Multiple sequence alignment - TraesCS5B01G390300

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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 TraesCS5B01G390300 chr5B 100.000 7805 0 0 1 7805 569553553 569545749 0.000000e+00 14414.0
1 TraesCS5B01G390300 chr5B 76.786 280 50 13 2748 3019 570055539 570055267 8.160000e-30 143.0
2 TraesCS5B01G390300 chr5A 95.520 6206 208 21 731 6881 582967417 582961227 0.000000e+00 9856.0
3 TraesCS5B01G390300 chr5A 91.277 642 39 11 1 632 582968531 582967897 0.000000e+00 859.0
4 TraesCS5B01G390300 chr5A 91.111 90 4 2 7709 7798 582959492 582959407 1.380000e-22 119.0
5 TraesCS5B01G390300 chr5A 85.227 88 8 4 7178 7264 582960484 582960401 1.400000e-12 86.1
6 TraesCS5B01G390300 chr5D 95.237 4241 149 24 1 4210 462993817 462989599 0.000000e+00 6663.0
7 TraesCS5B01G390300 chr5D 94.142 2629 89 21 4290 6881 462989303 462986703 0.000000e+00 3941.0
8 TraesCS5B01G390300 chr5D 83.057 785 48 25 6959 7707 462986690 462985955 1.100000e-177 634.0
9 TraesCS5B01G390300 chr5D 98.958 96 1 0 7710 7805 462985913 462985818 1.040000e-38 172.0
10 TraesCS5B01G390300 chr5D 76.071 280 52 14 2748 3019 463175612 463175340 1.770000e-26 132.0
11 TraesCS5B01G390300 chr5D 100.000 31 0 0 6891 6921 462986727 462986697 3.040000e-04 58.4


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 TraesCS5B01G390300 chr5B 569545749 569553553 7804 True 14414.000 14414 100.00000 1 7805 1 chr5B.!!$R1 7804
1 TraesCS5B01G390300 chr5A 582959407 582968531 9124 True 2730.025 9856 90.78375 1 7798 4 chr5A.!!$R1 7797
2 TraesCS5B01G390300 chr5D 462985818 462993817 7999 True 2293.680 6663 94.27880 1 7805 5 chr5D.!!$R2 7804

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
105 106 0.322816 CAATGATCGGCCTATGGGGG 60.323 60.000 0.00 0.00 35.12 5.40 F
1634 2038 0.610687 CCTCCGGCTTCTGAGAACTT 59.389 55.000 0.00 0.00 0.00 2.66 F
1783 2187 1.898472 AGGTATCGATCCATGGAGCTG 59.102 52.381 26.56 19.42 0.00 4.24 F
3506 3935 1.873591 CCTCGGTTATTGTATGCCAGC 59.126 52.381 0.00 0.00 0.00 4.85 F
4180 4613 0.108585 GCACTTGAACTGGACCTGGA 59.891 55.000 0.00 0.00 0.00 3.86 F
4345 4994 1.208293 CTCCTTCCAGCCTACCACTTC 59.792 57.143 0.00 0.00 0.00 3.01 F
6112 6791 2.292257 TGTCACAGTACTAGGGGCTGAT 60.292 50.000 14.54 0.90 34.60 2.90 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2069 2475 1.707427 ACCCTGATTCAACTCCTGCTT 59.293 47.619 0.00 0.00 0.00 3.91 R
3468 3897 5.175859 CCGAGGTGAATAGTGTGTACATTT 58.824 41.667 0.00 0.00 0.00 2.32 R
3743 4174 5.163663 TGCCGAATCATGTTGTTATCCTTTC 60.164 40.000 0.00 0.00 0.00 2.62 R
4345 4994 1.691434 GGAGAAGGGAGCCATCAGTAG 59.309 57.143 0.00 0.00 0.00 2.57 R
5578 6239 1.596603 TCAGTATTGGCATGCCATCG 58.403 50.000 38.78 23.79 46.64 3.84 R
6331 7010 2.034878 TCTGACTCAAGCTGCCGATAT 58.965 47.619 0.00 0.00 0.00 1.63 R
7138 8279 0.039618 AATGGGGCCGAAACATCTGT 59.960 50.000 0.00 0.00 0.00 3.41 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
26 27 3.993081 AGATGTTGAAGCGAAGACAAGAG 59.007 43.478 0.00 0.00 0.00 2.85
31 32 5.048013 TGTTGAAGCGAAGACAAGAGATAGA 60.048 40.000 0.00 0.00 0.00 1.98
49 50 6.853490 AGATAGAGGGTATACAGATCACACA 58.147 40.000 5.01 0.00 0.00 3.72
70 71 5.050091 CACAGACTAACACATCACAAGAACC 60.050 44.000 0.00 0.00 0.00 3.62
105 106 0.322816 CAATGATCGGCCTATGGGGG 60.323 60.000 0.00 0.00 35.12 5.40
112 113 4.599036 GCCTATGGGGGCGAAATT 57.401 55.556 0.00 0.00 42.82 1.82
126 127 4.295051 GGCGAAATTAACAACAAAGAGCA 58.705 39.130 0.00 0.00 0.00 4.26
165 166 4.637771 GCTGGGTAGCCACGATTT 57.362 55.556 10.27 0.00 44.33 2.17
166 167 2.098293 GCTGGGTAGCCACGATTTG 58.902 57.895 10.27 0.00 44.33 2.32
167 168 0.676782 GCTGGGTAGCCACGATTTGT 60.677 55.000 10.27 0.00 44.33 2.83
194 195 3.782889 ACTGCTTTTGTTGGTTGAGAC 57.217 42.857 0.00 0.00 0.00 3.36
213 214 4.184629 AGACGAGTTTCATTGCTATCCAC 58.815 43.478 0.00 0.00 0.00 4.02
223 224 4.641541 TCATTGCTATCCACCACTTTGATG 59.358 41.667 0.00 0.00 0.00 3.07
