCTGGGTCCA 59.100 47.826 1.90 0.00 0.00 4.02
4270 4519 4.496540 TCATATGTCTCATCTGGGTCCAT 58.503 43.478 1.90 0.00 0.00 3.41
4271 4520 4.529769 TCATATGTCTCATCTGGGTCCATC 59.470 45.833 1.90 0.00 0.00 3.51
4272 4521 2.557555 TGTCTCATCTGGGTCCATCT 57.442 50.000 0.00 0.00 0.00 2.90
4273 4522 2.837947 TGTCTCATCTGGGTCCATCTT 58.162 47.619 0.00 0.00 0.00 2.40
4274 4523 2.502947 TGTCTCATCTGGGTCCATCTTG 59.497 50.000 0.00 0.00 0.00 3.02
4275 4524 2.503356 GTCTCATCTGGGTCCATCTTGT 59.497 50.000 0.00 0.00 0.00 3.16
4276 4525 2.768527 TCTCATCTGGGTCCATCTTGTC 59.231 50.000 0.00 0.00 0.00 3.18
4277 4526 1.839994 TCATCTGGGTCCATCTTGTCC 59.160 52.381 0.00 0.00 0.00 4.02
4278 4527 1.561076 CATCTGGGTCCATCTTGTCCA 59.439 52.381 0.00 0.00 0.00 4.02
4279 4528 0.984230 TCTGGGTCCATCTTGTCCAC 59.016 55.000 0.00 0.00 0.00 4.02
4280 4529 0.692476 CTGGGTCCATCTTGTCCACA 59.308 55.000 0.00 0.00 0.00 4.17
4281 4530 1.283029 CTGGGTCCATCTTGTCCACAT 59.717 52.381 0.00 0.00 0.00 3.21
4282 4531 1.281867 TGGGTCCATCTTGTCCACATC 59.718 52.381 0.00 0.00 0.00 3.06
4283 4532 1.281867 GGGTCCATCTTGTCCACATCA 59.718 52.381 0.00 0.00 0.00 3.07
4284 4533 2.092212 GGGTCCATCTTGTCCACATCAT 60.092 50.000 0.00 0.00 0.00 2.45
4285 4534 3.209410 GGTCCATCTTGTCCACATCATC 58.791 50.000 0.00 0.00 0.00 2.92
4286 4535 3.118112 GGTCCATCTTGTCCACATCATCT 60.118 47.826 0.00 0.00 0.00 2.90
4287 4536 4.125703 GTCCATCTTGTCCACATCATCTC 58.874 47.826 0.00 0.00 0.00 2.75
4299 4548 8.693625 TGTCCACATCATCTCATATATCTCATC 58.306 37.037 0.00 0.00 0.00 2.92
4303 4552 8.145122 CACATCATCTCATATATCTCATCTGGG 58.855 40.741 0.00 0.00 0.00 4.45
4305 4554 7.894753 TCATCTCATATATCTCATCTGGGTC 57.105 40.000 0.00 0.00 0.00 4.46
4330 4579 7.989741 TCCATCTTTAATCAGTTGATTCTCCTC 59.010 37.037 10.43 0.00 43.17 3.71
4333 4582 5.677319 TTAATCAGTTGATTCTCCTCGGT 57.323 39.130 10.43 0.00 43.17 4.69
4351 4600 0.807496 GTGCCATCTCTTGCCTCAAC 59.193 55.000 0.00 0.00 0.00 3.18
4380 4629 4.105486 TCATCGAGAAGAAACATACGCTG 58.895 43.478 0.00 0.00 0.00 5.18
4382 4631 3.499048 TCGAGAAGAAACATACGCTGAC 58.501 45.455 0.00 0.00 0.00 3.51
4384 4633 2.930682 GAGAAGAAACATACGCTGACCC 59.069 50.000 0.00 0.00 0.00 4.46
4390 4639 1.872234 CATACGCTGACCCGTGTCG 60.872 63.158 0.00 0.00 44.86 4.35
4427 4676 5.752650 TCATTCTCTTTCATCTCTTGCCAT 58.247 37.500 0.00 0.00 0.00 4.40
4432 4681 1.372582 TTCATCTCTTGCCATGTCGC 58.627 50.000 0.00 0.00 0.00 5.19
4442 4691 1.162800 GCCATGTCGCCATCTTCTCC 61.163 60.000 0.00 0.00 0.00 3.71
4444 4693 1.134280 CCATGTCGCCATCTTCTCCTT 60.134 52.381 0.00 0.00 0.00 3.36
4451 4700 2.229784 CGCCATCTTCTCCTTTTGCTTT 59.770 45.455 0.00 0.00 0.00 3.51
4458 4707 4.275936 TCTTCTCCTTTTGCTTTTTCTCCG 59.724 41.667 0.00 0.00 0.00 4.63
