Multiple sequence alignment - TraesCS2B01G162000

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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 TraesCS2B01G162000 chr2B 100.000 6978 0 0 1 6978 134997561 135004538 0.000000e+00 12887.0
1 TraesCS2B01G162000 chr2B 95.122 123 3 3 3481 3601 576089626 576089747 2.570000e-44 191.0
2 TraesCS2B01G162000 chr2D 95.439 3420 97 28 3586 6978 83134223 83137610 0.000000e+00 5397.0
3 TraesCS2B01G162000 chr2D 94.091 3469 119 29 33 3482 83130823 83134224 0.000000e+00 5192.0
4 TraesCS2B01G162000 chr2D 95.798 119 4 1 3481 3598 627971513 627971631 2.570000e-44 191.0
5 TraesCS2B01G162000 chr2D 95.763 118 4 1 3470 3587 21049375 21049259 9.240000e-44 189.0
6 TraesCS2B01G162000 chr2A 93.721 3424 135 37 3586 6978 83821861 83825235 0.000000e+00 5059.0
7 TraesCS2B01G162000 chr2A 92.768 1922 97 17 1597 3482 83819947 83821862 0.000000e+00 2741.0
8 TraesCS2B01G162000 chr2A 90.748 1632 92 22 3 1597 83818173 83819782 0.000000e+00 2122.0
9 TraesCS2B01G162000 chr2A 98.198 111 2 0 3481 3591 1902496 1902386 1.990000e-45 195.0
10 TraesCS2B01G162000 chr3D 98.198 111 2 0 3477 3587 551006269 551006379 1.990000e-45 195.0
11 TraesCS2B01G162000 chr5D 96.552 116 4 0 3475 3590 339105180 339105065 7.140000e-45 193.0
12 TraesCS2B01G162000 chr6B 95.798 119 4 1 3472 3589 465153095 465153213 2.570000e-44 191.0
13 TraesCS2B01G162000 chr4B 95.726 117 5 0 3474 3590 386723627 386723511 9.240000e-44 189.0
14 TraesCS2B01G162000 chr5B 93.651 126 6 2 3481 3604 697185041 697184916 3.320000e-43 187.0
15 TraesCS2B01G162000 chr3A 90.517 116 9 2 1420 1535 509883434 509883547 1.210000e-32 152.0
16 TraesCS2B01G162000 chr3B 87.931 116 11 2 1420 1535 506247206 506247318 4.390000e-27 134.0
17 TraesCS2B01G162000 chr7B 100.000 29 0 0 1568 1596 687682679 687682651 4.000000e-03 54.7
18 TraesCS2B01G162000 chr6A 100.000 28 0 0 1570 1597 33013683 33013710 1.300000e-02 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 TraesCS2B01G162000 chr2B 134997561 135004538 6977 False 12887.000000 12887 100.000000 1 6978 1 chr2B.!!$F1 6977
1 TraesCS2B01G162000 chr2D 83130823 83137610 6787 False 5294.500000 5397 94.765000 33 6978 2 chr2D.!!$F2 6945
2 TraesCS2B01G162000 chr2A 83818173 83825235 7062 False 3307.333333 5059 92.412333 3 6978 3 chr2A.!!$F1 6975

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
173 174 0.542938 CACCTCCACAGACTCCTCCA 60.543 60.0 0.0 0.0 0.00 3.86 F
293 295 0.746659 AGCACCAAACAAGCAGGAAC 59.253 50.0 0.0 0.0 0.00 3.62 F
795 821 1.572085 CCACGTCTCAGCAAAGCAGG 61.572 60.0 0.0 0.0 0.00 4.85 F
2022 2241 0.882927 TGGCTCCGTTTTCAGGTTCG 60.883 55.0 0.0 0.0 0.00 3.95 F
3492 3737 0.333993 TAGCACCTACTCCCTCCGTT 59.666 55.0 0.0 0.0 0.00 4.44 F
4798 5057 0.467844 ACTGCATTGTCCACCTGCAA 60.468 50.0 0.0 0.0 44.59 4.08 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1200 1233 0.324091 CCAAATCCTTCAGGCTGCCT 60.324 55.000 17.22 17.22 34.44 4.75 R
2022 2241 0.393537 CCTCACCTGATGCCTGTTCC 60.394 60.000 0.00 0.00 0.00 3.62 R
2578 2809 1.993653 AGGCAAGCCTAGATGTGCA 59.006 52.632 12.82 0.00 46.14 4.57 R
3577 3822 0.037232 GCACCGCATATACTCCCTCC 60.037 60.000 0.00 0.00 0.00 4.30 R
5442 5704 1.144716 CGAGGATAGCTGGCTGCAA 59.855 57.895 18.84 0.00 45.94 4.08 R
6239 6522 0.452784 CGCTGTTAGAAACAAGGCGC 60.453 55.000 11.68 0.00 44.88 6.53 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
23 24 4.494350 AGCTCAACACAGTTTGCTTATG 57.506 40.909 0.00 0.00 0.00 1.90
148 149 2.115911 CGAGTCCTCGTCCTCCCTG 61.116 68.421 8.50 0.00 46.99 4.45
173 174 0.542938 CACCTCCACAGACTCCTCCA 60.543 60.000 0.00 0.00 0.00 3.86
176 177 0.542938 CTCCACAGACTCCTCCACCA 60.543 60.000 0.00 0.00 0.00 4.17
233 234 2.082231 CCTCCACAACATCTGCAGAAG 58.918 52.381 22.50 19.57 0.00 2.85
234 235 2.289882 CCTCCACAACATCTGCAGAAGA 60.290 50.000 24.79 10.12 39.94 2.87
244 245 1.946768 TCTGCAGAAGAAAACCCAACG 59.053 47.619 15.67 0.00 29.54 4.10
285 287 1.110442 CCACTCCAAGCACCAAACAA 58.890 50.000 0.00 0.00 0.00 2.83
