Multiple sequence alignment - TraesCS7A01G020600

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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 TraesCS7A01G020600 chr7A 100.000 3793 0 0 1 3793 8380256 8384048 0.000000e+00 7005.0
1 TraesCS7A01G020600 chr7A 86.891 267 31 2 3366 3630 8400247 8400511 2.860000e-76 296.0
2 TraesCS7A01G020600 chr7A 82.787 122 16 3 3057 3173 8404282 8404403 1.860000e-18 104.0
3 TraesCS7A01G020600 chr7A 82.787 122 16 3 3057 3173 8411094 8411215 1.860000e-18 104.0
4 TraesCS7A01G020600 chr7D 86.292 2918 204 77 187 3004 7453056 7455877 0.000000e+00 2992.0
5 TraesCS7A01G020600 chr7D 81.311 412 59 12 952 1349 558888342 558887935 6.110000e-83 318.0
6 TraesCS7A01G020600 chr7D 86.891 267 31 2 3366 3630 7462647 7462911 2.860000e-76 296.0
7 TraesCS7A01G020600 chr7D 85.827 254 28 4 3018 3264 7458517 7458769 2.910000e-66 263.0
8 TraesCS7A01G020600 chr7D 80.000 355 65 5 2445 2796 632362939 632363290 1.350000e-64 257.0
9 TraesCS7A01G020600 chr7D 79.437 355 67 5 2445 2796 632354548 632354899 2.930000e-61 246.0
10 TraesCS7A01G020600 chr7D 80.597 268 33 14 3366 3627 7458909 7459163 5.000000e-44 189.0
11 TraesCS7A01G020600 chr7D 93.548 62 4 0 3463 3524 7459039 7459100 4.030000e-15 93.5
12 TraesCS7A01G020600 chr4A 84.976 2283 190 76 791 3014 732778729 732780917 0.000000e+00 2174.0
13 TraesCS7A01G020600 chr4A 80.374 749 83 21 9 744 732777798 732778495 9.400000e-141 510.0
14 TraesCS7A01G020600 chr4A 86.396 419 29 10 3341 3741 732781325 732781733 2.090000e-117 433.0
15 TraesCS7A01G020600 chr4A 87.273 55 5 1 3741 3793 732781757 732781811 1.140000e-05 62.1
16 TraesCS7A01G020600 chr6D 92.663 368 17 8 997 1355 803599 803965 4.340000e-144 521.0
17 TraesCS7A01G020600 chr6D 79.190 543 72 32 2357 2892 804446 804954 4.690000e-89 339.0
18 TraesCS7A01G020600 chr6B 86.653 487 46 13 880 1355 3382858 3383336 4.340000e-144 521.0
19 TraesCS7A01G020600 chr6B 83.111 450 52 20 2356 2796 3383783 3384217 4.590000e-104 388.0
20 TraesCS7A01G020600 chr6B 89.344 122 9 3 1515 1633 107629886 107630006 2.360000e-32 150.0
21 TraesCS7A01G020600 chr6A 86.680 488 39 19 880 1355 286220 286693 5.620000e-143 518.0
22 TraesCS7A01G020600 chr6A 87.106 349 34 10 2451 2796 287268 287608 5.940000e-103 385.0
23 TraesCS7A01G020600 chr5D 87.683 341 25 10 1022 1346 515094285 515093946 7.690000e-102 381.0
24 TraesCS7A01G020600 chr5D 84.615 208 26 3 1170 1374 483284375 483284579 6.420000e-48 202.0
25 TraesCS7A01G020600 chr5B 87.952 332 29 10 1022 1346 647879421 647879094 7.690000e-102 381.0
26 TraesCS7A01G020600 chr2D 86.880 343 24 13 1022 1346 534129418 534129757 7.740000e-97 364.0
27 TraesCS7A01G020600 chr5A 85.588 340 33 12 1022 1346 643312034 643311696 3.630000e-90 342.0
28 TraesCS7A01G020600 chr2B 80.285 492 63 17 1170 1633 452384929 452384444 1.300000e-89 340.0
29 TraesCS7A01G020600 chr2B 91.477 176 15 0 2619 2794 634644376 634644551 3.790000e-60 243.0
30 TraesCS7A01G020600 chr7B 80.168 358 59 10 2445 2796 744462671 744463022 1.350000e-64 257.0
31 TraesCS7A01G020600 chr7B 80.168 358 59 10 2445 2796 744506894 744507245 1.350000e-64 257.0
32 TraesCS7A01G020600 chr7B 79.609 358 61 10 2445 2796 744484398 744484749 2.930000e-61 246.0
33 TraesCS7A01G020600 chr7B 79.609 358 61 10 2445 2796 744495301 744495652 2.930000e-61 246.0
34 TraesCS7A01G020600 chr3B 92.045 176 14 0 2619 2794 798408526 798408351 8.140000e-62 248.0


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 TraesCS7A01G020600 chr7A 8380256 8384048 3792 False 7005.000 7005 100.00000 1 3793 1 chr7A.!!$F1 3792
1 TraesCS7A01G020600 chr7D 7453056 7462911 9855 False 766.700 2992 86.63100 187 3630 5 chr7D.!!$F3 3443
2 TraesCS7A01G020600 chr4A 732777798 732781811 4013 False 794.775 2174 84.75475 9 3793 4 chr4A.!!$F1 3784
3 TraesCS7A01G020600 chr6D 803599 804954 1355 False 430.000 521 85.92650 997 2892 2 chr6D.!!$F1 1895
4 TraesCS7A01G020600 chr6B 3382858 3384217 1359 False 454.500 521 84.88200 880 2796 2 chr6B.!!$F2 1916
5 TraesCS7A01G020600 chr6A 286220 287608 1388 False 451.500 518 86.89300 880 2796 2 chr6A.!!$F1 1916

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
754 780 0.176680 CACGGAGGAGATGAACAGGG 59.823 60.0 0.0 0.0 0.00 4.45 F
774 800 0.393808 ACAGGGTGTGTGTGTGTTCC 60.394 55.0 0.0 0.0 38.28 3.62 F
