Multiple sequence alignment - TraesCS6A01G331800

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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 TraesCS6A01G331800 chr6A 100.000 4328 0 0 1 4328 563716777 563712450 0.000000e+00 7993.0
1 TraesCS6A01G331800 chr6D 92.276 2706 134 26 996 3648 420753211 420750528 0.000000e+00 3770.0
2 TraesCS6A01G331800 chr6D 87.659 551 43 12 331 878 420755189 420754661 6.150000e-173 617.0
3 TraesCS6A01G331800 chr6D 98.113 53 1 0 3681 3733 420750341 420750289 4.610000e-15 93.5
4 TraesCS6A01G331800 chr6B 89.376 1346 85 39 857 2158 633923516 633922185 0.000000e+00 1640.0
5 TraesCS6A01G331800 chr6B 89.111 1350 104 20 2683 4008 633918960 633917630 0.000000e+00 1639.0
6 TraesCS6A01G331800 chr6B 87.943 705 68 12 1 696 634041168 634040472 0.000000e+00 815.0
7 TraesCS6A01G331800 chr6B 90.398 427 28 9 2257 2682 633919476 633919062 2.280000e-152 549.0
8 TraesCS6A01G331800 chr6B 86.943 314 27 5 4018 4328 633917553 633917251 1.490000e-89 340.0
9 TraesCS6A01G331800 chr6B 89.744 117 4 6 752 862 634040472 634040358 4.510000e-30 143.0
10 TraesCS6A01G331800 chr3D 81.119 143 21 6 4037 4178 527684758 527684621 4.580000e-20 110.0
11 TraesCS6A01G331800 chr7B 83.607 122 12 5 3898 4013 6919998 6919879 1.650000e-19 108.0
12 TraesCS6A01G331800 chr7B 82.353 102 15 3 3914 4015 6797640 6797738 7.710000e-13 86.1
13 TraesCS6A01G331800 chr4D 82.400 125 16 4 3898 4018 46180187 46180065 2.130000e-18 104.0
14 TraesCS6A01G331800 chr4B 84.404 109 13 2 3910 4018 654709446 654709550 2.130000e-18 104.0
15 TraesCS6A01G331800 chr4A 82.203 118 19 2 3899 4015 54725361 54725245 2.750000e-17 100.0
16 TraesCS6A01G331800 chr4A 80.342 117 20 3 3901 4015 626545477 626545592 7.710000e-13 86.1
17 TraesCS6A01G331800 chr4A 90.000 60 6 0 4018 4077 626545695 626545636 1.290000e-10 78.7
18 TraesCS6A01G331800 chr1D 82.906 117 11 9 3898 4009 478165588 478165700 3.560000e-16 97.1
19 TraesCS6A01G331800 chr5B 79.839 124 12 12 3901 4016 684199571 684199453 1.290000e-10 78.7
20 TraesCS6A01G331800 chr2D 94.737 38 1 1 715 751 29847368 29847331 1.680000e-04 58.4
21 TraesCS6A01G331800 chr2D 100.000 28 0 0 714 741 422764282 422764309 8.000000e-03 52.8
22 TraesCS6A01G331800 chr2D 100.000 28 0 0 715 742 618693367 618693394 8.000000e-03 52.8
23 TraesCS6A01G331800 chr3A 100.000 28 0 0 716 743 12956005 12956032 8.000000e-03 52.8


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 TraesCS6A01G331800 chr6A 563712450 563716777 4327 True 7993.0 7993 100.000000 1 4328 1 chr6A.!!$R1 4327
1 TraesCS6A01G331800 chr6D 420750289 420755189 4900 True 1493.5 3770 92.682667 331 3733 3 chr6D.!!$R1 3402
2 TraesCS6A01G331800 chr6B 633917251 633923516 6265 True 1042.0 1640 88.957000 857 4328 4 chr6B.!!$R1 3471
3 TraesCS6A01G331800 chr6B 634040358 634041168 810 True 479.0 815 88.843500 1 862 2 chr6B.!!$R2 861

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
580 593 0.178953 ATCTGGGTTGCAAGGCAGTT 60.179 50.000 0.00 0.0 40.61 3.16 F
961 2358 0.319555 CGTTTCCAGCTGAACTCCGA 60.320 55.000 17.39 0.0 31.05 4.55 F
968 2365 1.079750 GCTGAACTCCGAGACCCAC 60.080 63.158 1.33 0.0 0.00 4.61 F
969 2366 1.536943 GCTGAACTCCGAGACCCACT 61.537 60.000 1.33 0.0 0.00 4.00 F
972 2369 1.935327 GAACTCCGAGACCCACTCCG 61.935 65.000 1.33 0.0 42.18 4.63 F
1655 3072 2.159254 GCTTAGCGATGCCCAAATTGAA 60.159 45.455 0.00 0.0 0.00 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1700 3125 0.390492 GCTTTCAAGGCTTTGGCTGT 59.610 50.000 8.88 0.0 38.81 4.40 R
1881 3320 3.071023 CCTTACACTGAACCAGTTCCTCA 59.929 47.826 8.01 0.0 42.59 3.86 R
2573 6638 4.273148 ACTGCGATTACAGAAAGGAACT 57.727 40.909 0.00 0.0 39.80 3.01 R
2644 6709 6.072948 TGTTCCCATCACTACACAAAATTACG 60.073 38.462 0.00 0.0 0.00 3.18 R
2970 7140 1.553690 TAGGCTGTGGAACTGGAGGC 61.554 60.000 0.00 0.0 38.04 4.70 R
3427 7616 0.321122 CCAGTTCACCACTCTCTGCC 60.321 60.000 0.00 0.0 30.92 4.85 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
123 125 6.603599 GGCTCCAGATAATAAATATGGGGAAC 59.396 42.308 2.74 0.00 33.00 3.62
124 126 7.406104 GCTCCAGATAATAAATATGGGGAACT 58.594 38.462 2.74 0.00 33.00 3.01
