Multiple sequence alignment - TraesCS6A01G136900

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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 TraesCS6A01G136900 chr6A 100.000 2312 0 0 1 2312 108090907 108088596 0.000000e+00 4270
1 TraesCS6A01G136900 chr6A 86.410 493 40 15 1195 1673 107864988 107864509 4.400000e-142 514
2 TraesCS6A01G136900 chr6A 97.826 184 3 1 2130 2312 93440349 93440532 1.330000e-82 316
3 TraesCS6A01G136900 chr6A 92.056 214 16 1 990 1203 107865226 107865014 1.340000e-77 300
4 TraesCS6A01G136900 chr6A 97.143 175 5 0 2138 2312 102348770 102348596 1.740000e-76 296
5 TraesCS6A01G136900 chr6B 87.855 1515 109 39 138 1626 172254916 172253451 0.000000e+00 1709
6 TraesCS6A01G136900 chr6B 89.701 602 39 9 1546 2139 172250020 172249434 0.000000e+00 747
7 TraesCS6A01G136900 chr6B 85.634 355 33 10 1190 1536 172250473 172250129 7.860000e-95 357
8 TraesCS6A01G136900 chr6B 92.523 214 15 1 990 1203 172250702 172250490 2.890000e-79 305
9 TraesCS6A01G136900 chr6D 90.561 784 56 12 990 1768 89716387 89715617 0.000000e+00 1022
10 TraesCS6A01G136900 chr6D 84.151 795 64 18 1050 1791 89709321 89708536 0.000000e+00 713
11 TraesCS6A01G136900 chr6D 82.991 682 49 39 1 651 89722610 89721965 2.600000e-154 555
12 TraesCS6A01G136900 chr6D 90.051 392 20 7 1753 2139 89715591 89715214 7.420000e-135 490
13 TraesCS6A01G136900 chr6D 89.666 329 27 3 1814 2139 89708361 89708037 1.650000e-111 412
14 TraesCS6A01G136900 chr3B 98.864 176 2 0 2137 2312 637616151 637615976 4.800000e-82 315
15 TraesCS6A01G136900 chr3B 96.111 180 7 0 2133 2312 564026577 564026398 6.250000e-76 294
16 TraesCS6A01G136900 chr3B 95.455 176 8 0 2137 2312 221532073 221531898 4.860000e-72 281
17 TraesCS6A01G136900 chr3B 94.886 176 9 0 2137 2312 31696043 31695868 2.260000e-70 276
18 TraesCS6A01G136900 chr2B 98.315 178 3 0 2135 2312 53658843 53659020 1.720000e-81 313
19 TraesCS6A01G136900 chr2B 94.886 176 7 2 2138 2312 726709590 726709416 8.140000e-70 274
20 TraesCS6A01G136900 chr2B 94.286 175 10 0 2138 2312 726750990 726750816 3.790000e-68 268


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 TraesCS6A01G136900 chr6A 108088596 108090907 2311 True 4270.0 4270 100.00000 1 2312 1 chr6A.!!$R2 2311
1 TraesCS6A01G136900 chr6A 107864509 107865226 717 True 407.0 514 89.23300 990 1673 2 chr6A.!!$R3 683
2 TraesCS6A01G136900 chr6B 172249434 172254916 5482 True 779.5 1709 88.92825 138 2139 4 chr6B.!!$R1 2001
3 TraesCS6A01G136900 chr6D 89715214 89716387 1173 True 756.0 1022 90.30600 990 2139 2 chr6D.!!$R3 1149
4 TraesCS6A01G136900 chr6D 89708037 89709321 1284 True 562.5 713 86.90850 1050 2139 2 chr6D.!!$R2 1089
5 TraesCS6A01G136900 chr6D 89721965 89722610 645 True 555.0 555 82.99100 1 651 1 chr6D.!!$R1 650

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
126 128 0.100503 GCTGCTCTCGTCCTCTCTTC 59.899 60.0 0.0 0.0 0.0 2.87 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1838 5631 0.025898 GACGACGACGACGATGATGA 59.974 55.0 25.15 0.0 42.66 2.92 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
41 43 1.757118 CGGAGGAGGAGCAACTAATGA 59.243 52.381 0.00 0.00 0.00 2.57
47 49 1.211457 AGGAGCAACTAATGAGCCCAG 59.789 52.381 0.00 0.00 0.00 4.45
52 54 1.398390 CAACTAATGAGCCCAGTTCGC 59.602 52.381 0.00 0.00 30.20 4.70
77 79 1.009829 GAATGGGTCGCATCTCACAC 58.990 55.000 2.42 0.00 0.00 3.82
120 122 3.753434 CGGTGCTGCTCTCGTCCT 61.753 66.667 0.00 0.00 0.00 3.85
121 123 2.183046 GGTGCTGCTCTCGTCCTC 59.817 66.667 0.00 0.00 0.00 3.71
122 124 2.347322 GGTGCTGCTCTCGTCCTCT 61.347 63.158 0.00 0.00 0.00 3.69
123 125 1.138671 GTGCTGCTCTCGTCCTCTC 59.861 63.158 0.00 0.00 0.00 3.20
124 126 1.001517 TGCTGCTCTCGTCCTCTCT 60.002 57.895 0.00 0.00 0.00 3.10
125 127 0.610509 TGCTGCTCTCGTCCTCTCTT 60.611 55.000 0.00 0.00 0.00 2.85
126 128 0.100503 GCTGCTCTCGTCCTCTCTTC 59.899 60.000 0.00 0.00 0.00 2.87
127 129 1.750193 CTGCTCTCGTCCTCTCTTCT 58.250 55.000 0.00 0.00 0.00 2.85
128 130 1.670811 CTGCTCTCGTCCTCTCTTCTC 59.329 57.143 0.00 0.00 0.00 2.87
129 131 1.021968 GCTCTCGTCCTCTCTTCTCC 58.978 60.000 0.00 0.00 0.00 3.71
130 132 1.675552 CTCTCGTCCTCTCTTCTCCC 58.324 60.000 0.00 0.00 0.00 4.30
131 133 0.107606 TCTCGTCCTCTCTTCTCCCG 60.108 60.000 0.00 0.00 0.00 5.14