1412 1716 0.400213 TCGTGATGCTGTTCCCCTTT 59.600 50.0 0.0 0.0 0.00 3.11 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2633 3147 0.034186 CCAGCAGCCCCTTGATGTTA 60.034 55.0 0.00 0.0 32.77 2.41 R
2675 3189 2.356535 GGTCTTGCCCTTGATCATGTCT 60.357 50.0 0.00 0.0 0.00 3.41 R
3044 3871 0.251564 TTGACGGCCACATTTGGGAT 60.252 50.0 2.24 0.0 44.15 3.85 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
20 21 3.552604 TTTATTCAGCAACTTCGCACC 57.447 42.857 0.00 0.00 0.00 5.01
34 35 3.406361 CACCTGTCGCACGCAGAC 61.406 66.667 13.51 8.56 36.12 3.51
37 38 2.729491 CTGTCGCACGCAGACGAA 60.729 61.111 8.22 0.00 43.93 3.85
41 42 1.000233 GTCGCACGCAGACGAAACTA 61.000 55.000 0.00 0.00 43.93 2.24
69 71 1.098050 GTGGAATGAGCACCCATGTC 58.902 55.000 0.00 0.00 31.94 3.06
70 72 0.994247 TGGAATGAGCACCCATGTCT 59.006 50.000 0.00 0.00 0.00 3.41
71 73 1.355381 TGGAATGAGCACCCATGTCTT 59.645 47.619 0.00 0.00 0.00 3.01
72 74 2.575735 TGGAATGAGCACCCATGTCTTA 59.424 45.455 0.00 0.00 0.00 2.10
73 75 3.202818 TGGAATGAGCACCCATGTCTTAT 59.797 43.478 0.00 0.00 0.00 1.73
74 76 3.567164 GGAATGAGCACCCATGTCTTATG 59.433 47.826 0.00 0.00 0.00 1.90
75 77 2.715749 TGAGCACCCATGTCTTATGG 57.284 50.000 0.00 0.00 38.88 2.74
76 78 1.915489 TGAGCACCCATGTCTTATGGT 59.085 47.619 5.32 0.00 37.48 3.55
78 80 1.064463 AGCACCCATGTCTTATGGTGG 60.064 52.381 15.58 0.00 46.61 4.61
85 87 5.567037 CCATGTCTTATGGTGGGATAGAA 57.433 43.478 0.00 0.00 34.56 2.10
86 88 6.131972 CCATGTCTTATGGTGGGATAGAAT 57.868 41.667 0.00 0.00 34.56 2.40
87 89 7.257790 CCATGTCTTATGGTGGGATAGAATA 57.742 40.000 0.00 0.00 34.56 1.75
88 90 7.865820 CCATGTCTTATGGTGGGATAGAATAT 58.134 38.462 0.00 0.00 34.56 1.28
96 98 6.425210 TGGTGGGATAGAATATCACAAGAG 57.575 41.667 3.38 0.00 32.64 2.85
99 101 7.233553 TGGTGGGATAGAATATCACAAGAGTAG 59.766 40.741 3.38 0.00 32.64 2.57
117 119 3.840666 AGTAGTCAAGGAGGAGCATCAAA 59.159 43.478 0.00 0.00 36.25 2.69
137 139 5.422331 TCAAACTCTAACACTATGCCTAGCT 59.578 40.000 0.00 0.00 0.00 3.32
139 141 3.566322 ACTCTAACACTATGCCTAGCTCG 59.434 47.826 0.00 0.00 0.00 5.03
165 167 0.462581 TCGAGAGCATCAACATGGCC 60.463 55.000 0.00 0.00 37.82 5.36
171 173 2.689471 GAGCATCAACATGGCCACATTA 59.311 45.455 8.16 0.00 31.82 1.90
172 174 2.691526 AGCATCAACATGGCCACATTAG 59.308 45.455 8.16 0.00 34.35 1.73
173 175 2.689471 GCATCAACATGGCCACATTAGA 59.311 45.455 8.16 2.94 34.35 2.10
175 177 4.675510 CATCAACATGGCCACATTAGAAC 58.324 43.478 8.16 0.00 34.35 3.01
178 180 1.357420 ACATGGCCACATTAGAACCCA 59.643 47.619 8.16 0.00 34.35 4.51
179 181 2.024080 ACATGGCCACATTAGAACCCAT 60.024 45.455 8.16 0.00 34.35 4.00
180 182 2.142356 TGGCCACATTAGAACCCATG 57.858 50.000 0.00 0.00 0.00 3.66
181 183 1.341877 TGGCCACATTAGAACCCATGG 60.342 52.381 0.00 4.14 0.00 3.66
182 184 1.402787 GCCACATTAGAACCCATGGG 58.597 55.000 30.23 30.23 42.03 4.00
183 185 1.064017 GCCACATTAGAACCCATGGGA 60.064 52.381 38.07 15.35 38.96 4.37
184 186 2.622977 GCCACATTAGAACCCATGGGAA 60.623 50.000 38.07 21.16 38.96 3.97
185 187 3.290710 CCACATTAGAACCCATGGGAAG 58.709 50.000 38.07 18.58 38.96 3.46
186 188 3.290710 CACATTAGAACCCATGGGAAGG 58.709 50.000 38.07 23.54 38.96 3.46
187 189 3.053693 CACATTAGAACCCATGGGAAGGA 60.054 47.826 38.07 18.10 38.96 3.36
188 190 3.793827 ACATTAGAACCCATGGGAAGGAT 59.206 43.478 38.07 19.47 38.96 3.24
189 191 3.951563 TTAGAACCCATGGGAAGGATG 57.048 47.619 38.07 9.23 38.96 3.51
190 192 0.929244 AGAACCCATGGGAAGGATGG 59.071 55.000 38.07 8.41 40.25 3.51
191 193 0.926293 GAACCCATGGGAAGGATGGA 59.074 55.000 38.07 0.00 42.81 3.41
198 200 0.617535 TGGGAAGGATGGAGCGAGAA 60.618 55.000 0.00 0.00 0.00 2.87
215 217 5.069119 AGCGAGAAAGATGTATGTCCATGTA 59.931 40.000 0.00 0.00 0.00 2.29
217 219 6.074088 GCGAGAAAGATGTATGTCCATGTAAG 60.074 42.308 0.00 0.00 0.00 2.34
228 230 1.542472 TCCATGTAAGAACGCACGAGA 59.458 47.619 0.00 0.00 0.00 4.04
290 296 6.383415 TCACATAAACTTAAATTTCGGTGCC 58.617 36.000 0.00 0.00 31.13 5.01
302 308 2.380084 TCGGTGCCTATGACAAACTC 57.620 50.000 0.00 0.00 0.00 3.01
305 311 3.130516 TCGGTGCCTATGACAAACTCTAG 59.869 47.826 0.00 0.00 0.00 2.43
328 334 4.382345 GCTCAAGCAGAAGCCAAATTAT 57.618 40.909 0.00 0.00 43.56 1.28
393 399 4.184079 ACGGTTAATCCATCTATACGGC 57.816 45.455 0.00 0.00 35.57 5.68
395 401 3.194968 CGGTTAATCCATCTATACGGCCT 59.805 47.826 0.00 0.00 35.57 5.19
408 414 9.601217 CATCTATACGGCCTAAATTTAGCTTAT 57.399 33.333 18.18 11.50 0.00 1.73