128 130 7.093771 CCAGATAATAAATATGGGGAACTTGCC 60.094 40.741 0.00 0.00 0.00 4.52
130 132 1.111277 AAATATGGGGAACTTGCCGC 58.889 50.000 0.00 0.00 40.97 6.53
145 147 1.606668 TGCCGCTGTTTTCTTAACTGG 59.393 47.619 0.00 0.00 0.00 4.00
179 181 1.419381 ACCGTTCAATTTGCCCCTTT 58.581 45.000 0.00 0.00 0.00 3.11
187 189 5.565455 TCAATTTGCCCCTTTTGAATTCT 57.435 34.783 7.05 0.00 0.00 2.40
197 199 6.447162 CCCCTTTTGAATTCTTGTTAGTGAC 58.553 40.000 7.05 0.00 0.00 3.67
199 201 6.238648 CCCTTTTGAATTCTTGTTAGTGACGT 60.239 38.462 7.05 0.00 0.00 4.34
201 203 5.570262 TTGAATTCTTGTTAGTGACGTCG 57.430 39.130 11.62 0.00 0.00 5.12
212 214 3.047280 GACGTCGTGGCATTGGCA 61.047 61.111 9.11 9.11 43.71 4.92
275 278 5.140747 TGTTTGGGTGTAATTATGGTTGC 57.859 39.130 0.00 0.00 0.00 4.17
293 296 6.786122 TGGTTGCCCTACTTAAGATAGTTTT 58.214 36.000 10.09 0.00 0.00 2.43
295 298 7.392393 TGGTTGCCCTACTTAAGATAGTTTTTC 59.608 37.037 10.09 0.00 0.00 2.29
296 299 7.413767 GGTTGCCCTACTTAAGATAGTTTTTCG 60.414 40.741 10.09 0.00 0.00 3.46
297 300 6.704310 TGCCCTACTTAAGATAGTTTTTCGT 58.296 36.000 10.09 0.00 0.00 3.85
318 322 7.672351 TCGTTGTTTGTATTTTGACATGTTC 57.328 32.000 0.00 0.00 0.00 3.18
328 332 8.349245 TGTATTTTGACATGTTCTGTACTTTGG 58.651 33.333 0.00 0.00 38.54 3.28
335 339 4.757019 TGTTCTGTACTTTGGTGTACCA 57.243 40.909 0.00 0.00 45.94 3.25
479 491 4.471373 CTCGACGAGATGATCCAATACAG 58.529 47.826 20.25 0.00 0.00 2.74
486 499 6.041409 ACGAGATGATCCAATACAGTGAGATT 59.959 38.462 0.00 0.00 0.00 2.40
561 574 5.988287 TCCAACTCTATGTATTGTGCATCA 58.012 37.500 0.00 0.00 0.00 3.07
580 593 0.178953 ATCTGGGTTGCAAGGCAGTT 60.179 50.000 0.00 0.00 40.61 3.16
593 606 3.492102 AGGCAGTTGCACTCTTTTCTA 57.508 42.857 6.43 0.00 44.36 2.10
594 607 3.142174 AGGCAGTTGCACTCTTTTCTAC 58.858 45.455 6.43 0.00 44.36 2.59
623 638 9.825109 TGGTATTATTTGTCAATCTATTGTCGA 57.175 29.630 2.80 0.00 38.84 4.20
635 650 8.258007 TCAATCTATTGTCGACTTTACAGGAAT 58.742 33.333 17.92 7.83 38.84 3.01
639 654 4.819105 TGTCGACTTTACAGGAATGGAT 57.181 40.909 17.92 0.00 0.00 3.41
647 662 5.481473 ACTTTACAGGAATGGATGCAACAAT 59.519 36.000 0.00 0.00 0.00 2.71
648 663 3.880047 ACAGGAATGGATGCAACAATG 57.120 42.857 0.00 0.00 0.00 2.82
651 666 3.056393 CAGGAATGGATGCAACAATGTGT 60.056 43.478 0.00 0.00 0.00 3.72
652 667 3.056393 AGGAATGGATGCAACAATGTGTG 60.056 43.478 0.00 0.00 0.00 3.82
653 668 3.306225 GGAATGGATGCAACAATGTGTGT 60.306 43.478 0.00 0.00 44.64 3.72
726 741 0.600057 CTCCCTCCAGCTTGCAAAAC 59.400 55.000 0.00 0.00 0.00 2.43
750 766 9.458727 AACGATCTTATATTATAGACGGAAGGA 57.541 33.333 0.00 0.00 0.00 3.36
751 767 9.629878 ACGATCTTATATTATAGACGGAAGGAT 57.370 33.333 0.00 0.00 0.00 3.24
837 856 0.542702 AGTTCACAAATGGGCCTGGG 60.543 55.000 4.53 0.00 0.00 4.45
881 2269 2.997897 GTCGGCTGGTCCTGTCCT 60.998 66.667 0.00 0.00 0.00 3.85
914 2304 2.353958 CACCAGCAGTCTGCCCAT 59.646 61.111 21.32 3.84 46.52 4.00
961 2358 0.319555 CGTTTCCAGCTGAACTCCGA 60.320 55.000 17.39 0.00 31.05 4.55
962 2359 1.433534 GTTTCCAGCTGAACTCCGAG 58.566 55.000 17.39 0.00 31.05 4.63
968 2365 1.079750 GCTGAACTCCGAGACCCAC 60.080 63.158 1.33 0.00 0.00 4.61
969 2366 1.536943 GCTGAACTCCGAGACCCACT 61.537 60.000 1.33 0.00 0.00 4.00
972 2369 1.935327 GAACTCCGAGACCCACTCCG 61.935 65.000 1.33 0.00 42.18 4.63
1014 2411 4.552365 CAGATGGATGCCGCGGGT 62.552 66.667 29.38 0.00 0.00 5.28
1600 3014 3.243002 CGTCCACGAGGTACCTCTTTATC 60.243 52.174 33.70 21.16 43.02 1.75
1614 3029 4.518211 CCTCTTTATCTCCATTGGCATGAC 59.482 45.833 0.00 0.00 31.07 3.06
1620 3035 4.149511 TCTCCATTGGCATGACGAATTA 57.850 40.909 0.00 0.00 31.07 1.40
1630 3047 4.270325 GGCATGACGAATTAAGGACAGTAC 59.730 45.833 0.00 0.00 0.00 2.73
1633 3050 6.092259 GCATGACGAATTAAGGACAGTACTTT 59.908 38.462 2.45 0.00 0.00 2.66
1655 3072 2.159254 GCTTAGCGATGCCCAAATTGAA 60.159 45.455 0.00 0.00 0.00 2.69
1660 3077 2.719798 CGATGCCCAAATTGAATCGAC 58.280 47.619 15.51 0.00 41.98 4.20
1673 3090 3.190079 TGAATCGACACATTGAGCTAGC 58.810 45.455 6.62 6.62 0.00 3.42
1674 3091 3.118992 TGAATCGACACATTGAGCTAGCT 60.119 43.478 19.45 19.45 0.00 3.32
