Multiple sequence alignment - TraesCS4A01G298700

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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 TraesCS4A01G298700 chr4A 100.000 6428 0 0 1 6428 597683345 597676918 0.000000e+00 11871.0
1 TraesCS4A01G298700 chr4D 92.728 5803 261 62 725 6426 6033492 6039234 0.000000e+00 8229.0
2 TraesCS4A01G298700 chr4D 90.469 703 54 6 38 736 6032715 6033408 0.000000e+00 915.0
3 TraesCS4A01G298700 chr4D 90.909 77 7 0 3915 3991 4422156 4422080 3.170000e-18 104.0
4 TraesCS4A01G298700 chr4D 90.000 60 3 3 3693 3752 6036537 6036593 2.490000e-09 75.0
5 TraesCS4A01G298700 chr4D 96.875 32 0 1 2970 3001 6035614 6035644 1.200000e-02 52.8
6 TraesCS4A01G298700 chr4B 93.214 5246 239 52 1 5196 10587622 10592800 0.000000e+00 7607.0
7 TraesCS4A01G298700 chr4B 85.405 1199 87 35 5258 6428 10593190 10594328 0.000000e+00 1164.0
8 TraesCS4A01G298700 chr4B 86.129 757 95 8 2198 2952 59532106 59531358 0.000000e+00 808.0
9 TraesCS4A01G298700 chr6B 85.664 1130 115 27 1943 3066 197763515 197762427 0.000000e+00 1146.0
10 TraesCS4A01G298700 chr6B 82.656 1107 97 41 875 1926 197764836 197763770 0.000000e+00 893.0
11 TraesCS4A01G298700 chr6B 87.314 741 73 8 285 1020 547002832 547002108 0.000000e+00 828.0
12 TraesCS4A01G298700 chr6B 87.500 720 67 10 305 1018 430550076 430550778 0.000000e+00 809.0
13 TraesCS4A01G298700 chr6B 85.880 602 62 14 2959 3545 197762392 197761799 2.550000e-173 619.0
14 TraesCS4A01G298700 chr6B 84.921 378 39 13 6057 6424 225625651 225626020 3.660000e-97 366.0
15 TraesCS4A01G298700 chr6B 83.217 143 15 2 5856 5998 225625504 225625637 8.750000e-24 122.0
16 TraesCS4A01G298700 chr1A 86.910 741 76 8 285 1020 18145808 18146532 0.000000e+00 811.0
17 TraesCS4A01G298700 chr3B 86.640 741 78 8 285 1020 763300946 763301670 0.000000e+00 800.0
18 TraesCS4A01G298700 chr5A 79.474 1140 173 43 4069 5179 19269720 19268613 0.000000e+00 752.0
19 TraesCS4A01G298700 chr5A 83.152 552 75 14 1000 1547 19272654 19272117 7.490000e-134 488.0
20 TraesCS4A01G298700 chr5A 79.245 424 74 7 1996 2415 19271417 19271004 3.790000e-72 283.0
21 TraesCS4A01G298700 chr5A 85.446 213 28 1 2505 2717 19270905 19270696 1.090000e-52 219.0
22 TraesCS4A01G298700 chr5B 90.023 441 36 2 285 725 443228601 443228169 1.210000e-156 564.0
23 TraesCS4A01G298700 chr5B 82.939 592 86 11 4600 5179 21181782 21181194 2.660000e-143 520.0
24 TraesCS4A01G298700 chr5B 90.358 363 35 0 1000 1362 21185248 21184886 1.620000e-130 477.0
25 TraesCS4A01G298700 chr5B 78.723 423 74 8 1998 2415 21184008 21183597 1.060000e-67 268.0
26 TraesCS4A01G298700 chr5B 84.942 259 27 4 766 1020 443228172 443227922 1.070000e-62 252.0
27 TraesCS4A01G298700 chr5B 85.446 213 28 1 2505 2717 21183497 21183288 1.090000e-52 219.0
28 TraesCS4A01G298700 chr5D 80.052 762 116 27 4434 5179 28667662 28666921 3.410000e-147 532.0
29 TraesCS4A01G298700 chr5D 83.333 552 74 14 1000 1547 28670931 28670394 1.610000e-135 494.0
30 TraesCS4A01G298700 chr5D 76.526 737 144 16 1996 2717 28669726 28669004 6.080000e-100 375.0
31 TraesCS4A01G298700 chr7B 78.324 549 67 18 4214 4755 714214876 714215379 2.250000e-79 307.0
32 TraesCS4A01G298700 chr7B 77.372 548 72 18 4215 4755 714162792 714163294 1.770000e-70 278.0
33 TraesCS4A01G298700 chr6D 81.586 391 47 11 4208 4594 385672317 385672686 3.770000e-77 300.0


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 TraesCS4A01G298700 chr4A 597676918 597683345 6427 True 11871.00 11871 100.000000 1 6428 1 chr4A.!!$R1 6427
1 TraesCS4A01G298700 chr4D 6032715 6039234 6519 False 2317.95 8229 92.518000 38 6426 4 chr4D.!!$F1 6388
2 TraesCS4A01G298700 chr4B 10587622 10594328 6706 False 4385.50 7607 89.309500 1 6428 2 chr4B.!!$F1 6427
3 TraesCS4A01G298700 chr4B 59531358 59532106 748 True 808.00 808 86.129000 2198 2952 1 chr4B.!!$R1 754
4 TraesCS4A01G298700 chr6B 197761799 197764836 3037 True 886.00 1146 84.733333 875 3545 3 chr6B.!!$R2 2670
5 TraesCS4A01G298700 chr6B 547002108 547002832 724 True 828.00 828 87.314000 285 1020 1 chr6B.!!$R1 735