409 415 8.997621 TCTATACGGCCTAAATTTAGCTTATG 57.002 34.615 18.18 6.83 0.00 1.90
436 442 0.889186 TGCCCTCGCTTCCTTTTGAC 60.889 55.000 0.00 0.00 35.36 3.18
468 479 2.418910 CCACGTGTTGCCCAAACCA 61.419 57.895 15.65 0.00 38.06 3.67
493 504 3.117436 CCTAATAAATTCCCCCAACCCGA 60.117 47.826 0.00 0.00 0.00 5.14
511 522 0.469144 GACCAAAGAAGCCCAACCCA 60.469 55.000 0.00 0.00 0.00 4.51
512 523 0.190815 ACCAAAGAAGCCCAACCCAT 59.809 50.000 0.00 0.00 0.00 4.00
513 524 1.351076 CCAAAGAAGCCCAACCCATT 58.649 50.000 0.00 0.00 0.00 3.16
514 525 1.276138 CCAAAGAAGCCCAACCCATTC 59.724 52.381 0.00 0.00 0.00 2.67
515 526 1.969923 CAAAGAAGCCCAACCCATTCA 59.030 47.619 0.00 0.00 0.00 2.57
516 527 2.368221 CAAAGAAGCCCAACCCATTCAA 59.632 45.455 0.00 0.00 0.00 2.69
517 528 1.928868 AGAAGCCCAACCCATTCAAG 58.071 50.000 0.00 0.00 0.00 3.02
554 565 3.265479 CACCCATCTTTCCTCTCTTTCCT 59.735 47.826 0.00 0.00 0.00 3.36
562 573 1.003355 CTCTCTTTCCTTGCCGCCA 60.003 57.895 0.00 0.00 0.00 5.69
564 576 0.392998 TCTCTTTCCTTGCCGCCATC 60.393 55.000 0.00 0.00 0.00 3.51
590 602 4.140686 TCCTCTTCCTCATATTGCTAGGGA 60.141 45.833 0.00 0.00 0.00 4.20
620 633 4.144727 GGCGAGGAGGAGGAGGGA 62.145 72.222 0.00 0.00 0.00 4.20
626 639 0.858139 AGGAGGAGGAGGGAGAGGTT 60.858 60.000 0.00 0.00 0.00 3.50
636 649 0.984230 GGGAGAGGTTGTGGTGATGA 59.016 55.000 0.00 0.00 0.00 2.92
640 653 1.988107 AGAGGTTGTGGTGATGATGGT 59.012 47.619 0.00 0.00 0.00 3.55
641 654 2.086869 GAGGTTGTGGTGATGATGGTG 58.913 52.381 0.00 0.00 0.00 4.17
642 655 1.176527 GGTTGTGGTGATGATGGTGG 58.823 55.000 0.00 0.00 0.00 4.61
643 656 1.176527 GTTGTGGTGATGATGGTGGG 58.823 55.000 0.00 0.00 0.00 4.61
670 683 2.363018 TGCTCGGACAGAGGAGGG 60.363 66.667 4.72 0.00 46.91 4.30
688 701 1.953138 GCATGGGAGATGCGTCGAG 60.953 63.158 0.00 0.00 35.17 4.04
691 704 0.829602 ATGGGAGATGCGTCGAGGAT 60.830 55.000 9.75 0.00 0.00 3.24
736 762 3.766691 GGTCGGCGTAGAAGGGCA 61.767 66.667 6.85 0.00 0.00 5.36
749 775 0.909610 AAGGGCACGGAGGAGATGAA 60.910 55.000 0.00 0.00 0.00 2.57
751 777 1.596934 GGCACGGAGGAGATGAACA 59.403 57.895 0.00 0.00 0.00 3.18
753 779 0.460987 GCACGGAGGAGATGAACAGG 60.461 60.000 0.00 0.00 0.00 4.00
754 780 0.176680 CACGGAGGAGATGAACAGGG 59.823 60.000 0.00 0.00 0.00 4.45
756 782 0.461961 CGGAGGAGATGAACAGGGAC 59.538 60.000 0.00 0.00 0.00 4.46
761 787 1.280457 GAGATGAACAGGGACAGGGT 58.720 55.000 0.00 0.00 0.00 4.34
763 789 0.693049 GATGAACAGGGACAGGGTGT 59.307 55.000 0.00 0.00 0.00 4.16
764 790 0.401738 ATGAACAGGGACAGGGTGTG 59.598 55.000 0.00 0.00 0.00 3.82
765 791 0.986019 TGAACAGGGACAGGGTGTGT 60.986 55.000 0.00 0.00 44.49 3.72
766 792 0.535102 GAACAGGGACAGGGTGTGTG 60.535 60.000 0.00 0.00 40.56 3.82
767 793 1.279025 AACAGGGACAGGGTGTGTGT 61.279 55.000 0.00 0.00 40.56 3.72
768 794 1.227943 CAGGGACAGGGTGTGTGTG 60.228 63.158 0.00 0.00 40.56 3.82
769 795 1.692749 AGGGACAGGGTGTGTGTGT 60.693 57.895 0.00 0.00 40.56 3.72
774 800 0.393808 ACAGGGTGTGTGTGTGTTCC 60.394 55.000 0.00 0.00 38.28 3.62
924 1150 2.240921 GCTCCCATCTTTTCCTCTTCCT 59.759 50.000 0.00 0.00 0.00 3.36
1361 1656 1.344763 CCTGGTATGGAATCCCTCGAC 59.655 57.143 0.00 0.00 0.00 4.20
1412 1716 0.400213 TCGTGATGCTGTTCCCCTTT 59.600 50.000 0.00 0.00 0.00 3.11
1449 1753 1.811266 CGAGATTGGTCTGCCCGTG 60.811 63.158 0.00 0.00 33.97 4.94
1468 1785 2.367567 GTGGATTAGATTGGACGGGCTA 59.632 50.000 0.00 0.00 0.00 3.93
1470 1787 2.367567 GGATTAGATTGGACGGGCTACA 59.632 50.000 0.00 0.00 0.00 2.74
1516 1833 2.062971 TCGAGCGGATTAGGTTAGGT 57.937 50.000 0.00 0.00 0.00 3.08
1535 1858 5.964958 AGGTTTACATGATTGGTCTGTTG 57.035 39.130 0.00 0.00 0.00 3.33
1536 1859 4.218417 AGGTTTACATGATTGGTCTGTTGC 59.782 41.667 0.00 0.00 0.00 4.17
1538 1861 5.278957 GGTTTACATGATTGGTCTGTTGCTT 60.279 40.000 0.00 0.00 0.00 3.91
1633 2014 3.420893 GACCATTCCATGTTCTTGTGGA 58.579 45.455 0.00 0.00 42.55 4.02
1635 2016 2.162208 CCATTCCATGTTCTTGTGGACG 59.838 50.000 0.00 0.00 43.85 4.79
1636 2017 2.631160 TTCCATGTTCTTGTGGACGT 57.369 45.000 0.00 0.00 43.85 4.34
1638 2019 0.874390 CCATGTTCTTGTGGACGTGG 59.126 55.000 0.00 1.77 37.72 4.94
1652 2072 3.380004 TGGACGTGGGAATAATTGATTGC 59.620 43.478 0.00 0.00 35.21 3.56
1769 2221 7.255104 GGAAACATCAGAACACACAGAACAATA 60.255 37.037 0.00 0.00 0.00 1.90
1804 2271 6.528072 GCTGTTGTTTATCTAGCAATTGGTTC 59.472 38.462 16.43 0.00 34.64 3.62