132 134 0.393267 CTCGTCCTCTCTTCTCCCGT 60.393 60.000 0.00 0.00 0.00 5.28
133 135 0.392729 TCGTCCTCTCTTCTCCCGTC 60.393 60.000 0.00 0.00 0.00 4.79
134 136 0.393267 CGTCCTCTCTTCTCCCGTCT 60.393 60.000 0.00 0.00 0.00 4.18
135 137 1.134461 CGTCCTCTCTTCTCCCGTCTA 60.134 57.143 0.00 0.00 0.00 2.59
136 138 2.485835 CGTCCTCTCTTCTCCCGTCTAT 60.486 54.545 0.00 0.00 0.00 1.98
137 139 3.143728 GTCCTCTCTTCTCCCGTCTATC 58.856 54.545 0.00 0.00 0.00 2.08
138 140 3.050089 TCCTCTCTTCTCCCGTCTATCT 58.950 50.000 0.00 0.00 0.00 1.98
139 141 3.071892 TCCTCTCTTCTCCCGTCTATCTC 59.928 52.174 0.00 0.00 0.00 2.75
140 142 3.072476 CCTCTCTTCTCCCGTCTATCTCT 59.928 52.174 0.00 0.00 0.00 3.10
141 143 4.315803 CTCTCTTCTCCCGTCTATCTCTC 58.684 52.174 0.00 0.00 0.00 3.20
142 144 3.064207 CTCTTCTCCCGTCTATCTCTCG 58.936 54.545 0.00 0.00 0.00 4.04
143 145 2.435069 TCTTCTCCCGTCTATCTCTCGT 59.565 50.000 0.00 0.00 0.00 4.18
144 146 2.529780 TCTCCCGTCTATCTCTCGTC 57.470 55.000 0.00 0.00 0.00 4.20
145 147 1.070445 TCTCCCGTCTATCTCTCGTCC 59.930 57.143 0.00 0.00 0.00 4.79
146 148 1.071071 CTCCCGTCTATCTCTCGTCCT 59.929 57.143 0.00 0.00 0.00 3.85
161 163 1.134461 CGTCCTCTCTTCTCCCGTCTA 60.134 57.143 0.00 0.00 0.00 2.59
166 168 3.181449 CCTCTCTTCTCCCGTCTATCTCA 60.181 52.174 0.00 0.00 0.00 3.27
240 254 1.993948 TCGTCCTCCTCCTCCTCGA 60.994 63.158 0.00 0.00 0.00 4.04
298 312 1.298413 CGCCACGTTCTCGATCGAT 60.298 57.895 19.78 0.00 40.62 3.59
299 313 1.532343 CGCCACGTTCTCGATCGATG 61.532 60.000 19.78 13.28 40.62 3.84
300 314 0.525668 GCCACGTTCTCGATCGATGT 60.526 55.000 19.78 11.96 40.62 3.06
303 317 2.028045 CCACGTTCTCGATCGATGTTTG 59.972 50.000 19.78 11.82 40.62 2.93
314 330 1.001624 CGATGTTTGCGATCTGCTCA 58.998 50.000 10.16 7.63 46.63 4.26
315 331 1.267235 CGATGTTTGCGATCTGCTCAC 60.267 52.381 10.16 7.52 46.63 3.51
316 332 0.723414 ATGTTTGCGATCTGCTCACG 59.277 50.000 10.16 0.00 46.63 4.35
317 333 0.599991 TGTTTGCGATCTGCTCACGT 60.600 50.000 10.16 0.00 46.63 4.49
319 335 0.319469 TTTGCGATCTGCTCACGTGA 60.319 50.000 18.88 18.88 46.63 4.35
411 443 1.037493 ATAGGCGATGCGTGACCTAA 58.963 50.000 7.46 0.00 38.25 2.69
412 444 0.101759 TAGGCGATGCGTGACCTAAC 59.898 55.000 1.75 0.00 31.85 2.34
413 445 2.171725 GGCGATGCGTGACCTAACC 61.172 63.158 0.00 0.00 0.00 2.85
414 446 1.153628 GCGATGCGTGACCTAACCT 60.154 57.895 0.00 0.00 0.00 3.50
415 447 0.101759 GCGATGCGTGACCTAACCTA 59.898 55.000 0.00 0.00 0.00 3.08
429 461 2.857592 AACCTATCGCGTGATACGTT 57.142 45.000 20.59 20.59 44.73 3.99
550 594 1.003003 TCCATGCGTGATTTCTGACCA 59.997 47.619 7.72 0.00 0.00 4.02
556 600 2.283298 CGTGATTTCTGACCATCTGGG 58.717 52.381 0.54 0.00 44.81 4.45
579 624 0.323725 ACATGGGATTCTGGTGCCAC 60.324 55.000 0.00 0.00 42.69 5.01
586 631 3.918253 TTCTGGTGCCACGCATCCC 62.918 63.158 0.00 0.00 39.18 3.85
601 646 1.971505 ATCCCTGGCGCGATCTCAAA 61.972 55.000 12.10 0.00 0.00 2.69
610 655 2.279741 CGCGATCTCAAATCCTTGGAA 58.720 47.619 0.00 0.00 33.01 3.53
622 667 4.586306 ATCCTTGGAAATTAGAACGGGT 57.414 40.909 0.00 0.00 0.00 5.28
623 668 3.681593 TCCTTGGAAATTAGAACGGGTG 58.318 45.455 0.00 0.00 0.00 4.61
651 696 5.106078 ACATTTTGATTTGGAATGGCATTGC 60.106 36.000 22.97 22.97 35.60 3.56
663 708 3.248043 GCATTGCCAGTCTGGTACA 57.752 52.632 20.24 7.88 40.46 2.90
664 709 1.755179 GCATTGCCAGTCTGGTACAT 58.245 50.000 20.24 9.27 40.46 2.29
666 711 1.402968 CATTGCCAGTCTGGTACATGC 59.597 52.381 20.24 5.22 40.46 4.06
667 712 0.399833 TTGCCAGTCTGGTACATGCA 59.600 50.000 20.24 7.85 40.46 3.96
668 713 0.620030 TGCCAGTCTGGTACATGCAT 59.380 50.000 20.24 0.00 40.46 3.96
669 714 1.019673 GCCAGTCTGGTACATGCATG 58.980 55.000 25.09 25.09 40.46 4.06
671 716 2.283298 CCAGTCTGGTACATGCATGAC 58.717 52.381 32.75 23.19 38.20 3.06
676 721 1.081556 TGGTACATGCATGACGACGC 61.082 55.000 32.75 18.28 0.00 5.19
687 749 3.932580 GACGACGCTGGTGGATGCA 62.933 63.158 0.00 0.00 0.00 3.96
692 754 2.998097 GCTGGTGGATGCAGGGTA 59.002 61.111 0.00 0.00 0.00 3.69
694 756 0.764890 GCTGGTGGATGCAGGGTATA 59.235 55.000 0.00 0.00 0.00 1.47
699 761 3.204158 TGGTGGATGCAGGGTATACAATT 59.796 43.478 5.01 0.00 0.00 2.32
700 762 4.413851 TGGTGGATGCAGGGTATACAATTA 59.586 41.667 5.01 0.00 0.00 1.40
701 763 5.003804 GGTGGATGCAGGGTATACAATTAG 58.996 45.833 5.01 0.00 0.00 1.73