293 295 0.746659 AGCACCAAACAAGCAGGAAC 59.253 50.000 0.00 0.00 0.00 3.62
352 354 3.062763 CGCTTCTTCTTCTTCTTGCTGA 58.937 45.455 0.00 0.00 0.00 4.26
400 402 2.579684 CTTCCGCTTCTTCTCCGGGG 62.580 65.000 0.00 0.00 42.18 5.73
629 654 4.465413 GCAGCGAAATGAACCTGC 57.535 55.556 0.00 0.00 43.10 4.85
795 821 1.572085 CCACGTCTCAGCAAAGCAGG 61.572 60.000 0.00 0.00 0.00 4.85
1086 1119 3.900888 AGCGGGAGGTGAGGAAAA 58.099 55.556 0.00 0.00 40.33 2.29
1087 1120 2.151369 AGCGGGAGGTGAGGAAAAA 58.849 52.632 0.00 0.00 40.33 1.94
1134 1167 3.068729 GCTTGGCGATTTCTGGGGC 62.069 63.158 0.00 0.00 0.00 5.80
1200 1233 2.885113 CGATCAGTGGCGAGGACA 59.115 61.111 0.00 0.00 0.00 4.02
1253 1286 2.484889 GGTTTGGTCTGTCACTCTGTC 58.515 52.381 0.00 0.00 0.00 3.51
1277 1310 3.565307 AGGTTGTTTGATTGGCTTCAGA 58.435 40.909 0.00 0.00 0.00 3.27
1323 1356 9.468532 GTGAAATTCATTTGAGCTCTAGTTTTT 57.531 29.630 16.19 6.35 0.00 1.94
1384 1417 3.323403 TCCCATGTTGGTGATTTGGTTTC 59.677 43.478 0.00 0.00 35.17 2.78
1410 1443 4.035091 GCTCGTGGTGATATTTTGTGCATA 59.965 41.667 0.00 0.00 0.00 3.14
1411 1444 5.448496 GCTCGTGGTGATATTTTGTGCATAA 60.448 40.000 0.00 0.00 0.00 1.90
1500 1537 2.870411 ACTTGAACTAAAGCCACGACAC 59.130 45.455 0.00 0.00 0.00 3.67
1561 1598 5.017490 TCAGTGGTTTCTTTGGGTTTGTAA 58.983 37.500 0.00 0.00 0.00 2.41
1599 1801 7.981102 ACCTCTGTTCCTAAATGTAAGAAAC 57.019 36.000 0.00 0.00 0.00 2.78
1699 1901 2.843701 CAAGTATCAGCTAGCAAGGGG 58.156 52.381 18.83 0.70 0.00 4.79
1752 1956 6.510536 TGCATGAACTCACTGAGATATACTG 58.489 40.000 13.25 4.02 33.32 2.74
1790 1994 1.600636 GTGCTTGCTACCTGCCACA 60.601 57.895 0.00 0.00 42.00 4.17
1937 2156 2.583520 CCCTGTCCTGCTCAGCTC 59.416 66.667 0.00 0.00 0.00 4.09
1968 2187 2.032223 CTGCCTGCTGTGACTGCT 59.968 61.111 15.36 0.00 0.00 4.24
1992 2211 2.871216 TTTGTCCGTTGCCACGTCCA 62.871 55.000 9.67 2.53 45.62 4.02
2022 2241 0.882927 TGGCTCCGTTTTCAGGTTCG 60.883 55.000 0.00 0.00 0.00 3.95
2086 2314 4.344978 GGAAGCTCCCAATAGTTTTTCCT 58.655 43.478 0.00 0.00 0.00 3.36
2129 2357 2.290847 TGCTCGGAAGAAGCAGGAT 58.709 52.632 0.00 0.00 41.32 3.24
2161 2389 1.687493 GCAGGTCCTGGGTCTAGCT 60.687 63.158 20.72 0.00 31.21 3.32
2186 2414 1.002857 AGGCCTGCTTATTTGGACCT 58.997 50.000 3.11 0.00 0.00 3.85
2198 2426 6.366061 GCTTATTTGGACCTAGTTTTGCTTTG 59.634 38.462 0.00 0.00 0.00 2.77
2211 2439 4.727507 TTTGCTTTGTGTAGGCTTTTGA 57.272 36.364 0.00 0.00 0.00 2.69
2307 2535 1.842562 ACATGAATACCTGCTGGCTCT 59.157 47.619 9.95 0.00 36.63 4.09
2643 2874 5.009610 GGTCAAAGTCCAGCATTTACTTCAA 59.990 40.000 0.00 0.00 32.42 2.69
2983 3222 4.764679 TTGTGGCACTATGCTAACTTTG 57.235 40.909 19.83 0.00 44.28 2.77
3135 3374 6.389830 TTTTGTTGCTCTGTCAATACATGT 57.610 33.333 2.69 2.69 34.37 3.21
3140 3379 6.368791 TGTTGCTCTGTCAATACATGTAGTTC 59.631 38.462 11.91 5.20 34.37 3.01
3205 3448 9.793259 TGGAATTGTCTAGAAGTTTATTTCTGT 57.207 29.630 0.00 0.00 37.91 3.41
3252 3497 3.013921 GTCTACTCTGGAGTCTGGACTG 58.986 54.545 8.06 0.00 42.66 3.51
3421 3666 1.708341 AAGCTTGGCTGGTGATGTTT 58.292 45.000 0.00 0.00 39.62 2.83
3484 3729 9.726438 AATATTTGGTATCAATAGCACCTACTC 57.274 33.333 1.54 0.00 40.12 2.59
3485 3730 5.546621 TTGGTATCAATAGCACCTACTCC 57.453 43.478 1.54 0.00 40.12 3.85
3486 3731 3.901844 TGGTATCAATAGCACCTACTCCC 59.098 47.826 0.00 0.00 36.00 4.30
3487 3732 4.161102 GGTATCAATAGCACCTACTCCCT 58.839 47.826 0.00 0.00 0.00 4.20
3488 3733 4.221041 GGTATCAATAGCACCTACTCCCTC 59.779 50.000 0.00 0.00 0.00 4.30
3489 3734 2.679082 TCAATAGCACCTACTCCCTCC 58.321 52.381 0.00 0.00 0.00 4.30
3490 3735 1.341531 CAATAGCACCTACTCCCTCCG 59.658 57.143 0.00 0.00 0.00 4.63
3491 3736 0.556747 ATAGCACCTACTCCCTCCGT 59.443 55.000 0.00 0.00 0.00 4.69
3492 3737 0.333993 TAGCACCTACTCCCTCCGTT 59.666 55.000 0.00 0.00 0.00 4.44
3493 3738 0.971447 AGCACCTACTCCCTCCGTTC 60.971 60.000 0.00 0.00 0.00 3.95
3494 3739 1.807886 CACCTACTCCCTCCGTTCG 59.192 63.158 0.00 0.00 0.00 3.95
3495 3740 1.379576 ACCTACTCCCTCCGTTCGG 60.380 63.158 4.74 4.74 0.00 4.30