1675 3092 4.097892 TGAATCGACACATTGAGCTAGCTA 59.902 41.667 19.38 2.78 0.00 3.32
1676 3093 3.699779 TCGACACATTGAGCTAGCTAG 57.300 47.619 19.38 16.84 0.00 3.42
1677 3094 3.279434 TCGACACATTGAGCTAGCTAGA 58.721 45.455 25.15 9.73 0.00 2.43
1678 3095 3.694566 TCGACACATTGAGCTAGCTAGAA 59.305 43.478 25.15 14.01 0.00 2.10
1679 3096 4.041049 CGACACATTGAGCTAGCTAGAAG 58.959 47.826 25.15 10.99 0.00 2.85
1724 3149 2.865276 GCCAAAGCCTTGAAAGCTGAAG 60.865 50.000 0.00 0.00 40.49 3.02
1764 3189 7.377928 GTGAAATTCCGATGCTAAATCAATCAG 59.622 37.037 0.00 0.00 0.00 2.90
1783 3208 5.633830 TCAGCATTCCACTTTCTTCATTC 57.366 39.130 0.00 0.00 0.00 2.67
1794 3219 5.922544 CACTTTCTTCATTCATGGTTGGTTC 59.077 40.000 0.00 0.00 0.00 3.62
1795 3220 5.598005 ACTTTCTTCATTCATGGTTGGTTCA 59.402 36.000 0.00 0.00 0.00 3.18
1796 3221 6.268387 ACTTTCTTCATTCATGGTTGGTTCAT 59.732 34.615 0.00 0.00 0.00 2.57
1797 3222 6.669125 TTCTTCATTCATGGTTGGTTCATT 57.331 33.333 0.00 0.00 0.00 2.57
1806 3231 6.164876 TCATGGTTGGTTCATTGCATAAAAG 58.835 36.000 0.00 0.00 0.00 2.27
1818 3250 9.844790 TTCATTGCATAAAAGTTATGAAGACTG 57.155 29.630 11.31 2.14 30.85 3.51
1824 3261 7.538678 GCATAAAAGTTATGAAGACTGGTGTTG 59.461 37.037 11.31 0.00 0.00 3.33
1840 3277 5.197451 TGGTGTTGTACTTGAAACTTGGAT 58.803 37.500 0.00 0.00 0.00 3.41
1861 3300 4.617253 TGCTTGCAGGAGAACTAGTTTA 57.383 40.909 10.02 0.00 0.00 2.01
1881 3320 8.149973 AGTTTATGACTTGTGTTGTTTATCGT 57.850 30.769 0.00 0.00 33.92 3.73
1893 3332 4.345859 TGTTTATCGTGAGGAACTGGTT 57.654 40.909 0.00 0.00 41.55 3.67
1918 3362 8.547481 TCAGTGTAAGGATTATGAACCATCTA 57.453 34.615 0.00 0.00 30.46 1.98
1919 3363 8.988060 TCAGTGTAAGGATTATGAACCATCTAA 58.012 33.333 0.00 0.00 30.46 2.10
1964 3408 4.388577 AGAAAATGAGCTAACCCTGGTT 57.611 40.909 6.81 6.81 41.65 3.67
2085 3530 2.973945 CAGTCTTTGCTGGGGTAGTAC 58.026 52.381 0.00 0.00 33.11 2.73
2219 6262 3.903208 CCTTGGGGAGTAACCATGG 57.097 57.895 11.19 11.19 43.99 3.66
2323 6388 6.198650 TCTGATTGGTTCATAAACTGCATG 57.801 37.500 0.00 0.00 35.61 4.06
2448 6513 2.439338 ACTGTTTGGGCGTGCACA 60.439 55.556 18.64 0.00 0.00 4.57
2592 6657 4.690748 CAGAAGTTCCTTTCTGTAATCGCA 59.309 41.667 0.00 0.00 45.70 5.10
2644 6709 3.512680 CTGTCCTCGTCTTTACATGTCC 58.487 50.000 0.00 0.00 0.00 4.02
2656 6721 7.357303 GTCTTTACATGTCCGTAATTTTGTGT 58.643 34.615 0.00 0.00 31.65 3.72
2727 6893 5.021033 TGCCAACATCATTTGTTTTCTGT 57.979 34.783 0.00 0.00 46.51 3.41
2970 7140 2.025156 GCCAGCGATCCAATTGCG 59.975 61.111 0.00 0.00 44.54 4.85
2982 7152 1.074775 AATTGCGCCTCCAGTTCCA 59.925 52.632 4.18 0.00 0.00 3.53
3012 7185 2.119655 CCAATGCTCTGAGCTGCCC 61.120 63.158 28.04 1.87 42.97 5.36
3056 7229 0.946221 AAGACTTCTCAAGCGGTGCG 60.946 55.000 0.00 0.00 0.00 5.34
3123 7296 0.106918 AGGCGGTTCAACAAGTGGAA 60.107 50.000 0.00 0.00 0.00 3.53
3207 7392 2.579207 TCGTTAGAGAGCATTTCCGG 57.421 50.000 0.00 0.00 0.00 5.14
3282 7467 1.507140 CTGCCTGGTATGAACCCCTA 58.493 55.000 0.00 0.00 46.16 3.53
3311 7496 2.300437 AGGAGGTAGAGACACAAGCAAC 59.700 50.000 0.00 0.00 0.00 4.17
3327 7512 1.461127 GCAACCGAGCAAAGTGAGTAG 59.539 52.381 0.00 0.00 0.00 2.57
3328 7513 2.755650 CAACCGAGCAAAGTGAGTAGT 58.244 47.619 0.00 0.00 0.00 2.73
3329 7514 2.440539 ACCGAGCAAAGTGAGTAGTG 57.559 50.000 0.00 0.00 0.00 2.74
3330 7515 1.687123 ACCGAGCAAAGTGAGTAGTGT 59.313 47.619 0.00 0.00 0.00 3.55
3331 7516 2.889045 ACCGAGCAAAGTGAGTAGTGTA 59.111 45.455 0.00 0.00 0.00 2.90
3416 7605 6.068010 TCAGTTCAATCAGGTTTTGGTGTAT 58.932 36.000 0.00 0.00 0.00 2.29
3427 7616 5.010012 AGGTTTTGGTGTATCTTTCTTGCTG 59.990 40.000 0.00 0.00 0.00 4.41
3435 7624 2.469274 TCTTTCTTGCTGGCAGAGAG 57.531 50.000 20.86 14.56 0.00 3.20
3488 7678 1.135431 TGGCAAAGCAATGATGTACGC 60.135 47.619 0.00 0.00 0.00 4.42
3502 7692 1.253999 GTACGCGACTAACCGAAGTG 58.746 55.000 15.93 0.00 0.00 3.16
3527 7717 6.481954 AACCAAGAGATGTACGTGAATTTC 57.518 37.500 0.00 0.00 0.00 2.17
3552 7742 5.982890 CTGAATTTGTGGGGTTTCAGTAT 57.017 39.130 0.00 0.00 39.97 2.12
3563 7753 7.094631 GTGGGGTTTCAGTATTTGATTTAACC 58.905 38.462 0.00 0.00 40.88 2.85
3565 7755 6.071784 GGGGTTTCAGTATTTGATTTAACCGT 60.072 38.462 0.00 0.00 41.82 4.83