6 TraesCS4A01G298700 chr6B 430550076 430550778 702 False 809.00 809 87.500000 305 1018 1 chr6B.!!$F1 713
7 TraesCS4A01G298700 chr6B 225625504 225626020 516 False 244.00 366 84.069000 5856 6424 2 chr6B.!!$F2 568
8 TraesCS4A01G298700 chr1A 18145808 18146532 724 False 811.00 811 86.910000 285 1020 1 chr1A.!!$F1 735
9 TraesCS4A01G298700 chr3B 763300946 763301670 724 False 800.00 800 86.640000 285 1020 1 chr3B.!!$F1 735
10 TraesCS4A01G298700 chr5A 19268613 19272654 4041 True 435.50 752 81.829250 1000 5179 4 chr5A.!!$R1 4179
11 TraesCS4A01G298700 chr5B 443227922 443228601 679 True 408.00 564 87.482500 285 1020 2 chr5B.!!$R2 735
12 TraesCS4A01G298700 chr5B 21181194 21185248 4054 True 371.00 520 84.366500 1000 5179 4 chr5B.!!$R1 4179
13 TraesCS4A01G298700 chr5D 28666921 28670931 4010 True 467.00 532 79.970333 1000 5179 3 chr5D.!!$R1 4179
14 TraesCS4A01G298700 chr7B 714214876 714215379 503 False 307.00 307 78.324000 4214 4755 1 chr7B.!!$F2 541
15 TraesCS4A01G298700 chr7B 714162792 714163294 502 False 278.00 278 77.372000 4215 4755 1 chr7B.!!$F1 540

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
436 467 0.033503 TGCATGTCCTCCTCGTCCTA 60.034 55.000 0.00 0.00 0.00 2.94 F
625 663 0.035056 GTGTAGCCTGCCTTCATGGT 60.035 55.000 0.00 0.00 38.35 3.55 F
627 665 0.035056 GTAGCCTGCCTTCATGGTGT 60.035 55.000 0.00 0.00 38.35 4.16 F
1274 1425 1.522580 GACTGGCGGAGAGATTGGC 60.523 63.158 0.00 0.00 0.00 4.52 F
1466 1627 2.512485 TTTGCAGCCACTTCATTGTG 57.488 45.000 0.00 0.00 37.66 3.33 F
1584 2041 2.550830 TGTCTCAGCCTCCTTTTCAC 57.449 50.000 0.00 0.00 0.00 3.18 F
2660 3625 3.401182 GAACATCTGGGCTGATGATCTC 58.599 50.000 21.23 13.17 44.71 2.75 F
3757 4988 2.622942 CTGCAGGATCTCTGAGTAGACC 59.377 54.545 5.57 4.67 46.18 3.85 F
5196 6531 0.535780 CAGCACAAAGTGAGGAGCCA 60.536 55.000 0.58 0.00 35.23 4.75 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2216 3162 0.250640 CCTTCAGCTCAGCCACAACT 60.251 55.000 0.00 0.0 0.00 3.16 R
2293 3240 2.177654 GAACGCGGCCAATTCGTGAA 62.178 55.000 12.47 0.0 40.11 3.18 R
2437 3384 2.230266 ACTTGAAACACACAAAACGGCT 59.770 40.909 0.00 0.0 0.00 5.52 R
2576 3541 3.243907 GGATACCAGCGCTCTTGATAAGT 60.244 47.826 7.13 0.0 0.00 2.24 R
3007 4014 3.547054 ACATAAAGCAATGGCAATGGG 57.453 42.857 4.47 0.0 44.61 4.00 R
3235 4417 7.015098 TCAGGCTATAATGAGAGAGAGAAAAGG 59.985 40.741 0.00 0.0 0.00 3.11 R
4378 5695 0.108804 ACATCTACGTGAAGGCCGTG 60.109 55.000 0.00 0.0 39.22 4.94 R
5199 6534 0.103937 AGTATCAGGCTGCTCGCTTC 59.896 55.000 10.34 0.0 39.13 3.86 R
6386 8122 1.134848 GCTGAAAGATCCGAGAGCAGT 60.135 52.381 0.00 0.0 34.07 4.40 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
137 138 0.252197 ATGCGGTGGTTAGGTTCCTC 59.748 55.000 0.00 0.00 0.00 3.71
189 200 2.089201 TCTGAGATTGCATTGGCTGTG 58.911 47.619 0.00 0.00 41.91 3.66
205 216 4.640647 TGGCTGTGTACTGTATCTGTAGAG 59.359 45.833 0.00 0.00 0.00 2.43
212 223 2.356382 ACTGTATCTGTAGAGCGACTGC 59.644 50.000 0.00 0.00 43.24 4.40
220 231 2.500815 TAGAGCGACTGCCAGGGAGT 62.501 60.000 14.67 14.67 44.31 3.85
223 234 2.262915 CGACTGCCAGGGAGTGAC 59.737 66.667 20.20 3.86 0.00 3.67
241 252 2.553602 TGACTGCTGGTTTTATGTGCTG 59.446 45.455 0.00 0.00 0.00 4.41
245 256 4.082571 ACTGCTGGTTTTATGTGCTGATTC 60.083 41.667 0.00 0.00 0.00 2.52
250 261 7.093814 TGCTGGTTTTATGTGCTGATTCTTATT 60.094 33.333 0.00 0.00 0.00 1.40
299 310 2.507769 CCGTTCTAACCCGTCGGC 60.508 66.667 5.50 0.00 35.01 5.54
300 311 2.507769 CGTTCTAACCCGTCGGCC 60.508 66.667 5.50 0.00 0.00 6.13
330 360 1.425066 TGCCTCCAGTTCTGTCCAATT 59.575 47.619 0.00 0.00 0.00 2.32
436 467 0.033503 TGCATGTCCTCCTCGTCCTA 60.034 55.000 0.00 0.00 0.00 2.94
454 488 3.835978 TCCTAAGACGTTTTGATCCCAGA 59.164 43.478 0.83 0.00 0.00 3.86
625 663 0.035056 GTGTAGCCTGCCTTCATGGT 60.035 55.000 0.00 0.00 38.35 3.55
626 664 0.035152 TGTAGCCTGCCTTCATGGTG 60.035 55.000 0.00 0.00 38.35 4.17
627 665 0.035056 GTAGCCTGCCTTCATGGTGT 60.035 55.000 0.00 0.00 38.35 4.16
641 679 1.529226 TGGTGTGGCTAAACATTCCG 58.471 50.000 0.00 0.00 31.49 4.30