3496 3741 1.077212 CCTACTCCCTCCGTTCGGA 60.077 63.158 13.34 13.34 0.00 4.55
3497 3742 0.682209 CCTACTCCCTCCGTTCGGAA 60.682 60.000 14.79 0.04 33.41 4.30
3498 3743 1.400737 CTACTCCCTCCGTTCGGAAT 58.599 55.000 14.79 2.09 33.41 3.01
3499 3744 1.755380 CTACTCCCTCCGTTCGGAATT 59.245 52.381 14.79 0.00 33.41 2.17
3500 3745 1.856629 ACTCCCTCCGTTCGGAATTA 58.143 50.000 14.79 2.82 33.41 1.40
3501 3746 1.479730 ACTCCCTCCGTTCGGAATTAC 59.520 52.381 14.79 0.00 33.41 1.89
3502 3747 1.755380 CTCCCTCCGTTCGGAATTACT 59.245 52.381 14.79 0.00 33.41 2.24
3503 3748 2.167900 CTCCCTCCGTTCGGAATTACTT 59.832 50.000 14.79 0.00 33.41 2.24
3504 3749 2.093869 TCCCTCCGTTCGGAATTACTTG 60.094 50.000 14.79 1.97 33.41 3.16
3505 3750 2.354403 CCCTCCGTTCGGAATTACTTGT 60.354 50.000 14.79 0.00 33.41 3.16
3506 3751 2.928116 CCTCCGTTCGGAATTACTTGTC 59.072 50.000 14.79 0.00 33.41 3.18
3507 3752 3.368116 CCTCCGTTCGGAATTACTTGTCT 60.368 47.826 14.79 0.00 33.41 3.41
3508 3753 3.841643 TCCGTTCGGAATTACTTGTCTC 58.158 45.455 11.66 0.00 0.00 3.36
3509 3754 2.597305 CCGTTCGGAATTACTTGTCTCG 59.403 50.000 5.19 0.00 0.00 4.04
3510 3755 2.597305 CGTTCGGAATTACTTGTCTCGG 59.403 50.000 0.00 0.00 0.00 4.63
3511 3756 3.671433 CGTTCGGAATTACTTGTCTCGGA 60.671 47.826 0.00 0.00 0.00 4.55
3512 3757 4.240096 GTTCGGAATTACTTGTCTCGGAA 58.760 43.478 0.00 0.00 0.00 4.30
3513 3758 4.524316 TCGGAATTACTTGTCTCGGAAA 57.476 40.909 0.00 0.00 0.00 3.13
3514 3759 5.080969 TCGGAATTACTTGTCTCGGAAAT 57.919 39.130 0.00 0.00 0.00 2.17
3515 3760 4.868171 TCGGAATTACTTGTCTCGGAAATG 59.132 41.667 0.00 0.00 0.00 2.32
3516 3761 4.034048 CGGAATTACTTGTCTCGGAAATGG 59.966 45.833 0.00 0.00 0.00 3.16
3517 3762 5.183228 GGAATTACTTGTCTCGGAAATGGA 58.817 41.667 0.00 0.00 0.00 3.41
3518 3763 5.823045 GGAATTACTTGTCTCGGAAATGGAT 59.177 40.000 0.00 0.00 0.00 3.41
3519 3764 6.990349 GGAATTACTTGTCTCGGAAATGGATA 59.010 38.462 0.00 0.00 0.00 2.59
3520 3765 7.661847 GGAATTACTTGTCTCGGAAATGGATAT 59.338 37.037 0.00 0.00 0.00 1.63
3521 3766 9.706691 GAATTACTTGTCTCGGAAATGGATATA 57.293 33.333 0.00 0.00 0.00 0.86
3523 3768 9.877178 ATTACTTGTCTCGGAAATGGATATATC 57.123 33.333 3.96 3.96 0.00 1.63
3524 3769 7.546250 ACTTGTCTCGGAAATGGATATATCT 57.454 36.000 12.42 0.00 0.00 1.98
3525 3770 8.651589 ACTTGTCTCGGAAATGGATATATCTA 57.348 34.615 12.42 6.97 0.00 1.98
3526 3771 8.744652 ACTTGTCTCGGAAATGGATATATCTAG 58.255 37.037 12.42 0.00 0.00 2.43
3527 3772 8.879427 TTGTCTCGGAAATGGATATATCTAGA 57.121 34.615 12.42 0.00 0.00 2.43
3528 3773 8.879427 TGTCTCGGAAATGGATATATCTAGAA 57.121 34.615 12.42 0.00 0.00 2.10
3529 3774 8.740906 TGTCTCGGAAATGGATATATCTAGAAC 58.259 37.037 12.42 2.51 0.00 3.01
3530 3775 8.962679 GTCTCGGAAATGGATATATCTAGAACT 58.037 37.037 12.42 0.00 0.00 3.01
3558 3803 9.698309 AAATACGTCTAGATACATCCATTTCTG 57.302 33.333 0.00 0.00 0.00 3.02
3559 3804 5.533482 ACGTCTAGATACATCCATTTCTGC 58.467 41.667 0.00 0.00 0.00 4.26
3560 3805 4.618912 CGTCTAGATACATCCATTTCTGCG 59.381 45.833 0.00 0.00 0.00 5.18
3561 3806 5.562890 CGTCTAGATACATCCATTTCTGCGA 60.563 44.000 0.00 0.00 0.00 5.10
3562 3807 5.631512 GTCTAGATACATCCATTTCTGCGAC 59.368 44.000 0.00 0.00 0.00 5.19
3563 3808 4.406648 AGATACATCCATTTCTGCGACA 57.593 40.909 0.00 0.00 0.00 4.35
3564 3809 4.769688 AGATACATCCATTTCTGCGACAA 58.230 39.130 0.00 0.00 0.00 3.18
3565 3810 4.813161 AGATACATCCATTTCTGCGACAAG 59.187 41.667 0.00 0.00 0.00 3.16
3566 3811 2.783135 ACATCCATTTCTGCGACAAGT 58.217 42.857 0.00 0.00 0.00 3.16
3567 3812 3.937814 ACATCCATTTCTGCGACAAGTA 58.062 40.909 0.00 0.00 0.00 2.24
3568 3813 4.323417 ACATCCATTTCTGCGACAAGTAA 58.677 39.130 0.00 0.00 0.00 2.24
3569 3814 4.943705 ACATCCATTTCTGCGACAAGTAAT 59.056 37.500 0.00 0.00 0.00 1.89
3570 3815 5.415701 ACATCCATTTCTGCGACAAGTAATT 59.584 36.000 0.00 0.00 0.00 1.40
3571 3816 5.545658 TCCATTTCTGCGACAAGTAATTC 57.454 39.130 0.00 0.00 0.00 2.17
3572 3817 4.394920 TCCATTTCTGCGACAAGTAATTCC 59.605 41.667 0.00 0.00 0.00 3.01
3573 3818 4.155826 CCATTTCTGCGACAAGTAATTCCA 59.844 41.667 0.00 0.00 0.00 3.53
