Multiple sequence alignment - TraesCS3B01G437200

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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 TraesCS3B01G437200 chr3B 100.000 4274 0 0 1 4274 676210905 676215178 0.000000e+00 7893.0
1 TraesCS3B01G437200 chr3B 97.872 47 0 1 4193 4239 676215023 676215068 3.540000e-11 80.5
2 TraesCS3B01G437200 chr3B 97.872 47 0 1 4119 4164 676215097 676215143 3.540000e-11 80.5
3 TraesCS3B01G437200 chr3A 90.876 1666 81 22 2090 3720 648861078 648862707 0.000000e+00 2169.0
4 TraesCS3B01G437200 chr3A 91.096 876 32 16 671 1510 648859511 648860376 0.000000e+00 1144.0
5 TraesCS3B01G437200 chr3A 94.170 669 24 12 1 667 648858825 648859480 0.000000e+00 1005.0
6 TraesCS3B01G437200 chr3A 90.803 598 29 9 1510 2091 648860409 648860996 0.000000e+00 776.0
7 TraesCS3B01G437200 chr3A 95.745 235 4 2 3798 4026 648862701 648862935 1.450000e-99 374.0
8 TraesCS3B01G437200 chr3A 98.305 177 3 0 4023 4199 648863027 648863203 1.150000e-80 311.0
9 TraesCS3B01G437200 chr3A 97.872 47 0 1 4193 4239 648863123 648863168 3.540000e-11 80.5
10 TraesCS3B01G437200 chr3A 100.000 42 0 0 4233 4274 648863220 648863261 1.270000e-10 78.7
11 TraesCS3B01G437200 chr3D 92.156 1517 63 23 1510 2985 513888934 513890435 0.000000e+00 2091.0
12 TraesCS3B01G437200 chr3D 90.000 1540 82 34 1 1500 513887362 513888869 0.000000e+00 1925.0
13 TraesCS3B01G437200 chr3D 88.793 696 41 9 3037 3720 513890434 513891104 0.000000e+00 819.0
14 TraesCS3B01G437200 chr3D 91.852 405 21 5 3800 4199 513891105 513891502 4.830000e-154 555.0
15 TraesCS3B01G437200 chr3D 94.565 92 5 0 3718 3809 561754051 561753960 4.450000e-30 143.0
16 TraesCS3B01G437200 chr3D 90.476 105 8 2 3717 3820 580028921 580028818 2.070000e-28 137.0
17 TraesCS3B01G437200 chr3D 91.753 97 8 0 3718 3814 23941558 23941462 7.450000e-28 135.0
18 TraesCS3B01G437200 chr1D 86.070 201 28 0 3 203 356141878 356142078 2.590000e-52 217.0
19 TraesCS3B01G437200 chr1D 96.552 87 3 0 3717 3803 492948130 492948044 1.240000e-30 145.0
20 TraesCS3B01G437200 chr1A 86.070 201 28 0 3 203 456931344 456931544 2.590000e-52 217.0
21 TraesCS3B01G437200 chr1B 85.572 201 29 0 3 203 478715540 478715740 1.200000e-50 211.0
22 TraesCS3B01G437200 chr2A 94.624 93 5 0 3718 3810 69386039 69385947 1.240000e-30 145.0
23 TraesCS3B01G437200 chr7B 94.624 93 4 1 3718 3810 100745923 100745832 4.450000e-30 143.0
24 TraesCS3B01G437200 chr6D 94.565 92 5 0 3715 3806 85039238 85039147 4.450000e-30 143.0
25 TraesCS3B01G437200 chr6D 92.857 98 7 0 3717 3814 413065932 413065835 4.450000e-30 143.0
26 TraesCS3B01G437200 chr5B 94.624 93 4 1 3718 3809 687809771 687809679 4.450000e-30 143.0


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 TraesCS3B01G437200 chr3B 676210905 676215178 4273 False 2684.666667 7893 98.581333 1 4274 3 chr3B.!!$F1 4273
1 TraesCS3B01G437200 chr3A 648858825 648863261 4436 False 742.275000 2169 94.858375 1 4274 8 chr3A.!!$F1 4273
