Multiple sequence alignment - TraesCS7B01G325300

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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 TraesCS7B01G325300 chr7B 100.000 3787 0 0 1 3787 577566860 577563074 0.000000e+00 6994.0
1 TraesCS7B01G325300 chr7B 96.491 57 2 0 374 430 663096540 663096484 1.120000e-15 95.3
2 TraesCS7B01G325300 chr7A 90.944 2838 197 41 401 3211 617852747 617855551 0.000000e+00 3762.0
3 TraesCS7B01G325300 chr7A 87.760 433 40 7 1648 2078 688265687 688265266 9.450000e-136 494.0
4 TraesCS7B01G325300 chr7A 88.618 369 39 3 2 367 617852377 617852745 2.680000e-121 446.0
5 TraesCS7B01G325300 chr7A 96.552 58 2 0 374 431 258307928 258307871 3.110000e-16 97.1
6 TraesCS7B01G325300 chr7D 92.710 1989 87 18 1381 3353 535729828 535727882 0.000000e+00 2817.0
7 TraesCS7B01G325300 chr7D 87.500 768 47 20 610 1350 535730628 535729883 0.000000e+00 841.0
8 TraesCS7B01G325300 chr7D 89.661 619 59 5 2 617 535731673 535731057 0.000000e+00 784.0
9 TraesCS7B01G325300 chr7D 86.598 485 51 7 1706 2185 95107437 95107912 1.210000e-144 523.0
10 TraesCS7B01G325300 chr7D 93.624 298 14 3 3492 3787 535727864 535727570 1.250000e-119 440.0
11 TraesCS7B01G325300 chr7D 94.828 58 3 0 374 431 88646059 88646116 1.450000e-14 91.6
12 TraesCS7B01G325300 chr7D 94.643 56 3 0 374 429 88642773 88642828 1.870000e-13 87.9
13 TraesCS7B01G325300 chr1B 84.022 726 71 24 1270 1989 565992203 565991517 0.000000e+00 656.0
14 TraesCS7B01G325300 chr3B 85.010 487 54 11 1709 2187 17863100 17862625 9.520000e-131 477.0
15 TraesCS7B01G325300 chr3B 90.244 123 12 0 3206 3328 223035493 223035371 1.090000e-35 161.0
16 TraesCS7B01G325300 chr3B 85.714 140 18 2 1091 1229 578275140 578275278 3.050000e-31 147.0
17 TraesCS7B01G325300 chr2D 89.394 264 23 2 1680 1943 44633673 44633931 1.010000e-85 327.0
18 TraesCS7B01G325300 chr3D 89.431 123 13 0 3206 3328 152555010 152554888 5.060000e-34 156.0
19 TraesCS7B01G325300 chr3D 85.714 140 18 2 1091 1229 441124230 441124368 3.050000e-31 147.0
20 TraesCS7B01G325300 chr3A 89.431 123 13 0 3206 3328 178133949 178134071 5.060000e-34 156.0
21 TraesCS7B01G325300 chr3A 82.584 178 23 8 1055 1229 581250816 581250988 2.360000e-32 150.0
22 TraesCS7B01G325300 chrUn 85.000 140 19 2 1091 1229 355025548 355025410 1.420000e-29 141.0
23 TraesCS7B01G325300 chrUn 85.000 140 19 2 1091 1229 442532471 442532609 1.420000e-29 141.0
24 TraesCS7B01G325300 chr2B 94.737 57 3 0 374 430 748467860 748467916 5.210000e-14 89.8
25 TraesCS7B01G325300 chr5D 92.982 57 4 0 374 430 87535728 87535672 2.420000e-12 84.2


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 TraesCS7B01G325300 chr7B 577563074 577566860 3786 True 6994.0 6994 100.00000 1 3787 1 chr7B.!!$R1 3786
1 TraesCS7B01G325300 chr7A 617852377 617855551 3174 False 2104.0 3762 89.78100 2 3211 2 chr7A.!!$F1 3209
2 TraesCS7B01G325300 chr7D 535727570 535731673 4103 True 1220.5 2817 90.87375 2 3787 4 chr7D.!!$R1 3785
3 TraesCS7B01G325300 chr1B 565991517 565992203 686 True 656.0 656 84.02200 1270 1989 1 chr1B.!!$R1 719

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
928 1395 0.801451 CACGCTACAGCAGAGCAGAG 60.801 60.0 1.61 0.0 40.09 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2924 3465 0.179153 GTACCGAACGCAGACCCTAC 60.179 60.0 0.0 0.0 0.0 3.18 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
37 38 6.379988 AGAGTCTTGAGATCCCTTAAGTCTTC 59.620 42.308 0.97 0.00 35.65 2.87
40 41 5.423610 TCTTGAGATCCCTTAAGTCTTCAGG 59.576 44.000 5.90 5.90 37.31 3.86
44 45 6.903534 TGAGATCCCTTAAGTCTTCAGGTATT 59.096 38.462 11.17 0.00 0.00 1.89
45 46 7.403231 TGAGATCCCTTAAGTCTTCAGGTATTT 59.597 37.037 11.17 0.00 0.00 1.40
59 61 6.554334 TCAGGTATTTGTGCTTAGTGAAAC 57.446 37.500 0.00 0.00 0.00 2.78
75 78 4.715297 AGTGAAACGAGGGGTAGATACATT 59.285 41.667 0.00 0.00 45.86 2.71
87 90 7.037586 AGGGGTAGATACATTTGTCTTTCTTCA 60.038 37.037 0.00 0.00 0.00 3.02
160 163 7.578458 TTTAGGGAAAACTAACTAGTGGGAT 57.422 36.000 0.00 0.00 36.50 3.85
203 206 8.438373 AGATTGACATCATCATCTATTCAAGGT 58.562 33.333 0.00 0.00 37.11 3.50
207 210 7.713942 TGACATCATCATCTATTCAAGGTTCAG 59.286 37.037 0.00 0.00 29.99 3.02
254 258 9.797473 GAAATAACTGCAAATCTTTAAAACTGC 57.203 29.630 0.00 0.00 0.00 4.40
303 307 4.956075 GCATTCAGAGGGAAAAGGGATTTA 59.044 41.667 0.00 0.00 39.39 1.40
350 354 7.531280 AAGAGATGATTCTTGTGTACGAATG 57.469 36.000 0.00 0.00 36.12 2.67
404 409 2.597578 TTTTCAGGGTAAGAAGGGGC 57.402 50.000 0.00 0.00 0.00 5.80
423 428 2.011046 GCAGAGAAAATGCCTCGAGCT 61.011 52.381 6.99 0.00 44.23 4.09
