Multiple sequence alignment - TraesCS7A01G106400

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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 TraesCS7A01G106400 chr7A 100.000 6075 0 0 1 6075 64616545 64610471 0.000000e+00 11219.0
1 TraesCS7A01G106400 chr7D 92.597 4539 208 56 793 5255 60288457 60283971 0.000000e+00 6403.0
2 TraesCS7A01G106400 chr7D 89.053 813 52 22 1 792 60289352 60288556 0.000000e+00 974.0
3 TraesCS7A01G106400 chr7D 90.179 672 38 14 5248 5899 60282726 60282063 0.000000e+00 850.0
4 TraesCS7A01G106400 chr7D 95.187 187 8 1 5890 6075 60281297 60281111 1.660000e-75 294.0
5 TraesCS7A01G106400 chr7D 86.614 127 10 4 1757 1881 188579141 188579262 3.820000e-27 134.0
6 TraesCS7A01G106400 chr7B 90.676 2499 164 36 2868 5319 2789158 2786682 0.000000e+00 3260.0
7 TraesCS7A01G106400 chr7B 90.835 1604 91 18 1260 2840 2790718 2789148 0.000000e+00 2097.0
8 TraesCS7A01G106400 chr7B 90.423 710 48 12 1 691 2792236 2791528 0.000000e+00 917.0
9 TraesCS7A01G106400 chr7B 95.833 360 10 3 851 1209 2791409 2791054 1.470000e-160 577.0
10 TraesCS7A01G106400 chr7B 89.333 150 16 0 5426 5575 698234923 698235072 8.040000e-44 189.0
11 TraesCS7A01G106400 chr7B 88.667 150 17 0 5426 5575 637862326 637862475 3.740000e-42 183.0
12 TraesCS7A01G106400 chr4B 90.821 207 17 2 5844 6050 22220621 22220417 6.000000e-70 276.0
13 TraesCS7A01G106400 chr4B 92.268 194 15 0 5426 5619 22225516 22225323 6.000000e-70 276.0
14 TraesCS7A01G106400 chr4B 91.111 135 9 3 5718 5852 22223190 22223059 4.840000e-41 180.0
15 TraesCS7A01G106400 chr1A 90.667 150 14 0 5426 5575 547394413 547394562 3.710000e-47 200.0
16 TraesCS7A01G106400 chr5B 90.066 151 15 0 5425 5575 443268366 443268216 4.800000e-46 196.0
17 TraesCS7A01G106400 chr5B 89.333 150 16 0 5426 5575 377630533 377630682 8.040000e-44 189.0
18 TraesCS7A01G106400 chr5B 85.714 175 17 2 618 792 87918796 87918962 1.740000e-40 178.0
19 TraesCS7A01G106400 chr5B 88.189 127 10 1 1755 1881 643301987 643301866 4.910000e-31 147.0
20 TraesCS7A01G106400 chr2B 90.000 150 15 0 5426 5575 10619619 10619768 1.730000e-45 195.0
21 TraesCS7A01G106400 chr2A 90.000 150 15 0 5426 5575 24906541 24906392 1.730000e-45 195.0
22 TraesCS7A01G106400 chr2A 82.857 175 22 2 618 792 4035196 4035030 3.790000e-32 150.0
23 TraesCS7A01G106400 chr2D 86.857 175 15 2 618 792 106636860 106637026 8.040000e-44 189.0
24 TraesCS7A01G106400 chr3B 86.747 166 14 2 627 792 100976386 100976229 1.740000e-40 178.0
25 TraesCS7A01G106400 chr3B 85.075 134 10 6 1757 1881 136446105 136445973 1.780000e-25 128.0
26 TraesCS7A01G106400 chr5D 84.252 127 8 4 1755 1881 512301004 512300890 4.980000e-21 113.0
27 TraesCS7A01G106400 chr4D 88.889 81 9 0 5915 5995 13036778 13036698 3.870000e-17 100.0
28 TraesCS7A01G106400 chr6D 86.813 91 7 3 1784 1874 101257636 101257721 5.010000e-16 97.1
29 TraesCS7A01G106400 chr1D 93.651 63 4 0 1756 1818 301236565 301236627 1.800000e-15 95.3


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 TraesCS7A01G106400 chr7A 64610471 64616545 6074 True 11219.00 11219 100.00000 1 6075 1 chr7A.!!$R1 6074
1 TraesCS7A01G106400 chr7D 60281111 60289352 8241 True 2130.25 6403 91.75400 1 6075 4 chr7D.!!$R1 6074
2 TraesCS7A01G106400 chr7B 2786682 2792236 5554 True 1712.75 3260 91.94175 1 5319 4 chr7B.!!$R1 5318
3 TraesCS7A01G106400 chr4B 22220417 22225516 5099 True 244.00 276 91.40000 5426 6050 3 chr4B.!!$R1 624

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
923 1052 0.738412 CAAACGGTCCGCGGTAATCT 60.738 55.000 27.15 5.44 0.00 2.40 F
1299 1724 0.813821 GACTAAACCCTCGCGTAGGT 59.186 55.000 15.52 15.52 44.90 3.08 F
1724 2165 0.933097 CGGCATCCTCACTTCAATCG 59.067 55.000 0.00 0.00 0.00 3.34 F
2457 2899 1.073284 ACGCCATGGAGGTACTTTTGT 59.927 47.619 18.40 0.00 41.55 2.83 F
2459 2901 1.202348 GCCATGGAGGTACTTTTGTGC 59.798 52.381 18.40 0.00 41.55 4.57 F
2720 3166 1.204941 CTGTAAGGGAGTTGGTCCTCG 59.795 57.143 0.00 0.00 46.06 4.63 F
4442 4963 0.603707 AGGCACATCACAGGTTGTCG 60.604 55.000 0.00 0.00 0.00 4.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2288 2730 0.176680 ACAGCTATGAGGCCAGAACG 59.823 55.000 5.01 0.0 0.0 3.95 R