310 311 2.752030 TGAGTGTGGAAGATAGGGGAG 58.248 52.381 0.00 0.00 0.00 4.30
332 334 8.093927 GGGAGGAAAGAAGATAGATATCAAGTG 58.906 40.741 5.32 0.00 35.17 3.16
381 384 7.013369 TCGCTGCTATATCGATAATACCATCTT 59.987 37.037 9.61 0.00 0.00 2.40
382 385 8.290325 CGCTGCTATATCGATAATACCATCTTA 58.710 37.037 9.61 0.00 0.00 2.10
383 386 9.400638 GCTGCTATATCGATAATACCATCTTAC 57.599 37.037 9.61 0.00 0.00 2.34
384 387 9.600646 CTGCTATATCGATAATACCATCTTACG 57.399 37.037 9.61 0.00 0.00 3.18
386 389 9.596677 GCTATATCGATAATACCATCTTACGAC 57.403 37.037 9.61 0.00 0.00 4.34
534 539 2.028125 TACATGCCCTAGCGCACTCC 62.028 60.000 11.47 0.00 42.70 3.85
545 550 2.310233 CGCACTCCCAACGTGTCTG 61.310 63.158 0.00 0.00 34.91 3.51
672 685 1.502231 CCCATTCGCTGGTAAGATCG 58.498 55.000 3.57 0.00 44.30 3.69
694 707 1.473965 GCGAGGAGCAAATCTCATCCA 60.474 52.381 1.69 0.00 46.76 3.41
697 710 3.068732 CGAGGAGCAAATCTCATCCACTA 59.931 47.826 1.69 0.00 46.76 2.74
705 718 3.883830 ATCTCATCCACTATCCATCGC 57.116 47.619 0.00 0.00 0.00 4.58
706 719 1.895798 TCTCATCCACTATCCATCGCC 59.104 52.381 0.00 0.00 0.00 5.54
710 723 1.302033 CCACTATCCATCGCCAGGC 60.302 63.158 0.00 0.00 0.00 4.85
728 1122 3.610669 CCGGCAGATCTCTCCCCG 61.611 72.222 11.64 11.64 37.53 5.73
729 1123 4.292178 CGGCAGATCTCTCCCCGC 62.292 72.222 0.00 0.00 33.22 6.13
764 1158 4.971125 GCTCTACATCCGCCGCCC 62.971 72.222 0.00 0.00 0.00 6.13
768 1162 3.575351 CTACATCCGCCGCCCTAGC 62.575 68.421 0.00 0.00 0.00 3.42
844 1246 3.315949 CCGTCCCCGTTCCTTCCA 61.316 66.667 0.00 0.00 0.00 3.53
937 1340 3.508012 TGGTGTGGGTTTGATTTTATCCG 59.492 43.478 0.00 0.00 0.00 4.18
989 1392 1.334869 CAACTTCTGTTTCAGCCGCTT 59.665 47.619 0.00 0.00 33.52 4.68
991 1394 1.202698 ACTTCTGTTTCAGCCGCTTCT 60.203 47.619 0.00 0.00 0.00 2.85
1261 1664 1.153429 GACCGGCGCCTATGAAAGT 60.153 57.895 26.68 9.82 0.00 2.66
1273 1676 3.118775 CCTATGAAAGTGTCATCACCGGA 60.119 47.826 9.46 0.00 44.01 5.14
1369 1772 2.554032 CCATGAGTGCGAGAACCTTTTT 59.446 45.455 0.00 0.00 0.00 1.94
1634 2038 0.610687 CCTCCGGCTTCTGAGAACTT 59.389 55.000 0.00 0.00 0.00 2.66
1775 2179 7.073457 TGGATAAAAATGAGGTATCGATCCA 57.927 36.000 0.00 0.00 38.35 3.41
1778 2182 7.066284 GGATAAAAATGAGGTATCGATCCATGG 59.934 40.741 4.97 4.97 32.31 3.66
1783 2187 1.898472 AGGTATCGATCCATGGAGCTG 59.102 52.381 26.56 19.42 0.00 4.24
1793 2197 5.297776 CGATCCATGGAGCTGAATAGTTTTT 59.702 40.000 26.56 1.15 0.00 1.94
1915 2321 3.993920 ACCACAAATGTTTGCTTCATCC 58.006 40.909 5.44 0.00 41.79 3.51
2046 2452 3.502979 GCCATGATTTGCCAAACAACAAT 59.497 39.130 0.00 0.00 38.23 2.71
2133 2539 9.610705 CTTATGGGAATATCAGAACATGGATAG 57.389 37.037 0.00 0.00 30.17 2.08
2179 2585 6.516693 GCCTTTTAGCTTTATGGTGTGACTTT 60.517 38.462 0.00 0.00 0.00 2.66
2243 2668 4.201783 GCCTGCTTGTACAACCTATTTACG 60.202 45.833 3.59 0.00 0.00 3.18
2370 2797 5.451103 GCCCTTTGCTCCTAGAAATGAAATC 60.451 44.000 0.00 0.00 36.87 2.17
2554 2981 4.957954 ACCACCGTAAATATGTCCTAGTGA 59.042 41.667 0.00 0.00 0.00 3.41
2933 3360 5.716703 ACAGGTAAATGCTTTTATCAAGGCT 59.283 36.000 15.46 0.00 35.98 4.58
2937 3364 7.124750 AGGTAAATGCTTTTATCAAGGCTTCAT 59.875 33.333 15.46 0.00 35.98 2.57
3026 3453 9.875675 CTCAATTTAGCTTTAGCATATTGACTC 57.124 33.333 15.73 0.00 45.16 3.36
3064 3491 3.469008 TTGTACAGATATCTTGCCCCG 57.531 47.619 1.33 0.00 0.00 5.73
3221 3648 2.101700 GCAGAAGGCGGGATTCAAG 58.898 57.895 0.00 0.00 0.00 3.02
3317 3744 4.072131 TGATTTTTACCACTCCAGAGCAC 58.928 43.478 0.00 0.00 0.00 4.40
3429 3857 2.741878 TACCTGGGGTGCGAGGTTCT 62.742 60.000 0.00 0.00 39.75 3.01
3502 3931 5.989777 ACTATTCACCTCGGTTATTGTATGC 59.010 40.000 0.00 0.00 0.00 3.14
3506 3935 1.873591 CCTCGGTTATTGTATGCCAGC 59.126 52.381 0.00 0.00 0.00 4.85
3663 4092 8.387190 TCCATACTTCTATGCTTCATTGAATG 57.613 34.615 0.00 0.00 35.75 2.67
3743 4174 6.944557 TTGACACGACATTTGACTGTATAG 57.055 37.500 0.00 0.00 0.00 1.31
3789 4220 7.255451 CGGCAACATTACCTATGGAATTACATT 60.255 37.037 8.85 0.00 38.64 2.71
3941 4373 5.592688 CCCATATAAATTTGACAACGGTCCT 59.407 40.000 0.00 0.00 43.65 3.85