2 TraesCS3B01G437200 chr3D 513887362 513891502 4140 False 1347.500000 2091 90.700250 1 4199 4 chr3D.!!$F1 4198

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
972 1047 0.107017 CCGCATCCAACCCATCTTCT 60.107 55.0 0.0 0.0 0.0 2.85 F
1670 1838 0.584396 TTGTTTCAGTTAGTGCCGCG 59.416 50.0 0.0 0.0 0.0 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2820 3128 0.466372 GCAGGAATACCTTGGAGGCC 60.466 60.0 0.0 0.0 45.36 5.19 R
3441 3766 0.171455 GGTGTGCGACAACCAACAAA 59.829 50.0 0.0 0.0 26.97 2.83 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
319 323 1.177256 TTCGCCCGGCCTCTAGATAC 61.177 60.000 3.10 0.00 0.00 2.24
365 369 4.170292 TCCTAGTCTGTAAGCGTGTTTC 57.830 45.455 0.00 0.00 0.00 2.78
366 370 3.570975 TCCTAGTCTGTAAGCGTGTTTCA 59.429 43.478 0.00 0.00 0.00 2.69
381 385 6.803320 AGCGTGTTTCATCATCATGTTTTAAG 59.197 34.615 0.00 0.00 0.00 1.85
457 461 1.000506 TGTAAACTCTGTCGACTGCCC 59.999 52.381 17.92 2.27 0.00 5.36
486 490 4.096382 ACCATTGCTTCATTATTCGTGGAC 59.904 41.667 0.00 0.00 0.00 4.02
499 503 1.345415 TCGTGGACCCTTTGTAGTTCC 59.655 52.381 0.00 0.00 0.00 3.62
615 619 7.913789 TGTCAGGATGTTTGGTTAATACTACT 58.086 34.615 0.00 0.00 37.40 2.57
617 621 9.530633 GTCAGGATGTTTGGTTAATACTACTAG 57.469 37.037 0.00 0.00 37.40 2.57
618 622 9.483489 TCAGGATGTTTGGTTAATACTACTAGA 57.517 33.333 0.00 0.00 37.40 2.43
624 628 8.377034 TGTTTGGTTAATACTACTAGAAAGCCA 58.623 33.333 0.00 0.00 0.00 4.75
625 629 9.392259 GTTTGGTTAATACTACTAGAAAGCCAT 57.608 33.333 0.00 0.00 0.00 4.40
626 630 9.609346 TTTGGTTAATACTACTAGAAAGCCATC 57.391 33.333 0.00 0.00 0.00 3.51
627 631 8.313944 TGGTTAATACTACTAGAAAGCCATCA 57.686 34.615 0.00 0.00 0.00 3.07
634 638 9.717942 ATACTACTAGAAAGCCATCAATTCATC 57.282 33.333 0.00 0.00 0.00 2.92
635 639 7.568349 ACTACTAGAAAGCCATCAATTCATCA 58.432 34.615 0.00 0.00 0.00 3.07
669 673 8.415950 ACCAAACATTCTTACAAATATGGTGA 57.584 30.769 0.00 0.00 0.00 4.02
695 727 4.647424 TTTGTTTGACACTGGAATGGTC 57.353 40.909 0.00 0.00 0.00 4.02
705 737 2.017049 CTGGAATGGTCGGGTGATTTC 58.983 52.381 0.00 0.00 0.00 2.17
709 741 3.509967 GGAATGGTCGGGTGATTTCTTTT 59.490 43.478 0.00 0.00 0.00 2.27
761 798 4.433615 ACAGCAATGACTTACAGGATACG 58.566 43.478 0.00 0.00 46.39 3.06
823 891 3.390521 CAGGTCTGGGCCTACGCA 61.391 66.667 4.53 0.00 37.04 5.24
831 899 3.488090 GGCCTACGCAACGCAGAC 61.488 66.667 0.00 0.00 36.38 3.51
972 1047 0.107017 CCGCATCCAACCCATCTTCT 60.107 55.000 0.00 0.00 0.00 2.85
980 1057 2.359900 CAACCCATCTTCTTTCCTCCG 58.640 52.381 0.00 0.00 0.00 4.63
1062 1139 2.874245 TCCCCTCTCCACTCCCCA 60.874 66.667 0.00 0.00 0.00 4.96
1063 1140 2.263099 CTCCCCTCTCCACTCCCCAT 62.263 65.000 0.00 0.00 0.00 4.00
1392 1478 1.425066 AGCTTCCATTGTCCAGTTGGA 59.575 47.619 0.00 0.00 43.08 3.53
1402 1493 1.069765 CCAGTTGGACTGCGAGTGT 59.930 57.895 2.59 0.00 44.63 3.55
1403 1494 1.224069 CCAGTTGGACTGCGAGTGTG 61.224 60.000 2.59 0.00 44.63 3.82