441 446 5.297278 TCGAGCTGAGGTCTATTTTCTCTAC 59.703 44.000 10.18 0.00 0.00 2.59
448 453 9.743057 CTGAGGTCTATTTTCTCTACAACTATG 57.257 37.037 0.00 0.00 0.00 2.23
522 527 7.447374 TTTACGATTCAGGTGTCAATTCAAT 57.553 32.000 0.00 0.00 0.00 2.57
552 557 2.708861 TGCGGTGGTTATATGGATCCTT 59.291 45.455 14.23 9.56 0.00 3.36
553 558 3.074412 GCGGTGGTTATATGGATCCTTG 58.926 50.000 14.23 0.00 0.00 3.61
555 560 4.569943 CGGTGGTTATATGGATCCTTGAG 58.430 47.826 14.23 0.00 0.00 3.02
556 561 4.040461 CGGTGGTTATATGGATCCTTGAGT 59.960 45.833 14.23 0.70 0.00 3.41
557 562 5.245301 CGGTGGTTATATGGATCCTTGAGTA 59.755 44.000 14.23 0.00 0.00 2.59
558 563 6.070767 CGGTGGTTATATGGATCCTTGAGTAT 60.071 42.308 14.23 0.00 0.00 2.12
559 564 7.123697 CGGTGGTTATATGGATCCTTGAGTATA 59.876 40.741 14.23 1.30 0.00 1.47
560 565 8.993424 GGTGGTTATATGGATCCTTGAGTATAT 58.007 37.037 14.23 9.02 0.00 0.86
562 567 8.914011 TGGTTATATGGATCCTTGAGTATATCG 58.086 37.037 14.23 0.00 0.00 2.92
601 606 2.099756 TCAGCGAGGTCTGATGTGTATG 59.900 50.000 0.00 0.00 38.11 2.39
608 1049 2.159099 GGTCTGATGTGTATGGCTTCGA 60.159 50.000 0.00 0.00 0.00 3.71
622 1063 2.158957 GGCTTCGACATCATGGTTCCTA 60.159 50.000 0.00 0.00 0.00 2.94
635 1077 8.857098 CATCATGGTTCCTAAGATCATGAATTT 58.143 33.333 0.00 0.00 41.81 1.82
650 1092 3.478509 TGAATTTGCTTTTGCCTGCATT 58.521 36.364 0.00 0.00 46.87 3.56
651 1093 4.639334 TGAATTTGCTTTTGCCTGCATTA 58.361 34.783 0.00 0.00 46.87 1.90
659 1101 6.044046 TGCTTTTGCCTGCATTATATCTTTG 58.956 36.000 0.00 0.00 46.87 2.77
696 1141 3.365969 GCTTTTTGATCGGTTCGTTCCAT 60.366 43.478 0.00 0.00 0.00 3.41
701 1146 3.259064 TGATCGGTTCGTTCCATCTTTC 58.741 45.455 0.00 0.00 0.00 2.62
707 1155 4.261447 CGGTTCGTTCCATCTTTCCTTTTT 60.261 41.667 0.51 0.00 0.00 1.94
708 1156 5.220381 GGTTCGTTCCATCTTTCCTTTTTC 58.780 41.667 0.00 0.00 0.00 2.29
712 1160 7.049799 TCGTTCCATCTTTCCTTTTTCATTT 57.950 32.000 0.00 0.00 0.00 2.32
751 1199 4.572795 TGTCACTTTTCATTACTGACGCAA 59.427 37.500 0.00 0.00 35.08 4.85
782 1230 3.507233 CCAGTGAGCCTTTGCAGATAAAA 59.493 43.478 0.00 0.00 41.13 1.52
790 1238 5.422970 AGCCTTTGCAGATAAAATGATTCCA 59.577 36.000 0.00 0.00 41.13 3.53
825 1273 2.223479 CCAAAGTTTGACCGTGGACTTG 60.223 50.000 17.33 0.00 33.02 3.16
832 1280 1.459921 ACCGTGGACTTGGTACCCA 60.460 57.895 10.07 0.00 36.50 4.51
833 1281 0.838987 ACCGTGGACTTGGTACCCAT 60.839 55.000 10.07 0.00 36.50 4.00
838 1286 1.913419 TGGACTTGGTACCCATCCTTC 59.087 52.381 20.93 6.24 34.66 3.46
892 1343 2.324541 CCTTTCCCATTTCCACAACCA 58.675 47.619 0.00 0.00 0.00 3.67
927 1394 1.213799 CACGCTACAGCAGAGCAGA 59.786 57.895 1.61 0.00 40.09 4.26
928 1395 0.801451 CACGCTACAGCAGAGCAGAG 60.801 60.000 1.61 0.00 40.09 3.35
929 1396 1.877617 CGCTACAGCAGAGCAGAGC 60.878 63.158 1.61 0.00 40.09 4.09
930 1397 1.217511 GCTACAGCAGAGCAGAGCA 59.782 57.895 0.00 0.00 39.84 4.26
931 1398 0.806884 GCTACAGCAGAGCAGAGCAG 60.807 60.000 0.00 0.00 39.84 4.24
932 1399 0.816373 CTACAGCAGAGCAGAGCAGA 59.184 55.000 0.00 0.00 0.00 4.26
933 1400 0.816373 TACAGCAGAGCAGAGCAGAG 59.184 55.000 0.00 0.00 0.00 3.35
934 1401 1.812093 CAGCAGAGCAGAGCAGAGC 60.812 63.158 0.00 0.00 0.00 4.09
935 1402 2.265109 GCAGAGCAGAGCAGAGCA 59.735 61.111 0.00 0.00 0.00 4.26
936 1403 1.812093 GCAGAGCAGAGCAGAGCAG 60.812 63.158 0.00 0.00 0.00 4.24
958 1425 1.299014 CAGCAGCTCCGTCGATCTC 60.299 63.158 0.00 0.00 0.00 2.75
965 1432 3.967335 CCGTCGATCTCCTCCGCC 61.967 72.222 0.00 0.00 0.00 6.13
972 1439 3.460478 ATCTCCTCCGCCCTCCTCC 62.460 68.421 0.00 0.00 0.00 4.30
1205 1678 2.693250 TTCCACGTCACCTGCGACAG 62.693 60.000 0.00 0.00 35.54 3.51
1266 1755 2.746362 CCTCTCGCTCAATCAAGCTTTT 59.254 45.455 0.00 0.00 40.23 2.27
1273 1762 5.643348 TCGCTCAATCAAGCTTTTATCTTCA 59.357 36.000 0.00 0.00 40.23 3.02
1311 1800 2.305635 TGCTCAGATTAGCCCAGAAACA 59.694 45.455 0.00 0.00 42.05 2.83
1312 1801 3.244875 TGCTCAGATTAGCCCAGAAACAA 60.245 43.478 0.00 0.00 42.05 2.83
1323 1812 3.190535 GCCCAGAAACAAAGCTCGATTTA 59.809 43.478 0.00 0.00 0.00 1.40
1341 1830 9.719279 CTCGATTTAAACTACTACTAGGTCAAG 57.281 37.037 0.00 0.00 0.00 3.02
1342 1831 8.186821 TCGATTTAAACTACTACTAGGTCAAGC 58.813 37.037 0.00 0.00 0.00 4.01
1407 1921 3.429410 GGTCTTGCACTTGCTTCTTGTTT 60.429 43.478 2.33 0.00 42.66 2.83
1430 1948 8.633561 GTTTAAGGGATTGATAGCTTAAGCAAT 58.366 33.333 28.39 18.52 45.16 3.56
1431 1949 9.860650 TTTAAGGGATTGATAGCTTAAGCAATA 57.139 29.630 28.39 13.96 45.16 1.90
1432 1950 7.751768 AAGGGATTGATAGCTTAAGCAATAC 57.248 36.000 28.39 18.58 45.16 1.89
1477 1995 3.591196 TCATTCAAAAGGGCCGATTTG 57.409 42.857 23.61 23.61 37.77 2.32