702 764 5.456186 GGTGGATGCAGGGTATACAATTAGT 60.456 44.000 5.01 0.00 0.00 2.24
703 765 6.239772 GGTGGATGCAGGGTATACAATTAGTA 60.240 42.308 5.01 0.00 37.06 1.82
704 766 6.874134 GTGGATGCAGGGTATACAATTAGTAG 59.126 42.308 5.01 0.00 35.85 2.57
705 767 6.557253 TGGATGCAGGGTATACAATTAGTAGT 59.443 38.462 5.01 0.00 35.85 2.73
706 768 7.071950 TGGATGCAGGGTATACAATTAGTAGTT 59.928 37.037 5.01 0.00 35.85 2.24
707 769 8.591072 GGATGCAGGGTATACAATTAGTAGTTA 58.409 37.037 5.01 0.00 35.85 2.24
708 770 9.991906 GATGCAGGGTATACAATTAGTAGTTAA 57.008 33.333 5.01 0.00 35.85 2.01
762 824 8.121305 TCTTTGAGTATATGTTGGCATTTTGT 57.879 30.769 0.00 0.00 36.58 2.83
768 830 3.834489 ATGTTGGCATTTTGTTGGACA 57.166 38.095 0.00 0.00 29.54 4.02
789 851 7.384660 TGGACAGAATTTCATTTTGTAATGTGC 59.615 33.333 0.00 0.00 41.54 4.57
815 877 5.351465 ACTGGTTCATTTCATACTTAGCACG 59.649 40.000 0.00 0.00 0.00 5.34
820 882 4.570772 TCATTTCATACTTAGCACGCCTTC 59.429 41.667 0.00 0.00 0.00 3.46
887 949 6.703607 GCCCTTGATATCATGGATTATACTCG 59.296 42.308 30.14 15.81 42.04 4.18
895 957 9.838339 ATATCATGGATTATACTCGAATTTCCC 57.162 33.333 0.00 0.00 0.00 3.97
900 962 6.925165 TGGATTATACTCGAATTTCCCGTTAC 59.075 38.462 0.00 0.00 0.00 2.50
903 965 9.630098 GATTATACTCGAATTTCCCGTTACATA 57.370 33.333 0.00 0.00 0.00 2.29
907 969 7.884816 ACTCGAATTTCCCGTTACATATATG 57.115 36.000 11.29 11.29 0.00 1.78
988 1053 1.523095 GATGTCATAGCTCCGTTTCGC 59.477 52.381 0.00 0.00 0.00 4.70
1035 1100 2.024871 CCGTTTTTGCCGCGTGAA 59.975 55.556 4.92 0.00 0.00 3.18
1119 1184 1.226974 CGATGCGATCACCTCCGTT 60.227 57.895 0.00 0.00 0.00 4.44
1165 4589 6.717997 TGCATCAAGCCTATTCATGATTGTAT 59.282 34.615 0.00 0.00 44.83 2.29
1203 4660 9.181061 TGTCTGTTCATGATCAATGATTGTAAT 57.819 29.630 0.00 0.00 44.84 1.89
1242 4700 1.193874 GTTTCCGTTTAGCTGGTGACG 59.806 52.381 0.00 9.59 35.44 4.35
1249 4707 3.581755 GTTTAGCTGGTGACGTGTATCA 58.418 45.455 0.00 0.00 0.00 2.15
1261 4719 3.000041 ACGTGTATCATGTTGTGCGAAT 59.000 40.909 0.00 0.00 28.11 3.34
1266 4724 1.378531 TCATGTTGTGCGAATAGGGC 58.621 50.000 0.00 0.00 0.00 5.19
1323 4781 1.754745 GGAGTGACCTTGAGTGGCA 59.245 57.895 0.00 0.00 35.41 4.92
1331 4789 0.524862 CCTTGAGTGGCATTGCTGTC 59.475 55.000 8.82 3.81 0.00 3.51
1396 4856 1.927174 CTGTTCGAAGGTTATGAGCCG 59.073 52.381 0.00 0.00 0.00 5.52
1506 4970 2.358737 CCTGGTGTCAGCGAACCC 60.359 66.667 0.00 0.00 39.61 4.11
1536 5004 4.446994 TTGACAGCAACAATGTTCAACA 57.553 36.364 0.00 0.00 0.00 3.33
1537 5005 4.031418 TGACAGCAACAATGTTCAACAG 57.969 40.909 0.00 0.00 0.00 3.16
1540 5008 4.819769 ACAGCAACAATGTTCAACAGTTT 58.180 34.783 0.00 0.00 0.00 2.66
1541 5009 5.237048 ACAGCAACAATGTTCAACAGTTTT 58.763 33.333 0.00 0.00 0.00 2.43
1542 5010 5.120519 ACAGCAACAATGTTCAACAGTTTTG 59.879 36.000 11.59 11.59 0.00 2.44
1543 5011 5.120519 CAGCAACAATGTTCAACAGTTTTGT 59.879 36.000 15.99 9.78 39.87 2.83
1544 5012 5.120519 AGCAACAATGTTCAACAGTTTTGTG 59.879 36.000 15.99 8.70 37.67 3.33
1616 5191 2.309528 TTCAGGCGATCATGGTGTAC 57.690 50.000 0.00 0.00 0.00 2.90
1708 5294 0.038599 TTGCATGAGCCTGTGGACAT 59.961 50.000 0.00 0.00 41.13 3.06
1811 5460 6.567050 TCAGGTAACGATAACATCAGTAACC 58.433 40.000 0.00 0.00 46.39 2.85
1832 5625 4.472833 ACCAAATCTAGAGCTCCTTGTCAT 59.527 41.667 10.93 0.00 0.00 3.06
1833 5626 5.055812 CCAAATCTAGAGCTCCTTGTCATC 58.944 45.833 10.93 0.00 0.00 2.92
1834 5627 4.582701 AATCTAGAGCTCCTTGTCATCG 57.417 45.455 10.93 0.00 0.00 3.84
1835 5628 3.006112 TCTAGAGCTCCTTGTCATCGT 57.994 47.619 10.93 0.00 0.00 3.73
1836 5629 2.946329 TCTAGAGCTCCTTGTCATCGTC 59.054 50.000 10.93 0.00 0.00 4.20
1837 5630 1.550327 AGAGCTCCTTGTCATCGTCA 58.450 50.000 10.93 0.00 0.00 4.35
1838 5631 2.106566 AGAGCTCCTTGTCATCGTCAT 58.893 47.619 10.93 0.00 0.00 3.06
1839 5632 2.100584 AGAGCTCCTTGTCATCGTCATC 59.899 50.000 10.93 0.00 0.00 2.92
1840 5633 1.827344 AGCTCCTTGTCATCGTCATCA 59.173 47.619 0.00 0.00 0.00 3.07
1841 5634 2.433604 AGCTCCTTGTCATCGTCATCAT 59.566 45.455 0.00 0.00 0.00 2.45
1842 5635 2.799412 GCTCCTTGTCATCGTCATCATC 59.201 50.000 0.00 0.00 0.00 2.92
1843 5636 3.739209 GCTCCTTGTCATCGTCATCATCA 60.739 47.826 0.00 0.00 0.00 3.07
1891 5702 3.157949 TGTCCCGCGGCCATATCA 61.158 61.111 22.85 8.76 0.00 2.15
1892 5703 2.347490 GTCCCGCGGCCATATCAT 59.653 61.111 22.85 0.00 0.00 2.45