1404 1495 1.595382 AGTTGGACTGCGAGTGTGC 60.595 57.895 0.00 0.00 0.00 4.57
1405 1496 1.887242 GTTGGACTGCGAGTGTGCA 60.887 57.895 0.00 0.00 43.95 4.57
1503 1625 1.963985 AGCTTCTGGGAGATGGAGTT 58.036 50.000 0.00 0.00 0.00 3.01
1504 1626 3.121929 AGCTTCTGGGAGATGGAGTTA 57.878 47.619 0.00 0.00 0.00 2.24
1505 1627 2.769095 AGCTTCTGGGAGATGGAGTTAC 59.231 50.000 0.00 0.00 0.00 2.50
1507 1629 3.198853 GCTTCTGGGAGATGGAGTTACTT 59.801 47.826 0.00 0.00 0.00 2.24
1553 1707 8.574737 GCCTAATTGAGAGATTTATGCTTCAAT 58.425 33.333 0.00 0.00 0.00 2.57
1570 1730 8.121305 TGCTTCAATTCAACTAACATAATGGT 57.879 30.769 0.00 0.00 0.00 3.55
1579 1739 8.574251 TCAACTAACATAATGGTTATTGCTGT 57.426 30.769 0.00 0.00 33.13 4.40
1607 1774 6.392911 ACAATATATGTACCCATCATGGCT 57.607 37.500 0.00 0.00 41.63 4.75
1645 1812 7.701539 ATTGCTGTACCAACAAAGATCAATA 57.298 32.000 0.00 0.00 34.49 1.90
1647 1814 7.087409 TGCTGTACCAACAAAGATCAATATG 57.913 36.000 0.00 0.00 34.49 1.78
1650 1817 7.302350 TGTACCAACAAAGATCAATATGTCG 57.698 36.000 0.00 0.00 30.91 4.35
1667 1835 2.610374 TGTCGTTGTTTCAGTTAGTGCC 59.390 45.455 0.00 0.00 0.00 5.01
1668 1836 1.862201 TCGTTGTTTCAGTTAGTGCCG 59.138 47.619 0.00 0.00 0.00 5.69
1669 1837 1.659211 CGTTGTTTCAGTTAGTGCCGC 60.659 52.381 0.00 0.00 0.00 6.53
1670 1838 0.584396 TTGTTTCAGTTAGTGCCGCG 59.416 50.000 0.00 0.00 0.00 6.46
1671 1839 1.225376 TGTTTCAGTTAGTGCCGCGG 61.225 55.000 24.05 24.05 0.00 6.46
1672 1840 2.322081 TTTCAGTTAGTGCCGCGGC 61.322 57.895 42.35 42.35 42.35 6.53
1765 1936 4.637968 CTTACCATGTTCGTGTTTGATCG 58.362 43.478 0.00 0.00 0.00 3.69
1771 1942 3.915536 TGTTCGTGTTTGATCGGTATGA 58.084 40.909 0.00 0.00 0.00 2.15
1800 1971 4.016444 GCTTTCCCCACTGAATTCATACA 58.984 43.478 8.96 0.00 0.00 2.29
1840 2011 4.633565 TCAAAGTTCAAACCAACCAAATGC 59.366 37.500 0.00 0.00 0.00 3.56
1914 2085 3.767131 ACTAGCTCTTTCTCCACTCCTTC 59.233 47.826 0.00 0.00 0.00 3.46
1915 2086 2.614259 AGCTCTTTCTCCACTCCTTCA 58.386 47.619 0.00 0.00 0.00 3.02
1916 2087 2.566724 AGCTCTTTCTCCACTCCTTCAG 59.433 50.000 0.00 0.00 0.00 3.02
1917 2088 2.301583 GCTCTTTCTCCACTCCTTCAGT 59.698 50.000 0.00 0.00 34.67 3.41
1918 2089 3.616317 GCTCTTTCTCCACTCCTTCAGTC 60.616 52.174 0.00 0.00 30.26 3.51
1919 2090 2.900546 TCTTTCTCCACTCCTTCAGTCC 59.099 50.000 0.00 0.00 30.26 3.85
1920 2091 2.704190 TTCTCCACTCCTTCAGTCCT 57.296 50.000 0.00 0.00 30.26 3.85
1921 2092 2.704190 TCTCCACTCCTTCAGTCCTT 57.296 50.000 0.00 0.00 30.26 3.36
2001 2172 7.187244 ACATAAGAATCGATCATCTGCTTTG 57.813 36.000 0.00 0.00 0.00 2.77
2142 2396 6.258947 GTGACCTAAATGGCTCAGAACTTATC 59.741 42.308 0.00 0.00 40.22 1.75
2166 2420 5.871396 TGTTAGTTGCAAATAACCCCAAA 57.129 34.783 34.22 19.99 32.11 3.28
2167 2421 5.602628 TGTTAGTTGCAAATAACCCCAAAC 58.397 37.500 34.22 19.10 32.11 2.93
2234 2516 6.543465 TGCACTTATCATAATTTACAGCAGCT 59.457 34.615 0.00 0.00 0.00 4.24
2263 2545 7.873719 TGATCGGGTTATGTTTACATCATTT 57.126 32.000 0.00 0.00 37.76 2.32