4475 4724 3.069016 TCTCCGTCAACTCTAACTTTGCA 59.931 43.478 0.00 0.00 0.00 4.08
4584 4833 4.040829 TGAGCTTCTTCTTCACCATCTTCA 59.959 41.667 0.00 0.00 0.00 3.02
4597 4846 1.061905 ATCTTCATCCCATCGGGCCA 61.062 55.000 4.39 0.00 43.94 5.36
4611 4860 0.846693 GGGCCACCCATTGATAGACT 59.153 55.000 4.39 0.00 44.65 3.24
4614 4863 1.541233 GCCACCCATTGATAGACTCCG 60.541 57.143 0.00 0.00 0.00 4.63
4624 4873 3.818180 TGATAGACTCCGAAGTAGGACC 58.182 50.000 0.00 0.00 35.28 4.46
4641 4890 4.416516 AGGACCCCTTGTTTCCTTTTATG 58.583 43.478 0.00 0.00 36.24 1.90
4673 4922 3.882444 TCTTCATCCCATCTTCAAGCTG 58.118 45.455 0.00 0.00 0.00 4.24
4683 4932 4.344679 CCATCTTCAAGCTGTAGAGAGGAT 59.655 45.833 0.00 0.00 30.12 3.24
4684 4933 5.163322 CCATCTTCAAGCTGTAGAGAGGATT 60.163 44.000 0.00 0.00 30.12 3.01
4687 4936 5.596361 TCTTCAAGCTGTAGAGAGGATTAGG 59.404 44.000 0.00 0.00 0.00 2.69
4691 4940 5.390087 AGCTGTAGAGAGGATTAGGTACA 57.610 43.478 0.00 0.00 0.00 2.90
4719 4968 0.687354 GTCTCTTTGGTGGAGCCTCA 59.313 55.000 0.00 0.00 38.35 3.86
4735 4984 2.705127 GCCTCATCATTCCTCTTCCTCT 59.295 50.000 0.00 0.00 0.00 3.69
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 9.326413 CTTCTAAAAGACCTCTAGACACAAAAA 57.674 33.333 0.00 0.00 34.14 1.94
22 23 7.931948 CCTTCTAAAAGACCTCTAGACACAAAA 59.068 37.037 0.00 0.00 34.14 2.44
23 24 7.289317 TCCTTCTAAAAGACCTCTAGACACAAA 59.711 37.037 0.00 0.00 34.14 2.83
24 25 6.781014 TCCTTCTAAAAGACCTCTAGACACAA 59.219 38.462 0.00 0.00 34.14 3.33
25 26 6.312529 TCCTTCTAAAAGACCTCTAGACACA 58.687 40.000 0.00 0.00 34.14 3.72
26 27 6.434965 ACTCCTTCTAAAAGACCTCTAGACAC 59.565 42.308 0.00 0.00 34.14 3.67
27 28 6.553857 ACTCCTTCTAAAAGACCTCTAGACA 58.446 40.000 0.00 0.00 34.14 3.41
28 29 7.830697 AGTACTCCTTCTAAAAGACCTCTAGAC 59.169 40.741 0.00 0.00 34.14 2.59
29 30 7.931046 AGTACTCCTTCTAAAAGACCTCTAGA 58.069 38.462 0.00 0.00 34.14 2.43
30 31 7.283807 GGAGTACTCCTTCTAAAAGACCTCTAG 59.716 44.444 31.12 0.00 46.16 2.43
31 32 7.118060 GGAGTACTCCTTCTAAAAGACCTCTA 58.882 42.308 31.12 0.00 46.16 2.43
32 33 5.953548 GGAGTACTCCTTCTAAAAGACCTCT 59.046 44.000 31.12 0.00 46.16 3.69
33 34 6.211587 GGAGTACTCCTTCTAAAAGACCTC 57.788 45.833 31.12 2.05 46.16 3.85
48 49 6.293735 CCGAGATCACTAATTGAGGAGTACTC 60.294 46.154 14.87 14.87 46.78 2.59
49 50 5.533154 CCGAGATCACTAATTGAGGAGTACT 59.467 44.000 0.00 0.00 37.77 2.73
50 51 5.278561 CCCGAGATCACTAATTGAGGAGTAC 60.279 48.000 0.00 0.00 37.77 2.73
51 52 4.827835 CCCGAGATCACTAATTGAGGAGTA 59.172 45.833 0.00 0.00 37.77 2.59
52 53 3.639094 CCCGAGATCACTAATTGAGGAGT 59.361 47.826 0.00 0.00 37.77 3.85
53 54 3.006323 CCCCGAGATCACTAATTGAGGAG 59.994 52.174 0.00 0.00 37.77 3.69