1885 2365 9.959749 TTTCAAACTTTGTATCCATGTCTTTAC 57.040 29.630 1.44 0.00 0.00 2.01
1912 2392 6.837312 TCTTGTCTAAACTTCTGGATCCAAA 58.163 36.000 17.00 11.83 0.00 3.28
1948 2431 4.955811 ATCTATCACGGTTGCCTGATTA 57.044 40.909 0.00 0.00 0.00 1.75
1976 2468 8.335356 GGTGTACTAGCAACATTACATACATTG 58.665 37.037 2.16 0.00 0.00 2.82
1995 2487 7.645058 ACATTGCATAGTGGTAGCTAAATTT 57.355 32.000 0.00 0.00 0.00 1.82
2025 2517 1.006922 GCCTGTTCTTGTGCCAAGC 60.007 57.895 9.35 0.00 0.00 4.01
2046 2538 4.700213 AGCGATAGTTGCCAACTGTAAAAT 59.300 37.500 20.12 4.93 42.84 1.82
2059 2551 7.428826 CCAACTGTAAAATTCTGAGCTTTTCT 58.571 34.615 0.00 0.00 0.00 2.52
2066 2558 2.175878 TCTGAGCTTTTCTGCAGGTC 57.824 50.000 15.13 4.40 38.93 3.85
2095 2587 8.958043 CAGTAGTATTGCTTTGAACTTGTTTTC 58.042 33.333 0.00 0.00 0.00 2.29
2109 2604 9.781834 TGAACTTGTTTTCTTACTGTTATGTTG 57.218 29.630 0.00 0.00 0.00 3.33
2110 2605 9.783256 GAACTTGTTTTCTTACTGTTATGTTGT 57.217 29.630 0.00 0.00 0.00 3.32
2154 2649 4.202441 GGTGGTATCTCAGATGTTGCATT 58.798 43.478 0.00 0.00 0.00 3.56
2167 2667 8.407832 TCAGATGTTGCATTTACATAATCCAAG 58.592 33.333 2.52 0.00 36.41 3.61
2187 2687 3.053826 AGACCATACATTCCTTACCCCC 58.946 50.000 0.00 0.00 0.00 5.40
2205 2705 1.210478 CCCGATCCCATGTTCTGTCTT 59.790 52.381 0.00 0.00 0.00 3.01
2211 2711 2.106338 TCCCATGTTCTGTCTTGCTTCA 59.894 45.455 0.00 0.00 0.00 3.02
2222 2722 4.910195 TGTCTTGCTTCACTGTTCCATAT 58.090 39.130 0.00 0.00 0.00 1.78
2223 2723 6.048732 TGTCTTGCTTCACTGTTCCATATA 57.951 37.500 0.00 0.00 0.00 0.86
2224 2724 6.653020 TGTCTTGCTTCACTGTTCCATATAT 58.347 36.000 0.00 0.00 0.00 0.86
2232 2732 9.360093 GCTTCACTGTTCCATATATATAGTGAC 57.640 37.037 18.57 9.51 41.67 3.67
2421 2923 4.999311 TGACTGTTGATCTTGATCCAGTTG 59.001 41.667 17.30 5.61 33.60 3.16
2422 2924 3.755378 ACTGTTGATCTTGATCCAGTTGC 59.245 43.478 13.16 0.00 29.32 4.17
2429 2933 3.585862 TCTTGATCCAGTTGCGTTAGTC 58.414 45.455 0.00 0.00 0.00 2.59
2433 2937 2.433868 TCCAGTTGCGTTAGTCACTC 57.566 50.000 0.00 0.00 0.00 3.51
2474 2978 7.141758 TGTTCTGGGCTTTGAATAGATATCT 57.858 36.000 10.73 10.73 0.00 1.98
2502 3006 5.479724 TGATGAATCCATGCCTTGTTTTGTA 59.520 36.000 0.00 0.00 32.09 2.41
2504 3008 5.722263 TGAATCCATGCCTTGTTTTGTATG 58.278 37.500 0.00 0.00 0.00 2.39
2506 3010 4.517952 TCCATGCCTTGTTTTGTATGTG 57.482 40.909 0.00 0.00 0.00 3.21
2535 3042 3.005261 TGCCGCAAAAACATTCATGTAGT 59.995 39.130 0.00 0.00 40.80 2.73
2585 3096 4.813750 TGAATGCTTCTCTCTGACATGA 57.186 40.909 0.00 0.00 0.00 3.07
2590 3101 2.867368 GCTTCTCTCTGACATGATGCTG 59.133 50.000 0.00 0.00 0.00 4.41
2591 3102 2.598686 TCTCTCTGACATGATGCTGC 57.401 50.000 0.00 0.00 0.00 5.25
2633 3147 0.890996 CTCAGGCCGCAAACTTCCTT 60.891 55.000 0.00 0.00 0.00 3.36
2675 3189 1.227943 GACCTGCCAGACTGTTGCA 60.228 57.895 0.93 4.03 0.00 4.08
2820 3334 3.671740 TGAGTAGAGGAGCATGTAGGT 57.328 47.619 0.00 0.00 0.00 3.08
2832 3346 1.134699 CATGTAGGTGATGCTGTCCGT 60.135 52.381 0.00 0.00 0.00 4.69
2894 3414 1.745087 AGCGCCCTTTGTTATGTCATG 59.255 47.619 2.29 0.00 0.00 3.07
2917 3437 1.463674 ATGGTTTCATCGAACAGCCC 58.536 50.000 0.00 0.00 0.00 5.19
2925 3445 0.674534 ATCGAACAGCCCGAGGTATC 59.325 55.000 0.00 0.00 39.55 2.24
3001 3528 1.754380 TAGACTTGTGGCACCGCTGT 61.754 55.000 16.26 8.31 0.00 4.40
3002 3529 2.591715 ACTTGTGGCACCGCTGTC 60.592 61.111 16.26 0.00 0.00 3.51
3003 3530 3.716006 CTTGTGGCACCGCTGTCG 61.716 66.667 16.26 0.00 0.00 4.35
3004 3531 4.228567 TTGTGGCACCGCTGTCGA 62.229 61.111 16.26 0.00 38.10 4.20
3005 3532 3.529341 TTGTGGCACCGCTGTCGAT 62.529 57.895 16.26 0.00 38.10 3.59
3006 3533 3.490759 GTGGCACCGCTGTCGATG 61.491 66.667 6.29 0.00 38.10 3.84
3007 3534 3.690280 TGGCACCGCTGTCGATGA 61.690 61.111 0.00 0.00 38.10 2.92
3009 3536 2.456119 GGCACCGCTGTCGATGAAG 61.456 63.158 0.00 0.00 38.10 3.02
3010 3537 1.446099 GCACCGCTGTCGATGAAGA 60.446 57.895 0.00 0.00 38.10 2.87
3011 3538 1.416813 GCACCGCTGTCGATGAAGAG 61.417 60.000 0.00 0.00 38.10 2.85
3012 3539 0.803768 CACCGCTGTCGATGAAGAGG 60.804 60.000 11.99 11.99 39.11 3.69
3013 3540 1.880340 CCGCTGTCGATGAAGAGGC 60.880 63.158 0.00 0.00 38.10 4.70
3044 3871 2.223200 CTCTTGCTCTGCTCCGCTGA 62.223 60.000 0.00 0.00 35.38 4.26
3049 3876 2.364186 TCTGCTCCGCTGATCCCA 60.364 61.111 0.00 0.00 31.90 4.37
3058 3885 1.818555 GCTGATCCCAAATGTGGCC 59.181 57.895 0.00 0.00 44.46 5.36
3084 3911 1.959085 CCATTGGTTCGCTGCAACT 59.041 52.632 0.00 0.00 0.00 3.16