3574 3819 5.335583 CCATTTCTGCGACAAGTAATTCCAA 60.336 40.000 0.00 0.00 0.00 3.53
3575 3820 5.759506 TTTCTGCGACAAGTAATTCCAAA 57.240 34.783 0.00 0.00 0.00 3.28
3576 3821 4.742438 TCTGCGACAAGTAATTCCAAAC 57.258 40.909 0.00 0.00 0.00 2.93
3577 3822 3.185594 TCTGCGACAAGTAATTCCAAACG 59.814 43.478 0.00 0.00 0.00 3.60
3578 3823 2.224549 TGCGACAAGTAATTCCAAACGG 59.775 45.455 0.00 0.00 0.00 4.44
3579 3824 2.481185 GCGACAAGTAATTCCAAACGGA 59.519 45.455 0.00 0.00 0.00 4.69
3580 3825 3.424433 GCGACAAGTAATTCCAAACGGAG 60.424 47.826 0.00 0.00 32.88 4.63
3581 3826 3.124636 CGACAAGTAATTCCAAACGGAGG 59.875 47.826 0.00 0.00 32.88 4.30
3582 3827 3.418047 ACAAGTAATTCCAAACGGAGGG 58.582 45.455 0.00 0.00 32.88 4.30
3583 3828 3.073356 ACAAGTAATTCCAAACGGAGGGA 59.927 43.478 0.00 0.00 32.88 4.20
3584 3829 3.629142 AGTAATTCCAAACGGAGGGAG 57.371 47.619 0.00 0.00 34.02 4.30
3603 3848 3.306088 GGAGTATATGCGGTGCTATGTGT 60.306 47.826 0.00 0.00 0.00 3.72
3760 4012 8.409358 ACAGAAGAAATAAGCTTAAACCACAT 57.591 30.769 10.85 0.00 0.00 3.21
4070 4322 5.071788 AGGACTGAAGGTTTGTCTAATCACA 59.928 40.000 0.00 0.00 0.00 3.58
4271 4523 9.174166 TGACATAGCTAAATTTTTAGTCCCTTC 57.826 33.333 0.00 4.86 41.63 3.46
4543 4800 4.382754 GCTTTTGGTGTATTTCTTCTTGCG 59.617 41.667 0.00 0.00 0.00 4.85
4668 4927 5.453198 GGAGGTTCTTTGGAAAGCAATTTCA 60.453 40.000 3.41 0.00 35.99 2.69
4775 5034 6.255020 ACCGAGTAGTATTTTAATGTCTTGCG 59.745 38.462 0.00 0.00 0.00 4.85
4798 5057 0.467844 ACTGCATTGTCCACCTGCAA 60.468 50.000 0.00 0.00 44.59 4.08
4835 5094 7.118825 TCTCTAAAGATCACATGCAGTTGAAAG 59.881 37.037 4.26 0.00 0.00 2.62
4840 5099 6.808829 AGATCACATGCAGTTGAAAGAAAAA 58.191 32.000 4.26 0.00 0.00 1.94
4841 5100 7.439381 AGATCACATGCAGTTGAAAGAAAAAT 58.561 30.769 4.26 0.00 0.00 1.82
4842 5101 6.831727 TCACATGCAGTTGAAAGAAAAATG 57.168 33.333 0.00 0.00 0.00 2.32
4843 5102 5.234757 TCACATGCAGTTGAAAGAAAAATGC 59.765 36.000 1.96 1.96 46.01 3.56
5330 5590 5.743398 TGATGAAGCTGTTTTTCTTTTGACG 59.257 36.000 0.00 0.00 0.00 4.35
5345 5605 6.568869 TCTTTTGACGTTTTCATTGTGGATT 58.431 32.000 0.00 0.00 32.84 3.01
5353 5613 6.432783 ACGTTTTCATTGTGGATTATCCTGAA 59.567 34.615 12.91 10.61 37.46 3.02
5442 5704 0.252696 TAGAGGCACCTGGGTGTGAT 60.253 55.000 19.28 7.29 46.90 3.06
5582 5845 4.887763 TTTTTGCGTGTGTGTGTTTAAC 57.112 36.364 0.00 0.00 0.00 2.01
5618 5886 6.485171 ACTTGCCTACCACTCTAAATGATTT 58.515 36.000 0.00 0.00 0.00 2.17
5630 5898 9.979270 CACTCTAAATGATTTAGCAAGTTAGTG 57.021 33.333 17.83 18.54 41.82 2.74
5864 6141 2.425668 TCATGAGCGAGTCATAACCGAA 59.574 45.455 0.00 0.00 44.73 4.30
5865 6142 3.068165 TCATGAGCGAGTCATAACCGAAT 59.932 43.478 0.00 0.00 44.73 3.34
5890 6167 2.598394 AGGTGTGGCCACATGTGC 60.598 61.111 39.53 26.33 43.97 4.57
6001 6278 2.551459 GCACTACATGATGCAAGATCCC 59.449 50.000 13.88 0.00 41.65 3.85
6029 6306 3.117851 TGATAACACCAGGTGAACCACAA 60.118 43.478 27.39 2.51 36.96 3.33
6067 6344 1.301401 CTTCAAGTTCCGGTCGCCA 60.301 57.895 0.00 0.00 0.00 5.69
6136 6416 6.074142 GCTTGTGAATTGGAGTTTTGCTTTAG 60.074 38.462 0.00 0.00 0.00 1.85
6137 6417 5.288804 TGTGAATTGGAGTTTTGCTTTAGC 58.711 37.500 0.00 0.00 42.50 3.09
6138 6418 5.068987 TGTGAATTGGAGTTTTGCTTTAGCT 59.931 36.000 3.10 0.00 42.66 3.32
6139 6419 5.403466 GTGAATTGGAGTTTTGCTTTAGCTG 59.597 40.000 0.00 0.00 42.66 4.24
6146 6429 5.460091 GGAGTTTTGCTTTAGCTGAAACTTG 59.540 40.000 24.01 0.00 46.85 3.16
6199 6482 1.136147 GCGCCAGTTGCTGATCTTG 59.864 57.895 0.00 0.00 38.05 3.02
6239 6522 4.982916 GTGTACAGAGTGTTCTTGTGTAGG 59.017 45.833 0.00 0.00 29.85 3.18
6271 6554 1.882912 AACAGCGCTCTGATTGACAA 58.117 45.000 7.13 0.00 42.95 3.18
6317 6604 5.308014 TGGTGGATCAATTGATTCTATCCG 58.692 41.667 24.13 0.00 39.20 4.18
6325 6612 5.522460 TCAATTGATTCTATCCGACGGAAAC 59.478 40.000 22.55 3.52 34.34 2.78
6415 6705 1.563435 CTTGTGTGCTCACTGCTCGG 61.563 60.000 18.85 1.07 44.14 4.63
6501 6793 5.794687 TTCTTGTATGCATAAACTCGGTG 57.205 39.130 8.28 0.00 0.00 4.94