645 683 2.159627 GTGTGGCTAAACATTCCGAGTG 59.840 50.000 0.00 0.00 31.49 3.51
646 684 2.224426 TGTGGCTAAACATTCCGAGTGT 60.224 45.455 0.00 0.00 0.00 3.55
647 685 2.812011 GTGGCTAAACATTCCGAGTGTT 59.188 45.455 3.55 3.55 41.28 3.32
689 727 6.095580 GCTTAGCCAAAGGTATTTCTTAAGCT 59.904 38.462 0.00 0.00 36.65 3.74
691 729 9.174166 CTTAGCCAAAGGTATTTCTTAAGCTTA 57.826 33.333 0.86 0.86 36.90 3.09
764 898 8.474831 TCTACATGAAAAGGACGAATAAGATCA 58.525 33.333 0.00 0.00 0.00 2.92
785 919 5.070001 TCAAGTACTGATTTGGTTTGGAGG 58.930 41.667 0.00 0.00 0.00 4.30
796 930 3.355378 TGGTTTGGAGGAATATGCTGTG 58.645 45.455 0.00 0.00 0.00 3.66
804 938 7.750229 TGGAGGAATATGCTGTGATAATTTC 57.250 36.000 0.00 0.00 0.00 2.17
818 953 4.349636 TGATAATTTCGGATCCCTTGGCTA 59.650 41.667 6.06 0.00 0.00 3.93
825 960 2.354203 CGGATCCCTTGGCTATTAGCTC 60.354 54.545 15.02 6.45 41.99 4.09
864 1003 8.774890 TTGCTGTATGTGCAAATTAATTGATT 57.225 26.923 0.39 0.00 45.81 2.57
913 1052 8.258007 TGCCTGTTAGGTTGCAGATATATATAC 58.742 37.037 0.00 0.00 37.80 1.47
945 1084 8.986477 ATATGTGCAAAGTATTTTGGAAAGTC 57.014 30.769 12.08 0.00 44.62 3.01
983 1134 8.712285 ATGTTCCTGCAGATTAATTGATTTTG 57.288 30.769 17.39 0.00 0.00 2.44
1010 1161 4.835284 TGTATGGTGTAGAAAGATGGCA 57.165 40.909 0.00 0.00 0.00 4.92
1265 1416 1.676678 GCTACTCATGGACTGGCGGA 61.677 60.000 0.00 0.00 0.00 5.54
1274 1425 1.522580 GACTGGCGGAGAGATTGGC 60.523 63.158 0.00 0.00 0.00 4.52
1381 1538 6.939132 AGTCAATCTGCATCTCTTTAATGG 57.061 37.500 0.00 0.00 0.00 3.16
1466 1627 2.512485 TTTGCAGCCACTTCATTGTG 57.488 45.000 0.00 0.00 37.66 3.33
1584 2041 2.550830 TGTCTCAGCCTCCTTTTCAC 57.449 50.000 0.00 0.00 0.00 3.18
1962 2908 3.763097 TTGCCATGCTATTTGTCTTCG 57.237 42.857 0.00 0.00 0.00 3.79
2162 3108 3.489229 GCTGACACAACCAACTCCTTTTC 60.489 47.826 0.00 0.00 0.00 2.29
2416 3363 6.183360 GCTGAATCTTACAAGTACGTTTCTCC 60.183 42.308 0.00 0.00 0.00 3.71
2437 3384 6.381133 TCTCCAGTGCTAATCAATTCTACTCA 59.619 38.462 0.00 0.00 0.00 3.41
2446 3394 5.551760 ATCAATTCTACTCAGCCGTTTTG 57.448 39.130 0.00 0.00 0.00 2.44
2482 3430 9.301153 AGTTGTTCTATTAAAACAGCAAAACAG 57.699 29.630 7.73 0.00 39.45 3.16
2564 3529 4.036380 GGTTTTGATCTTGTTCGTGGAACT 59.964 41.667 9.61 0.00 42.39 3.01
2576 3541 4.659111 TCGTGGAACTAAGACACTTGAA 57.341 40.909 0.00 0.00 33.13 2.69
2660 3625 3.401182 GAACATCTGGGCTGATGATCTC 58.599 50.000 21.23 13.17 44.71 2.75
2804 3769 5.296035 AGTTCTTTAGGTGAAACTTTGACCG 59.704 40.000 4.68 0.00 36.74 4.79
2821 3786 5.160607 TGACCGTCAGTTCCTATGAAAAT 57.839 39.130 0.00 0.00 30.79 1.82
2829 3796 7.196331 GTCAGTTCCTATGAAAATATGTTGCC 58.804 38.462 0.00 0.00 30.79 4.52
3007 4014 4.705507 TGACTCAGAGGTGGTATCTGTTAC 59.294 45.833 1.53 0.00 43.79 2.50
3024 4031 3.834813 TGTTACCCATTGCCATTGCTTTA 59.165 39.130 0.00 0.00 38.71 1.85
3086 4264 3.798758 GTGTCCACCTCCTGCTCT 58.201 61.111 0.00 0.00 0.00 4.09
3235 4417 4.363991 AGGATGAGGTATGCCATTCTTC 57.636 45.455 1.54 0.00 37.19 2.87
3236 4418 3.073650 AGGATGAGGTATGCCATTCTTCC 59.926 47.826 12.94 12.94 35.38 3.46
3250 4432 5.570439 GCCATTCTTCCTTTTCTCTCTCTCA 60.570 44.000 0.00 0.00 0.00 3.27
3251 4433 6.652053 CCATTCTTCCTTTTCTCTCTCTCAT 58.348 40.000 0.00 0.00 0.00 2.90
3299 4488 7.174426 ACCACTTTAATTGCAACTCCTAACTAC 59.826 37.037 0.00 0.00 0.00 2.73
3436 4637 4.781934 AGGCTGTAAGTTCACTGAAGTTT 58.218 39.130 15.51 5.66 36.68 2.66
3696 4921 3.449018 GTGCCTCTAGATGGACTCTTTCA 59.551 47.826 11.55 0.00 35.28 2.69
3757 4988 2.622942 CTGCAGGATCTCTGAGTAGACC 59.377 54.545 5.57 4.67 46.18 3.85
4378 5695 4.095632 GCTCCCTAGCTCTGTTTTGATTTC 59.904 45.833 0.00 0.00 45.85 2.17
4392 5709 1.001068 TGATTTCACGGCCTTCACGTA 59.999 47.619 0.00 0.00 43.58 3.57
4395 5712 0.892755 TTCACGGCCTTCACGTAGAT 59.107 50.000 0.00 0.00 43.58 1.98
4433 5750 2.561478 ATTGGTACGCCACTTCTTGT 57.439 45.000 0.00 0.00 46.01 3.16
4563 5889 6.687604 TGTCACCATATCATTACTATGTCCG 58.312 40.000 0.00 0.00 33.34 4.79
4564 5890 5.577164 GTCACCATATCATTACTATGTCCGC 59.423 44.000 0.00 0.00 33.34 5.54
4646 5972 2.183679 CTAAGAGAGGGTCTGCCACTT 58.816 52.381 0.00 0.00 34.84 3.16
