Multiple sequence alignment - TraesCS4A01G122200

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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 TraesCS4A01G122200 chr4A 100.000 6279 0 0 1 6279 151298740 151292462 0.000000e+00 11596.0
1 TraesCS4A01G122200 chr4A 75.661 378 69 22 5606 5970 167314659 167315026 3.890000e-37 167.0
2 TraesCS4A01G122200 chr4D 91.325 3435 177 48 680 4038 321807979 321811368 0.000000e+00 4580.0
3 TraesCS4A01G122200 chr4D 93.316 748 32 8 5006 5751 321812703 321813434 0.000000e+00 1088.0
4 TraesCS4A01G122200 chr4D 96.732 459 12 3 4533 4990 321812198 321812654 0.000000e+00 761.0
5 TraesCS4A01G122200 chr4D 93.186 499 29 4 4044 4540 321811461 321811956 0.000000e+00 728.0
6 TraesCS4A01G122200 chr4D 91.093 494 40 4 5783 6276 321827384 321827873 0.000000e+00 665.0
7 TraesCS4A01G122200 chr4D 93.151 438 19 3 245 679 321807520 321807949 3.190000e-177 632.0
8 TraesCS4A01G122200 chr4D 94.690 226 9 2 1 226 321807091 321807313 1.300000e-91 348.0
9 TraesCS4A01G122200 chr4D 100.000 31 0 0 4004 4034 321811462 321811432 2.440000e-04 58.4
10 TraesCS4A01G122200 chr4B 91.184 3301 166 50 558 3785 399274236 399270988 0.000000e+00 4368.0
11 TraesCS4A01G122200 chr4B 94.737 741 33 5 5006 5741 399269197 399268458 0.000000e+00 1147.0
12 TraesCS4A01G122200 chr4B 93.852 732 30 7 3821 4539 399270982 399270253 0.000000e+00 1088.0
13 TraesCS4A01G122200 chr4B 91.200 500 42 2 5778 6276 399265741 399265243 0.000000e+00 678.0
14 TraesCS4A01G122200 chr4B 87.914 604 32 15 4 575 399274844 399274250 0.000000e+00 673.0
15 TraesCS4A01G122200 chr4B 96.234 239 9 0 4755 4993 399269481 399269243 5.900000e-105 392.0
16 TraesCS4A01G122200 chr4B 98.198 222 3 1 4533 4754 399269990 399269770 2.750000e-103 387.0
17 TraesCS4A01G122200 chr6B 79.661 354 59 11 5607 5951 595297747 595298096 6.290000e-60 243.0
18 TraesCS4A01G122200 chr7D 76.256 438 71 23 5617 6033 109372047 109371622 1.070000e-47 202.0
19 TraesCS4A01G122200 chr5B 80.814 172 27 6 5559 5726 66386365 66386534 5.110000e-26 130.0


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 TraesCS4A01G122200 chr4A 151292462 151298740 6278 True 11596.000000 11596 100.000000 1 6279 1 chr4A.!!$R1 6278
1 TraesCS4A01G122200 chr4D 321807091 321813434 6343 False 1356.166667 4580 93.733333 1 5751 6 chr4D.!!$F2 5750
2 TraesCS4A01G122200 chr4B 399265243 399274844 9601 True 1247.571429 4368 93.331286 4 6276 7 chr4B.!!$R1 6272

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
460 677 0.034574 ATTGCTCCGTAACCATGGCA 60.035 50.000 13.04 0.00 0.00 4.92 F
1317 1609 0.109597 GGAAGTACGAGTTCGCGGAA 60.110 55.000 6.13 0.00 44.43 4.30 F
1508 1843 0.382158 TGCTCTAAGCTGACGATCGG 59.618 55.000 20.98 2.45 42.97 4.18 F
2290 2640 0.970640 TGGCTGATGCAAAGCACATT 59.029 45.000 22.05 0.00 43.04 2.71 F
2466 2816 1.279271 AGCACGGACTTTATTCCAGCT 59.721 47.619 1.39 1.39 40.22 4.24 F
3367 3743 1.290009 GCTCCATGCGGTTTGCTTT 59.710 52.632 0.00 0.00 46.63 3.51 F
4877 5915 0.733150 CTGACAGCGTATCGAGGTCA 59.267 55.000 12.67 12.67 38.41 4.02 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2192 2541 0.035056 ACTGCCCAGCACTGTAATCC 60.035 55.000 0.00 0.0 33.79 3.01 R
2263 2613 0.036590 TTGCATCAGCCACAGTAGCA 59.963 50.000 0.00 0.0 41.13 3.49 R
3102 3475 1.228552 GGCCTCAAAGAGTGCCCAA 60.229 57.895 12.61 0.0 38.87 4.12 R
3341 3714 1.392589 ACCGCATGGAGCTTAAATGG 58.607 50.000 0.00 0.0 42.61 3.16 R
3560 3937 1.699083 TGAACTCAAGGGATGCACTGA 59.301 47.619 0.00 0.0 0.00 3.41 R
4980 6018 0.036732 CCTGTTCCTACCTTGCTGCA 59.963 55.000 0.00 0.0 0.00 4.41 R
5934 9689 0.249447 CACAGAGGAAGTGCGACACA 60.249 55.000 11.58 0.0 36.74 3.72 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
103 104 1.795768 TCAACGGCATCAGACTGAAC 58.204 50.000 9.70 4.79 0.00 3.18
185 188 1.202533 CGCGGGGAATTCTGACACTAT 60.203 52.381 5.23 0.00 0.00 2.12
229 232 5.106118 CCGTGGTCTCTACATATGGACATAG 60.106 48.000 7.80 0.00 0.00 2.23
335 552 0.674895 GGGCTCCTAACTGCAGTGTG 60.675 60.000 22.49 15.73 0.00 3.82