1482 2002 6.549364 TCATTCAAAAGGGCCGATTTGTATAT 59.451 34.615 26.36 18.68 37.68 0.86
1511 2031 5.706916 AGAACAACTTGCAAGCATAATCAG 58.293 37.500 26.27 9.44 0.00 2.90
1567 2087 3.448093 TTGCATCCTGTTGGTTGGATA 57.552 42.857 0.00 0.00 40.76 2.59
1590 2110 3.131577 ACCGTGTTGTCTGACACTCTTTA 59.868 43.478 10.56 0.00 45.96 1.85
1693 2213 1.068127 GTACCTGTATGTGCCCCTACG 59.932 57.143 0.00 0.00 0.00 3.51
1694 2214 0.324923 ACCTGTATGTGCCCCTACGA 60.325 55.000 0.00 0.00 0.00 3.43
1884 2408 0.107165 CCGGAAGAATCCCCAAGTCC 60.107 60.000 0.00 0.00 43.37 3.85
2014 2549 4.156739 GGCATCTTTCTTTAGTCCAAGTGG 59.843 45.833 0.00 0.00 0.00 4.00
2136 2671 7.162082 TGAAAAGGATCTAAGTTTGTCTCTCC 58.838 38.462 0.00 0.00 0.00 3.71
2292 2827 7.598869 AGTGTGCATCTTAACATATGTATACCG 59.401 37.037 9.21 0.00 32.76 4.02
2337 2872 5.643777 TCTCTATGGTTGCTGACTTTTAAGC 59.356 40.000 0.00 0.00 39.96 3.09
2456 2992 3.433306 AGGCCACTAGCATGTTTTGTA 57.567 42.857 5.01 0.00 46.50 2.41
2510 3046 7.390027 AGCTCAGACATTTGTACTGTAATTCT 58.610 34.615 0.00 0.00 33.93 2.40
2545 3083 8.347004 TGGTCTAGTTTTTCATGATTGCATAA 57.653 30.769 0.00 0.00 32.27 1.90
2546 3084 8.461222 TGGTCTAGTTTTTCATGATTGCATAAG 58.539 33.333 0.00 0.00 32.27 1.73
2575 3113 8.805175 AGAAATGTTATGATGATGGTGTTTGAA 58.195 29.630 0.00 0.00 0.00 2.69
2576 3114 9.421806 GAAATGTTATGATGATGGTGTTTGAAA 57.578 29.630 0.00 0.00 0.00 2.69
2579 3117 8.120140 TGTTATGATGATGGTGTTTGAAATCA 57.880 30.769 0.00 0.00 33.80 2.57
2590 3128 6.072342 TGGTGTTTGAAATCATGTCTCATGAG 60.072 38.462 17.07 17.07 0.00 2.90
2666 3204 8.380867 TCATATCAAATATGGCATCTTCTCTGT 58.619 33.333 1.65 0.00 42.23 3.41
2667 3205 6.879276 ATCAAATATGGCATCTTCTCTGTG 57.121 37.500 1.65 0.00 0.00 3.66
2669 3207 6.053650 TCAAATATGGCATCTTCTCTGTGAG 58.946 40.000 1.65 0.00 0.00 3.51
2777 3317 6.442513 CAAGGATTGGTTTCCTATGACTTC 57.557 41.667 0.00 0.00 45.63 3.01
2924 3465 4.052159 AGATGAAGAAGGTATGTGAGCG 57.948 45.455 0.00 0.00 0.00 5.03
3045 3586 2.802787 CTGCTTAGTACCGCAGCTAT 57.197 50.000 14.07 0.00 45.90 2.97
3104 3645 3.875865 GGAACTAAATCCGGGCTGT 57.124 52.632 0.00 0.00 0.00 4.40
3334 3875 1.012486 CAACCCGTTACAGGAGACGC 61.012 60.000 0.00 0.00 37.91 5.19
3335 3876 1.466025 AACCCGTTACAGGAGACGCA 61.466 55.000 0.00 0.00 37.91 5.24
3339 3880 1.073216 CGTTACAGGAGACGCAGCTG 61.073 60.000 10.11 10.11 32.11 4.24
3344 3885 1.375268 AGGAGACGCAGCTGCTTTC 60.375 57.895 34.22 28.09 39.32 2.62
3350 3891 0.036010 ACGCAGCTGCTTTCCATACT 60.036 50.000 34.22 4.27 39.32 2.12
3351 3892 0.376152 CGCAGCTGCTTTCCATACTG 59.624 55.000 34.22 12.51 39.32 2.74
3352 3893 1.742761 GCAGCTGCTTTCCATACTGA 58.257 50.000 31.33 0.00 38.21 3.41
3353 3894 2.295885 GCAGCTGCTTTCCATACTGAT 58.704 47.619 31.33 0.00 38.21 2.90
3354 3895 2.033049 GCAGCTGCTTTCCATACTGATG 59.967 50.000 31.33 0.00 38.21 3.07
3355 3896 3.538591 CAGCTGCTTTCCATACTGATGA 58.461 45.455 0.00 0.00 34.73 2.92
3356 3897 3.943381 CAGCTGCTTTCCATACTGATGAA 59.057 43.478 0.00 0.00 34.73 2.57
3357 3898 4.035324 CAGCTGCTTTCCATACTGATGAAG 59.965 45.833 0.00 0.00 34.73 3.02
3358 3899 3.944015 GCTGCTTTCCATACTGATGAAGT 59.056 43.478 0.00 0.00 43.40 3.01
3359 3900 4.397417 GCTGCTTTCCATACTGATGAAGTT 59.603 41.667 0.00 0.00 40.56 2.66
3360 3901 5.675575 GCTGCTTTCCATACTGATGAAGTTG 60.676 44.000 0.00 0.00 40.56 3.16
3361 3902 4.701651 TGCTTTCCATACTGATGAAGTTGG 59.298 41.667 0.00 0.00 40.56 3.77
3362 3903 4.096984 GCTTTCCATACTGATGAAGTTGGG 59.903 45.833 0.00 0.00 40.56 4.12
3363 3904 4.927267 TTCCATACTGATGAAGTTGGGT 57.073 40.909 0.00 0.00 40.56 4.51
3364 3905 6.381498 TTTCCATACTGATGAAGTTGGGTA 57.619 37.500 0.00 0.00 40.56 3.69
3365 3906 5.353394 TCCATACTGATGAAGTTGGGTAC 57.647 43.478 0.00 0.00 40.56 3.34
3366 3907 4.119862 CCATACTGATGAAGTTGGGTACG 58.880 47.826 0.00 0.00 40.56 3.67
3367 3908 4.142026 CCATACTGATGAAGTTGGGTACGA 60.142 45.833 0.00 0.00 40.56 3.43
3368 3909 5.453339 CCATACTGATGAAGTTGGGTACGAT 60.453 44.000 0.00 0.00 40.56 3.73
3369 3910 4.553330 ACTGATGAAGTTGGGTACGATT 57.447 40.909 0.00 0.00 34.57 3.34
3370 3911 4.906618 ACTGATGAAGTTGGGTACGATTT 58.093 39.130 0.00 0.00 34.57 2.17
3371 3912 5.313712 ACTGATGAAGTTGGGTACGATTTT 58.686 37.500 0.00 0.00 34.57 1.82
3372 3913 5.768164 ACTGATGAAGTTGGGTACGATTTTT 59.232 36.000 0.00 0.00 34.57 1.94
3373 3914 6.007936 TGATGAAGTTGGGTACGATTTTTG 57.992 37.500 0.00 0.00 0.00 2.44
3374 3915 5.533154 TGATGAAGTTGGGTACGATTTTTGT 59.467 36.000 0.00 0.00 0.00 2.83
3375 3916 6.711194 TGATGAAGTTGGGTACGATTTTTGTA 59.289 34.615 0.00 0.00 0.00 2.41