6533 6825 2.417379 CGGTCAAGATTCTCGACACCAT 60.417 50.000 7.06 0.00 0.00 3.55
6581 6873 2.876079 GCAAATCCAACGGTTCCTCTCT 60.876 50.000 0.00 0.00 0.00 3.10
6582 6874 2.744202 CAAATCCAACGGTTCCTCTCTG 59.256 50.000 0.00 0.00 0.00 3.35
6583 6875 1.938585 ATCCAACGGTTCCTCTCTGA 58.061 50.000 0.00 0.00 0.00 3.27
6584 6876 1.257743 TCCAACGGTTCCTCTCTGAG 58.742 55.000 0.00 0.00 0.00 3.35
6585 6877 0.969894 CCAACGGTTCCTCTCTGAGT 59.030 55.000 4.32 0.00 0.00 3.41
6586 6878 2.168496 CCAACGGTTCCTCTCTGAGTA 58.832 52.381 4.32 0.00 0.00 2.59
6587 6879 2.761208 CCAACGGTTCCTCTCTGAGTAT 59.239 50.000 4.32 0.00 0.00 2.12
6588 6880 3.952323 CCAACGGTTCCTCTCTGAGTATA 59.048 47.826 4.32 0.00 0.00 1.47
6596 6888 5.512942 TCCTCTCTGAGTATATCTCCTGG 57.487 47.826 4.32 0.00 42.12 4.45
6683 6975 5.184864 TCCTTAAACATTGTGCCATGGTTAG 59.815 40.000 14.67 0.54 32.33 2.34
6757 7049 1.135721 GCTTTGGTGCATCAGGGATTC 59.864 52.381 0.00 0.00 0.00 2.52
6790 7083 2.561037 GCCAAACAACCTCACGGGG 61.561 63.158 0.00 0.00 40.03 5.73
6915 7208 0.179119 ATCTGCGCGTGTAACCCTAC 60.179 55.000 8.43 0.00 0.00 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 5.304778 TCATAAGCAAACTGTGTTGAGCTA 58.695 37.500 9.79 2.64 0.00 3.32
32 33 7.523216 CGCAATCAGGGTTCAGTAGTATATGTA 60.523 40.741 0.00 0.00 0.00 2.29
56 57 0.666880 TGCAATGCACCAATGTTCGC 60.667 50.000 2.72 0.00 31.71 4.70
148 149 1.122019 AGTCTGTGGAGGTGGTGGTC 61.122 60.000 0.00 0.00 0.00 4.02
173 174 3.003763 GGAGGCGAAGGAGGTGGT 61.004 66.667 0.00 0.00 0.00 4.16
233 234 1.682740 TTGAGTCCCGTTGGGTTTTC 58.317 50.000 1.04 0.00 44.74 2.29
234 235 1.752498 GTTTGAGTCCCGTTGGGTTTT 59.248 47.619 1.04 0.00 44.74 2.43
244 245 1.070786 TGCTCGTGGTTTGAGTCCC 59.929 57.895 0.00 0.00 35.85 4.46
285 287 2.217038 TGAGGCTTCGGTTCCTGCT 61.217 57.895 0.00 0.00 31.71 4.24
293 295 4.796231 CGTCCGGTGAGGCTTCGG 62.796 72.222 15.53 15.53 44.59 4.30
352 354 0.321653 AAGGCCAACGCGAAGAAGAT 60.322 50.000 15.93 0.00 35.02 2.40
629 654 4.803908 GGGGCCAGGCGAGGAAAG 62.804 72.222 4.39 0.00 0.00 2.62
795 821 1.303282 GGGTCCCACCTGTCATTCC 59.697 63.158 1.78 0.00 38.64 3.01
816 842 1.376609 GACGGCAATGGTCATGGTCC 61.377 60.000 0.00 0.00 34.56 4.46
1091 1124 9.646427 GCAGGAAACGATTTCTCTCTATATAAT 57.354 33.333 0.00 0.00 39.59 1.28
1134 1167 0.673437 AAAACCACCACCAATCAGCG 59.327 50.000 0.00 0.00 0.00 5.18
1188 1221 3.699894 CTGCCTGTCCTCGCCACT 61.700 66.667 0.00 0.00 0.00 4.00
1200 1233 0.324091 CCAAATCCTTCAGGCTGCCT 60.324 55.000 17.22 17.22 34.44 4.75
1253 1286 3.252215 TGAAGCCAATCAAACAACCTACG 59.748 43.478 0.00 0.00 0.00 3.51
1410 1443 2.897326 GGGAGTGCCATTTTACCAACTT 59.103 45.455 0.00 0.00 35.15 2.66
1411 1444 2.110011 AGGGAGTGCCATTTTACCAACT 59.890 45.455 2.50 0.00 35.15 3.16
1452 1485 3.673809 ACTAAAGCTGAACTAAAGCGACG 59.326 43.478 0.00 0.00 45.59 5.12
1455 1488 5.591643 TGAACTAAAGCTGAACTAAAGCG 57.408 39.130 0.00 0.00 45.59 4.68
1508 1545 1.062810 ACAGGTACTCCCTCTGATCCC 60.063 57.143 3.46 0.00 43.86 3.85
1561 1598 8.104838 AGGAACAGAGGTAGTACTTATCTACT 57.895 38.462 0.00 0.00 38.16 2.57
1752 1956 4.130118 CACTAGGAACCAATGCCTATGTC 58.870 47.826 0.00 0.00 36.26 3.06
1918 2135 3.715097 GCTGAGCAGGACAGGGCT 61.715 66.667 0.00 0.00 44.48 5.19
1968 2187 1.104577 GTGGCAACGGACAAAGGGAA 61.105 55.000 0.00 0.00 42.51 3.97
2022 2241 0.393537 CCTCACCTGATGCCTGTTCC 60.394 60.000 0.00 0.00 0.00 3.62
2086 2314 3.245016 ACAGAGGTGATCAAGCCATCAAA 60.245 43.478 0.00 0.00 34.50 2.69
2129 2357 5.952347 CCAGGACCTGCTACATGTATCTATA 59.048 44.000 16.72 0.00 0.00 1.31
2175 2403 7.147811 ACACAAAGCAAAACTAGGTCCAAATAA 60.148 33.333 0.00 0.00 0.00 1.40
2177 2405 5.128663 ACACAAAGCAAAACTAGGTCCAAAT 59.871 36.000 0.00 0.00 0.00 2.32
2186 2414 5.845391 AAAGCCTACACAAAGCAAAACTA 57.155 34.783 0.00 0.00 0.00 2.24
2198 2426 8.872845 CCAATGAAAATTATCAAAAGCCTACAC 58.127 33.333 0.00 0.00 32.06 2.90
2211 2439 3.909732 TCGGAGGCCCAATGAAAATTAT 58.090 40.909 0.00 0.00 0.00 1.28
2307 2535 2.224992 ACAGTGGTGACAAATATGGGCA 60.225 45.455 0.00 0.00 46.06 5.36