448 665 3.502191 TTATTTTGCGTGGATTGCTCC 57.498 42.857 0.00 0.00 42.45 4.70
456 673 1.742411 CGTGGATTGCTCCGTAACCAT 60.742 52.381 0.00 0.00 45.37 3.55
458 675 1.308998 GGATTGCTCCGTAACCATGG 58.691 55.000 11.19 11.19 0.00 3.66
459 676 0.663153 GATTGCTCCGTAACCATGGC 59.337 55.000 13.04 0.00 0.00 4.40
460 677 0.034574 ATTGCTCCGTAACCATGGCA 60.035 50.000 13.04 0.00 0.00 4.92
461 678 0.250945 TTGCTCCGTAACCATGGCAA 60.251 50.000 13.04 4.56 37.35 4.52
462 679 0.250945 TGCTCCGTAACCATGGCAAA 60.251 50.000 13.04 0.00 0.00 3.68
463 680 0.451783 GCTCCGTAACCATGGCAAAG 59.548 55.000 13.04 2.00 0.00 2.77
464 681 0.451783 CTCCGTAACCATGGCAAAGC 59.548 55.000 13.04 0.00 0.00 3.51
475 692 1.514873 GGCAAAGCCGCAAAGATCG 60.515 57.895 0.00 0.00 39.62 3.69
483 700 1.640428 CCGCAAAGATCGCTTGAGTA 58.360 50.000 13.03 0.00 33.79 2.59
517 734 7.744733 TCATCCATATTCATACCTGCAAGTTA 58.255 34.615 0.00 0.00 0.00 2.24
696 977 1.072505 GGAAAACAGGAGACGGGCA 59.927 57.895 0.00 0.00 0.00 5.36
928 1209 0.327259 GTAAACTCCACACCCCCTCC 59.673 60.000 0.00 0.00 0.00 4.30
1101 1384 1.384989 CGCTCTTCTTCCTCCGCCTA 61.385 60.000 0.00 0.00 0.00 3.93
1185 1477 2.697751 CGACAGGAGAATGGAGGAGATT 59.302 50.000 0.00 0.00 0.00 2.40
1317 1609 0.109597 GGAAGTACGAGTTCGCGGAA 60.110 55.000 6.13 0.00 44.43 4.30
1359 1651 2.097038 GCGCACCTACAGCACAGAG 61.097 63.158 0.30 0.00 0.00 3.35
1369 1661 2.511659 ACAGCACAGAGTTCAATGCAT 58.488 42.857 0.00 0.00 40.63 3.96
1371 1663 2.089980 AGCACAGAGTTCAATGCATCC 58.910 47.619 0.00 0.00 40.63 3.51
1374 1696 3.829948 CACAGAGTTCAATGCATCCAAC 58.170 45.455 0.00 6.13 0.00 3.77
1404 1729 6.524734 AGTATGACATCTCACTGAAACACAA 58.475 36.000 0.00 0.00 0.00 3.33
1422 1757 4.940046 ACACAACAAGAGATAATGAGGCTG 59.060 41.667 0.00 0.00 0.00 4.85
1446 1781 5.814783 CATTGTGCTCTAAAATGCTACTCC 58.185 41.667 0.00 0.00 0.00 3.85
1447 1782 4.551702 TGTGCTCTAAAATGCTACTCCA 57.448 40.909 0.00 0.00 0.00 3.86
1448 1783 5.102953 TGTGCTCTAAAATGCTACTCCAT 57.897 39.130 0.00 0.00 0.00 3.41
1450 1785 6.649155 TGTGCTCTAAAATGCTACTCCATTA 58.351 36.000 0.00 0.00 34.50 1.90
1451 1786 7.282585 TGTGCTCTAAAATGCTACTCCATTAT 58.717 34.615 0.00 0.00 34.50 1.28
1453 1788 8.072567 GTGCTCTAAAATGCTACTCCATTATTG 58.927 37.037 0.00 0.00 34.50 1.90
1455 1790 8.624776 GCTCTAAAATGCTACTCCATTATTGTT 58.375 33.333 0.00 0.00 34.50 2.83
1505 1840 1.550524 TGGTTGCTCTAAGCTGACGAT 59.449 47.619 0.11 0.00 42.97 3.73
1507 1842 1.849219 GTTGCTCTAAGCTGACGATCG 59.151 52.381 14.88 14.88 42.97 3.69
1508 1843 0.382158 TGCTCTAAGCTGACGATCGG 59.618 55.000 20.98 2.45 42.97 4.18
1523 1858 1.936547 GATCGGTTTCTGATCCAGTGC 59.063 52.381 7.18 0.00 36.97 4.40
1708 2045 8.800332 TCACTTCTAAACCGACTAGTAGAAAAT 58.200 33.333 3.59 0.00 33.40 1.82
1720 2057 8.951969 CGACTAGTAGAAAATTTATACCACGTC 58.048 37.037 3.59 9.47 0.00 4.34
1743 2080 2.519949 TGCAGGGCATGTGGTTCA 59.480 55.556 0.00 0.00 31.71 3.18
1779 2116 6.413818 GCTTACGTGTCAACATAAATAATGCC 59.586 38.462 0.00 0.00 39.39 4.40
1795 2132 8.927675 AAATAATGCCCATACGGTTATCTTAA 57.072 30.769 0.00 0.00 0.00 1.85
1796 2133 7.916914 ATAATGCCCATACGGTTATCTTAAC 57.083 36.000 0.00 0.00 0.00 2.01
1917 2257 5.003121 CGGTGTTTCTCAAACGAAAAAGAAC 59.997 40.000 0.00 0.00 44.28 3.01
1945 2285 3.244596 GGGAGCACCTATAAGGGTCAATC 60.245 52.174 0.00 0.00 40.58 2.67
1950 2290 6.494059 AGCACCTATAAGGGTCAATCTTTTT 58.506 36.000 0.00 0.00 40.58 1.94
1951 2291 7.639378 AGCACCTATAAGGGTCAATCTTTTTA 58.361 34.615 0.00 0.00 40.58 1.52
1952 2292 7.556635 AGCACCTATAAGGGTCAATCTTTTTAC 59.443 37.037 0.00 0.00 40.58 2.01
2106 2455 1.843368 ATCTTGCACATTGACCCCAG 58.157 50.000 0.00 0.00 0.00 4.45
2122 2471 3.181434 ACCCCAGTGTGTATGTTTGACAT 60.181 43.478 0.00 0.00 42.35 3.06
2176 2525 6.623486 TCCAATAAAACATGCAGAAGTCATG 58.377 36.000 0.00 1.85 44.99 3.07
2192 2541 4.696455 AGTCATGGTTTTCCTTTTGCTTG 58.304 39.130 0.00 0.00 41.38 4.01
2263 2613 2.158986 AGCACGAGAGCTATTTGATGCT 60.159 45.455 4.38 4.38 44.50 3.79
2290 2640 0.970640 TGGCTGATGCAAAGCACATT 59.029 45.000 22.05 0.00 43.04 2.71
2326 2676 5.072329 TGGGTGGGCAATTTTAGAAATCAAA 59.928 36.000 0.00 0.00 0.00 2.69