3376 3917 7.392113 TGATGAAGTTGGGTACGATTTTTGTAT 59.608 33.333 0.00 0.00 0.00 2.29
3377 3918 7.513371 TGAAGTTGGGTACGATTTTTGTATT 57.487 32.000 0.00 0.00 0.00 1.89
3378 3919 8.618702 TGAAGTTGGGTACGATTTTTGTATTA 57.381 30.769 0.00 0.00 0.00 0.98
3379 3920 9.233649 TGAAGTTGGGTACGATTTTTGTATTAT 57.766 29.630 0.00 0.00 0.00 1.28
3380 3921 9.712359 GAAGTTGGGTACGATTTTTGTATTATC 57.288 33.333 0.00 0.00 0.00 1.75
3381 3922 9.457436 AAGTTGGGTACGATTTTTGTATTATCT 57.543 29.630 0.00 0.00 0.00 1.98
3382 3923 9.457436 AGTTGGGTACGATTTTTGTATTATCTT 57.543 29.630 0.00 0.00 0.00 2.40
3398 3939 9.407380 TGTATTATCTTAACAATTGATGGCTGT 57.593 29.630 13.59 0.00 0.00 4.40
3404 3945 8.347004 TCTTAACAATTGATGGCTGTTATTCA 57.653 30.769 13.59 0.00 35.91 2.57
3405 3946 8.461222 TCTTAACAATTGATGGCTGTTATTCAG 58.539 33.333 13.59 0.00 46.12 3.02
3406 3947 6.594788 AACAATTGATGGCTGTTATTCAGT 57.405 33.333 13.59 0.00 45.23 3.41
3407 3948 5.957798 ACAATTGATGGCTGTTATTCAGTG 58.042 37.500 13.59 0.00 45.23 3.66
3408 3949 5.477984 ACAATTGATGGCTGTTATTCAGTGT 59.522 36.000 13.59 0.00 45.23 3.55
3409 3950 5.824904 ATTGATGGCTGTTATTCAGTGTC 57.175 39.130 0.00 0.00 45.23 3.67
3410 3951 3.261580 TGATGGCTGTTATTCAGTGTCG 58.738 45.455 0.00 0.00 45.23 4.35
3411 3952 2.831685 TGGCTGTTATTCAGTGTCGT 57.168 45.000 0.00 0.00 45.23 4.34
3412 3953 3.945981 TGGCTGTTATTCAGTGTCGTA 57.054 42.857 0.00 0.00 45.23 3.43
3413 3954 3.581755 TGGCTGTTATTCAGTGTCGTAC 58.418 45.455 0.00 0.00 45.23 3.67
3414 3955 2.597305 GGCTGTTATTCAGTGTCGTACG 59.403 50.000 9.53 9.53 45.23 3.67
3415 3956 2.027688 GCTGTTATTCAGTGTCGTACGC 59.972 50.000 11.24 6.57 45.23 4.42
3416 3957 3.239254 CTGTTATTCAGTGTCGTACGCA 58.761 45.455 11.24 9.37 39.17 5.24
3417 3958 3.239254 TGTTATTCAGTGTCGTACGCAG 58.761 45.455 11.24 1.87 0.00 5.18
3418 3959 3.058085 TGTTATTCAGTGTCGTACGCAGA 60.058 43.478 11.24 4.21 0.00 4.26
3419 3960 2.941453 ATTCAGTGTCGTACGCAGAT 57.059 45.000 11.24 1.35 0.00 2.90
3420 3961 2.257974 TTCAGTGTCGTACGCAGATC 57.742 50.000 11.24 0.97 0.00 2.75
3421 3962 1.161843 TCAGTGTCGTACGCAGATCA 58.838 50.000 11.24 1.87 0.00 2.92
3422 3963 1.743394 TCAGTGTCGTACGCAGATCAT 59.257 47.619 11.24 0.00 0.00 2.45
3423 3964 2.940410 TCAGTGTCGTACGCAGATCATA 59.060 45.455 11.24 0.00 0.00 2.15
3424 3965 3.036633 CAGTGTCGTACGCAGATCATAC 58.963 50.000 11.24 1.14 0.00 2.39
3425 3966 2.034789 GTGTCGTACGCAGATCATACG 58.965 52.381 11.24 10.73 42.33 3.06
3426 3967 1.667212 TGTCGTACGCAGATCATACGT 59.333 47.619 11.24 11.55 41.81 3.57
3427 3968 2.865551 TGTCGTACGCAGATCATACGTA 59.134 45.455 11.24 0.00 41.81 3.57
3428 3969 3.309410 TGTCGTACGCAGATCATACGTAA 59.691 43.478 11.24 1.11 43.16 3.18
3429 3970 4.024641 TGTCGTACGCAGATCATACGTAAT 60.025 41.667 11.24 0.00 43.16 1.89
3430 3971 4.548837 GTCGTACGCAGATCATACGTAATC 59.451 45.833 11.24 0.00 43.16 1.75
3431 3972 3.844657 CGTACGCAGATCATACGTAATCC 59.155 47.826 14.02 4.65 43.16 3.01
3432 3973 4.612033 CGTACGCAGATCATACGTAATCCA 60.612 45.833 14.02 0.00 43.16 3.41
3433 3974 4.521130 ACGCAGATCATACGTAATCCAT 57.479 40.909 0.00 0.00 38.45 3.41
3434 3975 4.883083 ACGCAGATCATACGTAATCCATT 58.117 39.130 0.00 0.00 38.45 3.16
3435 3976 6.020971 ACGCAGATCATACGTAATCCATTA 57.979 37.500 0.00 0.00 38.45 1.90
3436 3977 6.093404 ACGCAGATCATACGTAATCCATTAG 58.907 40.000 0.00 0.00 38.45 1.73
3437 3978 6.072119 ACGCAGATCATACGTAATCCATTAGA 60.072 38.462 0.00 0.00 38.45 2.10
3438 3979 6.806739 CGCAGATCATACGTAATCCATTAGAA 59.193 38.462 0.00 0.00 0.00 2.10
3439 3980 7.489435 CGCAGATCATACGTAATCCATTAGAAT 59.511 37.037 0.00 0.00 0.00 2.40
3440 3981 8.812329 GCAGATCATACGTAATCCATTAGAATC 58.188 37.037 0.00 0.00 0.00 2.52
3441 3982 9.860898 CAGATCATACGTAATCCATTAGAATCA 57.139 33.333 0.00 0.00 0.00 2.57
3445 3986 9.860898 TCATACGTAATCCATTAGAATCATCAG 57.139 33.333 0.00 0.00 0.00 2.90
3446 3987 9.860898 CATACGTAATCCATTAGAATCATCAGA 57.139 33.333 0.00 0.00 0.00 3.27
3449 3990 9.784531 ACGTAATCCATTAGAATCATCAGAAAT 57.215 29.630 0.00 0.00 0.00 2.17
3461 4002 7.980099 AGAATCATCAGAAATTCAAAAGGATGC 59.020 33.333 10.16 0.00 34.91 3.91
3462 4003 5.969423 TCATCAGAAATTCAAAAGGATGCC 58.031 37.500 0.00 0.00 32.75 4.40
3463 4004 5.481122 TCATCAGAAATTCAAAAGGATGCCA 59.519 36.000 0.00 0.00 32.75 4.92
3464 4005 5.138125 TCAGAAATTCAAAAGGATGCCAC 57.862 39.130 0.00 0.00 0.00 5.01
3465 4006 4.588106 TCAGAAATTCAAAAGGATGCCACA 59.412 37.500 0.00 0.00 0.00 4.17
3466 4007 5.070180 TCAGAAATTCAAAAGGATGCCACAA 59.930 36.000 0.00 0.00 0.00 3.33
3467 4008 5.407387 CAGAAATTCAAAAGGATGCCACAAG 59.593 40.000 0.00 0.00 0.00 3.16