54 55 2.965831 CCCCGAGATCACTAATTGAGGA 59.034 50.000 0.00 0.00 37.77 3.71
55 56 2.700897 ACCCCGAGATCACTAATTGAGG 59.299 50.000 0.00 0.00 37.77 3.86
56 57 5.730296 ATACCCCGAGATCACTAATTGAG 57.270 43.478 0.00 0.00 37.77 3.02
57 58 5.011738 GGAATACCCCGAGATCACTAATTGA 59.988 44.000 0.00 0.00 39.11 2.57
58 59 5.238583 GGAATACCCCGAGATCACTAATTG 58.761 45.833 0.00 0.00 0.00 2.32
59 60 5.485209 GGAATACCCCGAGATCACTAATT 57.515 43.478 0.00 0.00 0.00 1.40
74 75 2.704065 TCAGGGAATTCTCGGGAATACC 59.296 50.000 19.10 19.10 40.86 2.73
75 76 4.417426 TTCAGGGAATTCTCGGGAATAC 57.583 45.455 11.77 7.51 40.86 1.89
76 77 5.646692 ATTTCAGGGAATTCTCGGGAATA 57.353 39.130 11.77 5.54 40.86 1.75
77 78 4.526438 ATTTCAGGGAATTCTCGGGAAT 57.474 40.909 4.19 4.19 43.26 3.01
78 79 4.384868 GGTATTTCAGGGAATTCTCGGGAA 60.385 45.833 0.00 0.00 35.78 3.97
79 80 3.135895 GGTATTTCAGGGAATTCTCGGGA 59.864 47.826 5.59 2.25 0.00 5.14
80 81 3.118038 TGGTATTTCAGGGAATTCTCGGG 60.118 47.826 5.59 0.00 0.00 5.14
81 82 4.150897 TGGTATTTCAGGGAATTCTCGG 57.849 45.455 5.23 1.63 0.00 4.63
82 83 6.509418 TTTTGGTATTTCAGGGAATTCTCG 57.491 37.500 5.23 0.00 0.00 4.04
128 130 0.388520 GTGGGCCAAAAGATCAACGC 60.389 55.000 8.40 0.00 0.00 4.84
152 154 1.108727 TGCAGTTTGGGCTGGACTTG 61.109 55.000 0.00 0.00 37.00 3.16
500 530 1.824842 GCTGGGGAATGGGGATTGATC 60.825 57.143 0.00 0.00 0.00 2.92
688 755 2.763448 AGCAGAGGATGAGTACCTTGTC 59.237 50.000 0.00 0.00 37.93 3.18
689 756 2.826488 AGCAGAGGATGAGTACCTTGT 58.174 47.619 0.00 0.00 37.93 3.16
697 764 2.695127 AGAAGCAAGCAGAGGATGAG 57.305 50.000 0.00 0.00 0.00 2.90
708 775 5.936956 AGTTCAGGTTCATCTTAGAAGCAAG 59.063 40.000 8.36 1.59 45.76 4.01
715 782 5.112686 GCAGGTAGTTCAGGTTCATCTTAG 58.887 45.833 0.00 0.00 0.00 2.18
719 786 2.027192 TGGCAGGTAGTTCAGGTTCATC 60.027 50.000 0.00 0.00 0.00 2.92
735 802 3.737047 GCAGGAAATGAATCACATGGCAG 60.737 47.826 0.00 0.00 39.39 4.85
753 820 4.761235 ATCATTTGCGATCATAAGCAGG 57.239 40.909 0.00 0.00 44.72 4.85
773 840 7.172190 CCATCGATTTACAATCAGTCTAGCAAT 59.828 37.037 0.00 0.00 0.00 3.56
794 861 3.005554 AGAAGCAGTTCAATGTCCATCG 58.994 45.455 0.00 0.00 34.82 3.84
810 877 6.492007 TCAGTGAAAATGATCAAGAGAAGC 57.508 37.500 0.00 0.00 35.16 3.86
848 921 2.301870 TCCACCCACTACTGATTGACAC 59.698 50.000 0.00 0.00 0.00 3.67
850 923 3.008049 ACTTCCACCCACTACTGATTGAC 59.992 47.826 0.00 0.00 0.00 3.18
854 927 1.909302 CCACTTCCACCCACTACTGAT 59.091 52.381 0.00 0.00 0.00 2.90
874 947 1.305718 AGCCTCCCTGTCTCCACTC 60.306 63.158 0.00 0.00 0.00 3.51
880 953 4.704103 TGCCGAGCCTCCCTGTCT 62.704 66.667 0.00 0.00 0.00 3.41
881 954 4.459089 GTGCCGAGCCTCCCTGTC 62.459 72.222 0.00 0.00 0.00 3.51
894 967 3.706140 CGATTACTGCTCGGTGCC 58.294 61.111 0.00 0.00 42.00 5.01