2466 2816 1.279271 AGCACGGACTTTATTCCAGCT 59.721 47.619 1.39 1.39 40.22 4.24
2593 2943 7.713073 TGTGTTGAACTGTGAACTTATGTATGA 59.287 33.333 0.00 0.00 0.00 2.15
2645 2995 2.798976 ATGCGTGCAGAAAACAATGT 57.201 40.000 0.00 0.00 0.00 2.71
2711 3075 5.245977 ACTTCCCATTGATGGTTTTTACTGG 59.754 40.000 9.07 0.00 46.65 4.00
2751 3115 9.346725 CTTGTAATTTTCTAAGGCTTGTTCATC 57.653 33.333 10.69 0.00 0.00 2.92
2752 3116 7.826690 TGTAATTTTCTAAGGCTTGTTCATCC 58.173 34.615 10.69 0.00 0.00 3.51
2753 3117 6.916360 AATTTTCTAAGGCTTGTTCATCCA 57.084 33.333 10.69 0.00 0.00 3.41
2754 3118 7.486407 AATTTTCTAAGGCTTGTTCATCCAT 57.514 32.000 10.69 0.00 0.00 3.41
2755 3119 6.916360 TTTTCTAAGGCTTGTTCATCCATT 57.084 33.333 10.69 0.00 0.00 3.16
2756 3120 6.916360 TTTCTAAGGCTTGTTCATCCATTT 57.084 33.333 10.69 0.00 0.00 2.32
2757 3121 6.515272 TTCTAAGGCTTGTTCATCCATTTC 57.485 37.500 10.69 0.00 0.00 2.17
2758 3122 4.949856 TCTAAGGCTTGTTCATCCATTTCC 59.050 41.667 10.69 0.00 0.00 3.13
2759 3123 3.463048 AGGCTTGTTCATCCATTTCCT 57.537 42.857 0.00 0.00 0.00 3.36
2760 3124 3.359950 AGGCTTGTTCATCCATTTCCTC 58.640 45.455 0.00 0.00 0.00 3.71
2761 3125 3.091545 GGCTTGTTCATCCATTTCCTCA 58.908 45.455 0.00 0.00 0.00 3.86
2762 3126 3.703052 GGCTTGTTCATCCATTTCCTCAT 59.297 43.478 0.00 0.00 0.00 2.90
2763 3127 4.441079 GGCTTGTTCATCCATTTCCTCATG 60.441 45.833 0.00 0.00 0.00 3.07
2764 3128 4.159135 GCTTGTTCATCCATTTCCTCATGT 59.841 41.667 0.00 0.00 0.00 3.21
2765 3129 5.337009 GCTTGTTCATCCATTTCCTCATGTT 60.337 40.000 0.00 0.00 0.00 2.71
2766 3130 5.902613 TGTTCATCCATTTCCTCATGTTC 57.097 39.130 0.00 0.00 0.00 3.18
2767 3131 5.323581 TGTTCATCCATTTCCTCATGTTCA 58.676 37.500 0.00 0.00 0.00 3.18
2768 3132 5.183713 TGTTCATCCATTTCCTCATGTTCAC 59.816 40.000 0.00 0.00 0.00 3.18
2769 3133 3.940852 TCATCCATTTCCTCATGTTCACG 59.059 43.478 0.00 0.00 0.00 4.35
2770 3134 3.417069 TCCATTTCCTCATGTTCACGT 57.583 42.857 0.00 0.00 0.00 4.49
2771 3135 4.545208 TCCATTTCCTCATGTTCACGTA 57.455 40.909 0.00 0.00 0.00 3.57
2782 3148 3.868757 TGTTCACGTATCTTCAGAGGG 57.131 47.619 0.00 0.00 0.00 4.30
2856 3222 7.445402 CGATGGAATTATTGTAGATTCACCCTT 59.555 37.037 0.00 0.00 34.67 3.95
2886 3252 4.037923 TCTGGTTTTTGTTGGAAGATCTGC 59.962 41.667 0.00 0.00 0.00 4.26
2905 3278 9.811995 AGATCTGCTCTACTAGTAACTATATCG 57.188 37.037 3.76 0.00 30.26 2.92
2955 3328 4.087182 GCTAGGGTCATACTATGGTGCTA 58.913 47.826 0.00 0.00 0.00 3.49
2972 3345 3.379372 GTGCTATTGGTTCACATCTGCAT 59.621 43.478 0.00 0.00 32.98 3.96
3102 3475 3.569701 AGAACAGATTTTCGTGGCATGTT 59.430 39.130 6.60 2.45 32.46 2.71
3341 3714 9.162764 TGCACTTACCTCTTTTATTAATCTGAC 57.837 33.333 0.00 0.00 0.00 3.51
3357 3733 3.282021 TCTGACCATTTAAGCTCCATGC 58.718 45.455 0.00 0.00 43.29 4.06
3367 3743 1.290009 GCTCCATGCGGTTTGCTTT 59.710 52.632 0.00 0.00 46.63 3.51
3377 3753 4.047822 TGCGGTTTGCTTTACTTCATTTG 58.952 39.130 0.00 0.00 46.63 2.32
3378 3754 3.121025 GCGGTTTGCTTTACTTCATTTGC 60.121 43.478 0.00 0.00 41.73 3.68
3391 3767 4.275936 ACTTCATTTGCAGTTGGTCTGTAC 59.724 41.667 0.00 0.00 45.23 2.90
3397 3773 1.878953 CAGTTGGTCTGTACGCCTTT 58.121 50.000 3.22 0.00 39.17 3.11
3399 3775 2.223377 CAGTTGGTCTGTACGCCTTTTC 59.777 50.000 3.22 0.00 39.17 2.29
3409 3785 6.147328 GTCTGTACGCCTTTTCTTAATGTTCT 59.853 38.462 0.00 0.00 0.00 3.01
3417 3793 7.114953 CGCCTTTTCTTAATGTTCTTTTTCCTC 59.885 37.037 0.00 0.00 0.00 3.71
3471 3848 6.062095 ACATTACTTTGTTGTAGTGCCTCTT 58.938 36.000 0.00 0.00 34.74 2.85
3483 3860 4.237976 AGTGCCTCTTACAGTAGAGCTA 57.762 45.455 0.00 0.00 40.28 3.32
3506 3883 6.803154 ACAACTTGCAAGTCCTAGTTATTC 57.197 37.500 31.20 0.00 38.57 1.75
3507 3884 6.296026 ACAACTTGCAAGTCCTAGTTATTCA 58.704 36.000 31.20 0.00 38.57 2.57
3508 3885 6.428159 ACAACTTGCAAGTCCTAGTTATTCAG 59.572 38.462 31.20 6.07 38.57 3.02
3560 3937 5.359860 GGAATGGAAAGGTTCACGGAATATT 59.640 40.000 0.00 0.00 0.00 1.28
3588 3965 4.023365 GCATCCCTTGAGTTCAGAATATGC 60.023 45.833 0.00 0.00 0.00 3.14
3589 3966 4.156455 TCCCTTGAGTTCAGAATATGCC 57.844 45.455 0.00 0.00 0.00 4.40