3468 4009 5.305128 AGAAATTCAAAAGGATGCCACAAGA 59.695 36.000 0.00 0.00 0.00 3.02
3469 4010 4.525912 ATTCAAAAGGATGCCACAAGAC 57.474 40.909 0.00 0.00 0.00 3.01
3470 4011 2.942804 TCAAAAGGATGCCACAAGACA 58.057 42.857 0.00 0.00 0.00 3.41
3471 4012 2.622942 TCAAAAGGATGCCACAAGACAC 59.377 45.455 0.00 0.00 0.00 3.67
3472 4013 2.361757 CAAAAGGATGCCACAAGACACA 59.638 45.455 0.00 0.00 0.00 3.72
3473 4014 1.609208 AAGGATGCCACAAGACACAC 58.391 50.000 0.00 0.00 0.00 3.82
3474 4015 0.250901 AGGATGCCACAAGACACACC 60.251 55.000 0.00 0.00 0.00 4.16
3475 4016 0.250901 GGATGCCACAAGACACACCT 60.251 55.000 0.00 0.00 0.00 4.00
3476 4017 1.003118 GGATGCCACAAGACACACCTA 59.997 52.381 0.00 0.00 0.00 3.08
3477 4018 2.356125 GGATGCCACAAGACACACCTAT 60.356 50.000 0.00 0.00 0.00 2.57
3478 4019 2.949177 TGCCACAAGACACACCTATT 57.051 45.000 0.00 0.00 0.00 1.73
3479 4020 4.513442 GATGCCACAAGACACACCTATTA 58.487 43.478 0.00 0.00 0.00 0.98
3480 4021 3.937814 TGCCACAAGACACACCTATTAG 58.062 45.455 0.00 0.00 0.00 1.73
3481 4022 3.580895 TGCCACAAGACACACCTATTAGA 59.419 43.478 0.00 0.00 0.00 2.10
3482 4023 4.225042 TGCCACAAGACACACCTATTAGAT 59.775 41.667 0.00 0.00 0.00 1.98
3483 4024 5.423931 TGCCACAAGACACACCTATTAGATA 59.576 40.000 0.00 0.00 0.00 1.98
3484 4025 6.099701 TGCCACAAGACACACCTATTAGATAT 59.900 38.462 0.00 0.00 0.00 1.63
3485 4026 6.425114 GCCACAAGACACACCTATTAGATATG 59.575 42.308 0.00 0.00 0.00 1.78
3486 4027 6.425114 CCACAAGACACACCTATTAGATATGC 59.575 42.308 0.00 0.00 0.00 3.14
3487 4028 7.212976 CACAAGACACACCTATTAGATATGCT 58.787 38.462 0.00 0.00 0.00 3.79
3488 4029 8.360390 CACAAGACACACCTATTAGATATGCTA 58.640 37.037 0.00 0.00 0.00 3.49
3489 4030 9.094578 ACAAGACACACCTATTAGATATGCTAT 57.905 33.333 0.00 0.00 0.00 2.97
3490 4031 9.363763 CAAGACACACCTATTAGATATGCTATG 57.636 37.037 0.00 0.00 0.00 2.23
3491 4032 8.657387 AGACACACCTATTAGATATGCTATGT 57.343 34.615 0.00 0.00 0.00 2.29
3492 4033 8.744652 AGACACACCTATTAGATATGCTATGTC 58.255 37.037 0.00 0.00 0.00 3.06
3493 4034 8.422577 ACACACCTATTAGATATGCTATGTCA 57.577 34.615 0.00 0.00 0.00 3.58
3494 4035 9.040259 ACACACCTATTAGATATGCTATGTCAT 57.960 33.333 0.00 0.00 0.00 3.06
3505 4046 8.373220 AGATATGCTATGTCATTGAATCAGTGA 58.627 33.333 4.25 4.25 0.00 3.41
3508 4049 7.958053 TGCTATGTCATTGAATCAGTGATAG 57.042 36.000 11.53 10.80 33.05 2.08
3512 4053 9.761504 CTATGTCATTGAATCAGTGATAGTCTT 57.238 33.333 11.53 0.95 33.05 3.01
3616 4182 3.691118 TCTGTTGGAGCTAACATGAATGC 59.309 43.478 0.00 0.00 39.60 3.56
3641 4207 4.844085 CCATTGATATCCCACCCAGTAGTA 59.156 45.833 0.00 0.00 0.00 1.82
3642 4208 5.046304 CCATTGATATCCCACCCAGTAGTAG 60.046 48.000 0.00 0.00 0.00 2.57
3644 4210 4.737578 TGATATCCCACCCAGTAGTAGTC 58.262 47.826 0.00 0.00 0.00 2.59
3645 4211 4.169264 TGATATCCCACCCAGTAGTAGTCA 59.831 45.833 0.00 0.00 0.00 3.41
3646 4212 3.708236 ATCCCACCCAGTAGTAGTCAT 57.292 47.619 0.00 0.00 0.00 3.06
3647 4213 4.827036 ATCCCACCCAGTAGTAGTCATA 57.173 45.455 0.00 0.00 0.00 2.15
3658 4224 8.535335 CCCAGTAGTAGTCATATAAGCATGAAT 58.465 37.037 0.00 0.00 36.71 2.57
3698 4264 3.489355 TCAATTCAACCAGTGAGCATGT 58.511 40.909 0.00 0.00 37.61 3.21
3706 4272 1.601162 CCAGTGAGCATGTTGTTGTGC 60.601 52.381 0.00 0.00 41.57 4.57
3725 4291 4.518590 TGTGCTGCTTTTCATGCTAACTAA 59.481 37.500 0.00 0.00 0.00 2.24
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
37 38 5.178623 TCGTTTCACTAAGCACAAATACCTG 59.821 40.000 0.00 0.00 0.00 4.00
40 41 5.390567 CCCTCGTTTCACTAAGCACAAATAC 60.391 44.000 0.00 0.00 0.00 1.89
44 45 2.489971 CCCTCGTTTCACTAAGCACAA 58.510 47.619 0.00 0.00 0.00 3.33
45 46 1.270625 CCCCTCGTTTCACTAAGCACA 60.271 52.381 0.00 0.00 0.00 4.57
59 61 4.939052 AGACAAATGTATCTACCCCTCG 57.061 45.455 0.00 0.00 0.00 4.63
75 78 5.445069 TCTTTGGTGGATGAAGAAAGACAA 58.555 37.500 0.00 0.00 29.75 3.18
112 115 7.745620 AACCTCGATATCAAGTTCAAAAAGT 57.254 32.000 3.12 0.00 0.00 2.66
116 119 7.335924 CCCTAAAACCTCGATATCAAGTTCAAA 59.664 37.037 3.12 0.00 0.00 2.69
118 121 6.155565 TCCCTAAAACCTCGATATCAAGTTCA 59.844 38.462 3.12 0.00 0.00 3.18
150 153 2.158900 CGGCAATCTCAATCCCACTAGT 60.159 50.000 0.00 0.00 0.00 2.57
155 158 0.617935 TGACGGCAATCTCAATCCCA 59.382 50.000 0.00 0.00 0.00 4.37
160 163 4.518590 TCAATCTTTTGACGGCAATCTCAA 59.481 37.500 3.50 0.00 36.94 3.02
194 197 6.240894 AGTGAATTCTGCTGAACCTTGAATA 58.759 36.000 8.32 0.00 34.71 1.75
196 199 4.464008 AGTGAATTCTGCTGAACCTTGAA 58.536 39.130 8.32 0.00 34.71 2.69
207 210 6.974932 TTCAATCTCAGTAGTGAATTCTGC 57.025 37.500 7.05 0.00 30.14 4.26