899 972 1.082117 AAACGCCCGATTACTGCTCG 61.082 55.000 0.00 0.00 35.92 5.03
928 1001 2.561037 CCGGCCGGTTGAGCTTTTT 61.561 57.895 36.64 0.00 0.00 1.94
1128 1206 4.168101 TCTGGGGTGACAGAAGTAAATCT 58.832 43.478 0.00 0.00 44.03 2.40
1143 1221 0.419459 ACAGGAGAAGGATCTGGGGT 59.581 55.000 0.00 0.00 35.54 4.95
1149 1229 4.508662 ACGAAATTGACAGGAGAAGGATC 58.491 43.478 0.00 0.00 0.00 3.36
1222 1318 1.514553 CGAGGAACGGAACCCTACC 59.485 63.158 0.00 0.00 38.46 3.18
1286 1388 0.880718 GCTTCTAATTCGGGAGCGGG 60.881 60.000 0.00 0.00 0.00 6.13
1304 1406 1.262683 GCAGAAATCGCAGTGATAGGC 59.737 52.381 0.00 0.00 35.84 3.93
1310 1412 0.806868 ACCATGCAGAAATCGCAGTG 59.193 50.000 0.00 0.00 43.88 3.66
1316 1421 2.415893 CCGTCCAAACCATGCAGAAATC 60.416 50.000 0.00 0.00 0.00 2.17
1333 1438 2.202623 CCTACACGCTCAGCCGTC 60.203 66.667 0.00 0.00 39.83 4.79
1340 1446 1.218316 CCCCTGAACCTACACGCTC 59.782 63.158 0.00 0.00 0.00 5.03
1367 1473 0.108615 TCTCAGGACTAGCAAAGCGC 60.109 55.000 0.00 0.00 42.91 5.92
1393 1499 2.843113 GGAGGAGATGATTCCCCATAGG 59.157 54.545 0.00 0.00 38.02 2.57
1454 1560 5.530171 GCTCCAAGATTGCTAGATTTCATCA 59.470 40.000 0.00 0.00 0.00 3.07
1455 1561 5.764192 AGCTCCAAGATTGCTAGATTTCATC 59.236 40.000 0.00 0.00 35.05 2.92
1456 1562 5.692928 AGCTCCAAGATTGCTAGATTTCAT 58.307 37.500 0.00 0.00 35.05 2.57
1633 1740 6.237901 ACTTAAGAAGCACACATGACCATAA 58.762 36.000 10.09 0.00 0.00 1.90
1661 1769 3.853671 GCAAGTGACAACAAAGAAGTGTG 59.146 43.478 0.00 0.00 0.00 3.82
1880 1988 6.294286 GGATCGGAAAAGGTAATCAACAAACA 60.294 38.462 0.00 0.00 0.00 2.83
1931 2054 9.093970 TGATGAAATACGAAAACGTTGATCTAT 57.906 29.630 0.00 1.90 0.00 1.98
1942 2065 8.698854 GCAGAACAAATTGATGAAATACGAAAA 58.301 29.630 0.00 0.00 0.00 2.29
1965 2088 7.798596 ATGAAAAGGATATTCACTACAGCAG 57.201 36.000 0.00 0.00 39.43 4.24
2218 2343 5.694006 GTGTGAGCACCTATCAGATTCATAC 59.306 44.000 0.00 0.00 39.61 2.39
2347 2476 7.337184 TGATCACATTTAATAGGGCGTAAACAA 59.663 33.333 0.00 0.00 0.00 2.83
2440 2569 4.651778 CCCAGAAAACTGAATACACCAGA 58.348 43.478 0.00 0.00 35.69 3.86
2517 2646 5.185442 TGAGCAATGTTTTTATCATCCTGCA 59.815 36.000 0.00 0.00 33.87 4.41
2653 2784 6.898912 AGAAAGAAAGAAAGCAAGCAAAAG 57.101 33.333 0.00 0.00 0.00 2.27
2658 2789 4.053983 CCCAAGAAAGAAAGAAAGCAAGC 58.946 43.478 0.00 0.00 0.00 4.01
2691 2826 7.203255 ACTTTCTTTACACAATAACCTGAGC 57.797 36.000 0.00 0.00 0.00 4.26
2707 2842 2.360165 CAGCACAGGCAGAACTTTCTTT 59.640 45.455 0.00 0.00 44.61 2.52
2788 2926 4.487714 AATGCGGTCCTGATAGAAAAGA 57.512 40.909 0.00 0.00 0.00 2.52
2909 3049 4.754618 AGTTCGCATGTGTAAGTTCATGAA 59.245 37.500 3.38 3.38 42.52 2.57
2914 3060 4.725556 TTCAGTTCGCATGTGTAAGTTC 57.274 40.909 6.09 0.00 0.00 3.01