1893 5704 1.741770 GTCCCGCGGCCATATCATC 60.742 63.158 22.85 0.00 0.00 2.92
1894 5705 2.213513 TCCCGCGGCCATATCATCA 61.214 57.895 22.85 0.00 0.00 3.07
1900 5711 1.745141 GCGGCCATATCATCATCCTCC 60.745 57.143 2.24 0.00 0.00 4.30
1906 5717 3.181492 CCATATCATCATCCTCCTCGTCG 60.181 52.174 0.00 0.00 0.00 5.12
1927 5738 3.183574 CGTCGTCATACTCAACAAAAGCA 59.816 43.478 0.00 0.00 0.00 3.91
2001 5812 1.377856 GCAGGGACTTGAAGAGGGC 60.378 63.158 0.00 0.00 34.60 5.19
2006 5817 0.034896 GGACTTGAAGAGGGCGACAA 59.965 55.000 0.00 0.00 0.00 3.18
2139 5950 3.713003 TGATGTACTCCTGTCTGACCAT 58.287 45.455 5.17 0.00 0.00 3.55
2140 5951 4.867086 TGATGTACTCCTGTCTGACCATA 58.133 43.478 5.17 0.00 0.00 2.74
2141 5952 4.889995 TGATGTACTCCTGTCTGACCATAG 59.110 45.833 5.17 2.43 0.00 2.23
2142 5953 4.317530 TGTACTCCTGTCTGACCATAGT 57.682 45.455 5.17 8.07 0.00 2.12
2143 5954 4.673968 TGTACTCCTGTCTGACCATAGTT 58.326 43.478 5.17 0.00 0.00 2.24
2144 5955 4.462834 TGTACTCCTGTCTGACCATAGTTG 59.537 45.833 5.17 0.00 0.00 3.16
2145 5956 2.234908 ACTCCTGTCTGACCATAGTTGC 59.765 50.000 5.17 0.00 0.00 4.17
2146 5957 1.555075 TCCTGTCTGACCATAGTTGCC 59.445 52.381 5.17 0.00 0.00 4.52
2147 5958 1.278985 CCTGTCTGACCATAGTTGCCA 59.721 52.381 5.17 0.00 0.00 4.92
2148 5959 2.092753 CCTGTCTGACCATAGTTGCCAT 60.093 50.000 5.17 0.00 0.00 4.40
2149 5960 2.941064 CTGTCTGACCATAGTTGCCATG 59.059 50.000 5.17 0.00 0.00 3.66
2150 5961 2.305635 TGTCTGACCATAGTTGCCATGT 59.694 45.455 5.17 0.00 0.00 3.21
2151 5962 3.244875 TGTCTGACCATAGTTGCCATGTT 60.245 43.478 5.17 0.00 0.00 2.71
2152 5963 3.758554 GTCTGACCATAGTTGCCATGTTT 59.241 43.478 0.00 0.00 0.00 2.83
2153 5964 4.009675 TCTGACCATAGTTGCCATGTTTC 58.990 43.478 0.00 0.00 0.00 2.78
2154 5965 3.088532 TGACCATAGTTGCCATGTTTCC 58.911 45.455 0.00 0.00 0.00 3.13
2155 5966 2.091541 ACCATAGTTGCCATGTTTCCG 58.908 47.619 0.00 0.00 0.00 4.30
2156 5967 1.405105 CCATAGTTGCCATGTTTCCGG 59.595 52.381 0.00 0.00 0.00 5.14
2157 5968 2.091541 CATAGTTGCCATGTTTCCGGT 58.908 47.619 0.00 0.00 0.00 5.28
2158 5969 3.275143 CATAGTTGCCATGTTTCCGGTA 58.725 45.455 0.00 0.00 0.00 4.02
2159 5970 1.530323 AGTTGCCATGTTTCCGGTAC 58.470 50.000 0.00 1.45 0.00 3.34
2172 5983 2.267961 GGTACGGTGGGAGCAAGG 59.732 66.667 0.00 0.00 0.00 3.61
2173 5984 2.288025 GGTACGGTGGGAGCAAGGA 61.288 63.158 0.00 0.00 0.00 3.36
2174 5985 1.675219 GTACGGTGGGAGCAAGGAA 59.325 57.895 0.00 0.00 0.00 3.36
2175 5986 0.672711 GTACGGTGGGAGCAAGGAAC 60.673 60.000 0.00 0.00 0.00 3.62
2176 5987 2.162338 TACGGTGGGAGCAAGGAACG 62.162 60.000 0.00 0.00 0.00 3.95
2177 5988 2.359975 GGTGGGAGCAAGGAACGG 60.360 66.667 0.00 0.00 0.00 4.44
2178 5989 2.359975 GTGGGAGCAAGGAACGGG 60.360 66.667 0.00 0.00 0.00 5.28
2179 5990 2.528127 TGGGAGCAAGGAACGGGA 60.528 61.111 0.00 0.00 0.00 5.14
2180 5991 2.150719 TGGGAGCAAGGAACGGGAA 61.151 57.895 0.00 0.00 0.00 3.97
2181 5992 1.674651 GGGAGCAAGGAACGGGAAC 60.675 63.158 0.00 0.00 0.00 3.62
2193 6004 3.198582 GGGAACGAGGGACGAGAG 58.801 66.667 0.00 0.00 45.77 3.20
2204 6015 2.282251 ACGAGAGTCGGTGGCTGA 60.282 61.111 0.86 0.00 45.59 4.26
2205 6016 1.901948 ACGAGAGTCGGTGGCTGAA 60.902 57.895 0.86 0.00 45.59 3.02
2206 6017 1.289066 CGAGAGTCGGTGGCTGAAA 59.711 57.895 0.00 0.00 36.00 2.69
2207 6018 0.319555 CGAGAGTCGGTGGCTGAAAA 60.320 55.000 0.00 0.00 36.00 2.29
2208 6019 1.872237 CGAGAGTCGGTGGCTGAAAAA 60.872 52.381 0.00 0.00 36.00 1.94
2227 6038 4.645863 AAAAATAGGGTACAACGAGGGT 57.354 40.909 0.00 0.00 0.00 4.34
2228 6039 5.760484 AAAAATAGGGTACAACGAGGGTA 57.240 39.130 0.00 0.00 0.00 3.69
2229 6040 5.963214 AAAATAGGGTACAACGAGGGTAT 57.037 39.130 0.00 0.00 0.00 2.73
2230 6041 7.436320 AAAAATAGGGTACAACGAGGGTATA 57.564 36.000 0.00 0.00 0.00 1.47
2231 6042 6.410942 AAATAGGGTACAACGAGGGTATAC 57.589 41.667 0.00 0.00 0.00 1.47
2232 6043 3.386932 AGGGTACAACGAGGGTATACA 57.613 47.619 5.01 0.00 0.00 2.29
2233 6044 3.919834 AGGGTACAACGAGGGTATACAT 58.080 45.455 5.01 0.00 0.00 2.29
2234 6045 3.893813 AGGGTACAACGAGGGTATACATC 59.106 47.826 5.01 1.38 0.00 3.06
2235 6046 3.893813 GGGTACAACGAGGGTATACATCT 59.106 47.826 5.01 1.40 0.00 2.90
2236 6047 4.022503 GGGTACAACGAGGGTATACATCTC 60.023 50.000 5.01 9.79 0.00 2.75
2237 6048 4.826183 GGTACAACGAGGGTATACATCTCT 59.174 45.833 17.62 5.75 0.00 3.10