2425 2867 0.984109 CATGGCGTTTGCGTGAATTC 59.016 50.000 0.00 0.0 44.1 2.17 R
2545 2991 2.039746 CCTCACCACCACCTAACATGAA 59.960 50.000 0.00 0.0 0.0 2.57 R
4423 4915 0.603707 CGACAACCTGTGATGTGCCT 60.604 55.000 0.00 0.0 0.0 4.75 R
4424 4916 0.884704 ACGACAACCTGTGATGTGCC 60.885 55.000 0.00 0.0 0.0 5.01 R
4653 5185 1.265905 GCACGTAAACAACCCCTTCTG 59.734 52.381 0.00 0.0 0.0 3.02 R
5604 7414 0.031449 ACGTCAAAATTGTTGGCCCG 59.969 50.000 0.00 0.0 0.0 6.13 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
70 72 2.090999 AGTCTCCCCTAGTTGGATCTCC 60.091 54.545 0.00 0.00 38.35 3.71
74 76 1.139058 CCCCTAGTTGGATCTCCGTTG 59.861 57.143 0.00 0.00 39.43 4.10
204 206 3.181448 GGTGAACAACTACCCTCCAAAGA 60.181 47.826 0.00 0.00 0.00 2.52
245 247 2.671070 CTCCACACGCCCTTCCAT 59.329 61.111 0.00 0.00 0.00 3.41
273 275 4.115199 CCTGGGGCACACTAGGGC 62.115 72.222 0.00 0.00 0.00 5.19
292 294 2.748513 GCGTGTGGGCCCCCTATTA 61.749 63.158 22.27 0.00 36.94 0.98
315 337 2.220653 CCCCCTCTCAATTTTCTGCA 57.779 50.000 0.00 0.00 0.00 4.41
332 354 2.040012 CTGCATGGCTCTATGATCCCTT 59.960 50.000 0.00 0.00 0.00 3.95
384 406 3.261250 CTCAGCCAGGATGCAGTTT 57.739 52.632 0.00 0.00 31.97 2.66
385 407 1.093159 CTCAGCCAGGATGCAGTTTC 58.907 55.000 0.00 0.00 31.97 2.78
619 647 2.746279 TGAGGAAAGAAAGTTGGCCA 57.254 45.000 0.00 0.00 0.00 5.36
622 650 1.039856 GGAAAGAAAGTTGGCCAGCA 58.960 50.000 22.64 0.00 0.00 4.41
685 713 2.288886 GCTTCGGTCAGAGTACTTGGTT 60.289 50.000 0.00 0.00 0.00 3.67
686 714 3.057033 GCTTCGGTCAGAGTACTTGGTTA 60.057 47.826 0.00 0.00 0.00 2.85
691 719 4.615452 CGGTCAGAGTACTTGGTTAGACAC 60.615 50.000 0.00 0.00 0.00 3.67
692 720 4.280174 GGTCAGAGTACTTGGTTAGACACA 59.720 45.833 0.00 0.00 0.00 3.72
693 721 5.462405 GTCAGAGTACTTGGTTAGACACAG 58.538 45.833 0.00 0.00 0.00 3.66
719 747 2.560284 CGATATTCGCGGAATGTGTG 57.440 50.000 6.13 0.00 33.95 3.82
720 748 2.124122 CGATATTCGCGGAATGTGTGA 58.876 47.619 6.13 0.00 33.95 3.58
721 749 2.731451 CGATATTCGCGGAATGTGTGAT 59.269 45.455 6.13 0.00 33.95 3.06
722 750 3.184379 CGATATTCGCGGAATGTGTGATT 59.816 43.478 6.13 0.00 33.95 2.57
723 751 2.830772 ATTCGCGGAATGTGTGATTG 57.169 45.000 6.13 0.00 30.42 2.67
728 756 1.535028 GCGGAATGTGTGATTGTGTGA 59.465 47.619 0.00 0.00 0.00 3.58
735 763 5.618056 ATGTGTGATTGTGTGAACATCTC 57.382 39.130 0.00 0.00 0.00 2.75
742 770 7.097192 GTGATTGTGTGAACATCTCTACCTTA 58.903 38.462 0.00 0.00 0.00 2.69
743 771 7.063544 GTGATTGTGTGAACATCTCTACCTTAC 59.936 40.741 0.00 0.00 0.00 2.34
752 780 6.215495 ACATCTCTACCTTACTTGAGAAGC 57.785 41.667 0.00 0.00 38.77 3.86
772 800 5.598416 AGCTCAAGTTTAAGCCTTGTTTT 57.402 34.783 13.51 2.61 40.15 2.43
778 806 6.262273 TCAAGTTTAAGCCTTGTTTTCGATCT 59.738 34.615 13.51 0.00 40.15 2.75
849 975 2.255252 CTTGGAAAACCAGCCGCG 59.745 61.111 0.00 0.00 0.00 6.46
904 1031 3.644399 GAGCCCCAACGAGACGTCC 62.644 68.421 13.01 2.76 39.99 4.79
923 1052 0.738412 CAAACGGTCCGCGGTAATCT 60.738 55.000 27.15 5.44 0.00 2.40
930 1059 0.828022 TCCGCGGTAATCTTCCACAT 59.172 50.000 27.15 0.00 0.00 3.21
948 1078 1.135575 CATCGCCTCCAGCAGAAAAAC 60.136 52.381 0.00 0.00 44.04 2.43
1299 1724 0.813821 GACTAAACCCTCGCGTAGGT 59.186 55.000 15.52 15.52 44.90 3.08
1331 1756 2.585247 CCCTTCGATTCGGCCGTC 60.585 66.667 27.15 15.77 0.00 4.79
1345 1770 1.298859 GCCGTCTCGTCTTTGCCATT 61.299 55.000 0.00 0.00 0.00 3.16
1420 1856 3.817647 GAGCGGCAAGATAGAATTTCCAT 59.182 43.478 1.45 0.00 0.00 3.41
1475 1913 3.891049 AGATTTGAGCATACCCCTGTTC 58.109 45.455 0.00 0.00 0.00 3.18
1490 1928 3.126831 CCTGTTCTTCTGATGCCGTATC 58.873 50.000 0.00 0.00 36.29 2.24
1580 2018 5.600908 TGGCTTCGTTAAATGTGAGTTAC 57.399 39.130 0.00 0.00 0.00 2.50
1636 2077 4.092091 GCTTGTCCTGTGTAGAATTTCTCG 59.908 45.833 1.27 0.00 0.00 4.04
1664 2105 7.175467 TGCTAATGTGGATATGAATTTAGGCAG 59.825 37.037 0.00 0.00 0.00 4.85
1667 2108 6.252599 TGTGGATATGAATTTAGGCAGAGT 57.747 37.500 0.00 0.00 0.00 3.24
1716 2157 3.499737 CGTTGCCGGCATCCTCAC 61.500 66.667 33.25 23.77 0.00 3.51
1724 2165 0.933097 CGGCATCCTCACTTCAATCG 59.067 55.000 0.00 0.00 0.00 3.34
1940 2381 7.147707 CCAGGGTAGTAGCTTTAGTCACTATTT 60.148 40.741 0.00 0.00 0.00 1.40