3610 3987 5.163131 TGCCTTCCCTTTTGTTAGTACTTCT 60.163 40.000 0.00 0.00 0.00 2.85
3622 3999 5.163447 TGTTAGTACTTCTGTGTTGTGCTCT 60.163 40.000 0.00 0.00 0.00 4.09
3635 4012 6.818644 TGTGTTGTGCTCTATATCCTTCTTTC 59.181 38.462 0.00 0.00 0.00 2.62
3641 4018 6.704050 GTGCTCTATATCCTTCTTTCACCTTC 59.296 42.308 0.00 0.00 0.00 3.46
3642 4019 6.384015 TGCTCTATATCCTTCTTTCACCTTCA 59.616 38.462 0.00 0.00 0.00 3.02
3667 4044 9.167311 CAGAGTTTAGATTATTTAGCCAGTGTT 57.833 33.333 0.00 0.00 0.00 3.32
3742 4119 9.953565 TTGGGTGCAATTAGATATATTACCTAC 57.046 33.333 0.00 0.00 0.00 3.18
3767 4144 2.014010 ACCATGGAAGGTGTTGCATT 57.986 45.000 21.47 0.00 41.63 3.56
3798 4178 4.937201 TTCAGAGAGTACAAGCAAGACA 57.063 40.909 0.00 0.00 0.00 3.41
3819 4199 3.625313 CACATAAACTCACACACACCACA 59.375 43.478 0.00 0.00 0.00 4.17
4049 4527 7.222224 CAGGAACGAAATATACAAGAGTACCAC 59.778 40.741 0.00 0.00 31.96 4.16
4074 4552 5.648178 TGCATTCAACATTTAGATGTGCT 57.352 34.783 0.00 0.00 45.58 4.40
4077 4555 6.930164 TGCATTCAACATTTAGATGTGCTTTT 59.070 30.769 0.00 0.00 45.58 2.27
4100 4579 4.660789 ATTTCCAGCTAATTGACATGGC 57.339 40.909 0.00 0.00 0.00 4.40
4317 4797 9.604626 CACTTGAAGAAAATCTGATACTTTGTC 57.395 33.333 0.00 0.00 0.00 3.18
4352 4832 3.080300 ACCTTTTTGTCTCACACACCA 57.920 42.857 0.00 0.00 33.41 4.17
4354 4834 3.632145 ACCTTTTTGTCTCACACACCATC 59.368 43.478 0.00 0.00 33.41 3.51
4371 4851 8.201464 ACACACCATCGAATATATACAGTTTGA 58.799 33.333 0.00 0.00 0.00 2.69
4390 4870 9.132521 CAGTTTGATTTGATGAAATAGTCCAAC 57.867 33.333 0.00 0.00 31.58 3.77
4391 4871 9.082313 AGTTTGATTTGATGAAATAGTCCAACT 57.918 29.630 0.00 0.00 31.58 3.16
4404 4884 1.265365 GTCCAACTTGACTGCTTGCTC 59.735 52.381 0.00 0.00 32.39 4.26
4412 4892 1.000843 TGACTGCTTGCTCGTATGTGT 59.999 47.619 0.00 0.00 0.00 3.72
4413 4893 1.391485 GACTGCTTGCTCGTATGTGTG 59.609 52.381 0.00 0.00 0.00 3.82
4420 4900 3.518634 TGCTCGTATGTGTGAAGCATA 57.481 42.857 0.00 0.00 0.00 3.14
4436 4916 7.503230 TGTGAAGCATATGTTGTATCCATGATT 59.497 33.333 4.29 0.00 0.00 2.57
4478 4959 9.395707 CATCATTCTAGCAATTTGAAGATTAGC 57.604 33.333 0.00 0.00 0.00 3.09
4492 4973 3.235200 AGATTAGCTCCTAATGTCGGCT 58.765 45.455 0.00 0.00 36.87 5.52
4501 4982 5.068234 TCCTAATGTCGGCTATTATTCCG 57.932 43.478 0.00 0.00 46.52 4.30
4731 5480 6.350445 CCTTTATTTTCAGCAGGTTAGTGCAT 60.350 38.462 0.00 0.00 46.60 3.96
4877 5915 0.733150 CTGACAGCGTATCGAGGTCA 59.267 55.000 12.67 12.67 38.41 4.02
4990 6028 1.242076 GTCAAGTGATGCAGCAAGGT 58.758 50.000 6.05 0.00 0.00 3.50
4993 6031 1.741706 CAAGTGATGCAGCAAGGTAGG 59.258 52.381 6.05 0.00 0.00 3.18
4995 6033 1.630369 AGTGATGCAGCAAGGTAGGAA 59.370 47.619 6.05 0.00 0.00 3.36
4998 6036 2.012673 GATGCAGCAAGGTAGGAACAG 58.987 52.381 0.00 0.00 0.00 3.16
4999 6037 0.036732 TGCAGCAAGGTAGGAACAGG 59.963 55.000 0.00 0.00 0.00 4.00
5000 6038 0.678048 GCAGCAAGGTAGGAACAGGG 60.678 60.000 0.00 0.00 0.00 4.45
5001 6039 0.035056 CAGCAAGGTAGGAACAGGGG 60.035 60.000 0.00 0.00 0.00 4.79
5004 6042 1.596496 CAAGGTAGGAACAGGGGGAT 58.404 55.000 0.00 0.00 0.00 3.85
5137 6208 3.430218 CAGAGAGTGATTTTGACGTGGAC 59.570 47.826 0.00 0.00 0.00 4.02
5266 6337 1.080329 AGGAAGCCTCTCCCTCTTCTT 59.920 52.381 0.00 0.00 37.11 2.52
5272 6343 1.107945 CTCTCCCTCTTCTTCCCGTC 58.892 60.000 0.00 0.00 0.00 4.79
5292 6363 1.135170 CCCGTAGTTCCTTCTTCCGTC 60.135 57.143 0.00 0.00 0.00 4.79
5338 6409 3.434319 CACCGTGCACAGCCATCC 61.434 66.667 18.64 0.00 0.00 3.51
5341 6412 3.807538 CGTGCACAGCCATCCAGC 61.808 66.667 18.64 0.00 0.00 4.85
5358 6429 0.452184 AGCGATCACTGACAGGTACG 59.548 55.000 7.51 8.09 0.00 3.67
5385 6456 4.857679 CCTGAGGGACAGTAGTAAGTAGT 58.142 47.826 0.00 0.00 44.40 2.73
5533 6606 4.133820 CCATCAGTCTTGTGTGGTTACAA 58.866 43.478 0.00 0.00 38.82 2.41
5544 6617 6.274157 TGTGTGGTTACAACATTTGTTCTT 57.726 33.333 0.00 0.00 42.22 2.52
5555 6628 7.096551 ACAACATTTGTTCTTTGCAAGTAGTT 58.903 30.769 0.00 0.00 42.22 2.24
5578 6652 0.605589 CTCTCCGGATAGATGCCACC 59.394 60.000 11.33 0.00 0.00 4.61
5596 6670 3.514417 CGATGTCTCGGAGGAGCA 58.486 61.111 4.96 3.02 41.27 4.26