3085 3912 1.164411 CCATTGGTTCGCTGCAACTA 58.836 50.000 0.00 0.00 0.00 2.24
3090 3917 2.226330 TGGTTCGCTGCAACTAAACAT 58.774 42.857 0.00 0.00 0.00 2.71
3130 6290 3.746045 TCTAACCCCAATCGTGCTATC 57.254 47.619 0.00 0.00 0.00 2.08
3139 6299 5.003160 CCCAATCGTGCTATCAATTATGGA 58.997 41.667 0.00 0.00 0.00 3.41
3141 6301 5.391310 CCAATCGTGCTATCAATTATGGAGC 60.391 44.000 0.00 0.00 36.81 4.70
3207 6367 7.596749 ATTTAGTATCTTCATAATTCCCGCG 57.403 36.000 0.00 0.00 0.00 6.46
3209 6369 2.254546 ATCTTCATAATTCCCGCGCA 57.745 45.000 8.75 0.00 0.00 6.09
3225 6385 1.133025 GCGCAAAGTTATCCTGCATGT 59.867 47.619 0.30 0.00 35.78 3.21
3238 6399 5.389859 TCCTGCATGTGTTAATTTCCTTG 57.610 39.130 0.00 0.00 0.00 3.61
3243 6408 5.221402 TGCATGTGTTAATTTCCTTGCTTGA 60.221 36.000 0.00 0.00 0.00 3.02
3259 6424 3.559655 TGCTTGATACATACATGCGGTTC 59.440 43.478 0.00 0.00 39.93 3.62
3264 6429 5.610398 TGATACATACATGCGGTTCATCTT 58.390 37.500 0.00 0.00 31.79 2.40
3265 6430 6.054941 TGATACATACATGCGGTTCATCTTT 58.945 36.000 0.00 0.00 31.79 2.52
3301 6490 3.275617 TGGACATACATGCACCCTTAC 57.724 47.619 0.00 0.00 0.00 2.34
3313 6502 2.159435 GCACCCTTACTAATTGTTGCCG 60.159 50.000 0.00 0.00 0.00 5.69
3332 6521 3.911964 GCCGTATGTTTGTGTGATGTTTC 59.088 43.478 0.00 0.00 0.00 2.78
3460 6682 5.639506 CGGAGTGTGACTAATTGAGTTTCAT 59.360 40.000 0.00 0.00 39.06 2.57
3541 6794 5.945784 TGGTAGAGATTGGTGAAAATCCAAG 59.054 40.000 3.86 0.00 46.14 3.61
3566 6819 7.440523 GAACAAGTCTTGGTCATGATAAACT 57.559 36.000 23.14 2.54 46.57 2.66
3583 6836 8.310406 TGATAAACTACATGATTAAGCCATCG 57.690 34.615 0.00 0.00 0.00 3.84
3584 6837 7.387673 TGATAAACTACATGATTAAGCCATCGG 59.612 37.037 0.00 0.00 0.00 4.18
3597 6850 2.433145 ATCGGTGCGACAGCTGTG 60.433 61.111 27.27 17.30 45.42 3.66
3691 7057 4.513000 TTTGTCGCATTTGCAAGAAAAC 57.487 36.364 0.00 0.00 42.21 2.43
3693 7059 2.223363 TGTCGCATTTGCAAGAAAACGA 60.223 40.909 0.00 3.73 42.21 3.85
3714 7080 4.553351 CGATTTGCGACAGATTATGCACAT 60.553 41.667 0.00 0.00 44.57 3.21
3715 7081 3.678915 TTGCGACAGATTATGCACATG 57.321 42.857 0.00 0.00 37.01 3.21
3735 7101 3.142951 TGTGTAAAGGACAATTGGGACG 58.857 45.455 10.83 0.00 40.66 4.79
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 3.058293 CAGGTGCGAAGTTGCTGAATAAA 60.058 43.478 0.00 0.00 35.36 1.40
1 2 2.483877 CAGGTGCGAAGTTGCTGAATAA 59.516 45.455 0.00 0.00 35.36 1.40
3 4 0.877071 CAGGTGCGAAGTTGCTGAAT 59.123 50.000 0.00 0.00 35.36 2.57
4 5 0.463654 ACAGGTGCGAAGTTGCTGAA 60.464 50.000 0.00 0.00 35.36 3.02
5 6 0.880278 GACAGGTGCGAAGTTGCTGA 60.880 55.000 0.00 0.00 35.36 4.26
6 7 1.571460 GACAGGTGCGAAGTTGCTG 59.429 57.895 0.00 0.00 35.36 4.41
7 8 1.956170 CGACAGGTGCGAAGTTGCT 60.956 57.895 0.00 0.00 35.36 3.91
20 21 2.300066 TTTCGTCTGCGTGCGACAG 61.300 57.895 14.00 3.00 36.82 3.51
34 35 6.218019 TCATTCCACCGGTATAATAGTTTCG 58.782 40.000 6.87 0.00 0.00 3.46
37 38 5.071250 TGCTCATTCCACCGGTATAATAGTT 59.929 40.000 6.87 0.00 0.00 2.24
41 42 3.496160 GGTGCTCATTCCACCGGTATAAT 60.496 47.826 6.87 7.33 42.86 1.28
69 71 8.597167 TCTTGTGATATTCTATCCCACCATAAG 58.403 37.037 0.00 0.00 0.00 1.73
70 72 8.504811 TCTTGTGATATTCTATCCCACCATAA 57.495 34.615 0.00 0.00 0.00 1.90
71 73 7.734865 ACTCTTGTGATATTCTATCCCACCATA 59.265 37.037 0.00 0.00 0.00 2.74
72 74 6.560304 ACTCTTGTGATATTCTATCCCACCAT 59.440 38.462 0.00 0.00 0.00 3.55
73 75 5.905331 ACTCTTGTGATATTCTATCCCACCA 59.095 40.000 0.00 0.00 0.00 4.17
74 76 6.426646 ACTCTTGTGATATTCTATCCCACC 57.573 41.667 0.00 0.00 0.00 4.61
75 77 8.184304 ACTACTCTTGTGATATTCTATCCCAC 57.816 38.462 0.00 0.00 0.00 4.61
76 78 8.004801 TGACTACTCTTGTGATATTCTATCCCA 58.995 37.037 0.00 0.00 0.00 4.37
77 79 8.410673 TGACTACTCTTGTGATATTCTATCCC 57.589 38.462 0.00 0.00 0.00 3.85
78 80 9.906660 CTTGACTACTCTTGTGATATTCTATCC 57.093 37.037 0.00 0.00 0.00 2.59
79 81 9.906660 CCTTGACTACTCTTGTGATATTCTATC 57.093 37.037 0.00 0.00 0.00 2.08
80 82 9.647918 TCCTTGACTACTCTTGTGATATTCTAT 57.352 33.333 0.00 0.00 0.00 1.98
81 83 9.126151 CTCCTTGACTACTCTTGTGATATTCTA 57.874 37.037 0.00 0.00 0.00 2.10
82 84 7.069331 CCTCCTTGACTACTCTTGTGATATTCT 59.931 40.741 0.00 0.00 0.00 2.40
83 85 7.068839 TCCTCCTTGACTACTCTTGTGATATTC 59.931 40.741 0.00 0.00 0.00 1.75
84 86 6.897966 TCCTCCTTGACTACTCTTGTGATATT 59.102 38.462 0.00 0.00 0.00 1.28
85 87 6.436027 TCCTCCTTGACTACTCTTGTGATAT 58.564 40.000 0.00 0.00 0.00 1.63