1995 2436 4.095782 GTCTGTTGTGTAAAAGGTGCTTGA 59.904 41.667 0.00 0.00 0.00 3.02
2001 2442 4.142071 TGTGTAAAAGGTGCTTGATTTGCA 60.142 37.500 0.00 0.00 38.19 4.08
2004 2445 2.642139 AAGGTGCTTGATTTGCATCG 57.358 45.000 0.00 0.00 45.35 3.84
2005 2446 1.825090 AGGTGCTTGATTTGCATCGA 58.175 45.000 0.00 0.00 45.35 3.59
2057 2498 4.222810 TGCCACTTCACAGTAGTACATCAT 59.777 41.667 2.52 0.00 0.00 2.45
2229 2671 5.819379 ACACATGCCTCTGATGTATAAAGTG 59.181 40.000 0.00 0.00 32.64 3.16
2236 2678 7.093814 TGCCTCTGATGTATAAAGTGCATTTTT 60.094 33.333 12.75 8.28 32.93 1.94
2275 2717 5.420409 AGAAAGAAATTACCTACTCCTGCG 58.580 41.667 0.00 0.00 0.00 5.18
2288 2730 3.851098 ACTCCTGCGTCAGAAATCTTAC 58.149 45.455 8.20 0.00 32.44 2.34
2371 2813 4.526262 TGACATTGTGTTCCATTTTAGGGG 59.474 41.667 0.00 0.00 0.00 4.79
2425 2867 2.537625 GCACATTGAGCTAGCTAAGTCG 59.462 50.000 19.38 8.11 0.00 4.18
2456 2898 1.821216 ACGCCATGGAGGTACTTTTG 58.179 50.000 18.40 0.00 41.55 2.44
2457 2899 1.073284 ACGCCATGGAGGTACTTTTGT 59.927 47.619 18.40 0.00 41.55 2.83
2458 2900 1.468520 CGCCATGGAGGTACTTTTGTG 59.531 52.381 18.40 0.00 41.55 3.33
2459 2901 1.202348 GCCATGGAGGTACTTTTGTGC 59.798 52.381 18.40 0.00 41.55 4.57
2460 2902 2.513753 CCATGGAGGTACTTTTGTGCA 58.486 47.619 5.56 0.00 41.55 4.57
2461 2903 2.228822 CCATGGAGGTACTTTTGTGCAC 59.771 50.000 10.75 10.75 41.55 4.57
2462 2904 3.149196 CATGGAGGTACTTTTGTGCACT 58.851 45.455 19.41 0.00 41.55 4.40
2463 2905 4.323417 CATGGAGGTACTTTTGTGCACTA 58.677 43.478 19.41 7.83 41.55 2.74
2464 2906 3.735591 TGGAGGTACTTTTGTGCACTAC 58.264 45.455 19.41 11.27 41.55 2.73
2507 2953 4.260985 CCAGTTTCCCCAATTAAAATGCC 58.739 43.478 0.00 0.00 31.26 4.40
2523 2969 1.850377 TGCCATTGAAAACTTGCACG 58.150 45.000 0.00 0.00 0.00 5.34
2720 3166 1.204941 CTGTAAGGGAGTTGGTCCTCG 59.795 57.143 0.00 0.00 46.06 4.63
2842 3289 2.450476 ACATGGCTTCCATTCACTTCC 58.550 47.619 0.00 0.00 42.23 3.46
2939 3386 5.576404 AGTTGATTACTTCGAGGGGTACCTA 60.576 44.000 12.72 0.00 41.57 3.08
2995 3442 9.846248 GTTGATTTCATGAAATAACTAGCAAGT 57.154 29.630 29.05 7.81 40.77 3.16
3032 3479 3.243201 GCAGCAGTAAGAGTTTGCACTTT 60.243 43.478 0.00 0.00 40.22 2.66
3033 3480 4.024048 GCAGCAGTAAGAGTTTGCACTTTA 60.024 41.667 0.00 0.00 40.22 1.85
3035 3482 6.672147 CAGCAGTAAGAGTTTGCACTTTATT 58.328 36.000 0.00 0.00 40.22 1.40
3065 3512 5.469479 CATTAGGAAACAATTTTGCGGTCT 58.531 37.500 0.00 0.00 38.07 3.85
3118 3575 1.933115 GCCGGTTGCAGTATGGGTTG 61.933 60.000 1.90 0.00 40.77 3.77
3136 3593 2.134201 TGTCAACGCACTGTCACTAG 57.866 50.000 0.00 0.00 0.00 2.57
3213 3670 1.206878 CAGGGTGGATCTGATGGACA 58.793 55.000 0.00 0.00 34.36 4.02
3302 3759 6.859715 GCAGTTTGCATTACTCATAGTTTG 57.140 37.500 0.00 0.00 44.26 2.93
3370 3837 2.355108 GCCACTTCTCTTATGTCTGCCA 60.355 50.000 0.00 0.00 0.00 4.92
3478 3945 5.172053 GCGTTCTTCTTCAAATGTGAGTTTG 59.828 40.000 0.00 0.00 39.78 2.93
3479 3946 6.258160 CGTTCTTCTTCAAATGTGAGTTTGT 58.742 36.000 0.00 0.00 39.50 2.83
3480 3947 6.195244 CGTTCTTCTTCAAATGTGAGTTTGTG 59.805 38.462 0.00 0.00 39.50 3.33
3481 3948 6.757897 TCTTCTTCAAATGTGAGTTTGTGT 57.242 33.333 0.00 0.00 39.50 3.72
3483 3950 8.275015 TCTTCTTCAAATGTGAGTTTGTGTTA 57.725 30.769 0.00 0.00 39.50 2.41
3484 3951 8.902806 TCTTCTTCAAATGTGAGTTTGTGTTAT 58.097 29.630 0.00 0.00 39.50 1.89
3485 3952 8.854979 TTCTTCAAATGTGAGTTTGTGTTATG 57.145 30.769 0.00 0.00 39.50 1.90
3653 4121 8.453320 TGTGTTCATGCTCATATTTCTGTTTAG 58.547 33.333 0.00 0.00 0.00 1.85
3657 4125 6.707608 TCATGCTCATATTTCTGTTTAGCGAT 59.292 34.615 0.00 0.00 0.00 4.58
3683 4151 4.640771 AGAAGAGGCTGACCAAATTACA 57.359 40.909 0.00 0.00 39.06 2.41
3695 4163 7.043961 TGACCAAATTACACTTGCAATGTAA 57.956 32.000 24.01 24.01 44.42 2.41
3732 4200 6.451064 TGAAGAATCATGTAGTAGCTCGAA 57.549 37.500 0.00 0.00 0.00 3.71
3932 4402 4.734398 TTGGAATTTTGAAGTGTGCAGT 57.266 36.364 0.00 0.00 0.00 4.40
3974 4446 6.040729 TGGATGCATATCAATTTGTAACCCTG 59.959 38.462 0.00 0.00 34.90 4.45
4007 4479 3.640498 TGATTTTCCCATGCAGTGTTTCA 59.360 39.130 0.00 0.00 0.00 2.69
4009 4481 2.064434 TTCCCATGCAGTGTTTCACA 57.936 45.000 0.00 0.00 36.74 3.58