5629 6703 4.034510 GCCATCTTCGAGTCCAAGTTTATG 59.965 45.833 0.00 0.00 0.00 1.90
5696 6771 3.490890 GCGTTGAGCTCATCCCAC 58.509 61.111 19.04 11.76 44.04 4.61
5801 9556 2.579207 TCTTAGGAAAGCGATCACCG 57.421 50.000 0.00 0.00 42.21 4.94
5903 9658 2.430367 GGGAAAGTGGAGGCACGT 59.570 61.111 0.00 0.00 0.00 4.49
5905 9660 1.070786 GGAAAGTGGAGGCACGTCA 59.929 57.895 0.00 0.00 0.00 4.35
5914 9669 0.802607 GAGGCACGTCACCTCGATTC 60.803 60.000 16.31 0.00 44.10 2.52
5928 9683 1.166531 CGATTCCTGCCCCGGAAATC 61.167 60.000 0.73 1.54 45.53 2.17
5929 9684 0.183731 GATTCCTGCCCCGGAAATCT 59.816 55.000 0.73 0.00 45.53 2.40
5932 9687 2.830370 CTGCCCCGGAAATCTGCC 60.830 66.667 0.73 0.00 0.00 4.85
5934 9689 2.123726 GCCCCGGAAATCTGCCAT 60.124 61.111 0.73 0.00 0.00 4.40
5949 9704 1.639298 GCCATGTGTCGCACTTCCTC 61.639 60.000 10.54 0.00 35.11 3.71
5952 9707 0.681733 ATGTGTCGCACTTCCTCTGT 59.318 50.000 10.54 0.00 35.11 3.41
5959 9714 3.303135 ACTTCCTCTGTGCGGCGA 61.303 61.111 12.98 0.00 0.00 5.54
5970 9725 2.125106 GCGGCGAGATTTGAGGGT 60.125 61.111 12.98 0.00 0.00 4.34
6004 9759 3.385111 GGAGATCAACGACCACTAATCCT 59.615 47.826 0.00 0.00 0.00 3.24
6010 9765 1.041447 CGACCACTAATCCTCGGGGT 61.041 60.000 0.00 0.00 0.00 4.95
6036 9791 7.590279 GGATTTATCCACGGTATAAAACATGG 58.410 38.462 3.87 0.00 46.38 3.66
6048 9803 1.163408 AAACATGGTAGGGTTGGGGT 58.837 50.000 0.00 0.00 0.00 4.95
6062 9817 4.839550 GGGTTGGGGTAGAAAAATTACCAA 59.160 41.667 4.07 0.00 41.93 3.67
6148 9904 4.988598 ACGCCTTGCCGGAGTGTG 62.989 66.667 5.05 0.00 44.76 3.82
6161 9917 1.608717 GAGTGTGCGGAGAGGATGGT 61.609 60.000 0.00 0.00 0.00 3.55
6170 9926 0.179097 GAGAGGATGGTGAAGGACGC 60.179 60.000 0.00 0.00 0.00 5.19
6174 9930 2.126071 ATGGTGAAGGACGCGACG 60.126 61.111 15.93 0.00 0.00 5.12
6213 9969 0.605589 AGAAGGCACAGAAGGACTCG 59.394 55.000 0.00 0.00 0.00 4.18
6263 10019 2.280079 CCAGGGGGATTGGCTTCC 59.720 66.667 0.00 0.00 35.59 3.46
6265 10021 4.129148 AGGGGGATTGGCTTCCGC 62.129 66.667 13.28 13.28 45.49 5.54
6276 10032 2.948720 GCTTCCGCCTCAGGTCACT 61.949 63.158 0.00 0.00 0.00 3.41
6277 10033 1.079543 CTTCCGCCTCAGGTCACTG 60.080 63.158 0.00 0.00 46.30 3.66
6278 10034 3.240134 TTCCGCCTCAGGTCACTGC 62.240 63.158 0.00 0.00 44.54 4.40
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 7.165485 ACTGTAGGTCAATTACAACTGCAATA 58.835 34.615 0.00 0.00 31.17 1.90
103 104 2.538437 CTGAGGAAAGACGAGCAGATG 58.462 52.381 0.00 0.00 0.00 2.90
185 188 3.071023 CGGCCAAATATACCCAAGAGAGA 59.929 47.826 2.24 0.00 0.00 3.10
229 232 1.279840 GCAACCAACAGAGCGACAC 59.720 57.895 0.00 0.00 0.00 3.67
237 240 0.307760 GACAACTCCGCAACCAACAG 59.692 55.000 0.00 0.00 0.00 3.16
411 628 6.378582 CAAAATAAACCAGCATAACACTCGT 58.621 36.000 0.00 0.00 0.00 4.18
458 675 2.154569 GCGATCTTTGCGGCTTTGC 61.155 57.895 0.00 0.00 0.00 3.68
459 676 0.109597 AAGCGATCTTTGCGGCTTTG 60.110 50.000 0.00 0.00 42.67 2.77
460 677 0.109597 CAAGCGATCTTTGCGGCTTT 60.110 50.000 0.00 0.00 42.67 3.51
461 678 0.955428 TCAAGCGATCTTTGCGGCTT 60.955 50.000 0.00 0.00 45.89 4.35
462 679 1.364626 CTCAAGCGATCTTTGCGGCT 61.365 55.000 0.00 0.00 37.44 5.52
463 680 1.061570 CTCAAGCGATCTTTGCGGC 59.938 57.895 0.00 0.00 37.44 6.53
464 681 1.640428 TACTCAAGCGATCTTTGCGG 58.360 50.000 0.00 0.00 37.44 5.69
465 682 3.722555 TTTACTCAAGCGATCTTTGCG 57.277 42.857 0.00 0.00 37.44 4.85
489 706 8.554870 ACTTGCAGGTATGAATATGGATGATAT 58.445 33.333 0.00 0.00 0.00 1.63
517 734 4.956075 ACCAGTCCTGAGTTGAAAAACAAT 59.044 37.500 0.00 0.00 40.76 2.71
608 860 7.936847 GGGATGTACCATGAAACTATCAACATA 59.063 37.037 0.00 0.00 36.42 2.29
625 877 0.544697 ATTGTCACCGGGGATGTACC 59.455 55.000 11.11 0.00 38.08 3.34
639 891 0.798776 CGTTCCTGCCTGTGATTGTC 59.201 55.000 0.00 0.00 0.00 3.18
696 977 2.311688 GATTGGACACGAGGCGGGAT 62.312 60.000 0.00 0.00 32.98 3.85
928 1209 2.281761 AGGCGTGGCTTTGTGAGG 60.282 61.111 0.00 0.00 0.00 3.86
959 1242 2.989253 TCTGGTCGGAGCAGCGAA 60.989 61.111 27.70 11.87 43.02 4.70
1317 1609 1.188219 TGTTGAGGAGCTTCTCGGCT 61.188 55.000 17.41 0.00 46.11 5.52