4095 4528 2.964209 TGTTGGGCCCAGAAAATTACA 58.036 42.857 26.87 21.53 0.00 2.41
4156 4589 7.967854 TGTGTATATTTCAGCAATTTTTCCTCG 59.032 33.333 0.00 0.00 0.00 4.63
4180 4613 0.108585 GCACTTGAACTGGACCTGGA 59.891 55.000 0.00 0.00 0.00 3.86
4223 4656 1.725169 TTAGGCCCACCCTTGCTTGT 61.725 55.000 0.00 0.00 43.06 3.16
4230 4663 1.270550 CCACCCTTGCTTGTCAACATC 59.729 52.381 0.00 0.00 0.00 3.06
4235 4668 3.087031 CCTTGCTTGTCAACATCTCCAT 58.913 45.455 0.00 0.00 0.00 3.41
4236 4669 4.264253 CCTTGCTTGTCAACATCTCCATA 58.736 43.478 0.00 0.00 0.00 2.74
4237 4670 4.885907 CCTTGCTTGTCAACATCTCCATAT 59.114 41.667 0.00 0.00 0.00 1.78
4238 4671 6.057533 CCTTGCTTGTCAACATCTCCATATA 58.942 40.000 0.00 0.00 0.00 0.86
4239 4672 6.713903 CCTTGCTTGTCAACATCTCCATATAT 59.286 38.462 0.00 0.00 0.00 0.86
4241 4674 9.445878 CTTGCTTGTCAACATCTCCATATATAT 57.554 33.333 0.00 0.00 0.00 0.86
4288 4937 6.711194 TGTCTGTATAACCTATCTCTTCCTCG 59.289 42.308 0.00 0.00 0.00 4.63
4345 4994 1.208293 CTCCTTCCAGCCTACCACTTC 59.792 57.143 0.00 0.00 0.00 3.01
4597 5246 8.715998 GTCACATAAACATAGCATCTGGATTAG 58.284 37.037 0.00 0.00 0.00 1.73
4725 5375 7.613022 AGTTTCTTCATTTGATAGCCTGATTCA 59.387 33.333 0.00 0.00 0.00 2.57
4744 5394 5.845985 TTCATCTGTCTTGACGCTAAAAG 57.154 39.130 0.00 0.00 0.00 2.27
4820 5472 6.389830 TCATTTTGCACAGTTCTGTAACAT 57.610 33.333 5.11 0.00 38.12 2.71
5104 5756 3.118482 AGAGAACTACATCTGTGGGCATG 60.118 47.826 0.00 0.00 0.00 4.06
5211 5863 5.299279 CAGGAGGTGTGACAACAAAACTAAT 59.701 40.000 2.41 0.00 38.27 1.73
5259 5911 2.417719 GAAACATGTCGCTCTCTTGGT 58.582 47.619 0.00 0.00 0.00 3.67
5277 5929 2.897326 TGGTTCGAGGAGTGAGATTGAA 59.103 45.455 0.00 0.00 0.00 2.69
5331 5983 2.429971 TGGTTCAAGACAATTGCAAGCA 59.570 40.909 4.94 4.21 0.00 3.91
5426 6078 7.266905 AGGATAGTTAGGTAACATGGTTTGT 57.733 36.000 0.00 0.00 41.53 2.83
5578 6239 4.851639 AGTATGGAATATGGAGGATGGC 57.148 45.455 0.00 0.00 0.00 4.40
5755 6416 8.792633 TCCAATAAACCAAAACTCTGTAGATTG 58.207 33.333 0.00 0.00 0.00 2.67
6005 6681 5.930135 ACAGTTTGTATCTCTGGTGTTCTT 58.070 37.500 0.00 0.00 34.02 2.52
6100 6779 2.903784 ACCTATTGCTGGTGTCACAGTA 59.096 45.455 5.12 0.00 40.59 2.74
6112 6791 2.292257 TGTCACAGTACTAGGGGCTGAT 60.292 50.000 14.54 0.90 34.60 2.90
6197 6876 8.472007 AAGTGTTCCAATTTTCATTACTGGTA 57.528 30.769 0.00 0.00 0.00 3.25
6430 7109 5.721232 CTTCTCTCCAACATTACTAACCGT 58.279 41.667 0.00 0.00 0.00 4.83
6658 7338 4.464951 TGTTGTATACCTGTCTCCGACAAT 59.535 41.667 0.00 0.00 42.26 2.71
6673 7360 1.303888 CAATGTGCTGCTCCAGGGT 60.304 57.895 0.00 0.00 31.21 4.34
6839 7526 2.233922 AGTTATAGGTTGCTGCTGTCGT 59.766 45.455 0.00 0.00 0.00 4.34
6855 7542 1.400846 GTCGTAACTGCGAGATGGAGA 59.599 52.381 0.00 0.00 41.85 3.71
6856 7543 2.089201 TCGTAACTGCGAGATGGAGAA 58.911 47.619 0.00 0.00 38.54 2.87
6857 7544 2.490509 TCGTAACTGCGAGATGGAGAAA 59.509 45.455 0.00 0.00 38.54 2.52
6858 7545 3.057104 TCGTAACTGCGAGATGGAGAAAA 60.057 43.478 0.00 0.00 38.54 2.29
6859 7546 3.865745 CGTAACTGCGAGATGGAGAAAAT 59.134 43.478 0.00 0.00 38.54 1.82
6860 7547 4.330074 CGTAACTGCGAGATGGAGAAAATT 59.670 41.667 0.00 0.00 38.54 1.82
6861 7548 5.163854 CGTAACTGCGAGATGGAGAAAATTT 60.164 40.000 0.00 0.00 38.54 1.82
6862 7549 4.691860 ACTGCGAGATGGAGAAAATTTG 57.308 40.909 0.00 0.00 38.54 2.32
6863 7550 3.441572 ACTGCGAGATGGAGAAAATTTGG 59.558 43.478 0.00 0.00 38.54 3.28
6864 7551 2.164219 TGCGAGATGGAGAAAATTTGGC 59.836 45.455 0.00 0.00 0.00 4.52
6865 7552 2.164219 GCGAGATGGAGAAAATTTGGCA 59.836 45.455 0.00 0.00 0.00 4.92
6866 7553 3.367292 GCGAGATGGAGAAAATTTGGCAA 60.367 43.478 0.00 0.00 0.00 4.52
6867 7554 4.168760 CGAGATGGAGAAAATTTGGCAAC 58.831 43.478 0.00 0.00 0.00 4.17
6868 7555 4.498241 GAGATGGAGAAAATTTGGCAACC 58.502 43.478 0.00 0.00 0.00 3.77
6869 7556 4.162651 AGATGGAGAAAATTTGGCAACCT 58.837 39.130 0.00 0.00 0.00 3.50
6870 7557 3.749665 TGGAGAAAATTTGGCAACCTG 57.250 42.857 0.00 0.00 0.00 4.00