4015 4487 4.218200 CCCATGCAGTGTTTCACATTCTTA 59.782 41.667 0.00 0.00 36.74 2.10
4017 4489 6.095300 CCCATGCAGTGTTTCACATTCTTATA 59.905 38.462 0.00 0.00 36.74 0.98
4018 4490 7.362834 CCCATGCAGTGTTTCACATTCTTATAA 60.363 37.037 0.00 0.00 36.74 0.98
4019 4491 8.192774 CCATGCAGTGTTTCACATTCTTATAAT 58.807 33.333 0.00 0.00 36.74 1.28
4315 4806 8.389603 TCTACCTTTGTTGTTTACGTTTTAGTG 58.610 33.333 0.00 0.00 0.00 2.74
4399 4891 7.933215 ATTAAAATATACGACCAATAGGGCC 57.067 36.000 0.00 0.00 41.31 5.80
4400 4892 5.578157 AAAATATACGACCAATAGGGCCT 57.422 39.130 12.58 12.58 41.31 5.19
4401 4893 5.578157 AAATATACGACCAATAGGGCCTT 57.422 39.130 13.45 0.00 41.31 4.35
4402 4894 5.578157 AATATACGACCAATAGGGCCTTT 57.422 39.130 13.45 0.00 41.31 3.11
4403 4895 3.945640 ATACGACCAATAGGGCCTTTT 57.054 42.857 13.45 7.57 41.31 2.27
4404 4896 1.834188 ACGACCAATAGGGCCTTTTG 58.166 50.000 24.68 24.68 41.31 2.44
4405 4897 1.353022 ACGACCAATAGGGCCTTTTGA 59.647 47.619 30.74 7.26 41.31 2.69
4406 4898 2.017049 CGACCAATAGGGCCTTTTGAG 58.983 52.381 30.74 23.33 41.31 3.02
4407 4899 2.618045 CGACCAATAGGGCCTTTTGAGT 60.618 50.000 30.74 25.66 41.31 3.41
4408 4900 3.370103 CGACCAATAGGGCCTTTTGAGTA 60.370 47.826 30.74 5.33 41.31 2.59
4409 4901 4.595986 GACCAATAGGGCCTTTTGAGTAA 58.404 43.478 30.74 4.55 42.05 2.24
4410 4902 5.005628 ACCAATAGGGCCTTTTGAGTAAA 57.994 39.130 30.74 3.80 42.05 2.01
4411 4903 5.589831 ACCAATAGGGCCTTTTGAGTAAAT 58.410 37.500 30.74 6.09 42.05 1.40
4412 4904 6.737608 ACCAATAGGGCCTTTTGAGTAAATA 58.262 36.000 30.74 2.50 42.05 1.40
4413 4905 7.362234 ACCAATAGGGCCTTTTGAGTAAATAT 58.638 34.615 30.74 4.85 42.05 1.28
4414 4906 8.507761 ACCAATAGGGCCTTTTGAGTAAATATA 58.492 33.333 30.74 1.83 42.05 0.86
4415 4907 9.533831 CCAATAGGGCCTTTTGAGTAAATATAT 57.466 33.333 30.74 4.22 0.00 0.86
4418 4910 9.740710 ATAGGGCCTTTTGAGTAAATATATGAC 57.259 33.333 13.45 0.00 0.00 3.06
4419 4911 7.004691 AGGGCCTTTTGAGTAAATATATGACC 58.995 38.462 0.00 0.00 0.00 4.02
4420 4912 6.775629 GGGCCTTTTGAGTAAATATATGACCA 59.224 38.462 0.84 0.00 0.00 4.02
4421 4913 7.286775 GGGCCTTTTGAGTAAATATATGACCAA 59.713 37.037 0.84 0.00 0.00 3.67
4422 4914 8.860088 GGCCTTTTGAGTAAATATATGACCAAT 58.140 33.333 0.00 0.00 0.00 3.16
4442 4963 0.603707 AGGCACATCACAGGTTGTCG 60.604 55.000 0.00 0.00 0.00 4.35
4489 5020 7.719778 ACTTACTAACAAGTTTAGGTTTCCG 57.280 36.000 0.00 0.00 35.16 4.30
4490 5021 6.707608 ACTTACTAACAAGTTTAGGTTTCCGG 59.292 38.462 0.00 0.00 35.16 5.14
4493 5024 3.564053 ACAAGTTTAGGTTTCCGGACA 57.436 42.857 1.83 0.00 0.00 4.02
4512 5043 5.286797 CGGACATTTGCATTTGTTAGTGATG 59.713 40.000 3.81 0.00 0.00 3.07
4529 5060 9.056005 GTTAGTGATGTAGAATTGGCATAATCA 57.944 33.333 0.00 0.00 0.00 2.57
4653 5185 5.388475 CGGTGTATATTAGCGCTTCATGTTC 60.388 44.000 18.68 5.50 32.09 3.18
4678 5210 1.400500 GGGGTTGTTTACGTGCATTCG 60.400 52.381 0.00 0.00 0.00 3.34
4696 5228 8.012241 GTGCATTCGGAAAATACATCTAGAATC 58.988 37.037 0.00 0.00 0.00 2.52
4762 5294 3.515602 ACTTTTCTGAGACATGGCCTT 57.484 42.857 3.32 0.00 0.00 4.35
4766 5298 6.012745 ACTTTTCTGAGACATGGCCTTATTT 58.987 36.000 3.32 0.00 0.00 1.40
4780 5312 4.518970 GGCCTTATTTTGCAGGATATCGAA 59.481 41.667 0.00 0.00 30.81 3.71
4834 5366 1.550976 ACCATCCTGTCTTCTTCCGAC 59.449 52.381 0.00 0.00 0.00 4.79
4888 5420 4.098349 TCTTTTGCTGTTCAAGACATTGCT 59.902 37.500 0.00 0.00 37.69 3.91
5119 5655 2.611225 GGAGTGACTCCCAAGCTATG 57.389 55.000 20.95 0.00 44.36 2.23
5121 5657 2.501723 GGAGTGACTCCCAAGCTATGAA 59.498 50.000 20.95 0.00 44.36 2.57
5150 5687 3.016031 CACCTGCACATGTAATTGCCTA 58.984 45.455 0.00 0.00 38.00 3.93
5201 5743 9.136952 GTTTGTACTCTTTATCGAAGTACATGT 57.863 33.333 21.56 2.69 42.89 3.21
5316 7110 6.070881 GCAGGAATAGTATCTCAGATGATGGT 60.071 42.308 0.00 0.00 0.00 3.55
5333 7127 9.247861 AGATGATGGTATAGTTTTGAGCTTTTT 57.752 29.630 0.00 0.00 0.00 1.94
5378 7188 0.259065 TCCCTACTGCGATCCTGACT 59.741 55.000 0.00 0.00 0.00 3.41
5386 7196 0.389948 GCGATCCTGACTGTTTCGGT 60.390 55.000 0.00 0.00 0.00 4.69
5392 7202 2.940410 TCCTGACTGTTTCGGTGAAAAC 59.060 45.455 0.00 0.00 39.16 2.43
5437 7247 5.201713 TCTTAATCTATGGTCGAAGCTGG 57.798 43.478 0.00 0.00 0.00 4.85