2238 6049 5.301298 GGTACAACGAGGGTATACATCTCTT 59.699 44.000 17.62 9.82 0.00 2.85
2239 6050 6.488006 GGTACAACGAGGGTATACATCTCTTA 59.512 42.308 17.62 6.47 0.00 2.10
2240 6051 6.636562 ACAACGAGGGTATACATCTCTTAG 57.363 41.667 17.62 11.68 0.00 2.18
2241 6052 6.363065 ACAACGAGGGTATACATCTCTTAGA 58.637 40.000 17.62 0.00 0.00 2.10
2242 6053 6.262720 ACAACGAGGGTATACATCTCTTAGAC 59.737 42.308 17.62 0.00 0.00 2.59
2243 6054 4.996122 ACGAGGGTATACATCTCTTAGACG 59.004 45.833 17.62 10.15 0.00 4.18
2244 6055 5.221601 ACGAGGGTATACATCTCTTAGACGA 60.222 44.000 17.62 0.00 0.00 4.20
2245 6056 5.699915 CGAGGGTATACATCTCTTAGACGAA 59.300 44.000 17.62 0.00 0.00 3.85
2246 6057 6.372103 CGAGGGTATACATCTCTTAGACGAAT 59.628 42.308 17.62 0.00 0.00 3.34
2247 6058 7.094720 CGAGGGTATACATCTCTTAGACGAATT 60.095 40.741 17.62 0.00 0.00 2.17
2248 6059 8.480133 AGGGTATACATCTCTTAGACGAATTT 57.520 34.615 5.01 0.00 0.00 1.82
2249 6060 8.925338 AGGGTATACATCTCTTAGACGAATTTT 58.075 33.333 5.01 0.00 0.00 1.82
2250 6061 9.543783 GGGTATACATCTCTTAGACGAATTTTT 57.456 33.333 5.01 0.00 0.00 1.94
2279 6090 2.389713 GACGCGATCCAATCCATTTG 57.610 50.000 15.93 0.00 34.93 2.32
2293 6104 3.815809 TCCATTTGGATACGATGAACCC 58.184 45.455 0.00 0.00 39.78 4.11
2294 6105 2.548057 CCATTTGGATACGATGAACCCG 59.452 50.000 0.00 0.00 42.51 5.28
2295 6106 2.319136 TTTGGATACGATGAACCCGG 57.681 50.000 0.00 0.00 42.51 5.73
2296 6107 1.196911 TTGGATACGATGAACCCGGT 58.803 50.000 0.00 0.00 42.51 5.28
2297 6108 2.070305 TGGATACGATGAACCCGGTA 57.930 50.000 0.00 0.00 42.51 4.02
2298 6109 1.682854 TGGATACGATGAACCCGGTAC 59.317 52.381 0.00 0.00 42.51 3.34
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
27 28 1.211457 CTGGGCTCATTAGTTGCTCCT 59.789 52.381 0.00 0.00 0.00 3.69
35 36 1.009829 GTGCGAACTGGGCTCATTAG 58.990 55.000 0.00 0.00 0.00 1.73
36 37 0.739462 CGTGCGAACTGGGCTCATTA 60.739 55.000 0.00 0.00 0.00 1.90
41 43 2.933878 TTCAACGTGCGAACTGGGCT 62.934 55.000 0.00 0.00 0.00 5.19
47 49 0.110373 GACCCATTCAACGTGCGAAC 60.110 55.000 3.01 0.00 0.00 3.95
52 54 0.096976 GATGCGACCCATTCAACGTG 59.903 55.000 0.00 0.00 33.29 4.49
77 79 4.411256 TGGGCCTAAAAATAGTACTCGG 57.589 45.455 4.53 0.00 0.00 4.63
119 121 4.315803 GAGAGATAGACGGGAGAAGAGAG 58.684 52.174 0.00 0.00 0.00 3.20
120 122 3.243941 CGAGAGATAGACGGGAGAAGAGA 60.244 52.174 0.00 0.00 0.00 3.10
121 123 3.064207 CGAGAGATAGACGGGAGAAGAG 58.936 54.545 0.00 0.00 0.00 2.85
122 124 2.435069 ACGAGAGATAGACGGGAGAAGA 59.565 50.000 0.00 0.00 0.00 2.87
123 125 2.803956 GACGAGAGATAGACGGGAGAAG 59.196 54.545 0.00 0.00 0.00 2.85
124 126 2.485124 GGACGAGAGATAGACGGGAGAA 60.485 54.545 0.00 0.00 0.00 2.87
125 127 1.070445 GGACGAGAGATAGACGGGAGA 59.930 57.143 0.00 0.00 0.00 3.71
126 128 1.071071 AGGACGAGAGATAGACGGGAG 59.929 57.143 0.00 0.00 0.00 4.30
127 129 1.070445 GAGGACGAGAGATAGACGGGA 59.930 57.143 0.00 0.00 0.00 5.14
128 130 1.071071 AGAGGACGAGAGATAGACGGG 59.929 57.143 0.00 0.00 0.00 5.28
129 131 2.036733 AGAGAGGACGAGAGATAGACGG 59.963 54.545 0.00 0.00 0.00 4.79
130 132 3.380479 AGAGAGGACGAGAGATAGACG 57.620 52.381 0.00 0.00 0.00 4.18
131 133 4.957296 AGAAGAGAGGACGAGAGATAGAC 58.043 47.826 0.00 0.00 0.00 2.59
132 134 4.039973 GGAGAAGAGAGGACGAGAGATAGA 59.960 50.000 0.00 0.00 0.00 1.98
133 135 4.315803 GGAGAAGAGAGGACGAGAGATAG 58.684 52.174 0.00 0.00 0.00 2.08
134 136 3.071892 GGGAGAAGAGAGGACGAGAGATA 59.928 52.174 0.00 0.00 0.00 1.98
135 137 2.158667 GGGAGAAGAGAGGACGAGAGAT 60.159 54.545 0.00 0.00 0.00 2.75
136 138 1.210967 GGGAGAAGAGAGGACGAGAGA 59.789 57.143 0.00 0.00 0.00 3.10
137 139 1.675552 GGGAGAAGAGAGGACGAGAG 58.324 60.000 0.00 0.00 0.00 3.20
138 140 0.107606 CGGGAGAAGAGAGGACGAGA 60.108 60.000 0.00 0.00 0.00 4.04
139 141 0.393267 ACGGGAGAAGAGAGGACGAG 60.393 60.000 0.00 0.00 0.00 4.18
140 142 0.392729 GACGGGAGAAGAGAGGACGA 60.393 60.000 0.00 0.00 0.00 4.20
141 143 0.393267 AGACGGGAGAAGAGAGGACG 60.393 60.000 0.00 0.00 0.00 4.79
142 144 2.713863 TAGACGGGAGAAGAGAGGAC 57.286 55.000 0.00 0.00 0.00 3.85
143 145 3.050089 AGATAGACGGGAGAAGAGAGGA 58.950 50.000 0.00 0.00 0.00 3.71
144 146 3.181449 TGAGATAGACGGGAGAAGAGAGG 60.181 52.174 0.00 0.00 0.00 3.69
145 147 4.079980 TGAGATAGACGGGAGAAGAGAG 57.920 50.000 0.00 0.00 0.00 3.20