6871 7558 2.368221 TGGAGAAAATTTGGCAACCTGG 59.632 45.455 0.00 0.00 0.00 4.45
6872 7559 2.632512 GGAGAAAATTTGGCAACCTGGA 59.367 45.455 0.00 0.00 0.00 3.86
6873 7560 3.070878 GGAGAAAATTTGGCAACCTGGAA 59.929 43.478 0.00 0.00 0.00 3.53
6874 7561 4.058124 GAGAAAATTTGGCAACCTGGAAC 58.942 43.478 0.00 0.00 0.00 3.62
6875 7562 3.454082 AGAAAATTTGGCAACCTGGAACA 59.546 39.130 0.00 0.00 0.00 3.18
6921 7608 2.930935 TGGAACAGGGGAGGCTATC 58.069 57.895 0.00 0.00 0.00 2.08
6924 7611 1.141858 GGAACAGGGGAGGCTATCTTG 59.858 57.143 0.00 0.00 0.00 3.02
6925 7612 1.141858 GAACAGGGGAGGCTATCTTGG 59.858 57.143 0.00 0.00 0.00 3.61
6926 7613 0.343372 ACAGGGGAGGCTATCTTGGA 59.657 55.000 0.00 0.00 0.00 3.53
6927 7614 1.274416 ACAGGGGAGGCTATCTTGGAA 60.274 52.381 0.00 0.00 0.00 3.53
6928 7615 2.061061 CAGGGGAGGCTATCTTGGAAT 58.939 52.381 0.00 0.00 0.00 3.01
6929 7616 2.444766 CAGGGGAGGCTATCTTGGAATT 59.555 50.000 0.00 0.00 0.00 2.17
6930 7617 2.444766 AGGGGAGGCTATCTTGGAATTG 59.555 50.000 0.00 0.00 0.00 2.32
6932 7619 3.217626 GGGAGGCTATCTTGGAATTGTG 58.782 50.000 0.00 0.00 0.00 3.33
6933 7620 2.620585 GGAGGCTATCTTGGAATTGTGC 59.379 50.000 0.00 0.00 0.00 4.57
6934 7621 3.282021 GAGGCTATCTTGGAATTGTGCA 58.718 45.455 0.00 0.00 0.00 4.57
6939 7626 2.275134 TCTTGGAATTGTGCAGCAGA 57.725 45.000 0.00 0.00 0.00 4.26
6954 7641 0.749091 GCAGATGCCAGTATGCCACA 60.749 55.000 0.00 0.00 30.38 4.17
6957 7644 2.691526 CAGATGCCAGTATGCCACAATT 59.308 45.455 0.00 0.00 31.97 2.32
6988 7699 1.425412 CATTTGCTGCTTCAGTTGCC 58.575 50.000 0.00 0.00 33.43 4.52
7071 8210 2.033662 GCATCGCTCCTGTCGTTTATTC 60.034 50.000 0.00 0.00 0.00 1.75
7079 8218 2.182825 CTGTCGTTTATTCGCTAGCGT 58.817 47.619 34.10 20.25 40.74 5.07
7138 8279 3.423539 AGAGTTGCTAGCAAATGGACA 57.576 42.857 32.82 7.05 37.70 4.02
7163 8304 1.974343 TTTCGGCCCCATTGGAACG 60.974 57.895 3.62 5.82 37.37 3.95
7227 8395 6.257411 GGATCATAGGAACGATGCTCATATTG 59.743 42.308 0.00 0.00 41.26 1.90
7252 8420 9.832445 TGGTCTTTTTATATATGTCTCCACTTC 57.168 33.333 0.00 0.00 0.00 3.01
7266 8434 1.741706 CCACTTCACACTGCCATCATC 59.258 52.381 0.00 0.00 0.00 2.92
7273 8441 1.072806 ACACTGCCATCATCCGCATAT 59.927 47.619 0.00 0.00 33.78 1.78
7280 8448 3.869912 GCCATCATCCGCATATGGTACTT 60.870 47.826 4.56 0.00 41.87 2.24
7315 8483 9.971922 CTTCTTTTCATTCTAAACCACATTTCT 57.028 29.630 0.00 0.00 0.00 2.52
7342 8510 6.365970 TTTTCTTATGCTTCAGAGTCCTCT 57.634 37.500 0.00 0.00 41.37 3.69
7359 8527 8.753133 AGAGTCCTCTTTTTCACATTTTCTTTT 58.247 29.630 0.00 0.00 36.31 2.27
7433 8604 2.033424 GCCTCAAGGTGTTGTTTCAGAC 59.967 50.000 0.00 0.00 37.57 3.51
7456 9146 5.869888 ACGAAAAGTAGCTCATAAACCTCTG 59.130 40.000 0.00 0.00 0.00 3.35
7502 9192 6.769341 GGAAGAAAACTGTAGTTCTTGGGTAA 59.231 38.462 18.68 0.00 42.67 2.85
7509 9199 2.969821 AGTTCTTGGGTAACATGCCA 57.030 45.000 0.00 0.00 39.74 4.92
7510 9200 2.514803 AGTTCTTGGGTAACATGCCAC 58.485 47.619 0.00 0.00 39.74 5.01
7512 9202 2.198827 TCTTGGGTAACATGCCACTG 57.801 50.000 0.00 0.00 39.74 3.66
7513 9203 0.527565 CTTGGGTAACATGCCACTGC 59.472 55.000 0.00 0.00 39.74 4.40
7538 9242 7.224949 GCATACTACTAGTGTTCTTGAATTCCC 59.775 40.741 5.39 0.00 0.00 3.97
7539 9243 6.936968 ACTACTAGTGTTCTTGAATTCCCT 57.063 37.500 5.39 0.00 0.00 4.20
7540 9244 6.702329 ACTACTAGTGTTCTTGAATTCCCTG 58.298 40.000 5.39 0.00 0.00 4.45
7544 9248 7.234355 ACTAGTGTTCTTGAATTCCCTGATTT 58.766 34.615 2.27 0.00 0.00 2.17
7545 9249 6.336842 AGTGTTCTTGAATTCCCTGATTTG 57.663 37.500 2.27 0.00 0.00 2.32
7546 9250 5.835280 AGTGTTCTTGAATTCCCTGATTTGT 59.165 36.000 2.27 0.00 0.00 2.83
7547 9251 5.922544 GTGTTCTTGAATTCCCTGATTTGTG 59.077 40.000 2.27 0.00 0.00 3.33
7548 9252 5.598005 TGTTCTTGAATTCCCTGATTTGTGT 59.402 36.000 2.27 0.00 0.00 3.72
7549 9253 6.098124 TGTTCTTGAATTCCCTGATTTGTGTT 59.902 34.615 2.27 0.00 0.00 3.32
7563 9271 2.605837 TGTGTTCCAAAGCGTGTCTA 57.394 45.000 0.00 0.00 0.00 2.59
7576 9284 1.806542 CGTGTCTAAGCAATGCCAACT 59.193 47.619 0.00 0.00 0.00 3.16
7583 9291 1.619654 AGCAATGCCAACTAACTGCA 58.380 45.000 0.00 0.00 39.68 4.41