235 238 7.181143 ACATTGCAGTTTTAAAGATTTGCAG 57.819 32.000 13.73 8.97 41.84 4.41
252 256 8.588290 AACCAAAGTATCCTAATTACATTGCA 57.412 30.769 0.00 0.00 0.00 4.08
287 291 3.052109 ACCCCATAAATCCCTTTTCCCTC 60.052 47.826 0.00 0.00 0.00 4.30
303 307 5.885449 TCTTGTTGAATTTGAAACCCCAT 57.115 34.783 0.00 0.00 0.00 4.00
342 346 0.808125 TGGTTGGCATGCATTCGTAC 59.192 50.000 21.36 7.22 0.00 3.67
350 354 0.389426 CAAGCTCTTGGTTGGCATGC 60.389 55.000 9.90 9.90 45.02 4.06
382 386 3.754172 GCCCCTTCTTACCCTGAAAAAGT 60.754 47.826 0.00 0.00 0.00 2.66
383 387 2.826128 GCCCCTTCTTACCCTGAAAAAG 59.174 50.000 0.00 0.00 0.00 2.27
404 409 1.664659 CAGCTCGAGGCATTTTCTCTG 59.335 52.381 15.58 5.57 44.79 3.35
423 428 9.256228 ACATAGTTGTAGAGAAAATAGACCTCA 57.744 33.333 0.00 0.00 33.16 3.86
441 446 7.664082 ATTGAAGTCTCAGTGAACATAGTTG 57.336 36.000 0.00 0.00 31.69 3.16
448 453 9.604626 CAATTTAGAATTGAAGTCTCAGTGAAC 57.395 33.333 0.00 0.00 31.69 3.18
510 515 7.116233 ACCGCAAGATTAAAATTGAATTGACAC 59.884 33.333 7.09 0.00 43.02 3.67
522 527 6.829298 TCCATATAACCACCGCAAGATTAAAA 59.171 34.615 0.00 0.00 43.02 1.52
552 557 9.570468 AATTTCCTACTAGACACGATATACTCA 57.430 33.333 0.00 0.00 0.00 3.41
556 561 9.788889 TGAGAATTTCCTACTAGACACGATATA 57.211 33.333 0.00 0.00 0.00 0.86
557 562 8.693120 TGAGAATTTCCTACTAGACACGATAT 57.307 34.615 0.00 0.00 0.00 1.63
558 563 7.255173 GCTGAGAATTTCCTACTAGACACGATA 60.255 40.741 0.00 0.00 0.00 2.92
559 564 6.460399 GCTGAGAATTTCCTACTAGACACGAT 60.460 42.308 0.00 0.00 0.00 3.73
560 565 5.163642 GCTGAGAATTTCCTACTAGACACGA 60.164 44.000 0.00 0.00 0.00 4.35
561 566 5.038033 GCTGAGAATTTCCTACTAGACACG 58.962 45.833 0.00 0.00 0.00 4.49
562 567 5.038033 CGCTGAGAATTTCCTACTAGACAC 58.962 45.833 0.00 0.00 0.00 3.67
601 606 1.017387 GGAACCATGATGTCGAAGCC 58.983 55.000 0.00 0.00 0.00 4.35
608 1049 6.505048 TCATGATCTTAGGAACCATGATGT 57.495 37.500 14.87 0.00 0.00 3.06
622 1063 5.642063 CAGGCAAAAGCAAATTCATGATCTT 59.358 36.000 0.00 0.00 0.00 2.40
635 1077 5.857471 AAGATATAATGCAGGCAAAAGCA 57.143 34.783 0.00 0.00 45.92 3.91
650 1092 8.486210 AGCTTGTACATGGAACTCAAAGATATA 58.514 33.333 10.47 0.00 0.00 0.86
651 1093 7.341805 AGCTTGTACATGGAACTCAAAGATAT 58.658 34.615 10.47 0.00 0.00 1.63
659 1101 6.072112 TCAAAAAGCTTGTACATGGAACTC 57.928 37.500 0.00 0.00 0.00 3.01
696 1141 8.004801 AGGAGGTAGAAAATGAAAAAGGAAAGA 58.995 33.333 0.00 0.00 0.00 2.52
701 1146 6.071896 GGACAGGAGGTAGAAAATGAAAAAGG 60.072 42.308 0.00 0.00 0.00 3.11
707 1155 4.597507 ACAAGGACAGGAGGTAGAAAATGA 59.402 41.667 0.00 0.00 0.00 2.57
708 1156 4.911390 ACAAGGACAGGAGGTAGAAAATG 58.089 43.478 0.00 0.00 0.00 2.32
712 1160 2.897969 GTGACAAGGACAGGAGGTAGAA 59.102 50.000 0.00 0.00 0.00 2.10
751 1199 2.529744 GGCTCACTGGGGTGGAAGT 61.530 63.158 0.00 0.00 43.17 3.01
771 1219 4.439974 GCGGTGGAATCATTTTATCTGCAA 60.440 41.667 0.00 0.00 0.00 4.08
782 1230 1.815421 GAGCACGCGGTGGAATCAT 60.815 57.895 12.47 0.00 33.64 2.45
832 1280 0.828022 TGGTCAATACGGCGAAGGAT 59.172 50.000 16.62 0.00 0.00 3.24
833 1281 0.108520 GTGGTCAATACGGCGAAGGA 60.109 55.000 16.62 2.17 0.00 3.36
838 1286 1.374885 TGGTGTGGTCAATACGGCG 60.375 57.895 4.80 4.80 0.00 6.46
876 1327 0.178947 GGGTGGTTGTGGAAATGGGA 60.179 55.000 0.00 0.00 0.00 4.37
892 1343 4.077180 GGGAGGAGGAGGACGGGT 62.077 72.222 0.00 0.00 0.00 5.28
927 1394 4.331067 TGCTGCTGCTGCTCTGCT 62.331 61.111 27.67 0.00 39.95 4.24
928 1395 3.805307 CTGCTGCTGCTGCTCTGC 61.805 66.667 27.67 16.84 40.48 4.26
947 1414 2.900838 GCGGAGGAGATCGACGGA 60.901 66.667 0.00 0.00 0.00 4.69
1238 1711 0.325671 ATTGAGCGAGAGGGGAAGGA 60.326 55.000 0.00 0.00 0.00 3.36
1311 1800 8.747471 ACCTAGTAGTAGTTTAAATCGAGCTTT 58.253 33.333 3.91 0.00 0.00 3.51
1312 1801 8.291191 ACCTAGTAGTAGTTTAAATCGAGCTT 57.709 34.615 3.91 0.00 0.00 3.74
1323 1812 4.773149 AGCAGCTTGACCTAGTAGTAGTTT 59.227 41.667 3.91 0.00 0.00 2.66
1354 1868 2.154462 GACCATGGATATCCTTTGCCG 58.846 52.381 21.47 10.48 36.82 5.69
1358 1872 7.159201 AGATGAAAGACCATGGATATCCTTT 57.841 36.000 21.47 17.26 36.82 3.11
1407 1921 8.660435 AGTATTGCTTAAGCTATCAATCCCTTA 58.340 33.333 26.90 5.23 42.66 2.69
1511 2031 1.269621 ACAGACAGACGCCACAACTAC 60.270 52.381 0.00 0.00 0.00 2.73
1590 2110 0.112995 TCCCTGCAGAAGTTTGCCAT 59.887 50.000 17.39 0.00 43.43 4.40
1693 2213 4.396166 ACAGAAACGGTGGAATTCATCATC 59.604 41.667 7.93 0.00 0.00 2.92
1694 2214 4.335416 ACAGAAACGGTGGAATTCATCAT 58.665 39.130 7.93 0.00 0.00 2.45
1884 2408 1.163554 GTGAGCTGAGCTTGGAAAGG 58.836 55.000 9.00 0.00 46.35 3.11
1935 2459 7.309194 GCATTTGTACTGTGGAGGAATTAACTT 60.309 37.037 0.00 0.00 0.00 2.66