146 148 4.715534 ATGAGATAGACGGGAGAAGAGA 57.284 45.455 0.00 0.00 0.00 3.10
176 178 0.119155 TGGAATGGTGGAGGAGGAGT 59.881 55.000 0.00 0.00 0.00 3.85
209 217 1.586564 GGACGACGATCCTTGCGAG 60.587 63.158 0.00 0.00 35.68 5.03
274 288 4.719369 GAGAACGTGGCGAGGCGT 62.719 66.667 0.00 0.00 43.64 5.68
298 312 0.599991 ACGTGAGCAGATCGCAAACA 60.600 50.000 11.20 6.28 46.13 2.83
299 313 0.179240 CACGTGAGCAGATCGCAAAC 60.179 55.000 10.90 7.91 46.13 2.93
300 314 0.319469 TCACGTGAGCAGATCGCAAA 60.319 50.000 15.76 0.00 46.13 3.68
303 317 1.136872 GAGTCACGTGAGCAGATCGC 61.137 60.000 20.73 4.30 42.91 4.58
314 330 2.728383 CGCGGTTTCGAGTCACGT 60.728 61.111 0.00 0.00 43.13 4.49
315 331 3.467119 CCGCGGTTTCGAGTCACG 61.467 66.667 19.50 0.00 44.09 4.35
316 332 3.774702 GCCGCGGTTTCGAGTCAC 61.775 66.667 28.70 0.93 39.00 3.67
486 518 2.370647 CTAAGCTCCTACAGGCCGGC 62.371 65.000 21.18 21.18 34.44 6.13
524 556 0.442310 AAATCACGCATGGACGAACG 59.558 50.000 0.00 0.00 36.70 3.95
550 594 0.632835 AATCCCATGTGTGCCCAGAT 59.367 50.000 0.00 0.00 0.00 2.90
556 600 0.813184 CACCAGAATCCCATGTGTGC 59.187 55.000 0.00 0.00 0.00 4.57
560 604 0.323725 GTGGCACCAGAATCCCATGT 60.324 55.000 6.29 0.00 0.00 3.21
586 631 0.531532 AGGATTTGAGATCGCGCCAG 60.532 55.000 0.00 0.00 0.00 4.85
590 635 1.939974 TCCAAGGATTTGAGATCGCG 58.060 50.000 0.00 0.00 36.36 5.87
601 646 4.270008 CACCCGTTCTAATTTCCAAGGAT 58.730 43.478 0.00 0.00 0.00 3.24
610 655 3.713826 ATGTGTCCACCCGTTCTAATT 57.286 42.857 0.00 0.00 0.00 1.40
622 667 5.549347 CCATTCCAAATCAAAATGTGTCCA 58.451 37.500 0.00 0.00 0.00 4.02
623 668 4.392754 GCCATTCCAAATCAAAATGTGTCC 59.607 41.667 0.00 0.00 0.00 4.02
651 696 2.283298 GTCATGCATGTACCAGACTGG 58.717 52.381 25.43 20.45 45.02 4.00
659 704 0.298707 CAGCGTCGTCATGCATGTAC 59.701 55.000 25.43 19.54 36.94 2.90
662 707 2.102438 ACCAGCGTCGTCATGCATG 61.102 57.895 21.07 21.07 36.94 4.06
663 708 2.102438 CACCAGCGTCGTCATGCAT 61.102 57.895 0.00 0.00 36.94 3.96
664 709 2.738139 CACCAGCGTCGTCATGCA 60.738 61.111 0.00 0.00 36.94 3.96
666 711 1.153568 ATCCACCAGCGTCGTCATG 60.154 57.895 0.00 0.00 0.00 3.07
667 712 1.153568 CATCCACCAGCGTCGTCAT 60.154 57.895 0.00 0.00 0.00 3.06
668 713 2.261361 CATCCACCAGCGTCGTCA 59.739 61.111 0.00 0.00 0.00 4.35
669 714 3.188786 GCATCCACCAGCGTCGTC 61.189 66.667 0.00 0.00 0.00 4.20
671 716 3.190849 CTGCATCCACCAGCGTCG 61.191 66.667 0.00 0.00 0.00 5.12
676 721 1.768275 TGTATACCCTGCATCCACCAG 59.232 52.381 0.00 0.00 0.00 4.00
694 756 9.344772 TGGACACAAACATTAACTACTAATTGT 57.655 29.630 0.00 0.00 0.00 2.71
699 761 7.383029 CGACTTGGACACAAACATTAACTACTA 59.617 37.037 0.00 0.00 35.89 1.82
700 762 6.202188 CGACTTGGACACAAACATTAACTACT 59.798 38.462 0.00 0.00 35.89 2.57
701 763 6.360329 CGACTTGGACACAAACATTAACTAC 58.640 40.000 0.00 0.00 35.89 2.73
702 764 5.049954 GCGACTTGGACACAAACATTAACTA 60.050 40.000 0.00 0.00 35.89 2.24
703 765 4.261031 GCGACTTGGACACAAACATTAACT 60.261 41.667 0.00 0.00 35.89 2.24
704 766 3.972502 GCGACTTGGACACAAACATTAAC 59.027 43.478 0.00 0.00 35.89 2.01
705 767 3.628032 TGCGACTTGGACACAAACATTAA 59.372 39.130 0.00 0.00 35.89 1.40
706 768 3.206964 TGCGACTTGGACACAAACATTA 58.793 40.909 0.00 0.00 35.89 1.90
707 769 2.020720 TGCGACTTGGACACAAACATT 58.979 42.857 0.00 0.00 35.89 2.71
708 770 1.603802 CTGCGACTTGGACACAAACAT 59.396 47.619 0.00 0.00 35.89 2.71
744 806 6.393990 TGTCCAACAAAATGCCAACATATAC 58.606 36.000 0.00 0.00 34.62 1.47
762 824 9.258826 CACATTACAAAATGAAATTCTGTCCAA 57.741 29.630 5.18 0.00 44.50 3.53
768 830 7.326789 CAGTCGCACATTACAAAATGAAATTCT 59.673 33.333 5.18 0.00 44.50 2.40
789 851 5.580691 TGCTAAGTATGAAATGAACCAGTCG 59.419 40.000 0.00 0.00 0.00 4.18
815 877 2.933260 GTCAGATCGGAAAGAAGAAGGC 59.067 50.000 0.00 0.00 0.00 4.35
820 882 6.804295 CCTTATATCGTCAGATCGGAAAGAAG 59.196 42.308 0.00 0.00 38.26 2.85
930 995 9.767684 TGTTTTAAACGATAATGTCTTATGCAG 57.232 29.630 3.28 0.00 0.00 4.41
951 1016 9.630098 CTATGACATCTTGTAGCAAAATGTTTT 57.370 29.630 2.87 0.00 31.04 2.43
1146 4570 7.560991 TCCAAACATACAATCATGAATAGGCTT 59.439 33.333 0.00 0.00 0.00 4.35
1165 4589 3.351740 TGAACAGACAAAGCTCCAAACA 58.648 40.909 0.00 0.00 0.00 2.83
1211 4669 4.510340 GCTAAACGGAAACAAGAGAACAGA 59.490 41.667 0.00 0.00 0.00 3.41
1215 4673 3.813166 CCAGCTAAACGGAAACAAGAGAA 59.187 43.478 0.00 0.00 0.00 2.87