7584 9292 1.542915 AGCAATGCCAACTAACTGCAG 59.457 47.619 13.48 13.48 38.58 4.41
7585 9293 1.270550 GCAATGCCAACTAACTGCAGT 59.729 47.619 15.25 15.25 38.58 4.40
7586 9294 2.937591 CAATGCCAACTAACTGCAGTG 58.062 47.619 22.49 11.68 43.34 3.66
7587 9295 2.276732 ATGCCAACTAACTGCAGTGT 57.723 45.000 22.49 12.43 38.58 3.55
7588 9296 2.920724 TGCCAACTAACTGCAGTGTA 57.079 45.000 22.49 13.49 0.00 2.90
7589 9297 2.489971 TGCCAACTAACTGCAGTGTAC 58.510 47.619 22.49 8.75 0.00 2.90
7590 9298 2.104111 TGCCAACTAACTGCAGTGTACT 59.896 45.455 22.49 7.12 0.00 2.73
7591 9299 2.737252 GCCAACTAACTGCAGTGTACTC 59.263 50.000 22.49 3.15 0.00 2.59
7592 9300 3.326747 CCAACTAACTGCAGTGTACTCC 58.673 50.000 22.49 0.00 0.00 3.85
7593 9301 3.244078 CCAACTAACTGCAGTGTACTCCA 60.244 47.826 22.49 0.00 0.00 3.86
7594 9302 3.944055 ACTAACTGCAGTGTACTCCAG 57.056 47.619 22.49 11.08 37.76 3.86
7595 9303 2.028930 ACTAACTGCAGTGTACTCCAGC 60.029 50.000 22.49 0.00 35.17 4.85
7626 9334 5.433526 CCCTGAAATTCTACCGGATTGTAA 58.566 41.667 9.46 0.00 0.00 2.41
7707 9416 3.459232 TCCGATGAAATAGCAGACAGG 57.541 47.619 0.00 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
4 5 3.993081 CTCTTGTCTTCGCTTCAACATCT 59.007 43.478 0.00 0.00 0.00 2.90
26 27 6.943146 TCTGTGTGATCTGTATACCCTCTATC 59.057 42.308 0.00 0.00 0.00 2.08
31 32 4.873010 AGTCTGTGTGATCTGTATACCCT 58.127 43.478 0.00 0.00 0.00 4.34
49 50 4.307432 CGGTTCTTGTGATGTGTTAGTCT 58.693 43.478 0.00 0.00 0.00 3.24
70 71 5.802451 CGATCATTGTCATATTACTCCTCCG 59.198 44.000 0.00 0.00 0.00 4.63
105 106 5.685511 TCTTGCTCTTTGTTGTTAATTTCGC 59.314 36.000 0.00 0.00 0.00 4.70
112 113 6.588373 GGTTTTGTTCTTGCTCTTTGTTGTTA 59.412 34.615 0.00 0.00 0.00 2.41
126 127 4.442893 GCCTTTTGCTAGGGTTTTGTTCTT 60.443 41.667 0.00 0.00 35.74 2.52
165 166 2.051334 ACAAAAGCAGTAGTGGCACA 57.949 45.000 21.41 2.83 0.00 4.57
166 167 2.543653 CCAACAAAAGCAGTAGTGGCAC 60.544 50.000 10.29 10.29 0.00 5.01
167 168 1.680735 CCAACAAAAGCAGTAGTGGCA 59.319 47.619 0.00 0.00 0.00 4.92
168 169 1.681264 ACCAACAAAAGCAGTAGTGGC 59.319 47.619 0.00 0.00 0.00 5.01
171 172 4.335594 GTCTCAACCAACAAAAGCAGTAGT 59.664 41.667 0.00 0.00 0.00 2.73
172 173 4.552767 CGTCTCAACCAACAAAAGCAGTAG 60.553 45.833 0.00 0.00 0.00 2.57
173 174 3.311322 CGTCTCAACCAACAAAAGCAGTA 59.689 43.478 0.00 0.00 0.00 2.74
174 175 2.097466 CGTCTCAACCAACAAAAGCAGT 59.903 45.455 0.00 0.00 0.00 4.40
176 177 2.354510 CTCGTCTCAACCAACAAAAGCA 59.645 45.455 0.00 0.00 0.00 3.91
194 195 3.063997 GTGGTGGATAGCAATGAAACTCG 59.936 47.826 0.00 0.00 35.84 4.18
213 214 1.522668 TGTCCTTCGCATCAAAGTGG 58.477 50.000 0.00 0.00 0.00 4.00
332 334 3.181496 GGCCACCGAAAATCTTTGAGATC 60.181 47.826 0.00 0.00 32.89 2.75
392 396 7.143340 AGCAAGCAACAATATGTATATGCAAG 58.857 34.615 0.00 2.38 36.30 4.01
407 411 7.038154 AGTTAGTCAATTTTAGCAAGCAACA 57.962 32.000 0.00 0.00 0.00 3.33
545 550 2.550606 TGGTAACTGCAATCGAACCAAC 59.449 45.455 0.00 0.00 34.20 3.77
629 642 1.990160 GAGGAGAGGAGCGGAGAGGA 61.990 65.000 0.00 0.00 0.00 3.71
632 645 1.529796 GAGAGGAGAGGAGCGGAGA 59.470 63.158 0.00 0.00 0.00 3.71
633 646 1.528309 GGAGAGGAGAGGAGCGGAG 60.528 68.421 0.00 0.00 0.00 4.63
634 647 2.598467 GGAGAGGAGAGGAGCGGA 59.402 66.667 0.00 0.00 0.00 5.54
635 648 2.520741 GGGAGAGGAGAGGAGCGG 60.521 72.222 0.00 0.00 0.00 5.52
636 649 2.520741 GGGGAGAGGAGAGGAGCG 60.521 72.222 0.00 0.00 0.00 5.03
672 685 1.156645 ATGAGATTTGCTCCTCGCGC 61.157 55.000 0.00 0.00 43.26 6.86
694 707 2.520536 GGGCCTGGCGATGGATAGT 61.521 63.158 13.40 0.00 0.00 2.12
705 718 4.247380 GAGATCTGCCGGGCCTGG 62.247 72.222 27.88 27.88 0.00 4.45
706 719 3.160047 AGAGATCTGCCGGGCCTG 61.160 66.667 17.97 3.88 0.00 4.85
749 1143 1.901948 CTAGGGCGGCGGATGTAGA 60.902 63.158 9.78 0.00 0.00 2.59
786 1180 3.583086 GTAGGCGGGCGGAATTGC 61.583 66.667 0.00 0.00 0.00 3.56
831 1233 0.400594 AAGAACTGGAAGGAACGGGG 59.599 55.000 0.00 0.00 39.30 5.73
839 1241 1.402984 CCGACGAGGAAGAACTGGAAG 60.403 57.143 0.00 0.00 45.00 3.46