3566 7756 7.025365 GGGTTTCAGTATTTGATTTAACCGTC 58.975 38.462 0.00 0.00 41.82 4.79
3567 7757 7.308710 GGGTTTCAGTATTTGATTTAACCGTCA 60.309 37.037 0.00 0.00 41.82 4.35
3614 7804 7.264947 AGTGTTTGGTTCTTTTCATTTTCGAT 58.735 30.769 0.00 0.00 0.00 3.59
3660 7850 2.545946 GCCATTTTATGACTCCGAGCTC 59.454 50.000 2.73 2.73 0.00 4.09
3751 8098 7.291182 ACTTGGAGCTATGATTTCACCTACTAT 59.709 37.037 0.00 0.00 0.00 2.12
3753 8100 7.671302 TGGAGCTATGATTTCACCTACTATTC 58.329 38.462 0.00 0.00 0.00 1.75
3754 8101 6.809196 GGAGCTATGATTTCACCTACTATTCG 59.191 42.308 0.00 0.00 0.00 3.34
3755 8102 7.309255 GGAGCTATGATTTCACCTACTATTCGA 60.309 40.741 0.00 0.00 0.00 3.71
3766 8113 3.572682 CCTACTATTCGAGCATACCCACA 59.427 47.826 0.00 0.00 0.00 4.17
3812 8159 1.888512 ACAACATTCAGGCAATCGCTT 59.111 42.857 0.00 0.00 38.60 4.68
3835 8182 1.996191 CGCTCTAGTCTTTCTTGCCAC 59.004 52.381 0.00 0.00 0.00 5.01
3836 8183 1.996191 GCTCTAGTCTTTCTTGCCACG 59.004 52.381 0.00 0.00 0.00 4.94
3837 8184 2.352814 GCTCTAGTCTTTCTTGCCACGA 60.353 50.000 0.00 0.00 0.00 4.35
3838 8185 3.246619 CTCTAGTCTTTCTTGCCACGAC 58.753 50.000 0.00 0.00 0.00 4.34
3839 8186 1.986378 CTAGTCTTTCTTGCCACGACG 59.014 52.381 0.00 0.00 0.00 5.12
3840 8187 0.104304 AGTCTTTCTTGCCACGACGT 59.896 50.000 0.00 0.00 0.00 4.34
3841 8188 0.507358 GTCTTTCTTGCCACGACGTC 59.493 55.000 5.18 5.18 0.00 4.34
3842 8189 0.937699 TCTTTCTTGCCACGACGTCG 60.938 55.000 34.58 34.58 46.33 5.12
3843 8190 0.937699 CTTTCTTGCCACGACGTCGA 60.938 55.000 41.52 19.00 43.02 4.20
3844 8191 0.319211 TTTCTTGCCACGACGTCGAT 60.319 50.000 41.52 23.81 43.02 3.59
3845 8192 0.319211 TTCTTGCCACGACGTCGATT 60.319 50.000 41.52 20.19 43.02 3.34
3846 8193 1.006825 TCTTGCCACGACGTCGATTG 61.007 55.000 41.52 29.30 43.02 2.67
3847 8194 2.548587 CTTGCCACGACGTCGATTGC 62.549 60.000 41.52 34.41 43.02 3.56
3848 8195 3.849953 GCCACGACGTCGATTGCC 61.850 66.667 41.52 18.77 43.02 4.52
3849 8196 2.431771 CCACGACGTCGATTGCCA 60.432 61.111 41.52 0.00 43.02 4.92
3866 8220 2.225467 GCCAATGATAAGGCCTCACTC 58.775 52.381 5.23 3.73 45.18 3.51
3868 8222 3.749954 GCCAATGATAAGGCCTCACTCAT 60.750 47.826 5.23 12.19 45.18 2.90
3873 8227 2.698855 TAAGGCCTCACTCATGCTTC 57.301 50.000 5.23 0.00 0.00 3.86
3876 8230 0.179062 GGCCTCACTCATGCTTCGAT 60.179 55.000 0.00 0.00 0.00 3.59
3880 8234 2.606725 CCTCACTCATGCTTCGATTGTC 59.393 50.000 0.00 0.00 0.00 3.18
3883 8237 3.056607 TCACTCATGCTTCGATTGTCTCA 60.057 43.478 0.00 0.00 0.00 3.27
3890 8244 2.208431 CTTCGATTGTCTCAGCATCCC 58.792 52.381 0.00 0.00 0.00 3.85
3896 8250 1.451028 GTCTCAGCATCCCAGCCAC 60.451 63.158 0.00 0.00 34.23 5.01
3949 8303 4.568152 AGAAAACTTCGTGAAACCCATG 57.432 40.909 0.00 0.00 34.02 3.66
3959 8313 3.566322 CGTGAAACCCATGTTTGGAAGTA 59.434 43.478 0.00 0.00 46.92 2.24
4008 8364 9.950496 GATATGTTAGGATGGTGATGTTCTATT 57.050 33.333 0.00 0.00 0.00 1.73
4009 8365 9.730705 ATATGTTAGGATGGTGATGTTCTATTG 57.269 33.333 0.00 0.00 0.00 1.90
4010 8366 5.822519 TGTTAGGATGGTGATGTTCTATTGC 59.177 40.000 0.00 0.00 0.00 3.56
4015 8371 2.689471 TGGTGATGTTCTATTGCCATGC 59.311 45.455 0.00 0.00 0.00 4.06
4028 8451 1.334556 TGCCATGCGACTATTCATTGC 59.665 47.619 0.00 0.00 33.52 3.56
4056 8479 9.289303 GAATTTATTCTTTTCATAGCTCGCAAA 57.711 29.630 0.00 0.00 34.05 3.68
4086 8509 6.232581 TGTGTTTGAACTTGGGAATTTCAT 57.767 33.333 0.00 0.00 31.36 2.57
4118 8541 8.738645 ATAGAACATCACACTCTTAAAATCCC 57.261 34.615 0.00 0.00 0.00 3.85
4119 8542 5.643777 AGAACATCACACTCTTAAAATCCCG 59.356 40.000 0.00 0.00 0.00 5.14
4130 8553 6.150474 ACTCTTAAAATCCCGTATGTTTGTGG 59.850 38.462 0.00 0.00 0.00 4.17
4136 8559 3.085533 TCCCGTATGTTTGTGGGATTTG 58.914 45.455 0.00 0.00 45.66 2.32
4143 8566 6.143758 CGTATGTTTGTGGGATTTGTTTGAAG 59.856 38.462 0.00 0.00 0.00 3.02
4165 8588 6.515043 AGCTTCAAAACATCATTTTTCACG 57.485 33.333 0.00 0.00 0.00 4.35
4172 8595 6.976636 AAACATCATTTTTCACGTGGTTTT 57.023 29.167 17.00 0.00 0.00 2.43
4173 8596 6.582437 AACATCATTTTTCACGTGGTTTTC 57.418 33.333 17.00 0.00 0.00 2.29
4174 8597 5.655488 ACATCATTTTTCACGTGGTTTTCA 58.345 33.333 17.00 0.00 0.00 2.69
4203 8626 7.650104 GGTTTTCACCGAAACTTGATTTTCATA 59.350 33.333 0.00 0.00 39.05 2.15