2919 3065 3.818210 ACCATTTTCAGTTCGCATGTGTA 59.182 39.130 6.09 0.00 0.00 2.90
2921 3067 2.981805 CACCATTTTCAGTTCGCATGTG 59.018 45.455 0.00 0.00 0.00 3.21
2971 3129 8.929260 TCAATACATAGAATGCCAAGAATCAT 57.071 30.769 0.00 0.00 0.00 2.45
3040 3240 7.467811 GCTCAAGAAACCACACATTCCTATATG 60.468 40.741 0.00 0.00 0.00 1.78
3041 3241 6.543831 GCTCAAGAAACCACACATTCCTATAT 59.456 38.462 0.00 0.00 0.00 0.86
3042 3242 5.880332 GCTCAAGAAACCACACATTCCTATA 59.120 40.000 0.00 0.00 0.00 1.31
3044 3244 4.072131 GCTCAAGAAACCACACATTCCTA 58.928 43.478 0.00 0.00 0.00 2.94
3081 3285 5.418209 GGAGAAGCAAGTACAGTAAGTAGGA 59.582 44.000 0.00 0.00 32.19 2.94
3259 3463 8.314751 CGGGATAAATTCACTATGACTCCTAAT 58.685 37.037 0.00 0.00 0.00 1.73
3260 3464 7.667557 CGGGATAAATTCACTATGACTCCTAA 58.332 38.462 0.00 0.00 0.00 2.69
3261 3465 6.295123 GCGGGATAAATTCACTATGACTCCTA 60.295 42.308 0.00 0.00 0.00 2.94
3262 3466 5.511545 GCGGGATAAATTCACTATGACTCCT 60.512 44.000 0.00 0.00 0.00 3.69
3395 3614 5.713861 AGAAAGAGCTGCCATAAGAAAATGT 59.286 36.000 0.00 0.00 0.00 2.71
3426 3645 9.712305 ATTTCCTTATCTGACTTGGTATAATCG 57.288 33.333 0.00 0.00 0.00 3.34
3818 4059 4.158025 CCTCGGCGATCCTATTTATACAGT 59.842 45.833 11.27 0.00 0.00 3.55
3868 4112 0.884704 TTGCCAGCGACCAGAAGAAC 60.885 55.000 0.00 0.00 0.00 3.01
3909 4153 7.498239 GGAAAGCCTACTGGTAATTTACTTAGG 59.502 40.741 16.85 16.85 35.27 2.69
3977 4223 6.411630 TTTATTCGTGTATTTTCACCCTCG 57.588 37.500 0.00 0.00 35.18 4.63
4023 4270 6.533367 TGATGTTGCTTTTGGTTAAACTTCAC 59.467 34.615 0.00 0.00 32.95 3.18
4085 4332 2.784682 AGGGAGGAGTGGTAGGTACTAG 59.215 54.545 0.00 0.00 44.14 2.57
4087 4334 1.570024 GAGGGAGGAGTGGTAGGTACT 59.430 57.143 0.00 0.00 46.37 2.73
4088 4335 1.411359 GGAGGGAGGAGTGGTAGGTAC 60.411 61.905 0.00 0.00 0.00 3.34
4089 4336 0.932211 GGAGGGAGGAGTGGTAGGTA 59.068 60.000 0.00 0.00 0.00 3.08
4090 4337 1.704704 GGAGGGAGGAGTGGTAGGT 59.295 63.158 0.00 0.00 0.00 3.08
4092 4339 0.042731 TTGGGAGGGAGGAGTGGTAG 59.957 60.000 0.00 0.00 0.00 3.18
4103 4352 2.358737 GTCGCACACTTGGGAGGG 60.359 66.667 0.00 0.00 44.80 4.30
4106 4355 3.858868 GAGCGTCGCACACTTGGGA 62.859 63.158 21.09 0.00 42.15 4.37
4117 4366 2.293677 AGTAGGATGTAATGGAGCGTCG 59.706 50.000 0.00 0.00 0.00 5.12
4129 4378 1.688627 GGAACGGAGGGAGTAGGATGT 60.689 57.143 0.00 0.00 0.00 3.06
4135 4384 4.355549 TCTATTTTGGAACGGAGGGAGTA 58.644 43.478 0.00 0.00 0.00 2.59
4136 4385 3.178865 TCTATTTTGGAACGGAGGGAGT 58.821 45.455 0.00 0.00 0.00 3.85
4137 4386 3.906720 TCTATTTTGGAACGGAGGGAG 57.093 47.619 0.00 0.00 0.00 4.30
4138 4387 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
4139 4388 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