5445 7255 1.817099 GTCGAAGCTGGCCATCTGG 60.817 63.158 10.48 5.73 38.53 3.86
5555 7365 9.703892 ACTTAAGCAGTCTGATATAATAAGCAG 57.296 33.333 3.32 0.00 0.00 4.24
5604 7414 1.506262 CAACACATGCTAACGGGCC 59.494 57.895 0.00 0.00 0.00 5.80
5607 7417 4.483243 ACATGCTAACGGGCCGGG 62.483 66.667 31.78 19.95 0.00 5.73
5666 7476 0.612732 ACATGACCCAACTGCCATGG 60.613 55.000 7.63 7.63 40.32 3.66
5691 9307 5.292589 AGCATTGCTCAGAAAACAAAAACAG 59.707 36.000 5.03 0.00 30.62 3.16
5711 9327 2.816087 AGAAAACACTGCGATGAAGCAT 59.184 40.909 0.00 0.00 46.97 3.79
5712 9328 2.624316 AAACACTGCGATGAAGCATG 57.376 45.000 0.00 0.00 46.97 4.06
5713 9329 0.806868 AACACTGCGATGAAGCATGG 59.193 50.000 0.00 0.00 46.97 3.66
5809 9653 8.767478 AAAAATCATGATTAAGCACAAAGGAG 57.233 30.769 21.00 0.00 0.00 3.69
5879 12172 5.108385 ACCATAGAAAAAGCAGAACAACG 57.892 39.130 0.00 0.00 0.00 4.10
5881 12174 5.067283 ACCATAGAAAAAGCAGAACAACGTT 59.933 36.000 0.00 0.00 0.00 3.99
5883 12176 6.577427 CCATAGAAAAAGCAGAACAACGTTAC 59.423 38.462 0.00 0.00 0.00 2.50
5884 12177 5.554822 AGAAAAAGCAGAACAACGTTACA 57.445 34.783 0.00 0.00 0.00 2.41
5885 12178 5.945155 AGAAAAAGCAGAACAACGTTACAA 58.055 33.333 0.00 0.00 0.00 2.41
5886 12179 6.383415 AGAAAAAGCAGAACAACGTTACAAA 58.617 32.000 0.00 0.00 0.00 2.83
5899 12968 7.645402 ACAACGTTACAAAATAGAGGAAAAGG 58.355 34.615 0.00 0.00 0.00 3.11
5953 13022 2.159142 CCCTGATTTGATTTGAGCTGGC 60.159 50.000 0.00 0.00 0.00 4.85
5958 13027 3.665745 TTTGATTTGAGCTGGCTTTCC 57.334 42.857 0.00 0.00 0.00 3.13
5959 13028 1.549203 TGATTTGAGCTGGCTTTCCC 58.451 50.000 0.00 0.00 0.00 3.97
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
70 72 8.612619 AGATACATAAAATACTCCTTTGCAACG 58.387 33.333 0.00 0.00 0.00 4.10
164 166 8.239038 TGTTCACCCAAGTTATCAAAATGTAA 57.761 30.769 0.00 0.00 0.00 2.41
315 337 4.353191 ACATTGAAGGGATCATAGAGCCAT 59.647 41.667 3.53 0.00 40.28 4.40
372 394 7.741027 ATATGTATTGAGAAACTGCATCCTG 57.259 36.000 0.00 0.00 0.00 3.86
536 562 4.431809 TGCACACAACCAAAATCTTGAAG 58.568 39.130 0.00 0.00 34.14 3.02
581 608 3.132160 TCAAAGAAAACGGTGCGACATA 58.868 40.909 0.00 0.00 0.00 2.29
582 609 1.944024 TCAAAGAAAACGGTGCGACAT 59.056 42.857 0.00 0.00 0.00 3.06
619 647 1.451028 GATTCCGCTTCAGCCTGCT 60.451 57.895 0.00 0.00 37.91 4.24
622 650 0.107945 GTCAGATTCCGCTTCAGCCT 60.108 55.000 0.00 0.00 37.91 4.58
625 653 2.426738 AGAGAGTCAGATTCCGCTTCAG 59.573 50.000 0.00 0.00 0.00 3.02
685 713 1.381165 TATCGCTGCCGCTGTGTCTA 61.381 55.000 10.20 2.37 0.00 2.59
686 714 2.021068 ATATCGCTGCCGCTGTGTCT 62.021 55.000 10.20 3.19 0.00 3.41
691 719 2.849007 CGAATATCGCTGCCGCTG 59.151 61.111 0.00 0.00 31.14 5.18
708 736 1.535028 TCACACAATCACACATTCCGC 59.465 47.619 0.00 0.00 0.00 5.54
711 739 6.005583 AGATGTTCACACAATCACACATTC 57.994 37.500 0.00 0.00 36.16 2.67
715 743 5.120830 GGTAGAGATGTTCACACAATCACAC 59.879 44.000 0.00 0.00 36.16 3.82
716 744 5.012046 AGGTAGAGATGTTCACACAATCACA 59.988 40.000 0.00 0.00 36.16 3.58
717 745 5.482908 AGGTAGAGATGTTCACACAATCAC 58.517 41.667 0.00 0.00 36.16 3.06
718 746 5.745312 AGGTAGAGATGTTCACACAATCA 57.255 39.130 0.00 0.00 36.16 2.57
719 747 7.324178 AGTAAGGTAGAGATGTTCACACAATC 58.676 38.462 0.00 0.00 36.16 2.67
720 748 7.246171 AGTAAGGTAGAGATGTTCACACAAT 57.754 36.000 0.00 0.00 36.16 2.71
721 749 6.665992 AGTAAGGTAGAGATGTTCACACAA 57.334 37.500 0.00 0.00 36.16 3.33
722 750 6.266786 TCAAGTAAGGTAGAGATGTTCACACA 59.733 38.462 0.00 0.00 37.31 3.72
723 751 6.688578 TCAAGTAAGGTAGAGATGTTCACAC 58.311 40.000 0.00 0.00 0.00 3.82
728 756 6.439058 AGCTTCTCAAGTAAGGTAGAGATGTT 59.561 38.462 0.00 0.00 37.03 2.71
752 780 5.816919 TCGAAAACAAGGCTTAAACTTGAG 58.183 37.500 20.38 9.88 46.27 3.02
765 793 5.164119 GCTTGATTTGCAGATCGAAAACAAG 60.164 40.000 20.86 20.86 38.31 3.16
772 800 1.009078 CCGCTTGATTTGCAGATCGA 58.991 50.000 12.18 9.57 0.00 3.59
778 806 2.408271 AGAGATCCGCTTGATTTGCA 57.592 45.000 0.00 0.00 32.41 4.08
820 946 1.452145 TTTCCAAGACCGCTGGCAAC 61.452 55.000 0.00 0.00 0.00 4.17
849 975 1.131771 GTTTTTCAGCGCTTCTTGCC 58.868 50.000 7.50 0.00 38.78 4.52
858 984 0.953003 TTAACCCCGGTTTTTCAGCG 59.047 50.000 4.08 0.00 46.41 5.18