1353 1645 3.253921 TGTTGGATGCATTGAACTCTGTG 59.746 43.478 17.73 0.00 0.00 3.66
1359 1651 9.616634 CATACTATTATGTTGGATGCATTGAAC 57.383 33.333 0.00 7.70 31.79 3.18
1369 1661 9.147732 AGTGAGATGTCATACTATTATGTTGGA 57.852 33.333 0.00 0.00 37.06 3.53
1371 1663 9.971922 TCAGTGAGATGTCATACTATTATGTTG 57.028 33.333 0.00 0.00 37.06 3.33
1400 1725 4.201891 GCAGCCTCATTATCTCTTGTTGTG 60.202 45.833 0.00 0.00 0.00 3.33
1404 1729 3.920231 TGCAGCCTCATTATCTCTTGT 57.080 42.857 0.00 0.00 0.00 3.16
1462 1797 8.299570 ACCAAACAATTAGACACTTGATGATTC 58.700 33.333 0.00 0.00 0.00 2.52
1463 1798 8.181904 ACCAAACAATTAGACACTTGATGATT 57.818 30.769 0.00 0.00 0.00 2.57
1464 1799 7.765695 ACCAAACAATTAGACACTTGATGAT 57.234 32.000 0.00 0.00 0.00 2.45
1465 1800 7.424803 CAACCAAACAATTAGACACTTGATGA 58.575 34.615 0.00 0.00 0.00 2.92
1466 1801 6.144402 GCAACCAAACAATTAGACACTTGATG 59.856 38.462 0.00 0.00 0.00 3.07
1505 1840 0.684535 TGCACTGGATCAGAAACCGA 59.315 50.000 1.59 0.00 35.18 4.69
1507 1842 2.440409 ACATGCACTGGATCAGAAACC 58.560 47.619 1.59 0.00 35.18 3.27
1508 1843 3.254166 ACAACATGCACTGGATCAGAAAC 59.746 43.478 1.59 0.00 35.18 2.78
1523 1858 3.181507 CGTCTTCAGGCCAATACAACATG 60.182 47.826 5.01 0.00 0.00 3.21
1708 2045 3.339141 TGCATTGCTGACGTGGTATAAA 58.661 40.909 10.49 0.00 0.00 1.40
1917 2257 2.158900 CCTTATAGGTGCTCCCAGTGTG 60.159 54.545 0.00 0.00 34.66 3.82
2005 2353 9.832445 ACATTTTCTACCAGATCGTAACAATAT 57.168 29.630 0.00 0.00 0.00 1.28
2019 2367 6.816640 CGAATGACTTCCTACATTTTCTACCA 59.183 38.462 0.00 0.00 36.94 3.25
2021 2369 7.974501 TCTCGAATGACTTCCTACATTTTCTAC 59.025 37.037 0.00 0.00 36.94 2.59
2029 2377 7.158697 TCAAAAATCTCGAATGACTTCCTACA 58.841 34.615 0.00 0.00 0.00 2.74
2135 2484 8.648557 TTTATTGGATTTCTCACTAGATGACG 57.351 34.615 0.00 0.00 32.37 4.35
2176 2525 5.606505 TGTAATCCAAGCAAAAGGAAAACC 58.393 37.500 0.00 0.00 37.48 3.27
2192 2541 0.035056 ACTGCCCAGCACTGTAATCC 60.035 55.000 0.00 0.00 33.79 3.01
2263 2613 0.036590 TTGCATCAGCCACAGTAGCA 59.963 50.000 0.00 0.00 41.13 3.49
2290 2640 2.992689 CACCCATGCCAAGCTGCA 60.993 61.111 1.02 0.65 46.94 4.41
2466 2816 6.434028 ACTTTTTGGATTGCATTGAGTAGCTA 59.566 34.615 0.00 0.00 0.00 3.32
2554 2904 6.127758 ACAGTTCAACACAAAATACAGCTTGA 60.128 34.615 0.00 0.00 0.00 3.02
2593 2943 6.128138 AGCCCAAGACTACTAGAAAATTGT 57.872 37.500 0.00 0.00 0.00 2.71
2645 2995 2.079158 CAAAGAGCTTCCTCGCAATGA 58.921 47.619 0.00 0.00 43.05 2.57
2701 3065 7.937649 AGTATGAGAACCAAACCAGTAAAAAC 58.062 34.615 0.00 0.00 0.00 2.43
2751 3115 5.118990 AGATACGTGAACATGAGGAAATGG 58.881 41.667 0.00 0.00 31.46 3.16
2752 3116 6.313658 TGAAGATACGTGAACATGAGGAAATG 59.686 38.462 0.00 0.00 0.00 2.32
2753 3117 6.406370 TGAAGATACGTGAACATGAGGAAAT 58.594 36.000 0.00 0.00 0.00 2.17
2754 3118 5.789521 TGAAGATACGTGAACATGAGGAAA 58.210 37.500 0.00 0.00 0.00 3.13
2755 3119 5.185056 TCTGAAGATACGTGAACATGAGGAA 59.815 40.000 0.00 0.00 0.00 3.36
2756 3120 4.705023 TCTGAAGATACGTGAACATGAGGA 59.295 41.667 0.00 0.00 0.00 3.71
2757 3121 4.998788 TCTGAAGATACGTGAACATGAGG 58.001 43.478 0.00 0.00 0.00 3.86
2758 3122 5.039984 CCTCTGAAGATACGTGAACATGAG 58.960 45.833 0.00 0.00 0.00 2.90
2759 3123 4.142160 CCCTCTGAAGATACGTGAACATGA 60.142 45.833 0.00 0.00 0.00 3.07
2760 3124 4.115516 CCCTCTGAAGATACGTGAACATG 58.884 47.826 0.00 0.00 0.00 3.21
2761 3125 3.769844 ACCCTCTGAAGATACGTGAACAT 59.230 43.478 0.00 0.00 0.00 2.71
2762 3126 3.162666 ACCCTCTGAAGATACGTGAACA 58.837 45.455 0.00 0.00 0.00 3.18
2763 3127 3.870633 ACCCTCTGAAGATACGTGAAC 57.129 47.619 0.00 0.00 0.00 3.18
2764 3128 4.884668 AAACCCTCTGAAGATACGTGAA 57.115 40.909 0.00 0.00 0.00 3.18
2765 3129 4.884668 AAAACCCTCTGAAGATACGTGA 57.115 40.909 0.00 0.00 0.00 4.35
2796 3162 6.488769 TTTCTTTCTACTTCACACTACCCA 57.511 37.500 0.00 0.00 0.00 4.51
2797 3163 7.119407 GGAATTTCTTTCTACTTCACACTACCC 59.881 40.741 0.00 0.00 34.56 3.69
2856 3222 7.841956 TCTTCCAACAAAAACCAGACAAATAA 58.158 30.769 0.00 0.00 0.00 1.40
2904 3277 9.537192 TGTATTATAGTGGAATAACTGAAACCG 57.463 33.333 0.00 0.00 0.00 4.44