844 1246 2.567049 CGCCGACGAGGAAGAACT 59.433 61.111 0.00 0.00 45.00 3.01
937 1340 1.575244 GGACTTATTAACCGGTCGCC 58.425 55.000 8.04 0.00 0.00 5.54
1056 1459 2.127065 TCATCTCCCCAAGGCCCA 59.873 61.111 0.00 0.00 0.00 5.36
1060 1463 1.879575 TACTGGTCATCTCCCCAAGG 58.120 55.000 0.00 0.00 0.00 3.61
1062 1465 3.309296 GAGATACTGGTCATCTCCCCAA 58.691 50.000 1.65 0.00 41.67 4.12
1273 1676 1.977544 CCCGAACCTCTCACCGACT 60.978 63.158 0.00 0.00 0.00 4.18
1279 1682 2.203182 ACCACCCCGAACCTCTCA 59.797 61.111 0.00 0.00 0.00 3.27
1369 1772 4.415881 TTTAATCCCGCTCTGCTTATCA 57.584 40.909 0.00 0.00 0.00 2.15
1487 1890 6.519679 AAATTACATCAGCTCAGCAAATCA 57.480 33.333 0.00 0.00 0.00 2.57
1695 2099 2.768253 AGCCATTTGATGACGTCTGA 57.232 45.000 17.92 0.00 0.00 3.27
1775 2179 7.775053 TTGGTTAAAAACTATTCAGCTCCAT 57.225 32.000 0.00 0.00 0.00 3.41
2069 2475 1.707427 ACCCTGATTCAACTCCTGCTT 59.293 47.619 0.00 0.00 0.00 3.91
2133 2539 5.028375 GGCGTAACTTATTGTGCTTCAATC 58.972 41.667 10.06 0.00 44.50 2.67
2179 2585 7.280876 GGCACAAGAACATGTAGATTATGAGAA 59.719 37.037 0.00 0.00 30.84 2.87
2243 2668 0.601311 CAGATAGCTACCTTGCCCGC 60.601 60.000 0.00 0.00 0.00 6.13
2309 2734 2.731572 AGAAAGTGCCATGGGAGAATG 58.268 47.619 15.13 0.00 0.00 2.67
2370 2797 2.002586 CTGCCGAACAATACTGGTGAG 58.997 52.381 0.00 0.00 0.00 3.51
2937 3364 7.552459 GGCAAGACTATTAAAATTTGGCCTAA 58.448 34.615 3.32 2.09 35.75 2.69
2944 3371 7.003402 TGCTTGGGCAAGACTATTAAAATTT 57.997 32.000 0.00 0.00 46.36 1.82
3026 3453 6.487960 TGTACAAAGTTAAATCCACAACGTG 58.512 36.000 0.00 0.00 0.00 4.49
3073 3500 5.856126 TTTTACCAGTAGCATCACGAAAG 57.144 39.130 0.00 0.00 0.00 2.62
3468 3897 5.175859 CCGAGGTGAATAGTGTGTACATTT 58.824 41.667 0.00 0.00 0.00 2.32
3663 4092 8.085909 AGTGGTAAATAACAAAGTTAATGGTGC 58.914 33.333 0.00 0.00 0.00 5.01
3743 4174 5.163663 TGCCGAATCATGTTGTTATCCTTTC 60.164 40.000 0.00 0.00 0.00 2.62
3884 4316 7.782897 ATAGGCTGCACAATAGAGATAGTTA 57.217 36.000 0.50 0.00 0.00 2.24
3887 4319 6.756074 GCTAATAGGCTGCACAATAGAGATAG 59.244 42.308 0.50 0.00 0.00 2.08
4095 4528 4.357279 GCCCAGCTCAGCCACCTT 62.357 66.667 0.00 0.00 0.00 3.50
4156 4589 0.663153 GTCCAGTTCAAGTGCACACC 59.337 55.000 21.04 1.31 0.00 4.16
4180 4613 2.158385 CCAGGGCTATGAGGACTCTAGT 60.158 54.545 0.56 0.00 0.00 2.57
4259 4692 9.742144 GGAAGAGATAGGTTATACAGACAGATA 57.258 37.037 0.00 0.00 0.00 1.98
4260 4693 8.452868 AGGAAGAGATAGGTTATACAGACAGAT 58.547 37.037 0.00 0.00 0.00 2.90
4261 4694 7.817440 AGGAAGAGATAGGTTATACAGACAGA 58.183 38.462 0.00 0.00 0.00 3.41
4262 4695 7.094975 CGAGGAAGAGATAGGTTATACAGACAG 60.095 44.444 0.00 0.00 0.00 3.51
4288 4937 1.542767 GGCGGCTAGGGTTTAGGATTC 60.543 57.143 0.00 0.00 0.00 2.52
4345 4994 1.691434 GGAGAAGGGAGCCATCAGTAG 59.309 57.143 0.00 0.00 0.00 2.57
4569 5218 6.413892 TCCAGATGCTATGTTTATGTGACAA 58.586 36.000 0.00 0.00 0.00 3.18
4575 5224 9.499479 AAGACTAATCCAGATGCTATGTTTATG 57.501 33.333 0.00 0.00 0.00 1.90
4576 5225 9.717942 GAAGACTAATCCAGATGCTATGTTTAT 57.282 33.333 0.00 0.00 0.00 1.40
4717 5367 2.606725 GCGTCAAGACAGATGAATCAGG 59.393 50.000 0.72 0.00 0.00 3.86
4725 5375 6.706270 TCTTTTCTTTTAGCGTCAAGACAGAT 59.294 34.615 0.72 0.00 0.00 2.90
4788 5440 7.811236 CAGAACTGTGCAAAATGAACAATCTAT 59.189 33.333 0.00 0.00 35.05 1.98
4806 5458 9.601217 GGACATATTAAGATGTTACAGAACTGT 57.399 33.333 16.39 12.10 42.39 3.55
4820 5472 7.733773 TGAAGAGTTCCTGGACATATTAAGA 57.266 36.000 0.00 0.00 0.00 2.10
5104 5756 2.032981 CACAGTCAAGGTGGGCAAC 58.967 57.895 0.00 0.00 32.65 4.17
5191 5843 6.119536 TCAGATTAGTTTTGTTGTCACACCT 58.880 36.000 0.00 0.00 30.32 4.00
5211 5863 3.918294 TTCTCCACATGCATCATCAGA 57.082 42.857 0.00 0.00 0.00 3.27
5259 5911 2.897326 TGGTTCAATCTCACTCCTCGAA 59.103 45.455 0.00 0.00 0.00 3.71
5331 5983 4.889995 GCCATATAGTCCTCCAAGCTTTTT 59.110 41.667 0.00 0.00 0.00 1.94
5393 6045 9.884814 ATGTTACCTAACTATCCTACTGAGATT 57.115 33.333 0.00 0.00 37.12 2.40