904 1031 0.738412 AGATTACCGCGGACCGTTTG 60.738 55.000 35.90 1.83 34.38 2.93
915 1044 1.202533 AGGCGATGTGGAAGATTACCG 60.203 52.381 0.00 0.00 0.00 4.02
923 1052 2.268920 GCTGGAGGCGATGTGGAA 59.731 61.111 0.00 0.00 0.00 3.53
930 1059 0.889186 GGTTTTTCTGCTGGAGGCGA 60.889 55.000 0.00 0.00 45.43 5.54
965 1095 4.610714 GCGGCGGAGGGGAGAATC 62.611 72.222 9.78 0.00 0.00 2.52
1249 1387 3.155167 GAGCACGGGGTAGGGGAG 61.155 72.222 0.00 0.00 0.00 4.30
1250 1388 3.680196 AGAGCACGGGGTAGGGGA 61.680 66.667 0.00 0.00 0.00 4.81
1257 1677 4.785453 GAAGGGCAGAGCACGGGG 62.785 72.222 0.00 0.00 36.86 5.73
1258 1678 4.020617 TGAAGGGCAGAGCACGGG 62.021 66.667 0.00 0.00 36.86 5.28
1331 1756 4.690748 TCAAGTCTAAATGGCAAAGACGAG 59.309 41.667 17.13 14.49 43.51 4.18
1345 1770 7.883833 ACTAGTCACATACAGAGTCAAGTCTAA 59.116 37.037 0.00 0.00 0.00 2.10
1475 1913 7.225538 ACAAGAATTAAGATACGGCATCAGAAG 59.774 37.037 2.61 0.00 35.96 2.85
1490 1928 2.872370 GCCTGCAGCACAAGAATTAAG 58.128 47.619 8.66 0.00 42.97 1.85
1517 1955 4.520111 TGATGGGTGAAGAATGACACAAAG 59.480 41.667 0.00 0.00 38.57 2.77
1580 2018 3.595691 AGGAACTTGACTCGCAGTG 57.404 52.632 0.00 0.00 27.25 3.66
1636 2077 7.575720 GCCTAAATTCATATCCACATTAGCACC 60.576 40.741 0.00 0.00 0.00 5.01
1664 2105 9.262358 CTTAGCAGGGAATTAAGTATAACACTC 57.738 37.037 0.00 0.00 36.04 3.51
1724 2165 6.868339 ACCTGCTGCTGAATTTTTAATACAAC 59.132 34.615 8.20 0.00 0.00 3.32
1867 2308 4.748277 TTATAAGGCTTGGACGCTTAGT 57.252 40.909 10.69 0.00 0.00 2.24
1956 2397 4.137116 ACAGACACTGTCAGTTTGCTAA 57.863 40.909 11.80 0.00 41.21 3.09
1959 2400 2.420022 ACAACAGACACTGTCAGTTTGC 59.580 45.455 15.29 0.00 44.62 3.68
1964 2405 5.220662 CCTTTTACACAACAGACACTGTCAG 60.221 44.000 11.80 6.01 44.62 3.51
1995 2436 7.984422 TCAATATCAACCTATCGATGCAAAT 57.016 32.000 8.54 0.00 0.00 2.32
2001 2442 9.948964 TTCATCATTCAATATCAACCTATCGAT 57.051 29.630 2.16 2.16 0.00 3.59
2057 2498 5.569355 TCCTCTTAACAATTCTCATTGGCA 58.431 37.500 0.31 0.00 43.82 4.92
2229 2671 4.920376 ACTACCGCATACATCAAAAATGC 58.080 39.130 0.00 0.00 42.02 3.56
2236 2678 6.459670 TTCTTTCTACTACCGCATACATCA 57.540 37.500 0.00 0.00 0.00 3.07
2288 2730 0.176680 ACAGCTATGAGGCCAGAACG 59.823 55.000 5.01 0.00 0.00 3.95
2371 2813 5.411669 ACCGTTATCAGGATCAAAAACAGAC 59.588 40.000 0.00 0.00 0.00 3.51
2425 2867 0.984109 CATGGCGTTTGCGTGAATTC 59.016 50.000 0.00 0.00 44.10 2.17
2463 2905 9.686683 ACTGGTATGATTAAGAAAATTAGCAGT 57.313 29.630 6.17 6.17 38.43 4.40
2485 2931 4.260985 GGCATTTTAATTGGGGAAACTGG 58.739 43.478 0.00 0.00 0.00 4.00
2507 2953 1.850377 TGGCGTGCAAGTTTTCAATG 58.150 45.000 0.59 0.00 0.00 2.82
2545 2991 2.039746 CCTCACCACCACCTAACATGAA 59.960 50.000 0.00 0.00 0.00 2.57
2691 3137 4.499183 CAACTCCCTTACAGATGTGAGAC 58.501 47.826 6.34 0.00 33.98 3.36
2720 3166 2.478831 GCTTGCTAGCTATGTGGAGTC 58.521 52.381 17.23 0.00 44.27 3.36
2874 3321 3.817084 CACTCAAATTGTGCTCCTCAAGA 59.183 43.478 0.00 0.00 0.00 3.02
2995 3442 2.684374 CTGCTGCTAACATGCCAATACA 59.316 45.455 0.00 0.00 0.00 2.29
3032 3479 4.338795 TGTTTCCTAATGGGGGCAAATA 57.661 40.909 0.00 0.00 35.33 1.40
3033 3480 3.197927 TGTTTCCTAATGGGGGCAAAT 57.802 42.857 0.00 0.00 35.33 2.32
3035 3482 2.704190 TTGTTTCCTAATGGGGGCAA 57.296 45.000 0.00 0.00 35.33 4.52
3065 3512 2.950975 ACATGTGTGTGCAAAGTCATCA 59.049 40.909 0.00 0.00 37.14 3.07
3118 3575 2.417339 TCTAGTGACAGTGCGTTGAC 57.583 50.000 0.00 0.00 0.00 3.18
3129 3586 7.283580 AGGTGAGATACACTATGTTCTAGTGAC 59.716 40.741 16.91 9.05 45.69 3.67
3213 3670 9.135189 TGGAATTATCATTTTCTTCATCCGATT 57.865 29.630 0.00 0.00 0.00 3.34
3311 3768 9.995003 AGTGTTGAATGCCAAATTAAGAAATAA 57.005 25.926 0.00 0.00 36.36 1.40
3356 3823 3.441222 TGCACAATTGGCAGACATAAGAG 59.559 43.478 15.03 0.00 36.11 2.85
3370 3837 5.795972 TCATCAACAAATCCATGCACAATT 58.204 33.333 0.00 0.00 0.00 2.32
3478 3945 4.455533 TGTGATGAAGTGAAGCCATAACAC 59.544 41.667 0.00 0.00 29.25 3.32
3479 3946 4.455533 GTGTGATGAAGTGAAGCCATAACA 59.544 41.667 0.00 0.00 31.18 2.41
3480 3947 4.697352 AGTGTGATGAAGTGAAGCCATAAC 59.303 41.667 0.00 0.00 0.00 1.89
3481 3948 4.910195 AGTGTGATGAAGTGAAGCCATAA 58.090 39.130 0.00 0.00 0.00 1.90
3483 3950 3.430042 AGTGTGATGAAGTGAAGCCAT 57.570 42.857 0.00 0.00 0.00 4.40