2931 3304 3.261897 GCACCATAGTATGACCCTAGCAT 59.738 47.826 11.91 0.00 0.00 3.79
3011 3384 6.758416 ACTTTCTGCCAAGAAACTTGATTTTC 59.242 34.615 12.25 0.00 45.44 2.29
3025 3398 3.202829 ACCGAAGTTACTTTCTGCCAA 57.797 42.857 0.00 0.00 0.00 4.52
3028 3401 4.275196 AGGAAAACCGAAGTTACTTTCTGC 59.725 41.667 0.00 0.00 34.19 4.26
3042 3415 1.600413 GCTTTCTGCACAGGAAAACCG 60.600 52.381 0.00 0.00 42.31 4.44
3102 3475 1.228552 GGCCTCAAAGAGTGCCCAA 60.229 57.895 12.61 0.00 38.87 4.12
3341 3714 1.392589 ACCGCATGGAGCTTAAATGG 58.607 50.000 0.00 0.00 42.61 3.16
3357 3733 4.047822 TGCAAATGAAGTAAAGCAAACCG 58.952 39.130 0.00 0.00 0.00 4.44
3391 3767 6.923508 AGGAAAAAGAACATTAAGAAAAGGCG 59.076 34.615 0.00 0.00 0.00 5.52
3397 3773 8.840321 CAGACAGAGGAAAAAGAACATTAAGAA 58.160 33.333 0.00 0.00 0.00 2.52
3399 3775 7.445402 TCCAGACAGAGGAAAAAGAACATTAAG 59.555 37.037 0.00 0.00 30.71 1.85
3409 3785 6.433847 TTGTATCTCCAGACAGAGGAAAAA 57.566 37.500 0.00 0.00 34.08 1.94
3417 3793 7.678947 ACTGAAAAATTGTATCTCCAGACAG 57.321 36.000 0.00 0.00 0.00 3.51
3471 3848 5.010719 ACTTGCAAGTTGTAGCTCTACTGTA 59.989 40.000 26.36 0.00 35.21 2.74
3483 3860 6.296026 TGAATAACTAGGACTTGCAAGTTGT 58.704 36.000 31.58 23.02 39.88 3.32
3523 3900 5.069516 CCTTTCCATTCCCAAATGATTCGAT 59.930 40.000 0.00 0.00 44.25 3.59
3541 3918 4.941873 ACTGAATATTCCGTGAACCTTTCC 59.058 41.667 12.90 0.00 0.00 3.13
3560 3937 1.699083 TGAACTCAAGGGATGCACTGA 59.301 47.619 0.00 0.00 0.00 3.41
3588 3965 6.204882 CACAGAAGTACTAACAAAAGGGAAGG 59.795 42.308 0.00 0.00 0.00 3.46
3589 3966 6.766467 ACACAGAAGTACTAACAAAAGGGAAG 59.234 38.462 0.00 0.00 0.00 3.46
3610 3987 5.939764 AGAAGGATATAGAGCACAACACA 57.060 39.130 0.00 0.00 0.00 3.72
3622 3999 7.979786 ACTCTGAAGGTGAAAGAAGGATATA 57.020 36.000 0.00 0.00 0.00 0.86
3635 4012 8.831550 GGCTAAATAATCTAAACTCTGAAGGTG 58.168 37.037 0.00 0.00 0.00 4.00
3641 4018 8.723942 ACACTGGCTAAATAATCTAAACTCTG 57.276 34.615 0.00 0.00 0.00 3.35
3642 4019 9.384764 GAACACTGGCTAAATAATCTAAACTCT 57.615 33.333 0.00 0.00 0.00 3.24
3703 4080 6.969993 ATTGCACCCAAAAAGTAAACTCTA 57.030 33.333 0.00 0.00 34.05 2.43
3737 4114 3.828418 TCCATGGTGGAAGGTAGGT 57.172 52.632 12.58 0.00 45.00 3.08
3750 4127 4.021719 AGAGAAAATGCAACACCTTCCATG 60.022 41.667 0.00 0.00 0.00 3.66
3786 4166 6.018262 GTGTGAGTTTATGTGTCTTGCTTGTA 60.018 38.462 0.00 0.00 0.00 2.41
3790 4170 4.273480 GTGTGTGAGTTTATGTGTCTTGCT 59.727 41.667 0.00 0.00 0.00 3.91
3798 4178 3.625764 GTGTGGTGTGTGTGAGTTTATGT 59.374 43.478 0.00 0.00 0.00 2.29
4049 4527 6.588756 AGCACATCTAAATGTTGAATGCAAAG 59.411 34.615 8.81 0.00 43.74 2.77
4074 4552 7.548780 GCCATGTCAATTAGCTGGAAATAAAAA 59.451 33.333 0.00 0.00 0.00 1.94
4077 4555 5.893255 AGCCATGTCAATTAGCTGGAAATAA 59.107 36.000 0.00 0.00 31.23 1.40
4100 4579 7.440523 AAGAAAACAGTCCATAAGCAAGTAG 57.559 36.000 0.00 0.00 0.00 2.57
4134 4614 9.077885 TGAAATGCTAAGTTTCAAAGATAACCT 57.922 29.630 0.00 0.00 41.23 3.50
4371 4851 8.517878 CAGTCAAGTTGGACTATTTCATCAAAT 58.482 33.333 2.34 0.00 46.05 2.32
4390 4870 2.093310 CACATACGAGCAAGCAGTCAAG 59.907 50.000 0.00 0.00 0.00 3.02
4391 4871 2.068519 CACATACGAGCAAGCAGTCAA 58.931 47.619 0.00 0.00 0.00 3.18
4404 4884 5.469373 ACAACATATGCTTCACACATACG 57.531 39.130 1.58 0.00 33.03 3.06
4436 4916 2.585330 TGATGCAGTTTGAGCCTTCAA 58.415 42.857 0.00 0.00 41.44 2.69
4540 5021 3.069005 TCTAGGACTCCCCAAGCCTATA 58.931 50.000 0.00 0.00 34.96 1.31
4583 5332 2.156917 CTCAACAATCTTCTGGCAGCA 58.843 47.619 10.34 0.00 0.00 4.41
4658 5407 0.340208 CCCCCTGTTCCTCCTCTAGT 59.660 60.000 0.00 0.00 0.00 2.57
4731 5480 8.575589 ACATGAACACAAAAGATATAGTTTGCA 58.424 29.630 0.00 0.00 0.00 4.08
4830 5868 2.953466 ATGATCAGTTGCATTGCCAC 57.047 45.000 6.12 5.38 0.00 5.01
4877 5915 0.700269 ACCCAGGAGGCATCATCCAT 60.700 55.000 0.00 0.00 40.58 3.41
4980 6018 0.036732 CCTGTTCCTACCTTGCTGCA 59.963 55.000 0.00 0.00 0.00 4.41
4990 6028 1.879575 CTGTGATCCCCCTGTTCCTA 58.120 55.000 0.00 0.00 0.00 2.94
4993 6031 0.393537 CAGCTGTGATCCCCCTGTTC 60.394 60.000 5.25 0.00 0.00 3.18
4995 6033 0.842030 TTCAGCTGTGATCCCCCTGT 60.842 55.000 14.67 0.00 30.85 4.00