4204 8627 9.191995 GTTTTCACCGAAACTTGATTTTCATAT 57.808 29.630 0.00 0.00 36.75 1.78
4206 8629 7.680442 TCACCGAAACTTGATTTTCATATGA 57.320 32.000 0.00 0.00 35.54 2.15
4207 8630 7.526608 TCACCGAAACTTGATTTTCATATGAC 58.473 34.615 4.48 0.00 35.54 3.06
4208 8631 7.174080 TCACCGAAACTTGATTTTCATATGACA 59.826 33.333 4.48 0.00 35.54 3.58
4209 8632 7.970061 CACCGAAACTTGATTTTCATATGACAT 59.030 33.333 4.48 0.27 35.54 3.06
4210 8633 8.522830 ACCGAAACTTGATTTTCATATGACATT 58.477 29.630 4.48 0.00 35.54 2.71
4211 8634 9.013490 CCGAAACTTGATTTTCATATGACATTC 57.987 33.333 4.48 5.91 35.54 2.67
4212 8635 9.778993 CGAAACTTGATTTTCATATGACATTCT 57.221 29.630 4.48 0.00 35.54 2.40
4224 8647 1.002430 TGACATTCTCTCCAGCCACAC 59.998 52.381 0.00 0.00 0.00 3.82
4227 8650 1.833630 CATTCTCTCCAGCCACACCTA 59.166 52.381 0.00 0.00 0.00 3.08
4230 8653 0.534412 CTCTCCAGCCACACCTACTG 59.466 60.000 0.00 0.00 0.00 2.74
4235 8658 1.072331 CCAGCCACACCTACTGTTCTT 59.928 52.381 0.00 0.00 0.00 2.52
4238 8661 1.610886 GCCACACCTACTGTTCTTCCC 60.611 57.143 0.00 0.00 0.00 3.97
4239 8662 1.697432 CCACACCTACTGTTCTTCCCA 59.303 52.381 0.00 0.00 0.00 4.37
4240 8663 2.289694 CCACACCTACTGTTCTTCCCAG 60.290 54.545 0.00 0.00 36.01 4.45
4277 8703 0.671781 CAGCTTCGGAAGGGTGTGAG 60.672 60.000 18.73 0.00 0.00 3.51
4318 8744 1.332144 ATTTACCACGCGGGCCTAGA 61.332 55.000 12.47 0.00 42.05 2.43
4323 8749 3.075005 ACGCGGGCCTAGACATGT 61.075 61.111 12.47 0.00 0.00 3.21
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
79 81 9.784531 CTGGAGCCTTATTCTAAATCTCATTAA 57.215 33.333 0.00 0.00 0.00 1.40
81 83 8.038862 TCTGGAGCCTTATTCTAAATCTCATT 57.961 34.615 0.00 0.00 0.00 2.57
99 101 7.406104 AGTTCCCCATATTTATTATCTGGAGC 58.594 38.462 0.00 0.00 0.00 4.70
100 102 9.236006 CAAGTTCCCCATATTTATTATCTGGAG 57.764 37.037 0.00 0.00 0.00 3.86
102 104 7.093771 GGCAAGTTCCCCATATTTATTATCTGG 60.094 40.741 0.00 0.00 0.00 3.86
103 105 7.362056 CGGCAAGTTCCCCATATTTATTATCTG 60.362 40.741 0.00 0.00 0.00 2.90
111 113 1.111277 GCGGCAAGTTCCCCATATTT 58.889 50.000 0.00 0.00 0.00 1.40
115 117 2.361610 CAGCGGCAAGTTCCCCAT 60.362 61.111 1.45 0.00 0.00 4.00
123 125 3.300009 CAGTTAAGAAAACAGCGGCAAG 58.700 45.455 1.45 0.00 0.00 4.01
124 126 2.034053 CCAGTTAAGAAAACAGCGGCAA 59.966 45.455 1.45 0.00 0.00 4.52
128 130 3.300009 CTTGCCAGTTAAGAAAACAGCG 58.700 45.455 0.00 0.00 0.00 5.18
130 132 3.636764 ACCCTTGCCAGTTAAGAAAACAG 59.363 43.478 0.00 0.00 0.00 3.16
145 147 4.004982 TGAACGGTAATCTAAACCCTTGC 58.995 43.478 0.00 0.00 33.10 4.01
179 181 5.045215 ACGACGTCACTAACAAGAATTCAA 58.955 37.500 17.16 0.00 0.00 2.69
187 189 0.102663 TGCCACGACGTCACTAACAA 59.897 50.000 17.16 0.00 0.00 2.83
197 199 2.198906 AATGTGCCAATGCCACGACG 62.199 55.000 0.00 0.00 36.33 5.12
199 201 1.585517 CAATGTGCCAATGCCACGA 59.414 52.632 0.00 0.00 36.33 4.35
201 203 0.603172 TTGCAATGTGCCAATGCCAC 60.603 50.000 11.23 0.00 44.23 5.01
212 214 5.767269 TCATTTGTAATGACGTTGCAATGT 58.233 33.333 23.99 23.99 41.16 2.71
218 220 6.363577 AGGCTATCATTTGTAATGACGTTG 57.636 37.500 4.37 0.00 0.00 4.10
219 221 7.173218 CCATAGGCTATCATTTGTAATGACGTT 59.827 37.037 3.47 0.00 0.00 3.99
221 223 6.092670 CCCATAGGCTATCATTTGTAATGACG 59.907 42.308 3.47 1.44 0.00 4.35
224 226 7.170965 AGACCCATAGGCTATCATTTGTAATG 58.829 38.462 3.47 0.00 36.11 1.90
275 278 8.543862 ACAACGAAAAACTATCTTAAGTAGGG 57.456 34.615 1.63 0.00 0.00 3.53
288 291 8.522178 TGTCAAAATACAAACAACGAAAAACT 57.478 26.923 0.00 0.00 0.00 2.66
293 296 7.971168 AGAACATGTCAAAATACAAACAACGAA 59.029 29.630 0.00 0.00 32.02 3.85
295 298 7.219917 ACAGAACATGTCAAAATACAAACAACG 59.780 33.333 0.00 0.00 37.75 4.10
296 299 8.406172 ACAGAACATGTCAAAATACAAACAAC 57.594 30.769 0.00 0.00 37.75 3.32
297 300 9.509855 GTACAGAACATGTCAAAATACAAACAA 57.490 29.630 0.00 0.00 42.70 2.83
350 354 9.447157 TGAATCAAAAATCCAGACAAAGTTTTT 57.553 25.926 0.00 0.00 33.63 1.94
382 386 7.287696 ACCCCATGAATATGTGGAAGTAATTTC 59.712 37.037 0.00 0.00 35.61 2.17
383 387 7.132128 ACCCCATGAATATGTGGAAGTAATTT 58.868 34.615 0.00 0.00 35.61 1.82
384 388 6.682537 ACCCCATGAATATGTGGAAGTAATT 58.317 36.000 0.00 0.00 35.61 1.40