5416 6068 6.531021 AGTGCTAGTACTAAACAAACCATGT 58.469 36.000 12.23 0.00 46.82 3.21
5426 6078 6.096987 CCAATCAGAGGAGTGCTAGTACTAAA 59.903 42.308 13.91 0.00 37.78 1.85
5578 6239 1.596603 TCAGTATTGGCATGCCATCG 58.403 50.000 38.78 23.79 46.64 3.84
5623 6284 4.695455 CGCCCTCAAAGTTCTCTTAATTGA 59.305 41.667 0.00 0.00 33.09 2.57
5755 6416 6.630444 ATCATGATCCTACAATTTCTGCAC 57.370 37.500 1.18 0.00 0.00 4.57
5836 6497 9.210426 CTAAAATTACAACTTACATAAGCTGCG 57.790 33.333 2.63 0.00 36.79 5.18
5971 6647 9.261180 CAGAGATACAAACTGTTCTTTGAGTTA 57.739 33.333 0.00 0.00 35.46 2.24
6005 6681 4.520111 AGCAATATGTGAAGCAACAACTGA 59.480 37.500 0.00 0.00 32.81 3.41
6100 6779 2.922162 CTGTGGATCAGCCCCTAGT 58.078 57.895 0.00 0.00 37.36 2.57
6112 6791 3.960755 CAGTCAGATATGGGTACTGTGGA 59.039 47.826 0.00 0.00 34.28 4.02
6331 7010 2.034878 TCTGACTCAAGCTGCCGATAT 58.965 47.619 0.00 0.00 0.00 1.63
6430 7109 1.138069 TCGCTCTTCACTTGTTCCACA 59.862 47.619 0.00 0.00 0.00 4.17
6446 7125 0.251832 TGGAACTTCTCCTCCTCGCT 60.252 55.000 0.00 0.00 45.64 4.93
6658 7338 4.648626 GCACCCTGGAGCAGCACA 62.649 66.667 0.00 0.00 0.00 4.57
6680 7367 1.620739 TTCCTAGAGCAGCAGCCTGG 61.621 60.000 0.00 0.00 43.56 4.45
6839 7526 5.123820 CCAAATTTTCTCCATCTCGCAGTTA 59.876 40.000 0.00 0.00 0.00 2.24
6855 7542 3.433456 CCTGTTCCAGGTTGCCAAATTTT 60.433 43.478 1.99 0.00 45.82 1.82
6856 7543 2.104622 CCTGTTCCAGGTTGCCAAATTT 59.895 45.455 1.99 0.00 45.82 1.82
6857 7544 1.693606 CCTGTTCCAGGTTGCCAAATT 59.306 47.619 1.99 0.00 45.82 1.82
6858 7545 1.341080 CCTGTTCCAGGTTGCCAAAT 58.659 50.000 1.99 0.00 45.82 2.32
6859 7546 2.819477 CCTGTTCCAGGTTGCCAAA 58.181 52.632 1.99 0.00 45.82 3.28
6860 7547 4.597032 CCTGTTCCAGGTTGCCAA 57.403 55.556 1.99 0.00 45.82 4.52
6868 7555 4.778213 TCAAGATATTCCCCTGTTCCAG 57.222 45.455 0.00 0.00 0.00 3.86
6869 7556 5.528600 TTTCAAGATATTCCCCTGTTCCA 57.471 39.130 0.00 0.00 0.00 3.53
6870 7557 7.423844 AATTTTCAAGATATTCCCCTGTTCC 57.576 36.000 0.00 0.00 0.00 3.62
6871 7558 7.765819 CCAAATTTTCAAGATATTCCCCTGTTC 59.234 37.037 0.00 0.00 0.00 3.18
6872 7559 7.623630 CCAAATTTTCAAGATATTCCCCTGTT 58.376 34.615 0.00 0.00 0.00 3.16
6873 7560 6.352137 GCCAAATTTTCAAGATATTCCCCTGT 60.352 38.462 0.00 0.00 0.00 4.00
6874 7561 6.051074 GCCAAATTTTCAAGATATTCCCCTG 58.949 40.000 0.00 0.00 0.00 4.45
6875 7562 5.725822 TGCCAAATTTTCAAGATATTCCCCT 59.274 36.000 0.00 0.00 0.00 4.79
6876 7563 5.988287 TGCCAAATTTTCAAGATATTCCCC 58.012 37.500 0.00 0.00 0.00 4.81
6877 7564 6.316140 GGTTGCCAAATTTTCAAGATATTCCC 59.684 38.462 3.58 0.00 0.00 3.97
6878 7565 7.064966 CAGGTTGCCAAATTTTCAAGATATTCC 59.935 37.037 3.58 1.82 0.00 3.01
6879 7566 7.064966 CCAGGTTGCCAAATTTTCAAGATATTC 59.935 37.037 3.58 0.00 0.00 1.75
6880 7567 6.880529 CCAGGTTGCCAAATTTTCAAGATATT 59.119 34.615 3.58 0.00 0.00 1.28
6881 7568 6.213195 TCCAGGTTGCCAAATTTTCAAGATAT 59.787 34.615 3.58 0.00 0.00 1.63
6882 7569 5.541868 TCCAGGTTGCCAAATTTTCAAGATA 59.458 36.000 3.58 0.00 0.00 1.98
6883 7570 4.347583 TCCAGGTTGCCAAATTTTCAAGAT 59.652 37.500 3.58 0.00 0.00 2.40
6884 7571 3.708631 TCCAGGTTGCCAAATTTTCAAGA 59.291 39.130 3.58 0.00 0.00 3.02
6885 7572 4.070630 TCCAGGTTGCCAAATTTTCAAG 57.929 40.909 3.58 0.00 0.00 3.02
6886 7573 4.195416 GTTCCAGGTTGCCAAATTTTCAA 58.805 39.130 0.00 0.00 0.00 2.69
6887 7574 3.198635 TGTTCCAGGTTGCCAAATTTTCA 59.801 39.130 0.00 0.00 0.00 2.69
6921 7608 2.876091 CATCTGCTGCACAATTCCAAG 58.124 47.619 0.00 0.00 0.00 3.61
6933 7620 2.328235 GGCATACTGGCATCTGCTG 58.672 57.895 13.48 0.00 43.14 4.41
6934 7621 4.894201 GGCATACTGGCATCTGCT 57.106 55.556 13.48 0.00 43.14 4.24
6943 7630 2.442236 AGGGGAATTGTGGCATACTG 57.558 50.000 0.00 0.00 0.00 2.74
6945 7632 2.430694 GGAAAGGGGAATTGTGGCATAC 59.569 50.000 0.00 0.00 0.00 2.39
6946 7633 2.314549 AGGAAAGGGGAATTGTGGCATA 59.685 45.455 0.00 0.00 0.00 3.14
6947 7634 1.079323 AGGAAAGGGGAATTGTGGCAT 59.921 47.619 0.00 0.00 0.00 4.40
6948 7635 0.486879 AGGAAAGGGGAATTGTGGCA 59.513 50.000 0.00 0.00 0.00 4.92