4140 4389 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
4141 4390 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
4142 4391 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
4143 4392 5.643777 AGTTGAGTCATCTATTTTGGAACGG 59.356 40.000 1.70 0.00 0.00 4.44
4144 4393 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
4187 4436 9.793259 TCAGTTTCAAAATAGATGACCTAACTT 57.207 29.630 0.00 0.00 28.10 2.66
4188 4437 9.442047 CTCAGTTTCAAAATAGATGACCTAACT 57.558 33.333 0.00 0.00 29.76 2.24
4189 4438 8.669243 CCTCAGTTTCAAAATAGATGACCTAAC 58.331 37.037 0.00 0.00 0.00 2.34
4190 4439 7.829211 CCCTCAGTTTCAAAATAGATGACCTAA 59.171 37.037 0.00 0.00 0.00 2.69
4191 4440 7.182026 TCCCTCAGTTTCAAAATAGATGACCTA 59.818 37.037 0.00 0.00 0.00 3.08
4192 4441 6.012508 TCCCTCAGTTTCAAAATAGATGACCT 60.013 38.462 0.00 0.00 0.00 3.85
4193 4442 6.180472 TCCCTCAGTTTCAAAATAGATGACC 58.820 40.000 0.00 0.00 0.00 4.02
4194 4443 6.881602 ACTCCCTCAGTTTCAAAATAGATGAC 59.118 38.462 0.00 0.00 26.56 3.06
4195 4444 7.020827 ACTCCCTCAGTTTCAAAATAGATGA 57.979 36.000 0.00 0.00 26.56 2.92
4196 4445 8.260818 TCTACTCCCTCAGTTTCAAAATAGATG 58.739 37.037 0.00 0.00 36.43 2.90
4197 4446 8.380742 TCTACTCCCTCAGTTTCAAAATAGAT 57.619 34.615 0.00 0.00 36.43 1.98
4198 4447 7.792364 TCTACTCCCTCAGTTTCAAAATAGA 57.208 36.000 0.00 0.00 36.43 1.98
4199 4448 7.011857 GCATCTACTCCCTCAGTTTCAAAATAG 59.988 40.741 0.00 0.00 36.43 1.73
4200 4449 6.823689 GCATCTACTCCCTCAGTTTCAAAATA 59.176 38.462 0.00 0.00 36.43 1.40
4201 4450 5.649831 GCATCTACTCCCTCAGTTTCAAAAT 59.350 40.000 0.00 0.00 36.43 1.82
4202 4451 5.003804 GCATCTACTCCCTCAGTTTCAAAA 58.996 41.667 0.00 0.00 36.43 2.44
4203 4452 4.565652 GGCATCTACTCCCTCAGTTTCAAA 60.566 45.833 0.00 0.00 36.43 2.69
4204 4453 3.055094 GGCATCTACTCCCTCAGTTTCAA 60.055 47.826 0.00 0.00 36.43 2.69
4205 4454 2.501723 GGCATCTACTCCCTCAGTTTCA 59.498 50.000 0.00 0.00 36.43 2.69
4206 4455 2.501723 TGGCATCTACTCCCTCAGTTTC 59.498 50.000 0.00 0.00 36.43 2.78
4207 4456 2.551270 TGGCATCTACTCCCTCAGTTT 58.449 47.619 0.00 0.00 36.43 2.66
4208 4457 2.254152 TGGCATCTACTCCCTCAGTT 57.746 50.000 0.00 0.00 36.43 3.16
4209 4458 2.114616 CTTGGCATCTACTCCCTCAGT 58.885 52.381 0.00 0.00 39.41 3.41
4210 4459 2.392662 TCTTGGCATCTACTCCCTCAG 58.607 52.381 0.00 0.00 0.00 3.35
4211 4460 2.550277 TCTTGGCATCTACTCCCTCA 57.450 50.000 0.00 0.00 0.00 3.86
4212 4461 3.238597 AGATCTTGGCATCTACTCCCTC 58.761 50.000 0.00 0.00 30.84 4.30
4213 4462 3.238597 GAGATCTTGGCATCTACTCCCT 58.761 50.000 0.00 0.00 32.94 4.20
4214 4463 2.301583 GGAGATCTTGGCATCTACTCCC 59.698 54.545 15.51 0.07 37.17 4.30
4215 4464 2.029470 CGGAGATCTTGGCATCTACTCC 60.029 54.545 16.07 16.07 38.99 3.85