4797 6124 4.647564 ACCATCATCATCCATCCCTTAC 57.352 45.455 0.00 0.00 0.00 2.34
4805 6132 4.030913 TCATCCATCCCTTACGAGACTTT 58.969 43.478 0.00 0.00 0.00 2.66
4808 6135 4.575885 TCCATCCCTTACGAGACTTTTTG 58.424 43.478 0.00 0.00 0.00 2.44
4985 6320 1.149174 CATTGGCCCAGGCGTCTAT 59.851 57.895 0.00 0.00 43.06 1.98
5188 6523 2.253452 GCTCGCCAGCACAAAGTG 59.747 61.111 0.00 0.00 46.06 3.16
5189 6524 2.253758 GCTCGCCAGCACAAAGTGA 61.254 57.895 0.00 0.00 46.06 3.41
5190 6525 1.864862 CTCGCCAGCACAAAGTGAG 59.135 57.895 0.58 0.00 35.23 3.51
5191 6526 1.572085 CTCGCCAGCACAAAGTGAGG 61.572 60.000 0.58 3.31 35.23 3.86
5192 6527 1.597854 CGCCAGCACAAAGTGAGGA 60.598 57.895 11.58 0.00 35.23 3.71
5193 6528 1.572085 CGCCAGCACAAAGTGAGGAG 61.572 60.000 11.58 6.02 35.23 3.69
5194 6529 1.860484 GCCAGCACAAAGTGAGGAGC 61.860 60.000 11.58 1.20 35.23 4.70
5195 6530 1.239968 CCAGCACAAAGTGAGGAGCC 61.240 60.000 0.58 0.00 35.23 4.70
5196 6531 0.535780 CAGCACAAAGTGAGGAGCCA 60.536 55.000 0.58 0.00 35.23 4.75
5197 6532 0.536006 AGCACAAAGTGAGGAGCCAC 60.536 55.000 0.58 0.00 35.23 5.01
5198 6533 1.845809 GCACAAAGTGAGGAGCCACG 61.846 60.000 0.58 0.00 41.67 4.94
5199 6534 1.071471 ACAAAGTGAGGAGCCACGG 59.929 57.895 0.00 0.00 41.67 4.94
5200 6535 1.371183 CAAAGTGAGGAGCCACGGA 59.629 57.895 0.00 0.00 41.67 4.69
5203 6538 2.435059 GTGAGGAGCCACGGAAGC 60.435 66.667 0.00 0.00 0.00 3.86
5206 6541 3.708220 GAGGAGCCACGGAAGCGAG 62.708 68.421 0.00 0.00 34.64 5.03
5222 6557 1.601663 GCGAGCAGCCTGATACTACTG 60.602 57.143 0.00 0.00 40.81 2.74
5246 6581 2.818751 TTGTTTTGTGGGGACAGAGT 57.181 45.000 0.00 0.00 44.46 3.24
5255 6590 0.038166 GGGGACAGAGTGCCAAATGA 59.962 55.000 9.89 0.00 46.07 2.57
5256 6591 1.341383 GGGGACAGAGTGCCAAATGAT 60.341 52.381 9.89 0.00 46.07 2.45
5300 6979 0.817013 TTCTTTATCGTACCGCCGGT 59.183 50.000 15.63 15.63 40.16 5.28
5301 6980 0.101040 TCTTTATCGTACCGCCGGTG 59.899 55.000 21.20 8.42 36.19 4.94
5302 6981 0.179129 CTTTATCGTACCGCCGGTGT 60.179 55.000 21.20 9.16 36.19 4.16
5303 6982 0.246086 TTTATCGTACCGCCGGTGTT 59.754 50.000 21.20 1.11 36.19 3.32
5304 6983 0.246086 TTATCGTACCGCCGGTGTTT 59.754 50.000 21.20 3.49 36.19 2.83
5305 6984 0.179140 TATCGTACCGCCGGTGTTTC 60.179 55.000 21.20 5.81 36.19 2.78
5306 6985 3.472298 CGTACCGCCGGTGTTTCG 61.472 66.667 21.20 14.05 36.19 3.46
5307 6986 3.781162 GTACCGCCGGTGTTTCGC 61.781 66.667 21.20 0.00 36.19 4.70
5309 6988 2.634476 TACCGCCGGTGTTTCGCTA 61.634 57.895 21.20 0.00 36.19 4.26
5312 6996 3.497031 GCCGGTGTTTCGCTAGGC 61.497 66.667 1.90 0.00 37.61 3.93
5318 7002 1.477295 GGTGTTTCGCTAGGCTAGTCT 59.523 52.381 21.92 0.74 0.00 3.24
5324 7008 1.948145 TCGCTAGGCTAGTCTTGCTAC 59.052 52.381 24.67 2.77 34.29 3.58
5334 7018 4.617762 GCTAGTCTTGCTACGGTAAACTGT 60.618 45.833 0.00 0.00 39.18 3.55
5337 7021 6.034161 AGTCTTGCTACGGTAAACTGTTAT 57.966 37.500 0.00 0.00 36.70 1.89
5368 7052 5.125417 ACATGTTGTATCTATGTTTGGTGGC 59.875 40.000 0.00 0.00 31.38 5.01
5371 7055 4.568072 TGTATCTATGTTTGGTGGCTGT 57.432 40.909 0.00 0.00 0.00 4.40
5372 7056 4.260985 TGTATCTATGTTTGGTGGCTGTG 58.739 43.478 0.00 0.00 0.00 3.66
5373 7057 1.533625 TCTATGTTTGGTGGCTGTGC 58.466 50.000 0.00 0.00 0.00 4.57
5374 7058 0.168788 CTATGTTTGGTGGCTGTGCG 59.831 55.000 0.00 0.00 0.00 5.34
5375 7059 1.240641 TATGTTTGGTGGCTGTGCGG 61.241 55.000 0.00 0.00 0.00 5.69
5377 7061 2.904866 TTTGGTGGCTGTGCGGTC 60.905 61.111 0.00 0.00 0.00 4.79
5378 7062 3.414136 TTTGGTGGCTGTGCGGTCT 62.414 57.895 0.00 0.00 0.00 3.85
5380 7064 3.357079 GGTGGCTGTGCGGTCTTG 61.357 66.667 0.00 0.00 0.00 3.02
5381 7065 2.280797 GTGGCTGTGCGGTCTTGA 60.281 61.111 0.00 0.00 0.00 3.02
5382 7066 2.031012 TGGCTGTGCGGTCTTGAG 59.969 61.111 0.00 0.00 0.00 3.02
5383 7067 3.426568 GGCTGTGCGGTCTTGAGC 61.427 66.667 0.00 0.00 0.00 4.26
5385 7069 1.963338 GCTGTGCGGTCTTGAGCTT 60.963 57.895 0.00 0.00 0.00 3.74
5386 7070 1.864862 CTGTGCGGTCTTGAGCTTG 59.135 57.895 0.00 0.00 0.00 4.01
5387 7071 0.882042 CTGTGCGGTCTTGAGCTTGT 60.882 55.000 0.00 0.00 0.00 3.16
5389 7073 1.146041 TGCGGTCTTGAGCTTGTGT 59.854 52.632 0.00 0.00 0.00 3.72