86 88 5.827756 TCCTCCTTGACTACTCTTGTGATA 58.172 41.667 0.00 0.00 0.00 2.15
87 89 4.678256 TCCTCCTTGACTACTCTTGTGAT 58.322 43.478 0.00 0.00 0.00 3.06
88 90 4.082845 CTCCTCCTTGACTACTCTTGTGA 58.917 47.826 0.00 0.00 0.00 3.58
96 98 3.895232 TTGATGCTCCTCCTTGACTAC 57.105 47.619 0.00 0.00 0.00 2.73
99 101 3.006247 GAGTTTGATGCTCCTCCTTGAC 58.994 50.000 0.00 0.00 0.00 3.18
117 119 3.566322 CGAGCTAGGCATAGTGTTAGAGT 59.434 47.826 7.32 0.00 0.00 3.24
139 141 4.039151 TGTTGATGCTCTCGATCTTCTC 57.961 45.455 0.00 0.00 0.00 2.87
165 167 3.053693 TCCTTCCCATGGGTTCTAATGTG 60.054 47.826 30.28 8.86 36.47 3.21
171 173 0.929244 CCATCCTTCCCATGGGTTCT 59.071 55.000 30.28 9.26 37.71 3.01
172 174 0.926293 TCCATCCTTCCCATGGGTTC 59.074 55.000 30.28 0.00 41.25 3.62
173 175 0.929244 CTCCATCCTTCCCATGGGTT 59.071 55.000 30.28 8.72 41.25 4.11
175 177 1.152368 GCTCCATCCTTCCCATGGG 59.848 63.158 26.30 26.30 41.25 4.00
178 180 0.399091 TCTCGCTCCATCCTTCCCAT 60.399 55.000 0.00 0.00 0.00 4.00
179 181 0.617535 TTCTCGCTCCATCCTTCCCA 60.618 55.000 0.00 0.00 0.00 4.37
180 182 0.541863 TTTCTCGCTCCATCCTTCCC 59.458 55.000 0.00 0.00 0.00 3.97
181 183 1.482593 TCTTTCTCGCTCCATCCTTCC 59.517 52.381 0.00 0.00 0.00 3.46
182 184 2.969628 TCTTTCTCGCTCCATCCTTC 57.030 50.000 0.00 0.00 0.00 3.46
183 185 2.503356 ACATCTTTCTCGCTCCATCCTT 59.497 45.455 0.00 0.00 0.00 3.36
184 186 2.114616 ACATCTTTCTCGCTCCATCCT 58.885 47.619 0.00 0.00 0.00 3.24
185 187 2.611225 ACATCTTTCTCGCTCCATCC 57.389 50.000 0.00 0.00 0.00 3.51
186 188 4.626042 ACATACATCTTTCTCGCTCCATC 58.374 43.478 0.00 0.00 0.00 3.51
187 189 4.502259 GGACATACATCTTTCTCGCTCCAT 60.502 45.833 0.00 0.00 0.00 3.41
188 190 3.181475 GGACATACATCTTTCTCGCTCCA 60.181 47.826 0.00 0.00 0.00 3.86
189 191 3.181475 TGGACATACATCTTTCTCGCTCC 60.181 47.826 0.00 0.00 0.00 4.70
190 192 4.046938 TGGACATACATCTTTCTCGCTC 57.953 45.455 0.00 0.00 0.00 5.03
191 193 4.141846 ACATGGACATACATCTTTCTCGCT 60.142 41.667 0.00 0.00 0.00 4.93
198 200 5.523916 GCGTTCTTACATGGACATACATCTT 59.476 40.000 0.00 0.00 0.00 2.40
215 217 1.949465 AAAAGGTCTCGTGCGTTCTT 58.051 45.000 0.00 0.00 0.00 2.52
217 219 2.401351 AGTAAAAGGTCTCGTGCGTTC 58.599 47.619 0.00 0.00 0.00 3.95
285 291 4.184629 CACTAGAGTTTGTCATAGGCACC 58.815 47.826 0.00 0.00 0.00 5.01
290 296 5.290643 GCTTGAGCACTAGAGTTTGTCATAG 59.709 44.000 0.00 0.00 41.59 2.23
328 334 8.206867 TGGAAAATCATTGTATTTGTGGTTTCA 58.793 29.630 0.00 0.00 0.00 2.69
402 408 4.022849 GCGAGGGCAAATAATTCATAAGCT 60.023 41.667 0.00 0.00 39.62 3.74
408 414 2.687935 GGAAGCGAGGGCAAATAATTCA 59.312 45.455 0.00 0.00 43.41 2.57
409 415 2.952310 AGGAAGCGAGGGCAAATAATTC 59.048 45.455 0.00 0.00 43.41 2.17
419 425 0.602905 ACGTCAAAAGGAAGCGAGGG 60.603 55.000 0.00 0.00 0.00 4.30
421 427 1.385743 CGTACGTCAAAAGGAAGCGAG 59.614 52.381 7.22 0.00 0.00 5.03
422 428 1.001487 TCGTACGTCAAAAGGAAGCGA 60.001 47.619 16.05 0.00 0.00 4.93
436 442 2.604914 ACACGTGGTAGAGTATCGTACG 59.395 50.000 21.57 9.53 42.67 3.67
468 479 3.051650 GGTTGGGGGAATTTATTAGGGGT 60.052 47.826 0.00 0.00 0.00 4.95
493 504 0.190815 ATGGGTTGGGCTTCTTTGGT 59.809 50.000 0.00 0.00 0.00 3.67
511 522 4.021229 TGCTTTGATGCTGGATCTTGAAT 58.979 39.130 10.56 0.00 31.55 2.57
512 523 3.192001 GTGCTTTGATGCTGGATCTTGAA 59.808 43.478 10.56 2.70 31.55 2.69
513 524 2.751259 GTGCTTTGATGCTGGATCTTGA 59.249 45.455 10.56 0.00 31.55 3.02
514 525 2.159282 GGTGCTTTGATGCTGGATCTTG 60.159 50.000 10.56 2.27 31.55 3.02
515 526 2.097825 GGTGCTTTGATGCTGGATCTT 58.902 47.619 10.56 0.00 31.55 2.40
516 527 1.684248 GGGTGCTTTGATGCTGGATCT 60.684 52.381 10.56 0.00 31.55 2.75
517 528 0.743097 GGGTGCTTTGATGCTGGATC 59.257 55.000 1.79 1.79 0.00 3.36
554 565 0.038166 AAGAGGAAAGATGGCGGCAA 59.962 50.000 18.31 0.00 0.00 4.52
562 573 6.512514 AGCAATATGAGGAAGAGGAAAGAT 57.487 37.500 0.00 0.00 0.00 2.40
564 576 6.229733 CCTAGCAATATGAGGAAGAGGAAAG 58.770 44.000 0.00 0.00 31.45 2.62
604 616 2.520741 CTCCCTCCTCCTCCTCGC 60.521 72.222 0.00 0.00 0.00 5.03
620 633 1.988107 ACCATCATCACCACAACCTCT 59.012 47.619 0.00 0.00 0.00 3.69
626 639 1.001020 GCCCACCATCATCACCACA 60.001 57.895 0.00 0.00 0.00 4.17
670 683 1.953138 CTCGACGCATCTCCCATGC 60.953 63.158 0.00 0.00 41.35 4.06
688 701 4.576216 ACGTCACTGTCATCATAGATCC 57.424 45.455 0.00 0.00 0.00 3.36
691 704 5.676331 GCAAGTACGTCACTGTCATCATAGA 60.676 44.000 0.00 0.00 37.63 1.98