4216 4465 2.625790 ACGGAGATCTTGGCATCTACTC 59.374 50.000 0.00 0.00 32.06 2.59
4217 4466 2.625790 GACGGAGATCTTGGCATCTACT 59.374 50.000 0.00 0.00 32.06 2.57
4218 4467 2.288518 GGACGGAGATCTTGGCATCTAC 60.289 54.545 0.00 0.00 32.94 2.59
4234 4483 4.021632 AGACATATGAGATGATGTGGACGG 60.022 45.833 10.38 0.00 36.42 4.79
4237 4486 6.724905 AGATGAGACATATGAGATGATGTGGA 59.275 38.462 10.38 0.00 36.42 4.02
4240 4489 6.070710 CCCAGATGAGACATATGAGATGATGT 60.071 42.308 10.38 0.00 38.99 3.06
4242 4491 6.024247 ACCCAGATGAGACATATGAGATGAT 58.976 40.000 10.38 0.00 0.00 2.45
4250 4499 4.761086 AGATGGACCCAGATGAGACATAT 58.239 43.478 0.00 0.00 0.00 1.78
4251 4500 4.204792 AGATGGACCCAGATGAGACATA 57.795 45.455 0.00 0.00 0.00 2.29
4253 4502 2.502947 CAAGATGGACCCAGATGAGACA 59.497 50.000 0.00 0.00 0.00 3.41
4254 4503 2.503356 ACAAGATGGACCCAGATGAGAC 59.497 50.000 0.00 0.00 0.00 3.36
4255 4504 2.768527 GACAAGATGGACCCAGATGAGA 59.231 50.000 0.00 0.00 0.00 3.27
4256 4505 2.158842 GGACAAGATGGACCCAGATGAG 60.159 54.545 0.00 0.00 0.00 2.90
4257 4506 1.839994 GGACAAGATGGACCCAGATGA 59.160 52.381 0.00 0.00 0.00 2.92
4258 4507 1.561076 TGGACAAGATGGACCCAGATG 59.439 52.381 0.00 0.00 0.00 2.90
4259 4508 1.561542 GTGGACAAGATGGACCCAGAT 59.438 52.381 0.00 0.00 0.00 2.90
4260 4509 0.984230 GTGGACAAGATGGACCCAGA 59.016 55.000 0.00 0.00 0.00 3.86
4261 4510 0.692476 TGTGGACAAGATGGACCCAG 59.308 55.000 0.00 0.00 0.00 4.45
4263 4512 1.281867 TGATGTGGACAAGATGGACCC 59.718 52.381 0.00 0.00 0.00 4.46
4264 4513 2.787473 TGATGTGGACAAGATGGACC 57.213 50.000 0.00 0.00 0.00 4.46
4265 4514 4.125703 GAGATGATGTGGACAAGATGGAC 58.874 47.826 0.00 0.00 0.00 4.02
4267 4516 4.146745 TGAGATGATGTGGACAAGATGG 57.853 45.455 0.00 0.00 0.00 3.51
4268 4517 9.315525 GATATATGAGATGATGTGGACAAGATG 57.684 37.037 0.00 0.00 0.00 2.90
4269 4518 9.269494 AGATATATGAGATGATGTGGACAAGAT 57.731 33.333 0.00 0.00 0.00 2.40
4270 4519 8.661752 AGATATATGAGATGATGTGGACAAGA 57.338 34.615 0.00 0.00 0.00 3.02
4271 4520 8.529476 TGAGATATATGAGATGATGTGGACAAG 58.471 37.037 0.00 0.00 0.00 3.16
4272 4521 8.426569 TGAGATATATGAGATGATGTGGACAA 57.573 34.615 0.00 0.00 0.00 3.18
4273 4522 8.605325 ATGAGATATATGAGATGATGTGGACA 57.395 34.615 0.00 0.00 0.00 4.02
4274 4523 8.916062 AGATGAGATATATGAGATGATGTGGAC 58.084 37.037 0.00 0.00 0.00 4.02
4275 4524 8.915036 CAGATGAGATATATGAGATGATGTGGA 58.085 37.037 0.00 0.00 0.00 4.02
4276 4525 8.145122 CCAGATGAGATATATGAGATGATGTGG 58.855 40.741 0.00 0.00 0.00 4.17
4277 4526 8.145122 CCCAGATGAGATATATGAGATGATGTG 58.855 40.741 0.00 0.00 0.00 3.21
4278 4527 7.845289 ACCCAGATGAGATATATGAGATGATGT 59.155 37.037 0.00 0.00 0.00 3.06
4279 4528 8.252624 ACCCAGATGAGATATATGAGATGATG 57.747 38.462 0.00 0.00 0.00 3.07