2314 2542 2.806745 CGTGGAGACAGTGGTGACAAAT 60.807 50.000 0.00 0.00 44.46 2.32
2509 2739 5.768980 AATCACACTAGGCATGCCTATAT 57.231 39.130 39.76 29.43 46.46 0.86
2578 2809 1.993653 AGGCAAGCCTAGATGTGCA 59.006 52.632 12.82 0.00 46.14 4.57
2695 2934 6.036517 CCAAATGACAATCTCCGTAGAAAGAG 59.963 42.308 0.00 0.00 34.73 2.85
2696 2935 5.874810 CCAAATGACAATCTCCGTAGAAAGA 59.125 40.000 0.00 0.00 34.73 2.52
2940 3179 4.927978 TTACCAACAACAAACCCATCTG 57.072 40.909 0.00 0.00 0.00 2.90
2983 3222 2.494059 TGCTCTGCCTACAAAGAACAC 58.506 47.619 0.00 0.00 0.00 3.32
3252 3497 3.006967 TCTGGTCTACAAACAGAGAAGGC 59.993 47.826 0.00 0.00 36.41 4.35
3299 3544 3.305744 GCACTATCTTAGCAGCTAGGGAC 60.306 52.174 11.47 0.00 24.77 4.46
3421 3666 8.879759 GTTTTATCCGTGAAGAACAGATGATTA 58.120 33.333 0.00 0.00 0.00 1.75
3474 3719 0.971447 GAACGGAGGGAGTAGGTGCT 60.971 60.000 0.00 0.00 0.00 4.40
3475 3720 1.516423 GAACGGAGGGAGTAGGTGC 59.484 63.158 0.00 0.00 0.00 5.01
3476 3721 1.664321 CCGAACGGAGGGAGTAGGTG 61.664 65.000 7.53 0.00 37.50 4.00
3477 3722 1.379576 CCGAACGGAGGGAGTAGGT 60.380 63.158 7.53 0.00 37.50 3.08
3478 3723 0.682209 TTCCGAACGGAGGGAGTAGG 60.682 60.000 15.34 0.00 46.06 3.18
3480 3725 1.856629 AATTCCGAACGGAGGGAGTA 58.143 50.000 15.34 1.05 46.06 2.59
3481 3726 1.479730 GTAATTCCGAACGGAGGGAGT 59.520 52.381 15.34 4.12 46.06 3.85
3482 3727 1.755380 AGTAATTCCGAACGGAGGGAG 59.245 52.381 15.34 0.00 46.06 4.30
3483 3728 1.856629 AGTAATTCCGAACGGAGGGA 58.143 50.000 15.34 2.49 46.06 4.20
3484 3729 2.277084 CAAGTAATTCCGAACGGAGGG 58.723 52.381 15.34 0.00 46.06 4.30
3485 3730 2.928116 GACAAGTAATTCCGAACGGAGG 59.072 50.000 15.34 4.52 46.06 4.30
3486 3731 3.846360 AGACAAGTAATTCCGAACGGAG 58.154 45.455 15.34 5.60 46.06 4.63
3487 3732 3.671433 CGAGACAAGTAATTCCGAACGGA 60.671 47.826 12.04 12.04 43.52 4.69
3488 3733 2.597305 CGAGACAAGTAATTCCGAACGG 59.403 50.000 6.94 6.94 0.00 4.44
3489 3734 2.597305 CCGAGACAAGTAATTCCGAACG 59.403 50.000 0.00 0.00 0.00 3.95
3490 3735 3.841643 TCCGAGACAAGTAATTCCGAAC 58.158 45.455 0.00 0.00 0.00 3.95
3491 3736 4.524316 TTCCGAGACAAGTAATTCCGAA 57.476 40.909 0.00 0.00 0.00 4.30
3492 3737 4.524316 TTTCCGAGACAAGTAATTCCGA 57.476 40.909 0.00 0.00 0.00 4.55
3493 3738 4.034048 CCATTTCCGAGACAAGTAATTCCG 59.966 45.833 0.00 0.00 0.00 4.30
3494 3739 5.183228 TCCATTTCCGAGACAAGTAATTCC 58.817 41.667 0.00 0.00 0.00 3.01
3495 3740 6.927294 ATCCATTTCCGAGACAAGTAATTC 57.073 37.500 0.00 0.00 0.00 2.17
3497 3742 9.877178 GATATATCCATTTCCGAGACAAGTAAT 57.123 33.333 0.81 0.00 0.00 1.89
3498 3743 9.090103 AGATATATCCATTTCCGAGACAAGTAA 57.910 33.333 9.18 0.00 0.00 2.24
3499 3744 8.651589 AGATATATCCATTTCCGAGACAAGTA 57.348 34.615 9.18 0.00 0.00 2.24
3500 3745 7.546250 AGATATATCCATTTCCGAGACAAGT 57.454 36.000 9.18 0.00 0.00 3.16
3501 3746 8.961634 TCTAGATATATCCATTTCCGAGACAAG 58.038 37.037 9.18 0.00 0.00 3.16
3502 3747 8.879427 TCTAGATATATCCATTTCCGAGACAA 57.121 34.615 9.18 0.00 0.00 3.18
3503 3748 8.740906 GTTCTAGATATATCCATTTCCGAGACA 58.259 37.037 9.18 0.00 0.00 3.41
3504 3749 8.962679 AGTTCTAGATATATCCATTTCCGAGAC 58.037 37.037 9.18 0.00 0.00 3.36
3532 3777 9.698309 CAGAAATGGATGTATCTAGACGTATTT 57.302 33.333 0.00 0.00 0.00 1.40
3533 3778 7.815068 GCAGAAATGGATGTATCTAGACGTATT 59.185 37.037 0.00 0.00 0.00 1.89
3534 3779 7.316640 GCAGAAATGGATGTATCTAGACGTAT 58.683 38.462 0.00 0.00 0.00 3.06
3535 3780 6.567891 CGCAGAAATGGATGTATCTAGACGTA 60.568 42.308 0.00 0.00 0.00 3.57
3536 3781 5.533482 GCAGAAATGGATGTATCTAGACGT 58.467 41.667 0.00 0.00 0.00 4.34
3537 3782 4.618912 CGCAGAAATGGATGTATCTAGACG 59.381 45.833 0.00 0.00 0.00 4.18
3538 3783 5.631512 GTCGCAGAAATGGATGTATCTAGAC 59.368 44.000 0.00 0.00 39.69 2.59
3539 3784 5.301805 TGTCGCAGAAATGGATGTATCTAGA 59.698 40.000 0.00 0.00 39.69 2.43
3540 3785 5.532557 TGTCGCAGAAATGGATGTATCTAG 58.467 41.667 0.00 0.00 39.69 2.43
3541 3786 5.529581 TGTCGCAGAAATGGATGTATCTA 57.470 39.130 0.00 0.00 39.69 1.98
3542 3787 4.406648 TGTCGCAGAAATGGATGTATCT 57.593 40.909 0.00 0.00 39.69 1.98