4998 6036 1.225704 CCTTCAGCTGTGATCCCCC 59.774 63.158 14.67 0.00 30.85 5.40
4999 6037 0.329596 AACCTTCAGCTGTGATCCCC 59.670 55.000 14.67 0.00 30.85 4.81
5000 6038 1.003580 TGAACCTTCAGCTGTGATCCC 59.996 52.381 14.67 1.51 32.50 3.85
5001 6039 2.479566 TGAACCTTCAGCTGTGATCC 57.520 50.000 14.67 0.99 32.50 3.36
5004 6042 3.388024 AGTACTTGAACCTTCAGCTGTGA 59.612 43.478 14.67 2.90 38.61 3.58
5137 6208 1.445095 CCTCCTCCTGATGAAGCCG 59.555 63.158 0.00 0.00 0.00 5.52
5187 6258 1.191489 GGGATCAGAGCCCTCTAGCC 61.191 65.000 17.37 0.48 42.56 3.93
5251 6322 1.681486 CGGGAAGAAGAGGGAGAGGC 61.681 65.000 0.00 0.00 0.00 4.70
5272 6343 0.893447 ACGGAAGAAGGAACTACGGG 59.107 55.000 0.00 0.00 38.49 5.28
5292 6363 1.171308 ACAACTGCTGCTAATGCTGG 58.829 50.000 0.00 0.00 40.48 4.85
5338 6409 1.795525 CGTACCTGTCAGTGATCGCTG 60.796 57.143 27.01 27.01 37.81 5.18
5341 6412 0.809385 ACCGTACCTGTCAGTGATCG 59.191 55.000 0.00 0.00 0.00 3.69
5385 6456 9.968870 TTACAGATATACACATAAATGCACGTA 57.031 29.630 0.00 0.00 0.00 3.57
5544 6617 4.039488 TCCGGAGAGTTAAACTACTTGCAA 59.961 41.667 0.00 0.00 0.00 4.08
5555 6628 3.321111 GTGGCATCTATCCGGAGAGTTAA 59.679 47.826 24.73 7.22 0.00 2.01
5596 6670 3.201225 CTCGAAGATGGCCAATGTTGGT 61.201 50.000 10.96 0.00 43.60 3.67
5629 6703 0.463474 GGCTCCAAGGCATGAGTCTC 60.463 60.000 0.00 0.00 40.97 3.36
5696 6771 2.918712 AGTCAACTTCAGGACCACAG 57.081 50.000 0.00 0.00 34.58 3.66
5719 6889 1.562575 GGACGCACAAACGAACCGAT 61.563 55.000 0.00 0.00 36.70 4.18
5756 6927 3.047877 GTCCGCCAAACACCCTCG 61.048 66.667 0.00 0.00 0.00 4.63
5758 6929 4.636435 CGGTCCGCCAAACACCCT 62.636 66.667 0.00 0.00 34.09 4.34
5842 9597 2.426588 CACGCACGCGCATTTTCA 60.427 55.556 12.02 0.00 44.19 2.69
5874 9629 4.460683 TTTCCCCACGATCCGCGG 62.461 66.667 22.12 22.12 46.49 6.46
5903 9658 2.367202 GGGGCAGGAATCGAGGTGA 61.367 63.158 0.00 0.00 0.00 4.02
5905 9660 3.470888 CGGGGCAGGAATCGAGGT 61.471 66.667 0.00 0.00 0.00 3.85
5914 9669 2.830370 GCAGATTTCCGGGGCAGG 60.830 66.667 0.00 0.00 0.00 4.85
5928 9683 1.499056 GAAGTGCGACACATGGCAG 59.501 57.895 11.58 0.00 40.59 4.85
5929 9684 1.965930 GGAAGTGCGACACATGGCA 60.966 57.895 11.58 0.00 37.19 4.92
5932 9687 1.073964 CAGAGGAAGTGCGACACATG 58.926 55.000 11.58 0.00 36.74 3.21
5934 9689 0.249447 CACAGAGGAAGTGCGACACA 60.249 55.000 11.58 0.00 36.74 3.72
5949 9704 1.699656 CCTCAAATCTCGCCGCACAG 61.700 60.000 0.00 0.00 0.00 3.66
5952 9707 2.125147 CCCTCAAATCTCGCCGCA 60.125 61.111 0.00 0.00 0.00 5.69
5959 9714 1.002134 CCACGGCACCCTCAAATCT 60.002 57.895 0.00 0.00 0.00 2.40
5981 9736 2.933495 TTAGTGGTCGTTGATCTCCG 57.067 50.000 0.00 0.00 0.00 4.63
5986 9741 2.100916 CCGAGGATTAGTGGTCGTTGAT 59.899 50.000 0.00 0.00 0.00 2.57
6027 9782 2.723010 ACCCCAACCCTACCATGTTTTA 59.277 45.455 0.00 0.00 0.00 1.52
6034 9789 2.436964 TTTCTACCCCAACCCTACCA 57.563 50.000 0.00 0.00 0.00 3.25
6035 9790 3.812611 TTTTTCTACCCCAACCCTACC 57.187 47.619 0.00 0.00 0.00 3.18
6036 9791 5.653769 GGTAATTTTTCTACCCCAACCCTAC 59.346 44.000 0.00 0.00 33.91 3.18
6062 9817 2.158370 ACGAAGGGGTGAAAAAGGGATT 60.158 45.455 0.00 0.00 0.00 3.01
6111 9867 2.449518 TGGTGGGCTTGGTGGAGA 60.450 61.111 0.00 0.00 0.00 3.71
6112 9868 2.282462 GTGGTGGGCTTGGTGGAG 60.282 66.667 0.00 0.00 0.00 3.86
6115 9871 2.912025 GTGGTGGTGGGCTTGGTG 60.912 66.667 0.00 0.00 0.00 4.17
6140 9896 2.418910 ATCCTCTCCGCACACTCCG 61.419 63.158 0.00 0.00 0.00 4.63
6145 9901 1.191489 TTCACCATCCTCTCCGCACA 61.191 55.000 0.00 0.00 0.00 4.57
6147 9903 1.617018 CCTTCACCATCCTCTCCGCA 61.617 60.000 0.00 0.00 0.00 5.69
6148 9904 1.144936 CCTTCACCATCCTCTCCGC 59.855 63.158 0.00 0.00 0.00 5.54
6170 9926 3.793144 GCTCAAGCTTGGCCGTCG 61.793 66.667 25.73 9.01 38.21 5.12
6196 9952 0.318762 GACGAGTCCTTCTGTGCCTT 59.681 55.000 0.00 0.00 0.00 4.35
6202 9958 2.160063 TCGACGACGAGTCCTTCTG 58.840 57.895 5.75 0.00 46.92 3.02
6232 9988 3.147595 CTGGATCCAGTCGGGCGA 61.148 66.667 30.55 0.00 39.10 5.54


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

AutoCloner maintained by Alex Coulton.