4280 4529 7.510001 GGACCCAGATGAGATATATGAGATGAT 59.490 40.741 0.00 0.00 0.00 2.45
4281 4530 6.838090 GGACCCAGATGAGATATATGAGATGA 59.162 42.308 0.00 0.00 0.00 2.92
4282 4531 6.610425 TGGACCCAGATGAGATATATGAGATG 59.390 42.308 0.00 0.00 0.00 2.90
4283 4532 6.750009 TGGACCCAGATGAGATATATGAGAT 58.250 40.000 0.00 0.00 0.00 2.75
4284 4533 6.157862 TGGACCCAGATGAGATATATGAGA 57.842 41.667 0.00 0.00 0.00 3.27
4285 4534 6.840181 AGATGGACCCAGATGAGATATATGAG 59.160 42.308 0.00 0.00 0.00 2.90
4286 4535 6.750009 AGATGGACCCAGATGAGATATATGA 58.250 40.000 0.00 0.00 0.00 2.15
4287 4536 7.434927 AAGATGGACCCAGATGAGATATATG 57.565 40.000 0.00 0.00 0.00 1.78
4299 4548 5.500234 TCAACTGATTAAAGATGGACCCAG 58.500 41.667 0.00 0.00 0.00 4.45
4303 4552 7.772757 AGGAGAATCAACTGATTAAAGATGGAC 59.227 37.037 4.94 0.00 44.14 4.02
4305 4554 7.042187 CGAGGAGAATCAACTGATTAAAGATGG 60.042 40.741 4.94 0.00 44.14 3.51
4351 4600 4.560128 TGTTTCTTCTCGATGAGAACCAG 58.440 43.478 5.19 0.00 42.78 4.00
4372 4621 1.872234 CGACACGGGTCAGCGTATG 60.872 63.158 19.62 0.00 44.54 2.39
4384 4633 1.557443 GAAGCACAAGGACCGACACG 61.557 60.000 0.00 0.00 0.00 4.49
4390 4639 3.006247 GAGAATGAGAAGCACAAGGACC 58.994 50.000 0.00 0.00 0.00 4.46
4432 4681 6.094193 AGAAAAAGCAAAAGGAGAAGATGG 57.906 37.500 0.00 0.00 0.00 3.51
4442 4691 4.672409 AGTTGACGGAGAAAAAGCAAAAG 58.328 39.130 0.00 0.00 0.00 2.27
4444 4693 3.945285 AGAGTTGACGGAGAAAAAGCAAA 59.055 39.130 0.00 0.00 0.00 3.68
4451 4700 4.510340 GCAAAGTTAGAGTTGACGGAGAAA 59.490 41.667 0.00 0.00 0.00 2.52
4458 4707 4.222114 GTGCATGCAAAGTTAGAGTTGAC 58.778 43.478 24.58 0.03 0.00 3.18
4475 4724 3.438087 GTGTCAACTCAAGCTATGTGCAT 59.562 43.478 0.00 0.00 45.94 3.96
4597 4846 3.375699 ACTTCGGAGTCTATCAATGGGT 58.624 45.455 0.00 0.00 0.00 4.51
4601 4850 4.828387 GGTCCTACTTCGGAGTCTATCAAT 59.172 45.833 0.00 0.00 37.33 2.57
4611 4860 0.115745 ACAAGGGGTCCTACTTCGGA 59.884 55.000 0.00 0.00 31.13 4.55
4614 4863 2.643304 AGGAAACAAGGGGTCCTACTTC 59.357 50.000 0.00 0.00 40.08 3.01
4624 4873 6.991938 TGATGAACATAAAAGGAAACAAGGG 58.008 36.000 0.00 0.00 0.00 3.95
4641 4890 7.344095 AGATGGGATGAAGATTTTGATGAAC 57.656 36.000 0.00 0.00 0.00 3.18
4673 4922 6.578163 GGTCATGTACCTAATCCTCTCTAC 57.422 45.833 6.98 0.00 45.75 2.59
4687 4936 3.512680 CAAAGAGACCGAGGTCATGTAC 58.487 50.000 22.66 9.36 46.76 2.90
4691 4940 1.276421 CACCAAAGAGACCGAGGTCAT 59.724 52.381 22.66 9.28 46.76 3.06
4719 4968 6.439487 TGAGAAGTAGAGGAAGAGGAATGAT 58.561 40.000 0.00 0.00 0.00 2.45
4735 4984 7.336931 GGCATTTCTCCAAAACTATGAGAAGTA 59.663 37.037 0.00 0.00 43.71 2.24


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

AutoCloner maintained by Alex Coulton.