5391 7075 0.601311 GCGGTCTTGAGCTTGTGTCT 60.601 55.000 0.00 0.00 0.00 3.41
5392 7076 1.423395 CGGTCTTGAGCTTGTGTCTC 58.577 55.000 0.00 0.00 0.00 3.36
5393 7077 1.423395 GGTCTTGAGCTTGTGTCTCG 58.577 55.000 0.00 0.00 33.41 4.04
5394 7078 1.269831 GGTCTTGAGCTTGTGTCTCGT 60.270 52.381 0.00 0.00 33.41 4.18
5407 7119 3.676172 TGTGTCTCGTTGCGGTTATAAAG 59.324 43.478 0.00 0.00 0.00 1.85
5466 7179 3.554934 TGATTTCCACAGTTGTCTGCTT 58.445 40.909 0.00 0.00 44.77 3.91
5471 7184 5.437289 TTCCACAGTTGTCTGCTTATTTG 57.563 39.130 0.00 0.00 44.77 2.32
5478 7191 6.088824 CAGTTGTCTGCTTATTTGTGAATCC 58.911 40.000 0.00 0.00 34.79 3.01
5482 7195 5.106712 TGTCTGCTTATTTGTGAATCCGTTC 60.107 40.000 0.00 0.00 34.85 3.95
5483 7196 5.122396 GTCTGCTTATTTGTGAATCCGTTCT 59.878 40.000 0.00 0.00 35.33 3.01
5484 7197 5.351465 TCTGCTTATTTGTGAATCCGTTCTC 59.649 40.000 0.00 0.00 35.33 2.87
5485 7198 5.000591 TGCTTATTTGTGAATCCGTTCTCA 58.999 37.500 0.00 0.00 36.40 3.27
5486 7199 5.122239 TGCTTATTTGTGAATCCGTTCTCAG 59.878 40.000 0.00 0.00 38.59 3.35
5487 7200 5.351465 GCTTATTTGTGAATCCGTTCTCAGA 59.649 40.000 0.00 0.00 38.59 3.27
5488 7201 6.037610 GCTTATTTGTGAATCCGTTCTCAGAT 59.962 38.462 0.00 0.00 38.59 2.90
5489 7202 5.808042 ATTTGTGAATCCGTTCTCAGATG 57.192 39.130 0.00 0.00 38.59 2.90
5490 7203 4.535526 TTGTGAATCCGTTCTCAGATGA 57.464 40.909 0.00 0.00 38.59 2.92
5498 7211 3.444034 TCCGTTCTCAGATGACAGTTAGG 59.556 47.826 0.00 0.00 0.00 2.69
5507 7220 1.078143 GACAGTTAGGCAGGCAGGG 60.078 63.158 0.00 0.00 0.00 4.45
5515 7228 1.133809 AGGCAGGCAGGGTACAGAAA 61.134 55.000 0.00 0.00 0.00 2.52
5539 7252 9.825972 AAATTGTAGTCTTTTACACATGATTCG 57.174 29.630 0.00 0.00 33.50 3.34
5569 7282 0.316689 GTTGCGTACAGTGCACCAAC 60.317 55.000 14.63 15.13 43.10 3.77
5570 7283 1.440938 TTGCGTACAGTGCACCAACC 61.441 55.000 14.63 4.61 43.10 3.77
5582 7295 3.642503 CCAACCCCTACCACCGCA 61.643 66.667 0.00 0.00 0.00 5.69
5607 7320 4.437390 GGACGATAACAATGAAGCCAACAG 60.437 45.833 0.00 0.00 0.00 3.16
5646 7359 0.987294 CTCCCACCACCTCTTGTCAT 59.013 55.000 0.00 0.00 0.00 3.06
5661 7377 1.134431 TGTCATCATCACCACCATCGG 60.134 52.381 0.00 0.00 0.00 4.18
5694 7413 0.842030 TGGTGTGGCAATCTCCTCCT 60.842 55.000 0.00 0.00 0.00 3.69
5723 7442 2.103941 CTGAATCCTGGTCTCCTTAGGC 59.896 54.545 0.00 0.00 0.00 3.93
5724 7443 2.119495 GAATCCTGGTCTCCTTAGGCA 58.881 52.381 0.00 0.00 0.00 4.75
5727 7446 0.909610 CCTGGTCTCCTTAGGCACCA 60.910 60.000 17.44 17.44 35.20 4.17
5729 7448 2.398588 CTGGTCTCCTTAGGCACCATA 58.601 52.381 18.37 2.02 35.69 2.74
5730 7449 2.975489 CTGGTCTCCTTAGGCACCATAT 59.025 50.000 18.37 0.00 35.69 1.78
5731 7450 3.392616 CTGGTCTCCTTAGGCACCATATT 59.607 47.826 18.37 0.00 35.69 1.28
5748 7467 7.222872 CACCATATTATTCTTCTCTTCAGCCT 58.777 38.462 0.00 0.00 0.00 4.58
5771 7490 1.621992 TCTTCTCTGCGTCCTCTTGT 58.378 50.000 0.00 0.00 0.00 3.16
5834 7556 2.970639 CCTTTCCGCTCTCCGTGA 59.029 61.111 0.00 0.00 34.38 4.35
6148 7879 0.109532 TTCATGAACCCTGCGACCAA 59.890 50.000 3.38 0.00 0.00 3.67
6226 7958 0.733223 GAAGGAAGACGCGGTGAGAC 60.733 60.000 12.47 0.00 0.00 3.36
6386 8122 2.158914 TGATAGACGTACAGGGACGCTA 60.159 50.000 3.53 7.23 46.87 4.26
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
63 64 2.105128 GGATCTGGACACCGAGCG 59.895 66.667 0.00 0.00 0.00 5.03
70 71 0.753479 GAGAGGCTCGGATCTGGACA 60.753 60.000 9.22 0.00 0.00 4.02
189 200 4.553156 GCAGTCGCTCTACAGATACAGTAC 60.553 50.000 0.00 0.00 34.30 2.73
205 216 3.695606 TCACTCCCTGGCAGTCGC 61.696 66.667 14.43 0.00 37.44 5.19
212 223 2.667418 CCAGCAGTCACTCCCTGG 59.333 66.667 6.64 6.64 38.93 4.45
220 231 2.553602 CAGCACATAAAACCAGCAGTCA 59.446 45.455 0.00 0.00 0.00 3.41
223 234 4.157289 AGAATCAGCACATAAAACCAGCAG 59.843 41.667 0.00 0.00 0.00 4.24
259 270 4.394920 GCCGAGGAAACAAACTGATCATTA 59.605 41.667 0.00 0.00 0.00 1.90
260 271 3.191371 GCCGAGGAAACAAACTGATCATT 59.809 43.478 0.00 0.00 0.00 2.57
299 310 5.870978 CAGAACTGGAGGCAAATTAAATTGG 59.129 40.000 5.45 0.00 0.00 3.16
300 311 6.458210 ACAGAACTGGAGGCAAATTAAATTG 58.542 36.000 6.76 0.00 34.19 2.32