3543 3788 4.572389 ACTTGTCGCAGAAATGGATGTATC 59.428 41.667 0.00 0.00 39.69 2.24
3544 3789 4.517285 ACTTGTCGCAGAAATGGATGTAT 58.483 39.130 0.00 0.00 39.69 2.29
3545 3790 3.937814 ACTTGTCGCAGAAATGGATGTA 58.062 40.909 0.00 0.00 39.69 2.29
3546 3791 2.783135 ACTTGTCGCAGAAATGGATGT 58.217 42.857 0.00 0.00 39.69 3.06
3547 3792 4.944962 TTACTTGTCGCAGAAATGGATG 57.055 40.909 0.00 0.00 39.69 3.51
3548 3793 5.066505 GGAATTACTTGTCGCAGAAATGGAT 59.933 40.000 0.00 0.00 39.69 3.41
3549 3794 4.394920 GGAATTACTTGTCGCAGAAATGGA 59.605 41.667 0.00 0.00 39.69 3.41
3550 3795 4.155826 TGGAATTACTTGTCGCAGAAATGG 59.844 41.667 0.00 0.00 39.69 3.16
3551 3796 5.295431 TGGAATTACTTGTCGCAGAAATG 57.705 39.130 0.00 0.00 39.69 2.32
3552 3797 5.957842 TTGGAATTACTTGTCGCAGAAAT 57.042 34.783 0.00 0.00 39.69 2.17
3553 3798 5.516090 GTTTGGAATTACTTGTCGCAGAAA 58.484 37.500 0.00 0.00 39.69 2.52
3554 3799 4.319190 CGTTTGGAATTACTTGTCGCAGAA 60.319 41.667 0.00 0.00 39.69 3.02
3555 3800 3.185594 CGTTTGGAATTACTTGTCGCAGA 59.814 43.478 0.00 0.00 0.00 4.26
3556 3801 3.479006 CGTTTGGAATTACTTGTCGCAG 58.521 45.455 0.00 0.00 0.00 5.18
3557 3802 2.224549 CCGTTTGGAATTACTTGTCGCA 59.775 45.455 0.00 0.00 37.49 5.10
3558 3803 2.481185 TCCGTTTGGAATTACTTGTCGC 59.519 45.455 0.00 0.00 42.85 5.19
3559 3804 3.124636 CCTCCGTTTGGAATTACTTGTCG 59.875 47.826 0.00 0.00 45.87 4.35
3560 3805 3.439129 CCCTCCGTTTGGAATTACTTGTC 59.561 47.826 0.00 0.00 45.87 3.18
3561 3806 3.073356 TCCCTCCGTTTGGAATTACTTGT 59.927 43.478 0.00 0.00 45.87 3.16
3562 3807 3.681593 TCCCTCCGTTTGGAATTACTTG 58.318 45.455 0.00 0.00 45.87 3.16
3563 3808 3.329814 ACTCCCTCCGTTTGGAATTACTT 59.670 43.478 0.00 0.00 45.87 2.24
3564 3809 2.910977 ACTCCCTCCGTTTGGAATTACT 59.089 45.455 0.00 0.00 45.87 2.24
3565 3810 3.345508 ACTCCCTCCGTTTGGAATTAC 57.654 47.619 0.00 0.00 45.87 1.89
3566 3811 6.743208 GCATATACTCCCTCCGTTTGGAATTA 60.743 42.308 0.00 0.00 45.87 1.40
3567 3812 5.621193 CATATACTCCCTCCGTTTGGAATT 58.379 41.667 0.00 0.00 45.87 2.17
3568 3813 4.505039 GCATATACTCCCTCCGTTTGGAAT 60.505 45.833 0.00 0.00 45.87 3.01
3569 3814 3.181458 GCATATACTCCCTCCGTTTGGAA 60.181 47.826 0.00 0.00 45.87 3.53
3570 3815 2.367567 GCATATACTCCCTCCGTTTGGA 59.632 50.000 0.00 0.00 43.88 3.53
3571 3816 2.767505 GCATATACTCCCTCCGTTTGG 58.232 52.381 0.00 0.00 0.00 3.28
3572 3817 2.404215 CGCATATACTCCCTCCGTTTG 58.596 52.381 0.00 0.00 0.00 2.93
3573 3818 1.343465 CCGCATATACTCCCTCCGTTT 59.657 52.381 0.00 0.00 0.00 3.60
3574 3819 0.966920 CCGCATATACTCCCTCCGTT 59.033 55.000 0.00 0.00 0.00 4.44
3575 3820 0.178970 ACCGCATATACTCCCTCCGT 60.179 55.000 0.00 0.00 0.00 4.69
3576 3821 0.243907 CACCGCATATACTCCCTCCG 59.756 60.000 0.00 0.00 0.00 4.63
3577 3822 0.037232 GCACCGCATATACTCCCTCC 60.037 60.000 0.00 0.00 0.00 4.30
3578 3823 0.969894 AGCACCGCATATACTCCCTC 59.030 55.000 0.00 0.00 0.00 4.30
3579 3824 2.304221 TAGCACCGCATATACTCCCT 57.696 50.000 0.00 0.00 0.00 4.20
3580 3825 2.233922 ACATAGCACCGCATATACTCCC 59.766 50.000 0.00 0.00 0.00 4.30
3581 3826 3.254060 CACATAGCACCGCATATACTCC 58.746 50.000 0.00 0.00 0.00 3.85
3582 3827 3.914312 ACACATAGCACCGCATATACTC 58.086 45.455 0.00 0.00 0.00 2.59
3583 3828 4.336889 AACACATAGCACCGCATATACT 57.663 40.909 0.00 0.00 0.00 2.12
3584 3829 5.063438 CCATAACACATAGCACCGCATATAC 59.937 44.000 0.00 0.00 0.00 1.47
3603 3848 0.764271 TCGCCATGAGCCATCCATAA 59.236 50.000 0.00 0.00 38.78 1.90
4480 4737 5.938125 AGCAAGTTGGTATAACCTGTTGTAG 59.062 40.000 5.60 0.00 39.58 2.74
4543 4800 2.907910 AATGATCAAGTGCACGCTTC 57.092 45.000 12.01 8.07 0.00 3.86
4668 4927 6.183360 CCTGAACACTTGAACAGAAAAGGAAT 60.183 38.462 0.00 0.00 32.90 3.01
4775 5034 2.863704 GCAGGTGGACAATGCAGTTTTC 60.864 50.000 0.00 0.00 39.75 2.29
4835 5094 4.925068 ACAGTGTCTTCAGTGCATTTTTC 58.075 39.130 0.00 0.00 45.79 2.29
4840 5099 3.999001 CACATACAGTGTCTTCAGTGCAT 59.001 43.478 0.00 0.00 45.79 3.96
4841 5100 3.392882 CACATACAGTGTCTTCAGTGCA 58.607 45.455 0.00 0.00 45.79 4.57
4877 5136 7.886338 ACTGACTGAAAATGAAAATAGTTCCC 58.114 34.615 0.00 0.00 0.00 3.97