1980 2513 8.055181 ACTAAAGAAAGATGCCATGAATTAGGA 58.945 33.333 0.00 0.00 0.00 2.94
1981 2514 8.230472 ACTAAAGAAAGATGCCATGAATTAGG 57.770 34.615 0.00 0.00 0.00 2.69
2154 2689 7.511268 TGCTTTAGTACTCACTTAGGGAAAAA 58.489 34.615 0.00 0.00 36.14 1.94
2169 2704 8.139521 ACGCCTATAAGAAATTGCTTTAGTAC 57.860 34.615 3.39 1.37 0.00 2.73
2292 2827 6.150140 AGAGAATCAACAGCACAACTAAATCC 59.850 38.462 0.00 0.00 37.82 3.01
2337 2872 3.861276 AATCACTGCATGTCACAATGG 57.139 42.857 0.00 0.00 0.00 3.16
2456 2992 2.040813 ACTCCAGATGCACATTGGTTCT 59.959 45.455 11.47 0.00 33.65 3.01
2510 3046 4.563140 AAAACTAGACCATCGCCCTTAA 57.437 40.909 0.00 0.00 0.00 1.85
2545 3083 7.285566 ACACCATCATCATAACATTTCTAGCT 58.714 34.615 0.00 0.00 0.00 3.32
2546 3084 7.502120 ACACCATCATCATAACATTTCTAGC 57.498 36.000 0.00 0.00 0.00 3.42
2602 3140 5.414360 TGAGTTATGAATGACTCAGCAGTC 58.586 41.667 12.45 0.00 45.01 3.51
2616 3154 9.136323 TGAGAGCTATCAACTTATGAGTTATGA 57.864 33.333 8.98 0.00 44.14 2.15
2617 3155 9.926158 ATGAGAGCTATCAACTTATGAGTTATG 57.074 33.333 16.15 0.00 44.14 1.90
2621 3159 9.306777 TGATATGAGAGCTATCAACTTATGAGT 57.693 33.333 16.15 0.00 42.53 3.41
2648 3186 5.366460 CACTCACAGAGAAGATGCCATATT 58.634 41.667 0.31 0.00 33.32 1.28
2666 3204 0.612744 TCATCGCATGAACCCACTCA 59.387 50.000 0.00 0.00 36.11 3.41
2667 3205 1.737838 TTCATCGCATGAACCCACTC 58.262 50.000 0.00 0.00 43.84 3.51
2792 3332 1.911293 GCATTGTCGTGTGCATCGGT 61.911 55.000 12.78 0.00 40.94 4.69
2855 3396 1.275291 TGTTGTAGTGCTAGGCTCCAC 59.725 52.381 9.48 9.48 0.00 4.02
2924 3465 0.179153 GTACCGAACGCAGACCCTAC 60.179 60.000 0.00 0.00 0.00 3.18
3099 3640 5.645497 ACTTGAGATACATTCTTCAACAGCC 59.355 40.000 0.00 0.00 33.74 4.85
3136 3677 4.520179 ACATAGCAAAGAGATGTGCATCA 58.480 39.130 13.79 0.00 43.42 3.07
3140 3681 7.307632 CCATACTAACATAGCAAAGAGATGTGC 60.308 40.741 0.00 0.00 41.22 4.57
3241 3782 7.899178 TTATCGATGTCACTTAACATTGTGT 57.101 32.000 8.54 0.00 39.93 3.72
3293 3834 1.019673 CTCGCTACAATTGCTGCCAT 58.980 50.000 5.05 0.00 0.00 4.40
3334 3875 3.538591 TCATCAGTATGGAAAGCAGCTG 58.461 45.455 10.11 10.11 36.16 4.24
3335 3876 3.920231 TCATCAGTATGGAAAGCAGCT 57.080 42.857 0.00 0.00 36.16 4.24
3339 3880 4.096984 CCCAACTTCATCAGTATGGAAAGC 59.903 45.833 0.00 0.00 36.50 3.51
3344 3885 4.119862 CGTACCCAACTTCATCAGTATGG 58.880 47.826 0.00 0.00 32.94 2.74
3350 3891 5.533154 ACAAAAATCGTACCCAACTTCATCA 59.467 36.000 0.00 0.00 0.00 3.07
3351 3892 6.009115 ACAAAAATCGTACCCAACTTCATC 57.991 37.500 0.00 0.00 0.00 2.92
3352 3893 7.696992 ATACAAAAATCGTACCCAACTTCAT 57.303 32.000 0.00 0.00 0.00 2.57
3353 3894 7.513371 AATACAAAAATCGTACCCAACTTCA 57.487 32.000 0.00 0.00 0.00 3.02
3354 3895 9.712359 GATAATACAAAAATCGTACCCAACTTC 57.288 33.333 0.00 0.00 0.00 3.01
3355 3896 9.457436 AGATAATACAAAAATCGTACCCAACTT 57.543 29.630 0.00 0.00 0.00 2.66
3356 3897 9.457436 AAGATAATACAAAAATCGTACCCAACT 57.543 29.630 0.00 0.00 0.00 3.16
3372 3913 9.407380 ACAGCCATCAATTGTTAAGATAATACA 57.593 29.630 5.13 0.00 0.00 2.29
3378 3919 8.970020 TGAATAACAGCCATCAATTGTTAAGAT 58.030 29.630 5.13 0.00 39.78 2.40
3379 3920 8.347004 TGAATAACAGCCATCAATTGTTAAGA 57.653 30.769 5.13 0.00 39.78 2.10
3380 3921 8.624701 CTGAATAACAGCCATCAATTGTTAAG 57.375 34.615 5.13 0.00 39.78 1.85
3396 3937 3.058085 TCTGCGTACGACACTGAATAACA 60.058 43.478 21.65 1.36 0.00 2.41
3397 3938 3.495193 TCTGCGTACGACACTGAATAAC 58.505 45.455 21.65 0.00 0.00 1.89
3398 3939 3.835378 TCTGCGTACGACACTGAATAA 57.165 42.857 21.65 0.00 0.00 1.40
3399 3940 3.375922 TGATCTGCGTACGACACTGAATA 59.624 43.478 21.65 2.26 0.00 1.75
3400 3941 2.163613 TGATCTGCGTACGACACTGAAT 59.836 45.455 21.65 1.47 0.00 2.57
3401 3942 1.538075 TGATCTGCGTACGACACTGAA 59.462 47.619 21.65 0.00 0.00 3.02
3402 3943 1.161843 TGATCTGCGTACGACACTGA 58.838 50.000 21.65 11.16 0.00 3.41
3403 3944 2.194800 ATGATCTGCGTACGACACTG 57.805 50.000 21.65 5.69 0.00 3.66
3404 3945 3.335786 GTATGATCTGCGTACGACACT 57.664 47.619 21.65 4.76 29.93 3.55
3410 3951 4.790878 TGGATTACGTATGATCTGCGTAC 58.209 43.478 13.49 6.49 46.08 3.67
3411 3952 5.638596 ATGGATTACGTATGATCTGCGTA 57.361 39.130 0.00 11.03 44.76 4.42
3413 3954 6.322491 TCTAATGGATTACGTATGATCTGCG 58.678 40.000 0.00 0.00 39.08 5.18
3414 3955 8.709386 ATTCTAATGGATTACGTATGATCTGC 57.291 34.615 0.00 0.00 0.00 4.26
3415 3956 9.860898 TGATTCTAATGGATTACGTATGATCTG 57.139 33.333 0.00 0.00 0.00 2.90
3419 3960 9.860898 CTGATGATTCTAATGGATTACGTATGA 57.139 33.333 0.00 0.00 0.00 2.15
3420 3961 9.860898 TCTGATGATTCTAATGGATTACGTATG 57.139 33.333 0.00 0.00 0.00 2.39