2447 2729 6.000840 GCCCAAATAACCCAAAATTTTCTCA 58.999 36.000 0.00 0.00 0.00 3.27
2522 2830 6.096282 TCCGTTTCCAATGTTCTCTTCTTTTT 59.904 34.615 0.00 0.00 0.00 1.94
2655 2963 9.672086 GCAAGTGTAACAAAACAATCTGTTATA 57.328 29.630 0.00 0.00 38.60 0.98
2697 3005 5.136828 ACAACATGTTCACTCCATTTGGTA 58.863 37.500 8.48 0.00 36.34 3.25
2820 3128 1.444895 GGCTGCAAATGAACTGCGG 60.445 57.895 0.50 0.00 46.90 5.69
2873 3185 3.565482 CAGCTGGTTGTACATGTCTGTTT 59.435 43.478 5.57 0.00 36.79 2.83
2926 3238 4.701651 CCAAAAATCTGCACTCCATAGTCA 59.298 41.667 0.00 0.00 31.97 3.41
2964 3276 3.751518 AGTTATGTCACCCAGTTTCCAC 58.248 45.455 0.00 0.00 0.00 4.02
3035 3347 7.827729 CAGCCATGATATGATCTCCTATTTCAA 59.172 37.037 0.00 0.00 0.00 2.69
3052 3364 9.736023 CCTATTTCAATACTAGGATTTTGTTGC 57.264 33.333 0.00 0.00 35.07 4.17
3117 3429 5.449451 GGTCAATTTGTGTTACTGAAACCGT 60.449 40.000 0.00 0.00 37.27 4.83
3152 3464 3.629398 CCCATCACATCCTAAGTTTGAGC 59.371 47.826 0.00 0.00 0.00 4.26
3192 3505 4.344679 AGCCACATTTCAGTTCCAAATTCA 59.655 37.500 0.00 0.00 0.00 2.57
3231 3548 6.128090 TGCTTGCTACTCAAATGAAGATCTTG 60.128 38.462 14.00 0.00 33.65 3.02
3308 3625 2.208431 GTTATCATCTTCTGCTGCGCT 58.792 47.619 9.73 0.00 0.00 5.92
3421 3746 8.647796 CATAAACAGGGTATGTCTTATACAGGA 58.352 37.037 0.00 0.00 43.00 3.86
3437 3762 0.477204 AGGACCATCATCATGCCTGG 59.523 55.000 4.88 4.88 34.84 4.45
3438 3763 0.184451 GGACCATCATCATGCCTGGT 59.816 55.000 10.59 10.59 44.52 4.00
3439 3764 1.410648 GGACCATCATCATGCCTGGTT 60.411 52.381 11.74 0.00 41.96 3.67
3440 3765 1.679680 GACCATCATCATGCCTGGTTG 59.320 52.381 11.74 0.00 41.96 3.77
3441 3766 1.006281 ACCATCATCATGCCTGGTTGT 59.994 47.619 6.02 0.00 38.88 3.32
3442 3767 2.104967 CCATCATCATGCCTGGTTGTT 58.895 47.619 0.00 0.00 0.00 2.83
3443 3768 2.498481 CCATCATCATGCCTGGTTGTTT 59.502 45.455 0.00 0.00 0.00 2.83
3444 3769 3.517602 CATCATCATGCCTGGTTGTTTG 58.482 45.455 0.00 0.00 0.00 2.93
3448 3773 1.411977 TCATGCCTGGTTGTTTGTTGG 59.588 47.619 0.00 0.00 0.00 3.77
3471 3796 1.463444 GTCGCACACCATTGTAACCTC 59.537 52.381 0.00 0.00 33.30 3.85
3505 3830 7.488322 ACAGTGCAATTGTACTTTAACATGTT 58.512 30.769 24.43 16.68 38.95 2.71
3546 3871 6.945435 TGCCTTCAACAAATTGGATCTACTTA 59.055 34.615 0.00 0.00 36.39 2.24
3547 3872 7.450014 TGCCTTCAACAAATTGGATCTACTTAA 59.550 33.333 0.00 0.00 36.39 1.85
3548 3873 8.470002 GCCTTCAACAAATTGGATCTACTTAAT 58.530 33.333 0.00 0.00 36.39 1.40
3595 3921 7.709182 GCCTTTTGTTACCAAACTACTTTTCAT 59.291 33.333 0.00 0.00 40.19 2.57
3633 3961 1.856014 GCGTTGTGTCAACTGTCAAGC 60.856 52.381 10.21 2.70 0.00 4.01
3644 3972 4.035558 TCAACTGTCAAGCATGAACTCAAC 59.964 41.667 0.00 0.00 37.30 3.18
3647 3975 3.286353 TGTCAAGCATGAACTCAACCAA 58.714 40.909 0.00 0.00 37.30 3.67
3670 3998 6.779115 AAAAACCTTGCCGTATTTTCATTC 57.221 33.333 0.00 0.00 0.00 2.67
3675 4003 1.807142 TGCCGTATTTTCATTCGCACA 59.193 42.857 0.00 0.00 0.00 4.57