330 360 4.703575 GTCCTGGTACTACGGATATGCATA 59.296 45.833 9.27 9.27 0.00 3.14
391 421 9.574516 AGAGTTCAAGTTAAACACAGGATTTAT 57.425 29.630 0.00 0.00 0.00 1.40
436 467 3.485463 TGTCTGGGATCAAAACGTCTT 57.515 42.857 0.00 0.00 0.00 3.01
454 488 0.991920 ACATTCAGGGGAACGGATGT 59.008 50.000 0.00 0.00 35.46 3.06
494 532 2.158519 TCAGGCATGAAGGCATCATCAT 60.159 45.455 0.00 0.00 45.91 2.45
495 533 1.213430 TCAGGCATGAAGGCATCATCA 59.787 47.619 0.00 0.00 45.91 3.07
625 663 2.224426 ACACTCGGAATGTTTAGCCACA 60.224 45.455 0.00 0.00 0.00 4.17
626 664 2.423577 ACACTCGGAATGTTTAGCCAC 58.576 47.619 0.00 0.00 0.00 5.01
627 665 2.851263 ACACTCGGAATGTTTAGCCA 57.149 45.000 0.00 0.00 0.00 4.75
641 679 6.599638 AGCCAGGATGTTTCTTTATAACACTC 59.400 38.462 0.00 0.00 38.23 3.51
645 683 7.418408 GCTAAGCCAGGATGTTTCTTTATAAC 58.582 38.462 0.00 0.00 0.00 1.89
646 684 7.568199 GCTAAGCCAGGATGTTTCTTTATAA 57.432 36.000 0.00 0.00 0.00 0.98
689 727 7.867921 TGGGCTCCTTCAGTAAGAATTAATAA 58.132 34.615 0.00 0.00 35.25 1.40
691 729 6.327386 TGGGCTCCTTCAGTAAGAATTAAT 57.673 37.500 0.00 0.00 35.25 1.40
705 743 1.207488 TACTGTGGCATGGGCTCCTT 61.207 55.000 0.00 0.00 40.87 3.36
734 867 8.610248 TTATTCGTCCTTTTCATGTAGACAAA 57.390 30.769 0.00 0.00 0.00 2.83
739 872 8.648557 TGATCTTATTCGTCCTTTTCATGTAG 57.351 34.615 0.00 0.00 0.00 2.74
764 898 5.319043 TCCTCCAAACCAAATCAGTACTT 57.681 39.130 0.00 0.00 0.00 2.24
785 919 7.414540 GGGATCCGAAATTATCACAGCATATTC 60.415 40.741 5.45 0.00 0.00 1.75
796 930 3.756117 AGCCAAGGGATCCGAAATTATC 58.244 45.455 5.45 0.00 0.00 1.75
804 938 1.625818 AGCTAATAGCCAAGGGATCCG 59.374 52.381 8.88 0.00 43.77 4.18
825 960 9.764870 GCACATACAGCAAAATATATATCTGTG 57.235 33.333 18.38 9.79 36.37 3.66
864 1003 9.237187 GGCAAGGGATCCAAAATAAAAATAAAA 57.763 29.630 15.23 0.00 0.00 1.52
867 1006 7.181845 ACAGGCAAGGGATCCAAAATAAAAATA 59.818 33.333 15.23 0.00 0.00 1.40
945 1084 2.825532 CAGGAACATTGGTTGGTAAGGG 59.174 50.000 0.00 0.00 37.36 3.95
983 1134 7.702348 GCCATCTTTCTACACCATACAAAAATC 59.298 37.037 0.00 0.00 0.00 2.17
990 1141 4.757149 GGATGCCATCTTTCTACACCATAC 59.243 45.833 4.41 0.00 0.00 2.39
991 1142 4.202461 GGGATGCCATCTTTCTACACCATA 60.202 45.833 4.41 0.00 0.00 2.74
1010 1161 2.858768 AGGGTATCCAACAATGTGGGAT 59.141 45.455 24.35 24.35 46.95 3.85
1265 1416 1.001641 GGTGCTGTGGCCAATCTCT 60.002 57.895 7.24 0.00 37.74 3.10
1274 1425 2.839486 TTGAGAAGTAGGTGCTGTGG 57.161 50.000 0.00 0.00 0.00 4.17
1466 1627 1.252904 TTGCTGGGCTCAATTCAGGC 61.253 55.000 0.00 0.00 38.25 4.85
1584 2041 5.633830 AATCATGTGCAAGGAAACTACTG 57.366 39.130 0.00 0.00 42.68 2.74
1962 2908 0.655733 GCATGCAGGCATCATTTTGC 59.344 50.000 20.11 1.60 42.01 3.68
2146 3092 7.476540 AGTTAAAAGAAAAGGAGTTGGTTGT 57.523 32.000 0.00 0.00 0.00 3.32
2216 3162 0.250640 CCTTCAGCTCAGCCACAACT 60.251 55.000 0.00 0.00 0.00 3.16
2293 3240 2.177654 GAACGCGGCCAATTCGTGAA 62.178 55.000 12.47 0.00 40.11 3.18
2416 3363 5.236047 GGCTGAGTAGAATTGATTAGCACTG 59.764 44.000 0.00 0.00 0.00 3.66
2437 3384 2.230266 ACTTGAAACACACAAAACGGCT 59.770 40.909 0.00 0.00 0.00 5.52
2482 3430 9.059260 TCCTGTGGTTACAAAAGAATTAGTTAC 57.941 33.333 0.00 0.00 36.14 2.50
2576 3541 3.243907 GGATACCAGCGCTCTTGATAAGT 60.244 47.826 7.13 0.00 0.00 2.24
2771 3736 8.837389 AGTTTCACCTAAAGAACTGTAAATGTC 58.163 33.333 0.00 0.00 0.00 3.06
2777 3742 7.281549 GGTCAAAGTTTCACCTAAAGAACTGTA 59.718 37.037 0.66 0.00 0.00 2.74
2804 3769 7.067494 AGGCAACATATTTTCATAGGAACTGAC 59.933 37.037 0.00 0.00 38.50 3.51
2821 3786 7.296628 ACTTGGTTTTATTTGAGGCAACATA 57.703 32.000 0.00 0.00 41.41 2.29
2897 3891 9.383519 CAGTATAGAACAAATACCAACATCTGT 57.616 33.333 0.00 0.00 31.41 3.41
3007 4014 3.547054 ACATAAAGCAATGGCAATGGG 57.453 42.857 4.47 0.00 44.61 4.00
3235 4417 7.015098 TCAGGCTATAATGAGAGAGAGAAAAGG 59.985 40.741 0.00 0.00 0.00 3.11
3236 4418 7.950512 TCAGGCTATAATGAGAGAGAGAAAAG 58.049 38.462 0.00 0.00 0.00 2.27
3436 4637 7.847096 ACTCTTAATGTGTGTGTATATGACCA 58.153 34.615 0.00 0.00 0.00 4.02
3718 4948 5.524646 CCTGCAGTGACACAAATTTTCAATT 59.475 36.000 13.81 0.00 0.00 2.32