385 389 6.279813 ACCCCATGAATATGTGGAAGTAAT 57.720 37.500 0.00 0.00 35.61 1.89
386 390 5.725551 ACCCCATGAATATGTGGAAGTAA 57.274 39.130 0.00 0.00 35.61 2.24
399 403 4.540099 AGGAGAGAATGTAAACCCCATGAA 59.460 41.667 0.00 0.00 0.00 2.57
402 406 4.412528 GGTAGGAGAGAATGTAAACCCCAT 59.587 45.833 0.00 0.00 0.00 4.00
405 409 5.632034 ATGGTAGGAGAGAATGTAAACCC 57.368 43.478 0.00 0.00 0.00 4.11
561 574 0.178953 AACTGCCTTGCAACCCAGAT 60.179 50.000 21.96 11.76 38.41 2.90
580 593 3.838244 ACCAGTGTAGAAAAGAGTGCA 57.162 42.857 0.00 0.00 0.00 4.57
623 638 4.406456 TGTTGCATCCATTCCTGTAAAGT 58.594 39.130 0.00 0.00 0.00 2.66
626 641 4.771577 ACATTGTTGCATCCATTCCTGTAA 59.228 37.500 0.00 0.00 0.00 2.41
750 766 4.613437 AGGAATGCCCATTTGTGAGTTAT 58.387 39.130 0.00 0.00 37.41 1.89
751 767 4.046286 AGGAATGCCCATTTGTGAGTTA 57.954 40.909 0.00 0.00 37.41 2.24
754 770 5.404466 TTTAAGGAATGCCCATTTGTGAG 57.596 39.130 0.00 0.00 37.41 3.51
862 881 3.681835 GACAGGACCAGCCGACGT 61.682 66.667 0.00 0.00 43.43 4.34
863 882 4.436998 GGACAGGACCAGCCGACG 62.437 72.222 0.00 0.00 43.43 5.12
881 2269 3.002583 TGGGCCGTCTGATGCAGA 61.003 61.111 0.00 0.00 38.25 4.26
908 2298 3.716195 CGACTGGGTGGATGGGCA 61.716 66.667 0.00 0.00 0.00 5.36
953 2350 1.891616 GGAGTGGGTCTCGGAGTTC 59.108 63.158 4.69 0.08 43.60 3.01
988 2385 1.155042 GCATCCATCTGAGCGATTCC 58.845 55.000 0.00 0.00 0.00 3.01
1031 2428 3.467119 CCGCTTTGTCGACGACGG 61.467 66.667 22.06 17.50 40.21 4.79
1066 2463 1.374758 CCCAGTCAACCAGCGTCTC 60.375 63.158 0.00 0.00 0.00 3.36
1600 3014 4.261322 CCTTAATTCGTCATGCCAATGGAG 60.261 45.833 2.05 0.00 34.30 3.86
1614 3029 6.481954 AAGCAAAGTACTGTCCTTAATTCG 57.518 37.500 0.00 0.00 0.00 3.34
1620 3035 3.006537 TCGCTAAGCAAAGTACTGTCCTT 59.993 43.478 0.00 0.00 0.00 3.36
1630 3047 0.810648 TTGGGCATCGCTAAGCAAAG 59.189 50.000 0.00 0.00 0.00 2.77
1633 3050 1.134753 CAATTTGGGCATCGCTAAGCA 59.865 47.619 0.00 0.00 0.00 3.91
1655 3072 3.885901 TCTAGCTAGCTCAATGTGTCGAT 59.114 43.478 23.26 0.00 0.00 3.59
1673 3090 4.889832 CCTACAATGGCAAAGCTTCTAG 57.110 45.455 0.00 0.00 0.00 2.43
1696 3121 0.667993 TCAAGGCTTTGGCTGTTTCG 59.332 50.000 8.88 0.00 38.81 3.46
1697 3122 2.888834 TTCAAGGCTTTGGCTGTTTC 57.111 45.000 8.88 0.00 38.81 2.78
1700 3125 0.390492 GCTTTCAAGGCTTTGGCTGT 59.610 50.000 8.88 0.00 38.81 4.40
1724 3149 5.443170 CGGAATTTCACAAAACGAATGATGC 60.443 40.000 0.00 0.00 0.00 3.91
1764 3189 5.107133 CCATGAATGAAGAAAGTGGAATGC 58.893 41.667 0.00 0.00 0.00 3.56
1769 3194 4.281688 ACCAACCATGAATGAAGAAAGTGG 59.718 41.667 0.00 0.00 0.00 4.00
1783 3208 5.933463 ACTTTTATGCAATGAACCAACCATG 59.067 36.000 0.00 0.00 0.00 3.66
1794 3219 8.246180 ACCAGTCTTCATAACTTTTATGCAATG 58.754 33.333 0.00 0.00 0.00 2.82
1795 3220 8.246180 CACCAGTCTTCATAACTTTTATGCAAT 58.754 33.333 0.00 0.00 0.00 3.56
1796 3221 7.230510 ACACCAGTCTTCATAACTTTTATGCAA 59.769 33.333 0.00 0.00 0.00 4.08
1797 3222 6.714810 ACACCAGTCTTCATAACTTTTATGCA 59.285 34.615 0.00 0.00 0.00 3.96
1806 3231 6.704493 TCAAGTACAACACCAGTCTTCATAAC 59.296 38.462 0.00 0.00 0.00 1.89
1818 3250 5.519722 CATCCAAGTTTCAAGTACAACACC 58.480 41.667 0.00 0.00 0.00 4.16
1824 3261 4.229876 GCAAGCATCCAAGTTTCAAGTAC 58.770 43.478 0.00 0.00 0.00 2.73
1840 3277 3.492102 AAACTAGTTCTCCTGCAAGCA 57.508 42.857 8.95 0.00 0.00 3.91
1861 3300 5.179368 CCTCACGATAAACAACACAAGTCAT 59.821 40.000 0.00 0.00 0.00 3.06
1881 3320 3.071023 CCTTACACTGAACCAGTTCCTCA 59.929 47.826 8.01 0.00 42.59 3.86
1893 3332 7.437713 AGATGGTTCATAATCCTTACACTGA 57.562 36.000 0.00 0.00 0.00 3.41
1918 3362 8.571461 TTGCATTGAGAACAGAAGAAGATATT 57.429 30.769 0.00 0.00 0.00 1.28
1919 3363 8.045507 TCTTGCATTGAGAACAGAAGAAGATAT 58.954 33.333 0.00 0.00 0.00 1.63
2044 3489 6.220930 ACTGCGAGTTAGTTCAGTTAATTCA 58.779 36.000 0.00 0.00 36.48 2.57
2085 3530 7.809806 AGAAATAAAATTTGAAGGTTCTGCTCG 59.190 33.333 0.00 0.00 0.00 5.03
2117 3570 7.676893 TCTGGGTACTCTACAAAATTAGAAGGA 59.323 37.037 0.00 0.00 0.00 3.36
2219 6262 6.064717 ACAGATTTCATTACAGGCTATTCCC 58.935 40.000 0.00 0.00 34.51 3.97
2295 6360 6.072508 GCAGTTTATGAACCAATCAGAAGTGA 60.073 38.462 12.52 0.00 40.16 3.41