3484 3951 2.936919 AGTGTGATGAAGTGAAGCCA 57.063 45.000 0.00 0.00 0.00 4.75
3485 3952 3.565482 TCAAAGTGTGATGAAGTGAAGCC 59.435 43.478 0.00 0.00 0.00 4.35
3526 3994 5.524971 ACTGCCGCAGTGTATATTAGTTA 57.475 39.130 25.18 0.00 43.63 2.24
3567 4035 5.450592 TGCTACAAAAACATGCAGAATCA 57.549 34.783 0.00 0.00 0.00 2.57
3568 4036 6.327177 CATGCTACAAAAACATGCAGAATC 57.673 37.500 0.00 0.00 37.07 2.52
3653 4121 3.991121 GGTCAGCCTCTTCTAATAATCGC 59.009 47.826 0.00 0.00 0.00 4.58
3657 4125 8.325787 TGTAATTTGGTCAGCCTCTTCTAATAA 58.674 33.333 0.00 0.00 35.27 1.40
3695 4163 5.553123 TGATTCTTCAAGGCATGCAAAATT 58.447 33.333 21.36 5.44 0.00 1.82
3732 4200 7.062957 CACCCCTTTTCAGATTGGTAGATAAT 58.937 38.462 0.00 0.00 0.00 1.28
3928 4398 8.492748 CATCCATCATTAAAATATTGCAACTGC 58.507 33.333 0.00 0.00 42.50 4.40
3974 4446 9.252962 CTGCATGGGAAAATCAAATATACTTTC 57.747 33.333 0.00 0.00 0.00 2.62
4007 4479 8.623903 ACAATCAATGTCGCATTATAAGAATGT 58.376 29.630 5.03 5.59 37.96 2.71
4015 4487 6.054941 TCCTGTACAATCAATGTCGCATTAT 58.945 36.000 0.00 0.00 42.70 1.28
4017 4489 4.260985 TCCTGTACAATCAATGTCGCATT 58.739 39.130 0.00 0.09 42.70 3.56
4018 4490 3.872696 TCCTGTACAATCAATGTCGCAT 58.127 40.909 0.00 0.00 42.70 4.73
4019 4491 3.326836 TCCTGTACAATCAATGTCGCA 57.673 42.857 0.00 0.00 42.70 5.10
4187 4674 6.979817 TGCCAACAATAAGCAATAATCATCAC 59.020 34.615 0.00 0.00 32.56 3.06
4268 4759 7.012044 GGTAGACATACCGTAAAATCAGCAAAT 59.988 37.037 0.00 0.00 42.16 2.32
4315 4806 8.035394 TCTCTGAACAACAGGTAGAATAACATC 58.965 37.037 0.00 0.00 45.76 3.06
4333 4824 4.399004 ACCATCTGTAGCATCTCTGAAC 57.601 45.455 0.00 0.00 0.00 3.18
4386 4878 2.017049 CTCAAAAGGCCCTATTGGTCG 58.983 52.381 0.00 0.00 46.38 4.79
4396 4888 7.817418 TGGTCATATATTTACTCAAAAGGCC 57.183 36.000 0.00 0.00 0.00 5.19
4402 4894 9.502091 GTGCCTATTGGTCATATATTTACTCAA 57.498 33.333 0.00 0.00 35.27 3.02
4403 4895 8.655901 TGTGCCTATTGGTCATATATTTACTCA 58.344 33.333 0.00 0.00 35.27 3.41
4404 4896 9.672673 ATGTGCCTATTGGTCATATATTTACTC 57.327 33.333 0.00 0.00 35.27 2.59
4405 4897 9.672673 GATGTGCCTATTGGTCATATATTTACT 57.327 33.333 0.00 0.00 33.15 2.24
4406 4898 9.448438 TGATGTGCCTATTGGTCATATATTTAC 57.552 33.333 0.00 0.00 33.15 2.01
4407 4899 9.448438 GTGATGTGCCTATTGGTCATATATTTA 57.552 33.333 0.00 0.00 33.15 1.40
4408 4900 7.944000 TGTGATGTGCCTATTGGTCATATATTT 59.056 33.333 0.00 0.00 33.15 1.40
4409 4901 7.460910 TGTGATGTGCCTATTGGTCATATATT 58.539 34.615 0.00 0.00 33.15 1.28
4410 4902 7.019656 TGTGATGTGCCTATTGGTCATATAT 57.980 36.000 0.00 0.00 33.15 0.86
4411 4903 6.432403 TGTGATGTGCCTATTGGTCATATA 57.568 37.500 0.00 0.00 33.15 0.86
4412 4904 5.308976 TGTGATGTGCCTATTGGTCATAT 57.691 39.130 0.00 0.00 33.15 1.78
4413 4905 4.444733 CCTGTGATGTGCCTATTGGTCATA 60.445 45.833 0.00 0.00 33.15 2.15
4414 4906 3.548770 CTGTGATGTGCCTATTGGTCAT 58.451 45.455 5.94 5.94 34.65 3.06
4415 4907 2.356022 CCTGTGATGTGCCTATTGGTCA 60.356 50.000 0.00 0.00 35.27 4.02
4416 4908 2.292267 CCTGTGATGTGCCTATTGGTC 58.708 52.381 0.00 0.00 35.27 4.02
4417 4909 1.635487 ACCTGTGATGTGCCTATTGGT 59.365 47.619 0.00 0.00 35.27 3.67
4418 4910 2.424601 CAACCTGTGATGTGCCTATTGG 59.575 50.000 0.00 0.00 0.00 3.16
4419 4911 3.084039 ACAACCTGTGATGTGCCTATTG 58.916 45.455 0.00 0.00 0.00 1.90
4420 4912 3.347216 GACAACCTGTGATGTGCCTATT 58.653 45.455 0.00 0.00 0.00 1.73
4421 4913 2.677902 CGACAACCTGTGATGTGCCTAT 60.678 50.000 0.00 0.00 0.00 2.57
4422 4914 1.337728 CGACAACCTGTGATGTGCCTA 60.338 52.381 0.00 0.00 0.00 3.93
4423 4915 0.603707 CGACAACCTGTGATGTGCCT 60.604 55.000 0.00 0.00 0.00 4.75
4424 4916 0.884704 ACGACAACCTGTGATGTGCC 60.885 55.000 0.00 0.00 0.00 5.01
4442 4963 1.956477 AGAACCCATGTGCAACTCAAC 59.044 47.619 0.00 0.00 38.04 3.18
4489 5020 6.158598 ACATCACTAACAAATGCAAATGTCC 58.841 36.000 8.04 0.00 0.00 4.02
4490 5021 8.236586 TCTACATCACTAACAAATGCAAATGTC 58.763 33.333 8.04 0.00 0.00 3.06
4512 5043 7.148440 GCATCTCTCTGATTATGCCAATTCTAC 60.148 40.741 7.42 0.00 39.01 2.59
4529 5060 3.511934 ACAAGAAAGTACGGCATCTCTCT 59.488 43.478 0.00 0.00 0.00 3.10
4566 5098 4.447724 TGAACTTGCGTCTGATTGTACTTC 59.552 41.667 0.00 0.00 0.00 3.01