3689 4017 4.383774 TTCGCACAGAAAGAATGTTACG 57.616 40.909 0.00 0.00 35.61 3.18
3717 4045 6.150307 CAGGTTATCTATCTCGTGTATGAGCT 59.850 42.308 0.00 0.00 35.90 4.09
3718 4046 7.334671 CAGGTTATCTATCTCGTGTATGAGCTA 59.665 40.741 0.00 0.00 35.90 3.32
3719 4047 7.334921 AGGTTATCTATCTCGTGTATGAGCTAC 59.665 40.741 0.00 0.00 35.90 3.58
3720 4048 7.334921 GGTTATCTATCTCGTGTATGAGCTACT 59.665 40.741 0.00 0.00 35.90 2.57
3721 4049 6.978343 ATCTATCTCGTGTATGAGCTACTC 57.022 41.667 0.00 0.00 35.90 2.59
3722 4050 5.239351 TCTATCTCGTGTATGAGCTACTCC 58.761 45.833 0.00 0.00 35.90 3.85
3723 4051 2.573369 TCTCGTGTATGAGCTACTCCC 58.427 52.381 0.00 0.00 35.90 4.30
3724 4052 2.172930 TCTCGTGTATGAGCTACTCCCT 59.827 50.000 0.00 0.00 35.90 4.20
3725 4053 2.550606 CTCGTGTATGAGCTACTCCCTC 59.449 54.545 0.00 0.00 0.00 4.30
3726 4054 2.172930 TCGTGTATGAGCTACTCCCTCT 59.827 50.000 0.00 0.00 0.00 3.69
3727 4055 2.292016 CGTGTATGAGCTACTCCCTCTG 59.708 54.545 0.00 0.00 0.00 3.35
3728 4056 3.292460 GTGTATGAGCTACTCCCTCTGT 58.708 50.000 0.00 0.00 0.00 3.41
3729 4057 3.316868 GTGTATGAGCTACTCCCTCTGTC 59.683 52.174 0.00 0.00 0.00 3.51
3730 4058 2.080654 ATGAGCTACTCCCTCTGTCC 57.919 55.000 0.00 0.00 0.00 4.02
3731 4059 0.033011 TGAGCTACTCCCTCTGTCCC 60.033 60.000 0.00 0.00 0.00 4.46
3732 4060 0.033011 GAGCTACTCCCTCTGTCCCA 60.033 60.000 0.00 0.00 0.00 4.37
3733 4061 0.032615 AGCTACTCCCTCTGTCCCAG 60.033 60.000 0.00 0.00 0.00 4.45
3734 4062 0.033011 GCTACTCCCTCTGTCCCAGA 60.033 60.000 0.00 0.00 38.25 3.86
3735 4063 1.619977 GCTACTCCCTCTGTCCCAGAA 60.620 57.143 0.00 0.00 40.18 3.02
3736 4064 2.957312 GCTACTCCCTCTGTCCCAGAAT 60.957 54.545 0.00 0.00 40.18 2.40
3737 4065 3.691603 GCTACTCCCTCTGTCCCAGAATA 60.692 52.174 0.00 0.00 40.18 1.75
3738 4066 3.715648 ACTCCCTCTGTCCCAGAATAT 57.284 47.619 0.00 0.00 40.18 1.28
3739 4067 4.834406 ACTCCCTCTGTCCCAGAATATA 57.166 45.455 0.00 0.00 40.18 0.86
3740 4068 5.157770 ACTCCCTCTGTCCCAGAATATAA 57.842 43.478 0.00 0.00 40.18 0.98
3741 4069 5.151454 ACTCCCTCTGTCCCAGAATATAAG 58.849 45.833 0.00 0.00 40.18 1.73
3742 4070 5.103043 ACTCCCTCTGTCCCAGAATATAAGA 60.103 44.000 0.00 0.00 40.18 2.10
3743 4071 5.788430 TCCCTCTGTCCCAGAATATAAGAA 58.212 41.667 0.00 0.00 40.18 2.52
3744 4072 5.602978 TCCCTCTGTCCCAGAATATAAGAAC 59.397 44.000 0.00 0.00 40.18 3.01
3745 4073 5.509840 CCCTCTGTCCCAGAATATAAGAACG 60.510 48.000 0.00 0.00 40.18 3.95
3746 4074 5.069251 CCTCTGTCCCAGAATATAAGAACGT 59.931 44.000 0.00 0.00 40.18 3.99
3747 4075 6.407074 CCTCTGTCCCAGAATATAAGAACGTT 60.407 42.308 0.00 0.00 40.18 3.99
3748 4076 6.942976 TCTGTCCCAGAATATAAGAACGTTT 58.057 36.000 0.46 0.00 37.57 3.60
3749 4077 7.391620 TCTGTCCCAGAATATAAGAACGTTTT 58.608 34.615 0.46 0.00 37.57 2.43
3750 4078 7.881232 TCTGTCCCAGAATATAAGAACGTTTTT 59.119 33.333 9.22 9.22 37.57 1.94
3751 4079 7.812648 TGTCCCAGAATATAAGAACGTTTTTG 58.187 34.615 13.87 0.00 0.00 2.44