4983 5242 9.567848 CATAAGTTTACATAACACCAATGTTCC 57.432 33.333 0.00 0.00 46.46 3.62
5144 5404 3.238597 GCCATTGCCCCCTTCATATAAA 58.761 45.455 0.00 0.00 0.00 1.40
5307 5567 5.743872 ACGTCAAAAGAAAAACAGCTTCATC 59.256 36.000 0.00 0.00 0.00 2.92
5330 5590 7.601856 TGTTCAGGATAATCCACAATGAAAAC 58.398 34.615 0.00 0.00 39.61 2.43
5404 5666 2.261671 CCAACTGGTCGAGGTCCG 59.738 66.667 0.00 0.00 40.25 4.79
5442 5704 1.144716 CGAGGATAGCTGGCTGCAA 59.855 57.895 18.84 0.00 45.94 4.08
5450 5712 2.763448 AGAAGCTCAAACGAGGATAGCT 59.237 45.455 0.00 0.00 45.12 3.32
5487 5749 3.414700 GCAGACAACCACGAGGCG 61.415 66.667 0.00 0.00 39.06 5.52
5493 5755 2.215942 AAATAGGGGCAGACAACCAC 57.784 50.000 0.00 0.00 0.00 4.16
5573 5836 8.578374 GCAAGTTAATGCAAGGTGTTAAACACA 61.578 37.037 0.00 0.00 46.71 3.72
5864 6141 2.586425 GTGGCCACACCTGCATAATAT 58.414 47.619 31.23 0.00 41.84 1.28
5865 6142 2.051334 GTGGCCACACCTGCATAATA 57.949 50.000 31.23 0.00 41.84 0.98
5890 6167 3.859443 AGAAGAGCAGTTCATACAGCAG 58.141 45.455 1.40 0.00 39.08 4.24
6001 6278 2.173669 CCTGGTGTTATCAGGCGCG 61.174 63.158 0.00 0.00 44.29 6.86
6029 6306 4.618920 AGTATCAGGTGGTTTCGAAAGT 57.381 40.909 11.66 0.00 0.00 2.66
6136 6416 3.572584 CTCCATTGCTTCAAGTTTCAGC 58.427 45.455 0.00 0.00 0.00 4.26
6137 6417 3.613432 GCCTCCATTGCTTCAAGTTTCAG 60.613 47.826 0.00 0.00 0.00 3.02
6138 6418 2.297033 GCCTCCATTGCTTCAAGTTTCA 59.703 45.455 0.00 0.00 0.00 2.69
6139 6419 2.560105 AGCCTCCATTGCTTCAAGTTTC 59.440 45.455 0.00 0.00 34.87 2.78
6146 6429 3.205784 ACTATGAGCCTCCATTGCTTC 57.794 47.619 0.00 0.00 39.69 3.86
6199 6482 6.477688 TCTGTACACAACTGTAAAGTACAAGC 59.522 38.462 15.36 0.00 42.86 4.01
6239 6522 0.452784 CGCTGTTAGAAACAAGGCGC 60.453 55.000 11.68 0.00 44.88 6.53
6271 6554 7.290248 ACCAGTAAATACTACTAGCATCCATGT 59.710 37.037 0.00 0.00 34.13 3.21
6317 6604 3.059461 TCAAACAACATAGCGTTTCCGTC 60.059 43.478 0.00 0.00 34.86 4.79
6325 6612 6.305399 CCTTTACAATGTCAAACAACATAGCG 59.695 38.462 0.00 0.00 38.92 4.26
6387 6677 2.225019 GTGAGCACACAAGAACATCAGG 59.775 50.000 9.58 0.00 45.32 3.86
6388 6678 3.532892 GTGAGCACACAAGAACATCAG 57.467 47.619 9.58 0.00 45.32 2.90
6415 6705 5.470098 TCTTCTGTGGCTAGACAAAATCAAC 59.530 40.000 0.00 0.00 0.00 3.18
6501 6793 4.631813 AGAATCTTGACCGTTGATAACAGC 59.368 41.667 0.00 0.00 0.00 4.40
6581 6873 4.034285 TGCGATCCAGGAGATATACTCA 57.966 45.455 0.00 0.00 46.54 3.41
6582 6874 6.294453 CCATATGCGATCCAGGAGATATACTC 60.294 46.154 0.00 0.00 44.24 2.59
6583 6875 5.538053 CCATATGCGATCCAGGAGATATACT 59.462 44.000 0.00 0.00 34.42 2.12
6584 6876 5.536538 TCCATATGCGATCCAGGAGATATAC 59.463 44.000 0.00 0.00 34.42 1.47
6585 6877 5.705400 TCCATATGCGATCCAGGAGATATA 58.295 41.667 0.00 0.00 34.42 0.86
6586 6878 4.550669 TCCATATGCGATCCAGGAGATAT 58.449 43.478 0.00 0.00 34.42 1.63
6587 6879 3.956848 CTCCATATGCGATCCAGGAGATA 59.043 47.826 0.00 0.00 44.12 1.98
6588 6880 2.765135 CTCCATATGCGATCCAGGAGAT 59.235 50.000 0.00 0.00 44.12 2.75
6596 6888 1.723542 CAAGCGTCTCCATATGCGATC 59.276 52.381 0.00 0.00 36.47 3.69
6683 6975 6.274001 TGAACGCTCAATCTAATTCGATTC 57.726 37.500 2.36 0.00 31.52 2.52
6757 7049 1.468985 TTGGCAATGGTGGTAATCCG 58.531 50.000 0.00 0.00 36.30 4.18
6790 7083 4.767409 GGTATGGGCTTTGGATTAGGATTC 59.233 45.833 0.00 0.00 0.00 2.52
6834 7127 1.317431 TACCTCATCCACCCACGTCG 61.317 60.000 0.00 0.00 0.00 5.12
6836 7129 0.543410 TGTACCTCATCCACCCACGT 60.543 55.000 0.00 0.00 0.00 4.49
6837 7130 0.830648 ATGTACCTCATCCACCCACG 59.169 55.000 0.00 0.00 29.76 4.94
6838 7131 2.622064 GATGTACCTCATCCACCCAC 57.378 55.000 0.00 0.00 45.05 4.61
6915 7208 2.123382 GGGGGAGGAGTACCGGAG 60.123 72.222 9.46 0.00 41.83 4.63
6934 7227 1.452108 GAATCCGGAGCAGGGGTTG 60.452 63.158 11.34 0.00 0.00 3.77
6935 7228 2.680370 GGAATCCGGAGCAGGGGTT 61.680 63.158 11.34 0.00 0.00 4.11
6936 7229 3.090532 GGAATCCGGAGCAGGGGT 61.091 66.667 11.34 0.00 0.00 4.95


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

AutoCloner maintained by Alex Coulton.