4037 5290 7.042335 GCACATACACTAAGTTACCAGAGAAT 58.958 38.462 0.00 0.00 0.00 2.40
4378 5695 0.108804 ACATCTACGTGAAGGCCGTG 60.109 55.000 0.00 0.00 39.22 4.94
4392 5709 9.449719 CCAATTAGTAGGAGTTAAAACACATCT 57.550 33.333 0.00 0.00 0.00 2.90
4395 5712 9.492973 GTACCAATTAGTAGGAGTTAAAACACA 57.507 33.333 0.00 0.00 0.00 3.72
4416 5733 3.688694 ATAACAAGAAGTGGCGTACCA 57.311 42.857 0.00 0.00 46.51 3.25
4433 5750 6.070481 TGGTAGCATGTCTCAAACCTGTATAA 60.070 38.462 0.00 0.00 0.00 0.98
4563 5889 2.346099 ATTTGTTACACATGCCACGC 57.654 45.000 0.00 0.00 0.00 5.34
4564 5890 3.412654 CGTATTTGTTACACATGCCACG 58.587 45.455 0.00 0.00 0.00 4.94
4646 5972 2.786539 AAGCATGCTCCGACTTGCGA 62.787 55.000 22.93 0.00 43.43 5.10
4797 6124 2.287608 GCCCAGGAAACAAAAAGTCTCG 60.288 50.000 0.00 0.00 0.00 4.04
4805 6132 2.627699 GTGAATCTGCCCAGGAAACAAA 59.372 45.455 0.00 0.00 0.00 2.83
4808 6135 1.541588 GTGTGAATCTGCCCAGGAAAC 59.458 52.381 0.00 0.00 0.00 2.78
4976 6311 1.683917 GAGTGGATGTCATAGACGCCT 59.316 52.381 9.31 0.00 34.95 5.52
4985 6320 1.616327 CCTGGGGGAGTGGATGTCA 60.616 63.158 0.00 0.00 33.58 3.58
5185 6520 2.948720 GCTTCCGTGGCTCCTCACT 61.949 63.158 0.00 0.00 35.63 3.41
5186 6521 2.435059 GCTTCCGTGGCTCCTCAC 60.435 66.667 0.00 0.00 0.00 3.51
5187 6522 4.069232 CGCTTCCGTGGCTCCTCA 62.069 66.667 0.00 0.00 0.00 3.86
5188 6523 3.708220 CTCGCTTCCGTGGCTCCTC 62.708 68.421 0.00 0.00 35.54 3.71
5189 6524 3.764466 CTCGCTTCCGTGGCTCCT 61.764 66.667 0.00 0.00 35.54 3.69
5191 6526 4.742201 TGCTCGCTTCCGTGGCTC 62.742 66.667 0.00 0.00 36.14 4.70
5192 6527 4.749310 CTGCTCGCTTCCGTGGCT 62.749 66.667 0.00 0.00 36.14 4.75
5195 6530 4.749310 AGGCTGCTCGCTTCCGTG 62.749 66.667 0.00 0.00 39.13 4.94
5196 6531 4.749310 CAGGCTGCTCGCTTCCGT 62.749 66.667 0.00 0.00 39.13 4.69
5197 6532 2.355445 TATCAGGCTGCTCGCTTCCG 62.355 60.000 10.34 0.00 39.13 4.30
5198 6533 0.878086 GTATCAGGCTGCTCGCTTCC 60.878 60.000 10.34 0.00 39.13 3.46
5199 6534 0.103937 AGTATCAGGCTGCTCGCTTC 59.896 55.000 10.34 0.00 39.13 3.86
5200 6535 1.067821 GTAGTATCAGGCTGCTCGCTT 59.932 52.381 10.34 0.00 39.13 4.68
5203 6538 2.414058 CAGTAGTATCAGGCTGCTCG 57.586 55.000 10.34 0.00 0.00 5.03
5207 6542 4.039730 ACAATAGGCAGTAGTATCAGGCTG 59.960 45.833 8.58 8.58 38.00 4.85
5222 6557 2.231235 CTGTCCCCACAAAACAATAGGC 59.769 50.000 0.00 0.00 29.82 3.93
5255 6590 6.317642 TCGGATTATTCGAAACAAATGTGGAT 59.682 34.615 0.00 0.00 33.42 3.41
5256 6591 5.644206 TCGGATTATTCGAAACAAATGTGGA 59.356 36.000 0.00 0.00 33.42 4.02
5300 6979 2.674177 GCAAGACTAGCCTAGCGAAACA 60.674 50.000 0.00 0.00 0.00 2.83
5301 6980 1.927838 GCAAGACTAGCCTAGCGAAAC 59.072 52.381 0.00 0.00 0.00 2.78
5302 6981 1.825474 AGCAAGACTAGCCTAGCGAAA 59.175 47.619 0.00 0.00 0.00 3.46
5303 6982 1.475403 AGCAAGACTAGCCTAGCGAA 58.525 50.000 0.00 0.00 0.00 4.70
5304 6983 1.948145 GTAGCAAGACTAGCCTAGCGA 59.052 52.381 0.00 0.00 0.00 4.93
5305 6984 1.334239 CGTAGCAAGACTAGCCTAGCG 60.334 57.143 0.00 0.00 0.00 4.26
5306 6985 1.001158 CCGTAGCAAGACTAGCCTAGC 60.001 57.143 0.00 0.00 0.00 3.42
5307 6986 2.299521 ACCGTAGCAAGACTAGCCTAG 58.700 52.381 0.00 0.00 0.00 3.02
5309 6988 2.431954 TACCGTAGCAAGACTAGCCT 57.568 50.000 0.00 0.00 0.00 4.58
5312 6996 5.056894 ACAGTTTACCGTAGCAAGACTAG 57.943 43.478 0.00 0.00 0.00 2.57
5318 7002 5.299148 ACACATAACAGTTTACCGTAGCAA 58.701 37.500 0.00 0.00 0.00 3.91
5324 7008 5.660629 TGTCAACACATAACAGTTTACCG 57.339 39.130 0.00 0.00 0.00 4.02
5334 7018 9.665719 ACATAGATACAACATGTCAACACATAA 57.334 29.630 0.00 0.00 41.69 1.90
5337 7021 7.977789 AACATAGATACAACATGTCAACACA 57.022 32.000 0.00 0.00 36.78 3.72
5368 7052 0.882042 ACAAGCTCAAGACCGCACAG 60.882 55.000 0.00 0.00 0.00 3.66
5371 7055 0.880278 GACACAAGCTCAAGACCGCA 60.880 55.000 0.00 0.00 0.00 5.69
5372 7056 0.601311 AGACACAAGCTCAAGACCGC 60.601 55.000 0.00 0.00 0.00 5.68
5373 7057 1.423395 GAGACACAAGCTCAAGACCG 58.577 55.000 0.00 0.00 32.67 4.79
5374 7058 1.269831 ACGAGACACAAGCTCAAGACC 60.270 52.381 0.00 0.00 32.67 3.85
5375 7059 2.141535 ACGAGACACAAGCTCAAGAC 57.858 50.000 0.00 0.00 32.67 3.01