3752 4080 7.662258 TGTCCCAGAATATAAGAACGTTTTTGA 59.338 33.333 13.87 2.81 0.00 2.69
3753 4081 7.961283 GTCCCAGAATATAAGAACGTTTTTGAC 59.039 37.037 13.87 5.89 0.00 3.18
3754 4082 7.662258 TCCCAGAATATAAGAACGTTTTTGACA 59.338 33.333 13.87 0.01 0.00 3.58
3755 4083 8.458843 CCCAGAATATAAGAACGTTTTTGACAT 58.541 33.333 13.87 2.89 0.00 3.06
3756 4084 9.277565 CCAGAATATAAGAACGTTTTTGACATG 57.722 33.333 13.87 5.62 0.00 3.21
3760 4088 8.841444 ATATAAGAACGTTTTTGACATGATGC 57.159 30.769 13.87 0.00 0.00 3.91
3761 4089 4.836125 AGAACGTTTTTGACATGATGCT 57.164 36.364 0.46 0.00 0.00 3.79
3762 4090 5.940192 AGAACGTTTTTGACATGATGCTA 57.060 34.783 0.46 0.00 0.00 3.49
3763 4091 5.931532 AGAACGTTTTTGACATGATGCTAG 58.068 37.500 0.46 0.00 0.00 3.42
3764 4092 5.470098 AGAACGTTTTTGACATGATGCTAGT 59.530 36.000 0.46 0.00 0.00 2.57
3765 4093 5.034554 ACGTTTTTGACATGATGCTAGTG 57.965 39.130 0.00 0.00 0.00 2.74
3766 4094 4.515191 ACGTTTTTGACATGATGCTAGTGT 59.485 37.500 0.00 0.00 0.00 3.55
3767 4095 5.008613 ACGTTTTTGACATGATGCTAGTGTT 59.991 36.000 0.00 0.00 0.00 3.32
3768 4096 6.203915 ACGTTTTTGACATGATGCTAGTGTTA 59.796 34.615 0.00 0.00 0.00 2.41
3769 4097 7.075121 CGTTTTTGACATGATGCTAGTGTTAA 58.925 34.615 0.00 0.00 0.00 2.01
3770 4098 7.589587 CGTTTTTGACATGATGCTAGTGTTAAA 59.410 33.333 0.00 0.00 32.00 1.52
3771 4099 9.243637 GTTTTTGACATGATGCTAGTGTTAAAA 57.756 29.630 0.00 8.24 38.61 1.52
3772 4100 9.809096 TTTTTGACATGATGCTAGTGTTAAAAA 57.191 25.926 15.70 15.70 43.11 1.94
3773 4101 8.795786 TTTGACATGATGCTAGTGTTAAAAAC 57.204 30.769 0.00 0.00 31.27 2.43
3774 4102 7.503521 TGACATGATGCTAGTGTTAAAAACA 57.496 32.000 0.00 0.00 39.52 2.83
3775 4103 8.109705 TGACATGATGCTAGTGTTAAAAACAT 57.890 30.769 0.00 0.00 44.35 2.71
3776 4104 8.575589 TGACATGATGCTAGTGTTAAAAACATT 58.424 29.630 0.00 0.00 44.35 2.71
3796 4124 7.996098 ACATTATTATATTTTGGGACGGAGG 57.004 36.000 0.00 0.00 0.00 4.30
3797 4125 6.946009 ACATTATTATATTTTGGGACGGAGGG 59.054 38.462 0.00 0.00 0.00 4.30
3798 4126 6.766997 TTATTATATTTTGGGACGGAGGGA 57.233 37.500 0.00 0.00 0.00 4.20
3799 4127 4.699925 TTATATTTTGGGACGGAGGGAG 57.300 45.455 0.00 0.00 0.00 4.30
3892 4224 3.877559 TCATACAGGTGCCTCTCAAATG 58.122 45.455 0.00 0.00 0.00 2.32
3976 4308 2.238084 TCAGGAGTAGTCACCTGCAT 57.762 50.000 0.00 0.00 46.87 3.96
4200 4632 9.832445 TGAAAAGGGAATTAGTATATCAGTGAC 57.168 33.333 0.00 0.00 0.00 3.67
4201 4633 9.274206 GAAAAGGGAATTAGTATATCAGTGACC 57.726 37.037 0.00 0.00 0.00 4.02
4203 4635 7.784470 AGGGAATTAGTATATCAGTGACCTC 57.216 40.000 0.00 0.00 0.00 3.85
4204 4636 7.306013 AGGGAATTAGTATATCAGTGACCTCA 58.694 38.462 0.00 0.00 0.00 3.86
4206 4638 8.091449 GGGAATTAGTATATCAGTGACCTCAAG 58.909 40.741 0.00 0.00 0.00 3.02
4207 4639 8.091449 GGAATTAGTATATCAGTGACCTCAAGG 58.909 40.741 0.00 0.00 42.17 3.61
4208 4640 4.946478 AGTATATCAGTGACCTCAAGGC 57.054 45.455 0.00 0.00 39.32 4.35
4209 4641 3.643792 AGTATATCAGTGACCTCAAGGCC 59.356 47.826 0.00 0.00 39.32 5.19