736 762 0.041238 TCCCTGTTCATCTCCTCCGT 59.959 55.000 0.00 0.00 0.00 4.69
749 775 1.692749 ACACACACCCTGTCCCTGT 60.693 57.895 0.00 0.00 0.00 4.00
751 777 1.692749 ACACACACACCCTGTCCCT 60.693 57.895 0.00 0.00 0.00 4.20
753 779 0.393808 AACACACACACACCCTGTCC 60.394 55.000 0.00 0.00 0.00 4.02
754 780 1.014352 GAACACACACACACCCTGTC 58.986 55.000 0.00 0.00 0.00 3.51
756 782 0.107214 AGGAACACACACACACCCTG 60.107 55.000 0.00 0.00 0.00 4.45
761 787 0.615850 TCACCAGGAACACACACACA 59.384 50.000 0.00 0.00 0.00 3.72
763 789 2.296792 CAATCACCAGGAACACACACA 58.703 47.619 0.00 0.00 0.00 3.72
764 790 2.033299 CACAATCACCAGGAACACACAC 59.967 50.000 0.00 0.00 0.00 3.82
765 791 2.296792 CACAATCACCAGGAACACACA 58.703 47.619 0.00 0.00 0.00 3.72
766 792 1.608590 CCACAATCACCAGGAACACAC 59.391 52.381 0.00 0.00 0.00 3.82
767 793 1.492599 TCCACAATCACCAGGAACACA 59.507 47.619 0.00 0.00 0.00 3.72
768 794 1.880027 GTCCACAATCACCAGGAACAC 59.120 52.381 0.00 0.00 0.00 3.32
769 795 1.542328 CGTCCACAATCACCAGGAACA 60.542 52.381 0.00 0.00 0.00 3.18
774 800 1.724623 CGTAACGTCCACAATCACCAG 59.275 52.381 0.00 0.00 0.00 4.00
858 1083 3.774599 CTGCTTATGGGGTCCGGGC 62.775 68.421 0.00 0.00 0.00 6.13
1372 1667 6.034044 CACGAAACAGCAGATCTAGAGTTTAC 59.966 42.308 14.72 9.81 30.23 2.01
1374 1669 4.926238 CACGAAACAGCAGATCTAGAGTTT 59.074 41.667 14.67 14.67 32.48 2.66
1375 1670 4.218635 TCACGAAACAGCAGATCTAGAGTT 59.781 41.667 0.00 0.00 0.00 3.01
1376 1671 3.759086 TCACGAAACAGCAGATCTAGAGT 59.241 43.478 0.00 0.00 0.00 3.24
1449 1753 2.367567 TGTAGCCCGTCCAATCTAATCC 59.632 50.000 0.00 0.00 0.00 3.01
1480 1797 3.560503 CTCGAATCTAATCTGGCTCGAC 58.439 50.000 0.00 0.00 32.41 4.20
1516 1833 5.301551 ACAAGCAACAGACCAATCATGTAAA 59.698 36.000 0.00 0.00 0.00 2.01
1535 1858 2.935201 CAGATTGCAGAGTAGGACAAGC 59.065 50.000 0.00 0.00 0.00 4.01
1536 1859 3.196469 TCCAGATTGCAGAGTAGGACAAG 59.804 47.826 0.00 0.00 0.00 3.16
1538 1861 2.762887 CTCCAGATTGCAGAGTAGGACA 59.237 50.000 0.00 0.00 0.00 4.02
1633 2014 3.360867 TGGCAATCAATTATTCCCACGT 58.639 40.909 0.00 0.00 0.00 4.49
1635 2016 4.344679 TGGATGGCAATCAATTATTCCCAC 59.655 41.667 2.85 0.00 34.17 4.61
1636 2017 4.554683 TGGATGGCAATCAATTATTCCCA 58.445 39.130 2.85 0.00 34.17 4.37
1638 2019 7.218614 TGAAATGGATGGCAATCAATTATTCC 58.781 34.615 3.99 0.00 35.69 3.01
1652 2072 6.038356 GCATCTAACAAGTTGAAATGGATGG 58.962 40.000 22.36 12.59 31.73 3.51
1660 2080 8.453320 CAATGATAGTGCATCTAACAAGTTGAA 58.547 33.333 10.54 0.00 35.60 2.69
1661 2081 7.607607 ACAATGATAGTGCATCTAACAAGTTGA 59.392 33.333 10.54 0.00 35.60 3.18
1769 2221 8.230486 GCTAGATAAACAACAGCGCATATATTT 58.770 33.333 11.47 7.18 0.00 1.40
1804 2271 9.677567 ACTATGTAAAAAGCACAATTAACAGTG 57.322 29.630 5.06 5.06 38.74 3.66
1885 2365 7.786030 TGGATCCAGAAGTTTAGACAAGATAG 58.214 38.462 11.44 0.00 0.00 2.08
1898 2378 4.622220 GCATGCAAATTTGGATCCAGAAGT 60.622 41.667 20.89 8.93 37.10 3.01
1912 2392 5.410746 CGTGATAGATAGAAGGCATGCAAAT 59.589 40.000 21.36 4.19 0.00 2.32
1948 2431 7.561251 TGTATGTAATGTTGCTAGTACACCAT 58.439 34.615 0.00 7.53 34.45 3.55
1976 2468 6.061231 GTGGAAATTTAGCTACCACTATGC 57.939 41.667 18.60 0.61 44.91 3.14
2005 2497 3.840437 TGGCACAAGAACAGGCAC 58.160 55.556 0.00 0.00 31.92 5.01
2025 2517 6.742718 CAGAATTTTACAGTTGGCAACTATCG 59.257 38.462 30.72 21.15 40.46 2.92
2046 2538 2.105477 AGACCTGCAGAAAAGCTCAGAA 59.895 45.455 17.39 0.00 34.99 3.02
2059 2551 3.515502 AGCAATACTACTGAAGACCTGCA 59.484 43.478 0.00 0.00 32.42 4.41
2066 2558 7.865707 ACAAGTTCAAAGCAATACTACTGAAG 58.134 34.615 0.00 0.00 33.33 3.02
2095 2587 9.781834 TGAAACAAGAAACAACATAACAGTAAG 57.218 29.630 0.00 0.00 0.00 2.34
2107 2602 9.231297 CCCTATCTAGAATGAAACAAGAAACAA 57.769 33.333 0.00 0.00 0.00 2.83
2108 2603 8.383175 ACCCTATCTAGAATGAAACAAGAAACA 58.617 33.333 0.00 0.00 0.00 2.83
2109 2604 8.669243 CACCCTATCTAGAATGAAACAAGAAAC 58.331 37.037 0.00 0.00 0.00 2.78
2110 2605 7.829211 CCACCCTATCTAGAATGAAACAAGAAA 59.171 37.037 0.00 0.00 0.00 2.52
2111 2606 7.037586 ACCACCCTATCTAGAATGAAACAAGAA 60.038 37.037 0.00 0.00 0.00 2.52
2112 2607 6.443849 ACCACCCTATCTAGAATGAAACAAGA 59.556 38.462 0.00 0.00 0.00 3.02
2113 2608 6.653989 ACCACCCTATCTAGAATGAAACAAG 58.346 40.000 0.00 0.00 0.00 3.16
2154 2649 8.723365 AGGAATGTATGGTCTTGGATTATGTAA 58.277 33.333 0.00 0.00 0.00 2.41
2167 2667 2.224450 CGGGGGTAAGGAATGTATGGTC 60.224 54.545 0.00 0.00 0.00 4.02