2323 6388 7.336975 GTCAAAGTGCAAATGTCACAATTAAC 58.663 34.615 0.00 0.00 36.93 2.01
2379 6444 6.852420 GGTTGGTCTGATAGCTACCATATA 57.148 41.667 6.14 0.00 46.68 0.86
2380 6445 5.746990 GGTTGGTCTGATAGCTACCATAT 57.253 43.478 6.14 0.00 46.68 1.78
2448 6513 8.870075 ATTGCTAGTTTCTCTGGAGTAAATTT 57.130 30.769 0.00 0.00 0.00 1.82
2487 6552 9.301897 AGCTTGGTTCTAATTTTACTGAAGAAT 57.698 29.630 0.00 0.00 0.00 2.40
2573 6638 4.273148 ACTGCGATTACAGAAAGGAACT 57.727 40.909 0.00 0.00 39.80 3.01
2592 6657 6.163476 TGAACGCATTGATAGACAGTTAACT 58.837 36.000 1.12 1.12 0.00 2.24
2644 6709 6.072948 TGTTCCCATCACTACACAAAATTACG 60.073 38.462 0.00 0.00 0.00 3.18
2656 6721 6.575244 ACATCCTAATTGTTCCCATCACTA 57.425 37.500 0.00 0.00 0.00 2.74
2970 7140 1.553690 TAGGCTGTGGAACTGGAGGC 61.554 60.000 0.00 0.00 38.04 4.70
2982 7152 0.409484 AGCATTGGGGTTTAGGCTGT 59.591 50.000 0.00 0.00 0.00 4.40
3012 7185 2.039418 TCATCACCTATCCCACCTTCG 58.961 52.381 0.00 0.00 0.00 3.79
3019 7192 9.041354 AGAAGTCTTATTATCATCACCTATCCC 57.959 37.037 0.00 0.00 0.00 3.85
3056 7229 3.911661 GCTTATCTGCCAATCCATCAC 57.088 47.619 0.00 0.00 0.00 3.06
3081 7254 6.758886 CCTCGTCATGGCTATTAATATCTTCC 59.241 42.308 0.00 0.00 0.00 3.46
3123 7296 1.001641 GCACCTTGCCAGTCCATCT 60.002 57.895 0.00 0.00 37.42 2.90
3143 7316 2.120909 ATTTCATCGGCGCCAAGGG 61.121 57.895 28.98 10.38 0.00 3.95
3147 7320 3.517140 GCCATTTCATCGGCGCCA 61.517 61.111 28.98 14.46 38.82 5.69
3171 7356 1.202348 ACGATGCTGTGGAATCTCTCG 60.202 52.381 0.00 0.00 0.00 4.04
3282 7467 0.331954 TCTCTACCTCCTTCACCGCT 59.668 55.000 0.00 0.00 0.00 5.52
3311 7496 2.440539 ACACTACTCACTTTGCTCGG 57.559 50.000 0.00 0.00 0.00 4.63
3327 7512 4.561213 GGAAAACAGCACAAACACTTACAC 59.439 41.667 0.00 0.00 0.00 2.90
3328 7513 4.381079 GGGAAAACAGCACAAACACTTACA 60.381 41.667 0.00 0.00 0.00 2.41
3329 7514 4.109766 GGGAAAACAGCACAAACACTTAC 58.890 43.478 0.00 0.00 0.00 2.34
3330 7515 4.020543 AGGGAAAACAGCACAAACACTTA 58.979 39.130 0.00 0.00 0.00 2.24
3331 7516 2.831526 AGGGAAAACAGCACAAACACTT 59.168 40.909 0.00 0.00 0.00 3.16
3416 7605 1.696336 ACTCTCTGCCAGCAAGAAAGA 59.304 47.619 0.00 0.00 0.00 2.52
3427 7616 0.321122 CCAGTTCACCACTCTCTGCC 60.321 60.000 0.00 0.00 30.92 4.85
3435 7624 1.072331 ACAGGATCACCAGTTCACCAC 59.928 52.381 0.00 0.00 38.94 4.16
3475 7664 2.034001 GGTTAGTCGCGTACATCATTGC 60.034 50.000 5.77 0.00 0.00 3.56
3476 7665 2.215587 CGGTTAGTCGCGTACATCATTG 59.784 50.000 5.77 0.00 0.00 2.82
3477 7666 2.097954 TCGGTTAGTCGCGTACATCATT 59.902 45.455 5.77 0.00 0.00 2.57
3488 7678 2.746269 TGGTTTCACTTCGGTTAGTCG 58.254 47.619 0.00 0.00 0.00 4.18
3502 7692 6.481954 AATTCACGTACATCTCTTGGTTTC 57.518 37.500 0.00 0.00 0.00 2.78
3541 7731 6.916440 ACGGTTAAATCAAATACTGAAACCC 58.084 36.000 0.00 0.00 38.47 4.11
3542 7732 7.586747 TGACGGTTAAATCAAATACTGAAACC 58.413 34.615 0.00 0.00 38.39 3.27
3552 7742 8.994429 AAATATTGCATGACGGTTAAATCAAA 57.006 26.923 0.00 0.00 0.00 2.69
3614 7804 9.162764 GCTAGAAGAACCAACTCAACAATATTA 57.837 33.333 0.00 0.00 0.00 0.98
3630 7820 6.018669 CGGAGTCATAAAATGGCTAGAAGAAC 60.019 42.308 0.00 0.00 46.97 3.01
3667 7857 2.155279 GAGGTTCAAACAAGGAGGCTC 58.845 52.381 5.78 5.78 0.00 4.70
3668 7858 1.777272 AGAGGTTCAAACAAGGAGGCT 59.223 47.619 0.00 0.00 0.00 4.58
3751 8098 1.138859 CAGGATGTGGGTATGCTCGAA 59.861 52.381 0.00 0.00 0.00 3.71
3753 8100 0.752658 TCAGGATGTGGGTATGCTCG 59.247 55.000 0.00 0.00 37.40 5.03
3754 8101 3.144506 CAATCAGGATGTGGGTATGCTC 58.855 50.000 0.00 0.00 37.40 4.26
3755 8102 2.779430 TCAATCAGGATGTGGGTATGCT 59.221 45.455 0.00 0.00 37.40 3.79
3766 8113 8.215736 TCAAGTCAATACATGATCAATCAGGAT 58.784 33.333 11.27 0.00 40.76 3.24
3812 8159 1.673033 GCAAGAAAGACTAGAGCGGCA 60.673 52.381 1.45 0.00 0.00 5.69
3835 8182 0.930310 ATCATTGGCAATCGACGTCG 59.070 50.000 31.30 31.30 41.45 5.12
3836 8183 3.059597 CCTTATCATTGGCAATCGACGTC 60.060 47.826 10.36 5.18 0.00 4.34
3837 8184 2.872245 CCTTATCATTGGCAATCGACGT 59.128 45.455 10.36 0.00 0.00 4.34
3838 8185 3.526385 CCTTATCATTGGCAATCGACG 57.474 47.619 10.36 0.00 0.00 5.12
3847 8194 3.565764 TGAGTGAGGCCTTATCATTGG 57.434 47.619 6.77 0.00 0.00 3.16