4210 4642 1.951209 TATCAGTGACCTCAAGGCCA 58.049 50.000 5.01 0.00 39.32 5.36
4212 4644 0.615331 TCAGTGACCTCAAGGCCATC 59.385 55.000 5.01 0.00 39.32 3.51
4213 4645 0.393537 CAGTGACCTCAAGGCCATCC 60.394 60.000 5.01 0.00 39.32 3.51
4214 4646 1.077429 GTGACCTCAAGGCCATCCC 60.077 63.158 5.01 0.00 39.32 3.85
4216 4648 1.225704 GACCTCAAGGCCATCCCTG 59.774 63.158 5.01 0.00 45.62 4.45
4217 4649 1.542375 ACCTCAAGGCCATCCCTGT 60.542 57.895 5.01 0.00 45.62 4.00
4218 4650 1.077212 CCTCAAGGCCATCCCTGTG 60.077 63.158 5.01 0.00 45.62 3.66
4219 4651 1.565390 CCTCAAGGCCATCCCTGTGA 61.565 60.000 5.01 0.00 45.62 3.58
4220 4652 0.107312 CTCAAGGCCATCCCTGTGAG 60.107 60.000 5.01 2.01 45.62 3.51
4221 4653 0.842030 TCAAGGCCATCCCTGTGAGT 60.842 55.000 5.01 0.00 45.62 3.41
4222 4654 0.679002 CAAGGCCATCCCTGTGAGTG 60.679 60.000 5.01 0.00 45.62 3.51
4223 4655 2.439156 GGCCATCCCTGTGAGTGC 60.439 66.667 0.00 0.00 0.00 4.40
4224 4656 2.352422 GCCATCCCTGTGAGTGCA 59.648 61.111 0.00 0.00 0.00 4.57
4225 4657 1.303561 GCCATCCCTGTGAGTGCAA 60.304 57.895 0.00 0.00 0.00 4.08
4226 4658 0.895100 GCCATCCCTGTGAGTGCAAA 60.895 55.000 0.00 0.00 0.00 3.68
4227 4659 1.171308 CCATCCCTGTGAGTGCAAAG 58.829 55.000 0.00 0.00 0.00 2.77
4228 4660 1.546323 CCATCCCTGTGAGTGCAAAGT 60.546 52.381 0.00 0.00 0.00 2.66
4229 4661 2.233271 CATCCCTGTGAGTGCAAAGTT 58.767 47.619 0.00 0.00 0.00 2.66
4230 4662 2.435372 TCCCTGTGAGTGCAAAGTTT 57.565 45.000 0.00 0.00 0.00 2.66
4231 4663 3.569194 TCCCTGTGAGTGCAAAGTTTA 57.431 42.857 0.00 0.00 0.00 2.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
22 23 1.820481 CTCCTCCTCCTCGTCGTCC 60.820 68.421 0.00 0.00 0.00 4.79
319 323 7.352079 AGGAAACTAAGCCATGAATAAATGG 57.648 36.000 0.00 0.00 44.65 3.16
381 385 6.526674 ACACACACGAAAAATCTCAAGTTTTC 59.473 34.615 0.00 2.04 42.91 2.29
385 389 4.394920 ACACACACACGAAAAATCTCAAGT 59.605 37.500 0.00 0.00 0.00 3.16
387 391 4.955925 ACACACACACGAAAAATCTCAA 57.044 36.364 0.00 0.00 0.00 3.02
397 401 2.301577 TGATGTCAACACACACACGA 57.698 45.000 0.00 0.00 34.48 4.35
457 461 4.913335 ATAATGAAGCAATGGTCAGCTG 57.087 40.909 7.63 7.63 41.70 4.24
486 490 3.325135 ACAGAGTCAGGAACTACAAAGGG 59.675 47.826 0.00 0.00 38.74 3.95
499 503 1.728971 GAATGACGGCAACAGAGTCAG 59.271 52.381 0.00 0.00 46.29 3.51
620 624 9.236006 GGTTAATACTATGATGAATTGATGGCT 57.764 33.333 0.00 0.00 0.00 4.75
621 625 9.013229 TGGTTAATACTATGATGAATTGATGGC 57.987 33.333 0.00 0.00 0.00 4.40
643 647 8.865090 TCACCATATTTGTAAGAATGTTTGGTT 58.135 29.630 0.00 0.00 31.47 3.67
692 724 2.488153 CAGGAAAAGAAATCACCCGACC 59.512 50.000 0.00 0.00 0.00 4.79
695 727 2.095059 CAGCAGGAAAAGAAATCACCCG 60.095 50.000 0.00 0.00 0.00 5.28
705 737 2.031333 GCAAGACAGACAGCAGGAAAAG 60.031 50.000 0.00 0.00 0.00 2.27
709 741 0.761187 AAGCAAGACAGACAGCAGGA 59.239 50.000 0.00 0.00 0.00 3.86
1341 1427 4.820744 ATGCCGGTGGGATGGTGC 62.821 66.667 1.90 0.00 30.96 5.01
1402 1493 1.108727 CCACTCTGTTTTGGGCTGCA 61.109 55.000 0.50 0.00 0.00 4.41