1216 4674 3.181458 ACCAGCTAAACGGAAACAAGAGA 60.181 43.478 0.00 0.00 0.00 3.10
1242 4700 4.024893 CCCTATTCGCACAACATGATACAC 60.025 45.833 0.00 0.00 0.00 2.90
1249 4707 1.095228 CGGCCCTATTCGCACAACAT 61.095 55.000 0.00 0.00 0.00 2.71
1261 4719 0.542467 TTGTAGACACCACGGCCCTA 60.542 55.000 0.00 0.00 0.00 3.53
1266 4724 2.066262 GACATGTTGTAGACACCACGG 58.934 52.381 0.00 0.00 42.04 4.94
1314 4772 1.236616 CCGACAGCAATGCCACTCAA 61.237 55.000 0.00 0.00 0.00 3.02
1316 4774 3.044059 GCCGACAGCAATGCCACTC 62.044 63.158 0.00 0.00 42.97 3.51
1331 4789 2.002586 CCATGTCAAAGTACTGAGCCG 58.997 52.381 0.00 0.00 0.00 5.52
1616 5191 7.478322 AGCTTGCATACAGATCAAACATAAAG 58.522 34.615 0.00 0.00 0.00 1.85
1751 5350 8.410912 GGGACTCTGTTGTAGTTGTTTAAAAAT 58.589 33.333 0.00 0.00 0.00 1.82
1811 5460 4.744137 CGATGACAAGGAGCTCTAGATTTG 59.256 45.833 14.64 12.43 0.00 2.32
1832 5625 1.332904 CGACGACGATGATGATGACGA 60.333 52.381 0.00 0.00 42.66 4.20
1833 5626 1.037998 CGACGACGATGATGATGACG 58.962 55.000 0.00 0.00 42.66 4.35
1834 5627 2.037649 GACGACGACGATGATGATGAC 58.962 52.381 15.32 0.00 42.66 3.06
1835 5628 1.332904 CGACGACGACGATGATGATGA 60.333 52.381 15.32 0.00 42.66 2.92
1836 5629 1.037998 CGACGACGACGATGATGATG 58.962 55.000 15.32 0.00 42.66 3.07
1837 5630 0.656259 ACGACGACGACGATGATGAT 59.344 50.000 25.15 0.00 42.66 2.45
1838 5631 0.025898 GACGACGACGACGATGATGA 59.974 55.000 25.15 0.00 42.66 2.92
1839 5632 0.247537 TGACGACGACGACGATGATG 60.248 55.000 25.15 1.27 42.66 3.07
1840 5633 0.656259 ATGACGACGACGACGATGAT 59.344 50.000 25.15 10.92 42.66 2.45
1841 5634 1.005662 GTATGACGACGACGACGATGA 60.006 52.381 25.15 9.20 42.66 2.92
1842 5635 1.005242 AGTATGACGACGACGACGATG 60.005 52.381 25.15 8.06 42.66 3.84
1843 5636 1.257415 GAGTATGACGACGACGACGAT 59.743 52.381 25.15 12.09 42.66 3.73
1885 5693 3.441922 ACGACGAGGAGGATGATGATATG 59.558 47.826 0.00 0.00 0.00 1.78
1891 5702 0.464013 ACGACGACGAGGAGGATGAT 60.464 55.000 15.32 0.00 42.66 2.45
1892 5703 1.078637 ACGACGACGAGGAGGATGA 60.079 57.895 15.32 0.00 42.66 2.92
1893 5704 1.352404 GACGACGACGAGGAGGATG 59.648 63.158 15.32 0.00 42.66 3.51
1894 5705 0.464013 ATGACGACGACGAGGAGGAT 60.464 55.000 15.32 0.00 42.66 3.24
1900 5711 2.159747 TGTTGAGTATGACGACGACGAG 60.160 50.000 15.32 0.00 42.66 4.18
1906 5717 4.725556 TGCTTTTGTTGAGTATGACGAC 57.274 40.909 0.00 0.00 0.00 4.34
1927 5738 1.134401 CAGTATGAAGCCACGGGACAT 60.134 52.381 0.00 0.00 39.69 3.06
2001 5812 1.072116 TTATCGCCGTTCCGTTGTCG 61.072 55.000 0.00 0.00 0.00 4.35
2139 5950 2.702261 GTACCGGAAACATGGCAACTA 58.298 47.619 9.46 0.00 37.61 2.24
2140 5951 1.530323 GTACCGGAAACATGGCAACT 58.470 50.000 9.46 0.00 37.61 3.16
2141 5952 0.167251 CGTACCGGAAACATGGCAAC 59.833 55.000 9.46 0.00 0.00 4.17
2142 5953 2.545875 CGTACCGGAAACATGGCAA 58.454 52.632 9.46 0.00 0.00 4.52
2143 5954 4.287580 CGTACCGGAAACATGGCA 57.712 55.556 9.46 0.00 0.00 4.92
2154 5965 2.125673 CTTGCTCCCACCGTACCG 60.126 66.667 0.00 0.00 0.00 4.02
2155 5966 1.833787 TTCCTTGCTCCCACCGTACC 61.834 60.000 0.00 0.00 0.00 3.34
2156 5967 0.672711 GTTCCTTGCTCCCACCGTAC 60.673 60.000 0.00 0.00 0.00 3.67
2157 5968 1.675219 GTTCCTTGCTCCCACCGTA 59.325 57.895 0.00 0.00 0.00 4.02
2158 5969 2.430367 GTTCCTTGCTCCCACCGT 59.570 61.111 0.00 0.00 0.00 4.83
2159 5970 2.742372 CGTTCCTTGCTCCCACCG 60.742 66.667 0.00 0.00 0.00 4.94
2160 5971 2.359975 CCGTTCCTTGCTCCCACC 60.360 66.667 0.00 0.00 0.00 4.61
2161 5972 2.359975 CCCGTTCCTTGCTCCCAC 60.360 66.667 0.00 0.00 0.00 4.61
2162 5973 2.150719 TTCCCGTTCCTTGCTCCCA 61.151 57.895 0.00 0.00 0.00 4.37
2163 5974 1.674651 GTTCCCGTTCCTTGCTCCC 60.675 63.158 0.00 0.00 0.00 4.30
2164 5975 2.033194 CGTTCCCGTTCCTTGCTCC 61.033 63.158 0.00 0.00 0.00 4.70
2165 5976 1.005394 TCGTTCCCGTTCCTTGCTC 60.005 57.895 0.00 0.00 35.01 4.26
2166 5977 1.004918 CTCGTTCCCGTTCCTTGCT 60.005 57.895 0.00 0.00 35.01 3.91
2167 5978 2.033194 CCTCGTTCCCGTTCCTTGC 61.033 63.158 0.00 0.00 35.01 4.01
2168 5979 1.375523 CCCTCGTTCCCGTTCCTTG 60.376 63.158 0.00 0.00 35.01 3.61
2169 5980 1.534717 TCCCTCGTTCCCGTTCCTT 60.535 57.895 0.00 0.00 35.01 3.36
2170 5981 2.118951 TCCCTCGTTCCCGTTCCT 59.881 61.111 0.00 0.00 35.01 3.36
2171 5982 2.263852 GTCCCTCGTTCCCGTTCC 59.736 66.667 0.00 0.00 35.01 3.62