3848 8195 3.252701 GCATGAGTGAGGCCTTATCATTG 59.747 47.826 19.96 16.63 0.00 2.82
3849 8196 3.137913 AGCATGAGTGAGGCCTTATCATT 59.862 43.478 19.96 6.84 28.84 2.57
3862 8209 3.256558 TGAGACAATCGAAGCATGAGTG 58.743 45.455 0.00 0.00 37.45 3.51
3866 8220 2.004733 TGCTGAGACAATCGAAGCATG 58.995 47.619 1.68 0.00 35.70 4.06
3868 8222 2.274437 GATGCTGAGACAATCGAAGCA 58.726 47.619 8.05 8.05 41.49 3.91
3873 8227 1.579698 CTGGGATGCTGAGACAATCG 58.420 55.000 0.00 0.00 0.00 3.34
3876 8230 1.300963 GGCTGGGATGCTGAGACAA 59.699 57.895 0.00 0.00 0.00 3.18
3880 8234 2.513204 CGTGGCTGGGATGCTGAG 60.513 66.667 0.00 0.00 0.00 3.35
3883 8237 2.685017 TCTCGTGGCTGGGATGCT 60.685 61.111 0.00 0.00 0.00 3.79
3890 8244 3.443099 TGTGATATTCTCTCGTGGCTG 57.557 47.619 0.00 0.00 0.00 4.85
3896 8250 5.359756 TGGTTTCCATGTGATATTCTCTCG 58.640 41.667 0.00 0.00 0.00 4.04
3937 8291 2.360801 ACTTCCAAACATGGGTTTCACG 59.639 45.455 0.00 0.00 45.18 4.35
3942 8296 6.739331 TTTCAATACTTCCAAACATGGGTT 57.261 33.333 0.00 0.00 39.43 4.11
3976 8330 9.425248 ACATCACCATCCTAACATATCATTTTT 57.575 29.630 0.00 0.00 0.00 1.94
3977 8331 9.425248 AACATCACCATCCTAACATATCATTTT 57.575 29.630 0.00 0.00 0.00 1.82
3978 8332 9.071276 GAACATCACCATCCTAACATATCATTT 57.929 33.333 0.00 0.00 0.00 2.32
3979 8333 8.443176 AGAACATCACCATCCTAACATATCATT 58.557 33.333 0.00 0.00 0.00 2.57
3980 8334 7.982252 AGAACATCACCATCCTAACATATCAT 58.018 34.615 0.00 0.00 0.00 2.45
3982 8336 9.950496 AATAGAACATCACCATCCTAACATATC 57.050 33.333 0.00 0.00 0.00 1.63
3983 8337 9.730705 CAATAGAACATCACCATCCTAACATAT 57.269 33.333 0.00 0.00 0.00 1.78
3991 8347 3.554934 TGGCAATAGAACATCACCATCC 58.445 45.455 0.00 0.00 0.00 3.51
4008 8364 1.334556 GCAATGAATAGTCGCATGGCA 59.665 47.619 0.00 0.00 40.40 4.92
4009 8365 1.605710 AGCAATGAATAGTCGCATGGC 59.394 47.619 0.00 0.00 40.87 4.40
4010 8366 2.874086 TCAGCAATGAATAGTCGCATGG 59.126 45.455 0.00 0.00 0.00 3.66
4015 8371 9.941664 AAGAATAAATTCAGCAATGAATAGTCG 57.058 29.630 4.04 0.00 37.52 4.18
4028 8451 8.124823 TGCGAGCTATGAAAAGAATAAATTCAG 58.875 33.333 5.55 0.00 39.23 3.02
4036 8459 5.126061 ACCATTTGCGAGCTATGAAAAGAAT 59.874 36.000 10.67 0.00 0.00 2.40
4045 8468 4.199310 ACACATTACCATTTGCGAGCTAT 58.801 39.130 0.00 0.00 0.00 2.97
4056 8479 5.144100 TCCCAAGTTCAAACACATTACCAT 58.856 37.500 0.00 0.00 0.00 3.55
4086 8509 6.721704 AGAGTGTGATGTTCTATCAGCATA 57.278 37.500 0.00 0.00 36.17 3.14
4118 8541 5.524284 TCAAACAAATCCCACAAACATACG 58.476 37.500 0.00 0.00 0.00 3.06
4119 8542 6.073819 GCTTCAAACAAATCCCACAAACATAC 60.074 38.462 0.00 0.00 0.00 2.39
4143 8566 6.122125 CACGTGAAAAATGATGTTTTGAAGC 58.878 36.000 10.90 0.00 30.87 3.86
4161 8584 1.956297 AACCGATGAAAACCACGTGA 58.044 45.000 19.30 0.00 0.00 4.35
4165 8588 3.377439 GGTGAAAACCGATGAAAACCAC 58.623 45.455 0.00 0.00 0.00 4.16
4199 8622 3.969312 TGGCTGGAGAGAATGTCATATGA 59.031 43.478 0.00 0.00 0.00 2.15
4203 8626 1.911357 TGTGGCTGGAGAGAATGTCAT 59.089 47.619 0.00 0.00 0.00 3.06
4204 8627 1.002430 GTGTGGCTGGAGAGAATGTCA 59.998 52.381 0.00 0.00 0.00 3.58
4206 8629 0.326264 GGTGTGGCTGGAGAGAATGT 59.674 55.000 0.00 0.00 0.00 2.71
4207 8630 0.617413 AGGTGTGGCTGGAGAGAATG 59.383 55.000 0.00 0.00 0.00 2.67
4208 8631 1.834263 GTAGGTGTGGCTGGAGAGAAT 59.166 52.381 0.00 0.00 0.00 2.40
4209 8632 1.203187 AGTAGGTGTGGCTGGAGAGAA 60.203 52.381 0.00 0.00 0.00 2.87
4210 8633 0.409876 AGTAGGTGTGGCTGGAGAGA 59.590 55.000 0.00 0.00 0.00 3.10
4211 8634 0.534412 CAGTAGGTGTGGCTGGAGAG 59.466 60.000 0.00 0.00 0.00 3.20
4212 8635 0.178932 ACAGTAGGTGTGGCTGGAGA 60.179 55.000 0.00 0.00 38.28 3.71
4213 8636 0.687354 AACAGTAGGTGTGGCTGGAG 59.313 55.000 0.00 0.00 40.26 3.86
4214 8637 0.685097 GAACAGTAGGTGTGGCTGGA 59.315 55.000 0.00 0.00 40.26 3.86
4230 8653 3.119096 GCCGCGACTGGGAAGAAC 61.119 66.667 8.23 0.00 0.00 3.01
4252 8678 0.453390 CCCTTCCGAAGCTGAAATGC 59.547 55.000 2.27 0.00 0.00 3.56
4254 8680 1.073923 ACACCCTTCCGAAGCTGAAAT 59.926 47.619 2.27 0.00 0.00 2.17
4277 8703 0.177141 TATACGTGGCCCAGCTTGAC 59.823 55.000 0.00 0.00 0.00 3.18


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

AutoCloner maintained by Alex Coulton.