6949 7636 0.897621 CAGGAAAGGGGAATTGTGGC 59.102 55.000 0.00 0.00 0.00 5.01
6950 7637 0.897621 GCAGGAAAGGGGAATTGTGG 59.102 55.000 0.00 0.00 0.00 4.17
6954 7641 2.026915 GCAAATGCAGGAAAGGGGAATT 60.027 45.455 0.00 0.00 41.59 2.17
6957 7644 0.114954 AGCAAATGCAGGAAAGGGGA 59.885 50.000 8.28 0.00 45.16 4.81
6988 7699 5.104776 TCCAAGATAGACATCAGGGAAACAG 60.105 44.000 0.00 0.00 34.52 3.16
7055 7782 1.641577 AGCGAATAAACGACAGGAGC 58.358 50.000 0.00 0.00 35.09 4.70
7071 8210 0.807667 AAATCTCCAGCACGCTAGCG 60.808 55.000 34.27 34.27 46.03 4.26
7079 8218 9.691362 GTTTACAAAAATCTTAAATCTCCAGCA 57.309 29.630 0.00 0.00 0.00 4.41
7138 8279 0.039618 AATGGGGCCGAAACATCTGT 59.960 50.000 0.00 0.00 0.00 3.41
7227 8395 9.832445 TGAAGTGGAGACATATATAAAAAGACC 57.168 33.333 0.00 0.00 46.14 3.85
7252 8420 1.099295 ATGCGGATGATGGCAGTGTG 61.099 55.000 0.00 0.00 43.27 3.82
7266 8434 3.773860 TTTTGCAAGTACCATATGCGG 57.226 42.857 0.00 0.00 42.91 5.69
7273 8441 7.551585 TGAAAAGAAGAATTTTGCAAGTACCA 58.448 30.769 0.00 0.00 32.62 3.25
7309 8477 9.850628 TCTGAAGCATAAGAAAATCAAGAAATG 57.149 29.630 0.00 0.00 0.00 2.32
7315 8483 7.170965 AGGACTCTGAAGCATAAGAAAATCAA 58.829 34.615 0.00 0.00 0.00 2.57
7321 8489 6.365970 AAAGAGGACTCTGAAGCATAAGAA 57.634 37.500 2.05 0.00 40.36 2.52
7322 8490 6.365970 AAAAGAGGACTCTGAAGCATAAGA 57.634 37.500 2.05 0.00 40.36 2.10
7336 8504 8.932945 AGAAAAGAAAATGTGAAAAAGAGGAC 57.067 30.769 0.00 0.00 0.00 3.85
7400 8571 2.912956 ACCTTGAGGCCTTTACAGATCA 59.087 45.455 6.77 0.00 39.32 2.92
7433 8604 5.292101 CCAGAGGTTTATGAGCTACTTTTCG 59.708 44.000 0.00 0.00 35.91 3.46
7471 9161 7.803279 AGAACTACAGTTTTCTTCCGAAATT 57.197 32.000 0.00 0.00 38.81 1.82
7476 9166 4.213482 CCCAAGAACTACAGTTTTCTTCCG 59.787 45.833 6.81 2.41 39.54 4.30
7509 9199 6.835819 TCAAGAACACTAGTAGTATGCAGT 57.164 37.500 1.57 0.00 0.00 4.40
7510 9200 8.709386 AATTCAAGAACACTAGTAGTATGCAG 57.291 34.615 1.57 0.00 0.00 4.41
7512 9202 7.224949 GGGAATTCAAGAACACTAGTAGTATGC 59.775 40.741 7.93 0.00 0.00 3.14
7513 9203 8.478877 AGGGAATTCAAGAACACTAGTAGTATG 58.521 37.037 7.93 0.00 0.00 2.39
7516 9206 6.497259 TCAGGGAATTCAAGAACACTAGTAGT 59.503 38.462 7.93 0.00 0.00 2.73
7519 9209 5.825593 TCAGGGAATTCAAGAACACTAGT 57.174 39.130 7.93 0.00 0.00 2.57
7544 9248 2.605837 TAGACACGCTTTGGAACACA 57.394 45.000 0.00 0.00 39.29 3.72
7545 9249 2.349532 GCTTAGACACGCTTTGGAACAC 60.350 50.000 0.00 0.00 39.29 3.32
7546 9250 1.871039 GCTTAGACACGCTTTGGAACA 59.129 47.619 0.00 0.00 0.00 3.18
7547 9251 1.871039 TGCTTAGACACGCTTTGGAAC 59.129 47.619 0.00 0.00 0.00 3.62
7548 9252 2.248280 TGCTTAGACACGCTTTGGAA 57.752 45.000 0.00 0.00 0.00 3.53
7549 9253 2.248280 TTGCTTAGACACGCTTTGGA 57.752 45.000 0.00 0.00 0.00 3.53
7563 9271 1.962807 TGCAGTTAGTTGGCATTGCTT 59.037 42.857 8.82 0.00 31.58 3.91
7583 9291 3.421844 GGGAATTTTGCTGGAGTACACT 58.578 45.455 0.00 0.00 0.00 3.55
7584 9292 2.492088 GGGGAATTTTGCTGGAGTACAC 59.508 50.000 0.00 0.00 0.00 2.90
7585 9293 2.378547 AGGGGAATTTTGCTGGAGTACA 59.621 45.455 0.00 0.00 0.00 2.90
7586 9294 2.755103 CAGGGGAATTTTGCTGGAGTAC 59.245 50.000 0.00 0.00 0.00 2.73
7587 9295 2.647299 TCAGGGGAATTTTGCTGGAGTA 59.353 45.455 0.00 0.00 0.00 2.59
7588 9296 1.428912 TCAGGGGAATTTTGCTGGAGT 59.571 47.619 0.00 0.00 0.00 3.85
7589 9297 2.220653 TCAGGGGAATTTTGCTGGAG 57.779 50.000 0.00 0.00 0.00 3.86
7590 9298 2.692709 TTCAGGGGAATTTTGCTGGA 57.307 45.000 0.00 0.00 0.00 3.86
7591 9299 3.986996 ATTTCAGGGGAATTTTGCTGG 57.013 42.857 0.00 0.00 31.93 4.85
7592 9300 5.156608 AGAATTTCAGGGGAATTTTGCTG 57.843 39.130 0.00 0.00 31.93 4.41
7593 9301 5.187772 GGTAGAATTTCAGGGGAATTTTGCT 59.812 40.000 0.00 0.00 31.93 3.91
7594 9302 5.419542 GGTAGAATTTCAGGGGAATTTTGC 58.580 41.667 0.00 0.00 31.93 3.68
7595 9303 5.394115 CCGGTAGAATTTCAGGGGAATTTTG 60.394 44.000 0.00 0.00 31.93 2.44
7626 9334 8.297470 ACTATGAATGCATAATGTTTGGAACT 57.703 30.769 0.00 0.00 36.60 3.01


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

AutoCloner maintained by Alex Coulton.