2172 5983 2.126189 CGTCCCTCGTTCCCGTTC 60.126 66.667 0.00 0.00 35.01 3.95
2173 5984 2.598394 TCGTCCCTCGTTCCCGTT 60.598 61.111 0.00 0.00 40.80 4.44
2174 5985 3.060615 CTCGTCCCTCGTTCCCGT 61.061 66.667 0.00 0.00 40.80 5.28
2175 5986 2.749044 TCTCGTCCCTCGTTCCCG 60.749 66.667 0.00 0.00 40.80 5.14
2176 5987 1.655885 GACTCTCGTCCCTCGTTCCC 61.656 65.000 0.00 0.00 40.80 3.97
2177 5988 1.801983 GACTCTCGTCCCTCGTTCC 59.198 63.158 0.00 0.00 40.80 3.62
2178 5989 1.424635 CGACTCTCGTCCCTCGTTC 59.575 63.158 0.00 0.00 40.80 3.95
2179 5990 2.039405 CCGACTCTCGTCCCTCGTT 61.039 63.158 0.00 0.00 38.40 3.85
2180 5991 2.436292 CCGACTCTCGTCCCTCGT 60.436 66.667 0.00 0.00 38.40 4.18
2181 5992 2.436292 ACCGACTCTCGTCCCTCG 60.436 66.667 0.00 0.00 38.40 4.63
2182 5993 2.408241 CCACCGACTCTCGTCCCTC 61.408 68.421 0.00 0.00 38.40 4.30
2183 5994 2.361357 CCACCGACTCTCGTCCCT 60.361 66.667 0.00 0.00 38.40 4.20
2184 5995 4.131088 GCCACCGACTCTCGTCCC 62.131 72.222 0.00 0.00 38.40 4.46
2185 5996 3.063084 AGCCACCGACTCTCGTCC 61.063 66.667 0.00 0.00 38.40 4.79
2186 5997 1.863662 TTCAGCCACCGACTCTCGTC 61.864 60.000 0.00 0.00 38.40 4.20
2187 5998 1.461091 TTTCAGCCACCGACTCTCGT 61.461 55.000 0.00 0.00 38.40 4.18
2188 5999 0.319555 TTTTCAGCCACCGACTCTCG 60.320 55.000 0.00 0.00 40.07 4.04
2189 6000 1.878953 TTTTTCAGCCACCGACTCTC 58.121 50.000 0.00 0.00 0.00 3.20
2206 6017 4.645863 ACCCTCGTTGTACCCTATTTTT 57.354 40.909 0.00 0.00 0.00 1.94
2207 6018 5.963214 ATACCCTCGTTGTACCCTATTTT 57.037 39.130 0.00 0.00 0.00 1.82
2208 6019 5.898972 TGTATACCCTCGTTGTACCCTATTT 59.101 40.000 0.00 0.00 0.00 1.40
2209 6020 5.457686 TGTATACCCTCGTTGTACCCTATT 58.542 41.667 0.00 0.00 0.00 1.73
2210 6021 5.065613 TGTATACCCTCGTTGTACCCTAT 57.934 43.478 0.00 0.00 0.00 2.57
2211 6022 4.518278 TGTATACCCTCGTTGTACCCTA 57.482 45.455 0.00 0.00 0.00 3.53
2212 6023 3.386932 TGTATACCCTCGTTGTACCCT 57.613 47.619 0.00 0.00 0.00 4.34
2213 6024 3.893813 AGATGTATACCCTCGTTGTACCC 59.106 47.826 0.00 0.00 0.00 3.69
2214 6025 4.826183 AGAGATGTATACCCTCGTTGTACC 59.174 45.833 13.43 0.00 32.52 3.34
2215 6026 6.388435 AAGAGATGTATACCCTCGTTGTAC 57.612 41.667 13.43 0.00 32.52 2.90
2216 6027 7.443575 GTCTAAGAGATGTATACCCTCGTTGTA 59.556 40.741 13.08 6.87 32.52 2.41
2217 6028 6.262720 GTCTAAGAGATGTATACCCTCGTTGT 59.737 42.308 13.08 6.32 32.52 3.32
2218 6029 6.566187 CGTCTAAGAGATGTATACCCTCGTTG 60.566 46.154 13.08 11.77 32.52 4.10
2219 6030 5.469421 CGTCTAAGAGATGTATACCCTCGTT 59.531 44.000 13.08 11.11 32.52 3.85
2220 6031 4.996122 CGTCTAAGAGATGTATACCCTCGT 59.004 45.833 13.43 13.04 32.52 4.18
2221 6032 5.236282 TCGTCTAAGAGATGTATACCCTCG 58.764 45.833 13.43 5.29 33.10 4.63
2222 6033 7.690952 ATTCGTCTAAGAGATGTATACCCTC 57.309 40.000 12.10 12.10 33.10 4.30
2223 6034 8.480133 AAATTCGTCTAAGAGATGTATACCCT 57.520 34.615 0.00 0.00 33.10 4.34
2224 6035 9.543783 AAAAATTCGTCTAAGAGATGTATACCC 57.456 33.333 0.00 0.00 33.10 3.69
2247 6058 4.365723 GGATCGCGTCCTCACTATAAAAA 58.634 43.478 17.12 0.00 44.16 1.94
2248 6059 3.973657 GGATCGCGTCCTCACTATAAAA 58.026 45.455 17.12 0.00 44.16 1.52
2249 6060 3.637998 GGATCGCGTCCTCACTATAAA 57.362 47.619 17.12 0.00 44.16 1.40
2260 6071 2.389713 CAAATGGATTGGATCGCGTC 57.610 50.000 5.77 2.75 35.27 5.19
2273 6084 2.548057 CGGGTTCATCGTATCCAAATGG 59.452 50.000 0.00 0.00 0.00 3.16
2274 6085 2.548057 CCGGGTTCATCGTATCCAAATG 59.452 50.000 0.00 0.00 0.00 2.32
2275 6086 2.171870 ACCGGGTTCATCGTATCCAAAT 59.828 45.455 6.32 0.00 0.00 2.32
2276 6087 1.555992 ACCGGGTTCATCGTATCCAAA 59.444 47.619 6.32 0.00 0.00 3.28
2277 6088 1.196911 ACCGGGTTCATCGTATCCAA 58.803 50.000 6.32 0.00 0.00 3.53
2278 6089 1.682854 GTACCGGGTTCATCGTATCCA 59.317 52.381 4.31 0.00 0.00 3.41
2279 6090 1.335324 CGTACCGGGTTCATCGTATCC 60.335 57.143 4.31 0.00 0.00 2.59
2280 6091 1.335324 CCGTACCGGGTTCATCGTATC 60.335 57.143 4.31 0.00 44.15 2.24
2281 6092 0.670162 CCGTACCGGGTTCATCGTAT 59.330 55.000 4.31 0.00 44.15 3.06
2282 6093 2.105984 CCGTACCGGGTTCATCGTA 58.894 57.895 4.31 0.00 44.15 3.43
2283 6094 2.887360 CCGTACCGGGTTCATCGT 59.113 61.111 4.31 0.00 44.15 3.73
2293 6104 3.879912 GACCCATGATACCGTACCG 57.120 57.895 0.00 0.00 0.00 4.02


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

AutoCloner maintained by Alex Coulton.