3423 3964 9.784531 ATTTCTGATGATTCTAATGGATTACGT 57.215 29.630 0.00 0.00 0.00 3.57
3435 3976 7.980099 GCATCCTTTTGAATTTCTGATGATTCT 59.020 33.333 12.53 0.00 34.24 2.40
3436 3977 7.224167 GGCATCCTTTTGAATTTCTGATGATTC 59.776 37.037 0.00 7.11 31.98 2.52
3437 3978 7.046033 GGCATCCTTTTGAATTTCTGATGATT 58.954 34.615 0.00 0.00 31.98 2.57
3438 3979 6.155565 TGGCATCCTTTTGAATTTCTGATGAT 59.844 34.615 0.00 2.58 31.98 2.45
3439 3980 5.481122 TGGCATCCTTTTGAATTTCTGATGA 59.519 36.000 0.00 0.91 31.98 2.92
3440 3981 5.579511 GTGGCATCCTTTTGAATTTCTGATG 59.420 40.000 0.00 0.00 33.13 3.07
3441 3982 5.246656 TGTGGCATCCTTTTGAATTTCTGAT 59.753 36.000 0.00 0.00 0.00 2.90
3442 3983 4.588106 TGTGGCATCCTTTTGAATTTCTGA 59.412 37.500 0.00 0.00 0.00 3.27
3443 3984 4.885413 TGTGGCATCCTTTTGAATTTCTG 58.115 39.130 0.00 0.00 0.00 3.02
3444 3985 5.305128 TCTTGTGGCATCCTTTTGAATTTCT 59.695 36.000 0.00 0.00 0.00 2.52
3445 3986 5.406477 GTCTTGTGGCATCCTTTTGAATTTC 59.594 40.000 0.00 0.00 0.00 2.17
3446 3987 5.163322 TGTCTTGTGGCATCCTTTTGAATTT 60.163 36.000 0.00 0.00 0.00 1.82
3447 3988 4.344679 TGTCTTGTGGCATCCTTTTGAATT 59.655 37.500 0.00 0.00 0.00 2.17
3448 3989 3.896888 TGTCTTGTGGCATCCTTTTGAAT 59.103 39.130 0.00 0.00 0.00 2.57
3449 3990 3.068024 GTGTCTTGTGGCATCCTTTTGAA 59.932 43.478 0.00 0.00 0.00 2.69
3450 3991 2.622942 GTGTCTTGTGGCATCCTTTTGA 59.377 45.455 0.00 0.00 0.00 2.69
3451 3992 2.361757 TGTGTCTTGTGGCATCCTTTTG 59.638 45.455 0.00 0.00 0.00 2.44
3452 3993 2.362077 GTGTGTCTTGTGGCATCCTTTT 59.638 45.455 0.00 0.00 0.00 2.27
3453 3994 1.956477 GTGTGTCTTGTGGCATCCTTT 59.044 47.619 0.00 0.00 0.00 3.11
3454 3995 1.609208 GTGTGTCTTGTGGCATCCTT 58.391 50.000 0.00 0.00 0.00 3.36
3455 3996 0.250901 GGTGTGTCTTGTGGCATCCT 60.251 55.000 0.00 0.00 0.00 3.24
3456 3997 0.250901 AGGTGTGTCTTGTGGCATCC 60.251 55.000 0.00 0.00 0.00 3.51
3457 3998 2.472695 TAGGTGTGTCTTGTGGCATC 57.527 50.000 0.00 0.00 0.00 3.91
3458 3999 3.439857 AATAGGTGTGTCTTGTGGCAT 57.560 42.857 0.00 0.00 0.00 4.40
3459 4000 2.949177 AATAGGTGTGTCTTGTGGCA 57.051 45.000 0.00 0.00 0.00 4.92
3460 4001 4.202245 TCTAATAGGTGTGTCTTGTGGC 57.798 45.455 0.00 0.00 0.00 5.01
3461 4002 6.425114 GCATATCTAATAGGTGTGTCTTGTGG 59.575 42.308 0.00 0.00 0.00 4.17
3462 4003 7.212976 AGCATATCTAATAGGTGTGTCTTGTG 58.787 38.462 0.00 0.00 0.00 3.33
3463 4004 7.366847 AGCATATCTAATAGGTGTGTCTTGT 57.633 36.000 0.00 0.00 0.00 3.16
3464 4005 9.363763 CATAGCATATCTAATAGGTGTGTCTTG 57.636 37.037 0.00 0.00 0.00 3.02
3465 4006 9.094578 ACATAGCATATCTAATAGGTGTGTCTT 57.905 33.333 0.00 0.00 29.87 3.01
3466 4007 8.657387 ACATAGCATATCTAATAGGTGTGTCT 57.343 34.615 0.00 0.70 29.87 3.41
3467 4008 8.523658 TGACATAGCATATCTAATAGGTGTGTC 58.476 37.037 11.59 11.59 44.99 3.67
3468 4009 8.422577 TGACATAGCATATCTAATAGGTGTGT 57.577 34.615 0.00 0.00 36.71 3.72
3469 4010 9.881649 AATGACATAGCATATCTAATAGGTGTG 57.118 33.333 0.00 0.00 0.00 3.82
3470 4011 9.881649 CAATGACATAGCATATCTAATAGGTGT 57.118 33.333 0.00 0.00 0.00 4.16
3478 4019 9.649167 CACTGATTCAATGACATAGCATATCTA 57.351 33.333 0.00 0.00 0.00 1.98
3479 4020 8.373220 TCACTGATTCAATGACATAGCATATCT 58.627 33.333 0.00 0.00 0.00 1.98
3480 4021 8.543862 TCACTGATTCAATGACATAGCATATC 57.456 34.615 0.00 0.00 0.00 1.63
3482 4023 9.649167 CTATCACTGATTCAATGACATAGCATA 57.351 33.333 0.00 0.00 0.00 3.14
3483 4024 8.155510 ACTATCACTGATTCAATGACATAGCAT 58.844 33.333 0.00 0.00 0.00 3.79
3484 4025 7.503549 ACTATCACTGATTCAATGACATAGCA 58.496 34.615 0.00 0.00 0.00 3.49
3485 4026 7.871973 AGACTATCACTGATTCAATGACATAGC 59.128 37.037 0.00 0.00 0.00 2.97
3486 4027 9.761504 AAGACTATCACTGATTCAATGACATAG 57.238 33.333 0.00 2.59 0.00 2.23
3543 4109 8.675705 TCAGTTAAGTTGAATCTGAATGTTCA 57.324 30.769 0.00 0.00 33.18 3.18
3549 4115 7.873719 TTGGTTCAGTTAAGTTGAATCTGAA 57.126 32.000 11.93 6.45 41.00 3.02
3616 4182 2.175499 ACTGGGTGGGATATCAATGGTG 59.825 50.000 4.83 0.00 0.00 4.17
3641 4207 8.373220 TCACAGATGATTCATGCTTATATGACT 58.627 33.333 3.32 0.00 36.84 3.41
3642 4208 8.543862 TCACAGATGATTCATGCTTATATGAC 57.456 34.615 3.32 0.00 36.84 3.06
3646 4212 8.623903 GGTTTTCACAGATGATTCATGCTTATA 58.376 33.333 3.32 0.00 33.85 0.98
3647 4213 7.123098 TGGTTTTCACAGATGATTCATGCTTAT 59.877 33.333 3.32 0.00 33.85 1.73
3679 4245 3.638160 ACAACATGCTCACTGGTTGAATT 59.362 39.130 10.00 0.00 42.34 2.17
3698 4264 2.159071 AGCATGAAAAGCAGCACAACAA 60.159 40.909 0.00 0.00 0.00 2.83
3706 4272 8.660968 GTAACTTTAGTTAGCATGAAAAGCAG 57.339 34.615 0.00 0.00 40.74 4.24


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

AutoCloner maintained by Alex Coulton.