2178 2678 1.060163 ACATGGGATCGGGGGTAAGG 61.060 60.000 0.00 0.00 0.00 2.69
2187 2687 1.667724 GCAAGACAGAACATGGGATCG 59.332 52.381 0.00 0.00 0.00 3.69
2429 2933 1.072173 TGGGTTCAGGTGTCATGAGTG 59.928 52.381 0.00 0.00 0.00 3.51
2433 2937 2.205022 ACATGGGTTCAGGTGTCATG 57.795 50.000 0.00 0.00 36.47 3.07
2467 2971 8.558312 AGGCATGGATTCATCAATTAGATATCT 58.442 33.333 10.73 10.73 34.43 1.98
2474 2978 6.795144 AACAAGGCATGGATTCATCAATTA 57.205 33.333 0.00 0.00 0.00 1.40
2482 2986 5.577945 CACATACAAAACAAGGCATGGATTC 59.422 40.000 0.00 0.00 0.00 2.52
2486 2990 4.255833 ACACATACAAAACAAGGCATGG 57.744 40.909 0.00 0.00 0.00 3.66
2585 3096 0.543646 AGGGGCAAAAAGAGCAGCAT 60.544 50.000 0.00 0.00 0.00 3.79
2590 3101 3.612517 CCAAAGGGGCAAAAAGAGC 57.387 52.632 0.00 0.00 0.00 4.09
2633 3147 0.034186 CCAGCAGCCCCTTGATGTTA 60.034 55.000 0.00 0.00 32.77 2.41
2675 3189 2.356535 GGTCTTGCCCTTGATCATGTCT 60.357 50.000 0.00 0.00 0.00 3.41
2798 3312 3.702045 ACCTACATGCTCCTCTACTCAAC 59.298 47.826 0.00 0.00 0.00 3.18
2820 3334 2.046988 CCAGCACGGACAGCATCA 60.047 61.111 0.00 0.00 36.56 3.07
2832 3346 3.689347 ACTAAGCATTGTTCATCCAGCA 58.311 40.909 0.00 0.00 0.00 4.41
2884 3404 8.773645 TCGATGAAACCATTATCATGACATAAC 58.226 33.333 0.00 0.00 36.45 1.89
2894 3414 4.261197 GGGCTGTTCGATGAAACCATTATC 60.261 45.833 0.00 0.00 0.00 1.75
2925 3445 1.300620 TCAGGGTTTCACACGAGCG 60.301 57.895 0.00 0.00 0.00 5.03
3012 3539 1.077858 CAAGAGGAGGCAGAAGGGC 60.078 63.158 0.00 0.00 43.80 5.19
3013 3540 1.077858 GCAAGAGGAGGCAGAAGGG 60.078 63.158 0.00 0.00 0.00 3.95
3022 3849 1.141449 CGGAGCAGAGCAAGAGGAG 59.859 63.158 0.00 0.00 0.00 3.69
3044 3871 0.251564 TTGACGGCCACATTTGGGAT 60.252 50.000 2.24 0.00 44.15 3.85
3049 3876 2.642700 GCGTTGACGGCCACATTT 59.357 55.556 2.24 0.00 40.23 2.32
3058 3885 1.154488 CGAACCAATGGCGTTGACG 60.154 57.895 20.72 17.15 40.37 4.35
3090 3917 9.675464 GGTTAGAATCTAAGCTAGCTAGAGATA 57.325 37.037 29.11 18.09 32.16 1.98
3115 6275 4.156556 CCATAATTGATAGCACGATTGGGG 59.843 45.833 0.00 0.00 0.00 4.96
3130 6290 5.760253 CAGGTGTACTTAGGCTCCATAATTG 59.240 44.000 0.00 0.00 0.00 2.32
3139 6299 1.348064 TGTGCAGGTGTACTTAGGCT 58.652 50.000 0.00 0.00 0.00 4.58
3141 6301 3.002791 CACATGTGCAGGTGTACTTAGG 58.997 50.000 13.94 0.00 38.21 2.69
3189 6349 3.394674 TGCGCGGGAATTATGAAGATA 57.605 42.857 8.83 0.00 0.00 1.98
3195 6355 2.559998 AACTTTGCGCGGGAATTATG 57.440 45.000 8.83 0.00 0.00 1.90
3202 6362 1.721487 CAGGATAACTTTGCGCGGG 59.279 57.895 8.83 0.00 0.00 6.13
3207 6367 3.855689 ACACATGCAGGATAACTTTGC 57.144 42.857 4.84 0.00 38.30 3.68
3209 6369 8.034804 GGAAATTAACACATGCAGGATAACTTT 58.965 33.333 4.84 0.00 0.00 2.66
3225 6385 9.237187 TGTATGTATCAAGCAAGGAAATTAACA 57.763 29.630 0.00 0.00 0.00 2.41
3238 6399 3.559655 TGAACCGCATGTATGTATCAAGC 59.440 43.478 0.00 0.00 0.00 4.01
3243 6408 6.054941 TCAAAGATGAACCGCATGTATGTAT 58.945 36.000 0.00 0.00 37.34 2.29
3301 6490 5.341993 CACACAAACATACGGCAACAATTAG 59.658 40.000 0.00 0.00 0.00 1.73
3478 6731 7.647715 TCGACTTCATCATTCTTTTGGTTTTTC 59.352 33.333 0.00 0.00 0.00 2.29
3479 6732 7.488322 TCGACTTCATCATTCTTTTGGTTTTT 58.512 30.769 0.00 0.00 0.00 1.94
3541 6794 6.431234 AGTTTATCATGACCAAGACTTGTTCC 59.569 38.462 14.03 3.59 0.00 3.62
3560 6813 7.173218 CACCGATGGCTTAATCATGTAGTTTAT 59.827 37.037 0.00 0.00 0.00 1.40
3566 6819 3.138304 GCACCGATGGCTTAATCATGTA 58.862 45.455 0.00 0.00 0.00 2.29
3583 6836 3.052082 ATGCACAGCTGTCGCACC 61.052 61.111 32.07 15.19 39.10 5.01
3584 6837 2.175078 CATGCACAGCTGTCGCAC 59.825 61.111 32.07 18.16 39.10 5.34
3597 6850 7.756722 GTGCAAATGGTAATTATCTATCCATGC 59.243 37.037 5.55 7.61 38.64 4.06
3648 7014 0.171903 TCGCTAACTAGCCGTTGACC 59.828 55.000 3.18 0.00 46.34 4.02
3650 7016 4.579454 AATATCGCTAACTAGCCGTTGA 57.421 40.909 3.18 0.00 46.34 3.18
3675 7041 4.135966 CAAATCGTTTTCTTGCAAATGCG 58.864 39.130 0.00 1.56 45.83 4.73
3691 7057 3.242381 TGTGCATAATCTGTCGCAAATCG 60.242 43.478 0.00 0.00 35.87 3.34
3693 7059 4.096833 ACATGTGCATAATCTGTCGCAAAT 59.903 37.500 0.00 0.00 35.87 2.32
3714 7080 3.142951 CGTCCCAATTGTCCTTTACACA 58.857 45.455 4.43 0.00 38.00 3.72
3715 7081 2.486592 CCGTCCCAATTGTCCTTTACAC 59.513 50.000 4.43 0.00 38.00 2.90
3735 7101 9.155975 CAAATATATACTTGGCATGTACTCTCC 57.844 37.037 14.60 0.00 0.00 3.71


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

AutoCloner maintained by Alex Coulton.