5377 7061 1.070309 GCAACGAGACACAAGCTCAAG 60.070 52.381 0.00 0.00 32.67 3.02
5378 7062 0.937304 GCAACGAGACACAAGCTCAA 59.063 50.000 0.00 0.00 32.67 3.02
5380 7064 1.488957 CGCAACGAGACACAAGCTC 59.511 57.895 0.00 0.00 0.00 4.09
5381 7065 1.956170 CCGCAACGAGACACAAGCT 60.956 57.895 0.00 0.00 0.00 3.74
5382 7066 1.772063 AACCGCAACGAGACACAAGC 61.772 55.000 0.00 0.00 0.00 4.01
5383 7067 1.493772 TAACCGCAACGAGACACAAG 58.506 50.000 0.00 0.00 0.00 3.16
5385 7069 3.300852 TTATAACCGCAACGAGACACA 57.699 42.857 0.00 0.00 0.00 3.72
5386 7070 3.061697 CCTTTATAACCGCAACGAGACAC 59.938 47.826 0.00 0.00 0.00 3.67
5387 7071 3.255725 CCTTTATAACCGCAACGAGACA 58.744 45.455 0.00 0.00 0.00 3.41
5389 7073 2.496871 TCCCTTTATAACCGCAACGAGA 59.503 45.455 0.00 0.00 0.00 4.04
5391 7075 2.234414 ACTCCCTTTATAACCGCAACGA 59.766 45.455 0.00 0.00 0.00 3.85
5392 7076 2.624636 ACTCCCTTTATAACCGCAACG 58.375 47.619 0.00 0.00 0.00 4.10
5393 7077 4.004982 TCAACTCCCTTTATAACCGCAAC 58.995 43.478 0.00 0.00 0.00 4.17
5394 7078 4.289238 TCAACTCCCTTTATAACCGCAA 57.711 40.909 0.00 0.00 0.00 4.85
5407 7119 3.791245 TGCACAACAATTTTCAACTCCC 58.209 40.909 0.00 0.00 0.00 4.30
5466 7179 6.535150 GTCATCTGAGAACGGATTCACAAATA 59.465 38.462 0.00 0.00 39.79 1.40
5471 7184 3.849911 TGTCATCTGAGAACGGATTCAC 58.150 45.455 0.00 0.00 39.79 3.18
5478 7191 3.182967 GCCTAACTGTCATCTGAGAACG 58.817 50.000 0.00 0.00 0.00 3.95
5482 7195 2.741228 GCCTGCCTAACTGTCATCTGAG 60.741 54.545 0.00 0.00 0.00 3.35
5483 7196 1.208052 GCCTGCCTAACTGTCATCTGA 59.792 52.381 0.00 0.00 0.00 3.27
5484 7197 1.065926 TGCCTGCCTAACTGTCATCTG 60.066 52.381 0.00 0.00 0.00 2.90
5485 7198 1.209019 CTGCCTGCCTAACTGTCATCT 59.791 52.381 0.00 0.00 0.00 2.90
5486 7199 1.661341 CTGCCTGCCTAACTGTCATC 58.339 55.000 0.00 0.00 0.00 2.92
5487 7200 0.254178 CCTGCCTGCCTAACTGTCAT 59.746 55.000 0.00 0.00 0.00 3.06
5488 7201 1.679311 CCTGCCTGCCTAACTGTCA 59.321 57.895 0.00 0.00 0.00 3.58
5489 7202 1.078143 CCCTGCCTGCCTAACTGTC 60.078 63.158 0.00 0.00 0.00 3.51
5490 7203 0.546747 TACCCTGCCTGCCTAACTGT 60.547 55.000 0.00 0.00 0.00 3.55
5498 7211 1.474077 CAATTTCTGTACCCTGCCTGC 59.526 52.381 0.00 0.00 0.00 4.85
5515 7228 7.822334 TCCGAATCATGTGTAAAAGACTACAAT 59.178 33.333 0.00 0.00 33.66 2.71
5555 7268 0.688487 TAGGGGTTGGTGCACTGTAC 59.312 55.000 17.98 11.82 0.00 2.90
5569 7282 3.006728 TCCTTGCGGTGGTAGGGG 61.007 66.667 0.00 0.00 0.00 4.79
5570 7283 2.267961 GTCCTTGCGGTGGTAGGG 59.732 66.667 0.00 0.00 0.00 3.53
5582 7295 3.950397 TGGCTTCATTGTTATCGTCCTT 58.050 40.909 0.00 0.00 0.00 3.36
5607 7320 3.873883 GCTCACGCCTCTGCATGC 61.874 66.667 11.82 11.82 37.32 4.06
5609 7322 1.449246 GAAGCTCACGCCTCTGCAT 60.449 57.895 0.00 0.00 37.32 3.96
5646 7359 1.275666 AGAACCGATGGTGGTGATGA 58.724 50.000 0.00 0.00 42.89 2.92
5661 7377 1.267806 CACACCAGATGCACCAAGAAC 59.732 52.381 0.00 0.00 0.00 3.01
5694 7413 4.219115 GAGACCAGGATTCAGATACAGGA 58.781 47.826 0.00 0.00 0.00 3.86
5723 7442 7.222872 AGGCTGAAGAGAAGAATAATATGGTG 58.777 38.462 0.00 0.00 0.00 4.17
5724 7443 7.385894 AGGCTGAAGAGAAGAATAATATGGT 57.614 36.000 0.00 0.00 0.00 3.55
5727 7446 9.336171 GAACAAGGCTGAAGAGAAGAATAATAT 57.664 33.333 0.00 0.00 0.00 1.28
5729 7448 7.401246 AGAACAAGGCTGAAGAGAAGAATAAT 58.599 34.615 0.00 0.00 0.00 1.28
5730 7449 6.773638 AGAACAAGGCTGAAGAGAAGAATAA 58.226 36.000 0.00 0.00 0.00 1.40
5731 7450 6.365970 AGAACAAGGCTGAAGAGAAGAATA 57.634 37.500 0.00 0.00 0.00 1.75
5748 7467 1.964223 AGAGGACGCAGAGAAGAACAA 59.036 47.619 0.00 0.00 0.00 2.83
5915 7646 1.141053 GGATCACCACTATCACCACCC 59.859 57.143 0.00 0.00 35.97 4.61
5925 7656 1.852157 TGCCCAAGGGATCACCACT 60.852 57.895 9.92 0.00 43.89 4.00
6009 7740 1.885163 AAGTCGTTCCCGGTGCCTAG 61.885 60.000 0.00 0.00 33.95 3.02
6011 7742 3.239253 AAGTCGTTCCCGGTGCCT 61.239 61.111 0.00 0.00 33.95 4.75
6148 7879 2.902486 TCTGAAGATGTCTGTCTTGCCT 59.098 45.455 0.00 0.00 38.51 4.75
6386 8122 1.134848 GCTGAAAGATCCGAGAGCAGT 60.135 52.381 0.00 0.00 34.07 4.40


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

AutoCloner maintained by Alex Coulton.