4629 5161 3.987868 ACATGAAGCGCTAATATACACCG 59.012 43.478 12.05 2.93 0.00 4.94
4653 5185 1.265905 GCACGTAAACAACCCCTTCTG 59.734 52.381 0.00 0.00 0.00 3.02
4678 5210 7.600752 CCCTCTTCGATTCTAGATGTATTTTCC 59.399 40.741 0.00 0.00 0.00 3.13
4696 5228 1.893801 AGCGATATTACCCCCTCTTCG 59.106 52.381 0.00 0.00 0.00 3.79
4762 5294 7.119699 GTGGATGATTCGATATCCTGCAAAATA 59.880 37.037 18.79 0.00 42.67 1.40
4766 5298 4.202346 TGTGGATGATTCGATATCCTGCAA 60.202 41.667 18.79 2.97 42.67 4.08
4780 5312 2.052468 TCCATAGCAGCTGTGGATGAT 58.948 47.619 31.56 1.09 44.70 2.45
4813 5345 2.758979 GTCGGAAGAAGACAGGATGGTA 59.241 50.000 0.00 0.00 45.01 3.25
4888 5420 8.367156 AGAAAAATTGCATTTAAAGTAGAGCCA 58.633 29.630 0.00 0.00 0.00 4.75
5019 5554 3.507622 GCAGCTGGAGTTAAGGAAACAAT 59.492 43.478 17.12 0.00 40.83 2.71
5150 5687 2.969628 ACTCCAGATGCTACAGCCTAT 58.030 47.619 0.00 0.00 41.18 2.57
5201 5743 0.983467 TATGCACAGCTCCTGGTTCA 59.017 50.000 0.00 0.00 35.51 3.18
5283 7077 6.763355 TGAGATACTATTCCTGCAGAAATCC 58.237 40.000 17.39 0.00 38.21 3.01
5290 7084 6.070938 CCATCATCTGAGATACTATTCCTGCA 60.071 42.308 0.00 0.00 0.00 4.41
5336 7130 9.120538 GGGAATAAGCTCAAAACTATATGTTCA 57.879 33.333 0.00 0.00 38.03 3.18
5337 7131 9.343539 AGGGAATAAGCTCAAAACTATATGTTC 57.656 33.333 0.00 0.00 38.03 3.18
5339 7133 9.780186 GTAGGGAATAAGCTCAAAACTATATGT 57.220 33.333 0.00 0.00 0.00 2.29
5343 7137 6.768381 GCAGTAGGGAATAAGCTCAAAACTAT 59.232 38.462 0.00 0.00 0.00 2.12
5344 7138 6.113411 GCAGTAGGGAATAAGCTCAAAACTA 58.887 40.000 0.00 0.00 0.00 2.24
5345 7139 4.944317 GCAGTAGGGAATAAGCTCAAAACT 59.056 41.667 0.00 0.00 0.00 2.66
5346 7140 4.201822 CGCAGTAGGGAATAAGCTCAAAAC 60.202 45.833 0.00 0.00 0.00 2.43
5347 7141 3.938963 CGCAGTAGGGAATAAGCTCAAAA 59.061 43.478 0.00 0.00 0.00 2.44
5348 7142 3.196901 TCGCAGTAGGGAATAAGCTCAAA 59.803 43.478 0.00 0.00 33.30 2.69
5349 7143 2.764010 TCGCAGTAGGGAATAAGCTCAA 59.236 45.455 0.00 0.00 33.30 3.02
5351 7145 3.580731 GATCGCAGTAGGGAATAAGCTC 58.419 50.000 0.00 0.00 40.35 4.09
5352 7146 2.300437 GGATCGCAGTAGGGAATAAGCT 59.700 50.000 0.00 0.00 40.35 3.74
5353 7147 2.300437 AGGATCGCAGTAGGGAATAAGC 59.700 50.000 0.00 0.00 40.35 3.09
5354 7148 3.574396 TCAGGATCGCAGTAGGGAATAAG 59.426 47.826 0.00 0.00 40.35 1.73
5355 7149 3.321111 GTCAGGATCGCAGTAGGGAATAA 59.679 47.826 0.00 0.00 40.35 1.40
5357 7151 1.689273 GTCAGGATCGCAGTAGGGAAT 59.311 52.381 0.00 0.00 40.35 3.01
5358 7152 1.112113 GTCAGGATCGCAGTAGGGAA 58.888 55.000 0.00 0.00 40.35 3.97
5359 7153 0.259065 AGTCAGGATCGCAGTAGGGA 59.741 55.000 0.00 0.00 41.28 4.20
5360 7154 0.387202 CAGTCAGGATCGCAGTAGGG 59.613 60.000 0.00 0.00 0.00 3.53
5378 7188 5.272397 GGAATAAACGTTTTCACCGAAACA 58.728 37.500 20.19 0.00 39.01 2.83
5386 7196 3.434299 GCGAGAGGGAATAAACGTTTTCA 59.566 43.478 20.19 1.81 0.00 2.69
5392 7202 0.874607 CGGGCGAGAGGGAATAAACG 60.875 60.000 0.00 0.00 0.00 3.60
5458 7268 3.577919 TCCTGAAGGAAGTAGATAGGCC 58.422 50.000 0.00 0.00 42.18 5.19
5604 7414 0.031449 ACGTCAAAATTGTTGGCCCG 59.969 50.000 0.00 0.00 0.00 6.13
5607 7417 2.500509 TGGACGTCAAAATTGTTGGC 57.499 45.000 18.91 0.00 0.00 4.52
5610 7420 9.405587 CTATTGTAAATGGACGTCAAAATTGTT 57.594 29.630 18.91 3.77 0.00 2.83
5678 7488 5.783169 CGCAGTGTTTTCTGTTTTTGTTTTC 59.217 36.000 0.00 0.00 37.70 2.29
5691 9307 2.686558 TGCTTCATCGCAGTGTTTTC 57.313 45.000 0.00 0.00 34.44 2.29
5863 12156 6.620253 TTTGTAACGTTGTTCTGCTTTTTC 57.380 33.333 11.99 0.00 0.00 2.29
5868 12161 6.073222 CCTCTATTTTGTAACGTTGTTCTGCT 60.073 38.462 11.99 0.00 0.00 4.24
5869 12162 6.073440 TCCTCTATTTTGTAACGTTGTTCTGC 60.073 38.462 11.99 0.00 0.00 4.26
5870 12163 7.416154 TCCTCTATTTTGTAACGTTGTTCTG 57.584 36.000 11.99 0.00 0.00 3.02
5872 12165 9.166126 CTTTTCCTCTATTTTGTAACGTTGTTC 57.834 33.333 11.99 2.07 0.00 3.18
5874 12167 7.499895 TCCTTTTCCTCTATTTTGTAACGTTGT 59.500 33.333 11.99 0.00 0.00 3.32
5877 12170 9.901172 ATATCCTTTTCCTCTATTTTGTAACGT 57.099 29.630 0.00 0.00 0.00 3.99
5953 13022 6.966534 AACATGAGCAATAATAGGGGAAAG 57.033 37.500 0.00 0.00 0.00 2.62


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

AutoCloner maintained by Alex Coulton.