1403 1494 1.109323 ACCACTCTGTTTTGGGCTGC 61.109 55.000 0.00 0.00 37.18 5.25
1404 1495 1.402787 AACCACTCTGTTTTGGGCTG 58.597 50.000 0.00 0.00 37.18 4.85
1405 1496 3.306472 TTAACCACTCTGTTTTGGGCT 57.694 42.857 0.00 0.00 37.18 5.19
1406 1497 4.600692 AATTAACCACTCTGTTTTGGGC 57.399 40.909 0.00 0.00 37.18 5.36
1454 1553 2.224354 ACCGTTAGAACCAACATCCGTT 60.224 45.455 0.00 0.00 35.01 4.44
1503 1625 1.134788 GCGCCTCTAAAGCTCCAAGTA 60.135 52.381 0.00 0.00 0.00 2.24
1504 1626 0.391793 GCGCCTCTAAAGCTCCAAGT 60.392 55.000 0.00 0.00 0.00 3.16
1505 1627 0.391661 TGCGCCTCTAAAGCTCCAAG 60.392 55.000 4.18 0.00 0.00 3.61
1507 1629 0.253044 AATGCGCCTCTAAAGCTCCA 59.747 50.000 4.18 0.00 0.00 3.86
1553 1707 9.019656 ACAGCAATAACCATTATGTTAGTTGAA 57.980 29.630 0.00 0.00 34.41 2.69
1574 1734 7.420796 ATGGGTACATATATTGTTGGTACAGCA 60.421 37.037 10.68 0.00 41.23 4.41
1575 1735 6.292923 TGGGTACATATATTGTTGGTACAGC 58.707 40.000 10.68 0.00 42.39 4.40
1577 1737 8.035448 TGATGGGTACATATATTGTTGGTACA 57.965 34.615 10.68 0.00 39.87 2.90
1578 1738 8.946085 CATGATGGGTACATATATTGTTGGTAC 58.054 37.037 0.00 0.00 39.87 3.34
1579 1739 8.106462 CCATGATGGGTACATATATTGTTGGTA 58.894 37.037 2.79 0.00 37.47 3.25
1645 1812 3.250040 GGCACTAACTGAAACAACGACAT 59.750 43.478 0.00 0.00 0.00 3.06
1647 1814 2.348218 CGGCACTAACTGAAACAACGAC 60.348 50.000 0.00 0.00 0.00 4.34
1650 1817 1.659211 CGCGGCACTAACTGAAACAAC 60.659 52.381 0.00 0.00 0.00 3.32
1667 1835 1.705337 ATCGATGAAGGTTTGCCGCG 61.705 55.000 0.00 0.00 40.50 6.46
1668 1836 0.248215 CATCGATGAAGGTTTGCCGC 60.248 55.000 21.02 0.00 40.50 6.53
1669 1837 1.062587 GACATCGATGAAGGTTTGCCG 59.937 52.381 31.33 0.69 40.50 5.69
1670 1838 2.359900 AGACATCGATGAAGGTTTGCC 58.640 47.619 31.33 8.44 0.00 4.52
1671 1839 4.083324 TCAAAGACATCGATGAAGGTTTGC 60.083 41.667 31.33 9.58 0.00 3.68
1672 1840 5.611796 TCAAAGACATCGATGAAGGTTTG 57.388 39.130 31.33 26.82 0.00 2.93
1673 1841 5.048713 GGTTCAAAGACATCGATGAAGGTTT 60.049 40.000 31.33 19.13 32.85 3.27
1746 1917 1.804151 CCGATCAAACACGAACATGGT 59.196 47.619 0.00 0.00 0.00 3.55
1765 1936 3.513515 TGGGGAAAGCAACATTTCATACC 59.486 43.478 2.05 2.04 40.29 2.73
1771 1942 2.676748 TCAGTGGGGAAAGCAACATTT 58.323 42.857 0.00 0.00 0.00 2.32
1800 1971 6.949352 ACTTTGAAGTTCAGTGTGATGATT 57.051 33.333 5.56 0.00 35.21 2.57
1914 2085 7.496920 TGAGATAAACTATCATGCAAAGGACTG 59.503 37.037 0.00 0.00 37.65 3.51
1915 2086 7.568349 TGAGATAAACTATCATGCAAAGGACT 58.432 34.615 0.00 0.00 37.65 3.85
1916 2087 7.792374 TGAGATAAACTATCATGCAAAGGAC 57.208 36.000 0.00 0.00 37.65 3.85
1917 2088 7.386025 CGATGAGATAAACTATCATGCAAAGGA 59.614 37.037 0.00 0.00 37.65 3.36
1918 2089 7.172190 ACGATGAGATAAACTATCATGCAAAGG 59.828 37.037 0.00 0.00 37.65 3.11
1919 2090 8.008279 CACGATGAGATAAACTATCATGCAAAG 58.992 37.037 0.00 0.00 37.65 2.77
1920 2091 7.518848 GCACGATGAGATAAACTATCATGCAAA 60.519 37.037 0.00 0.00 37.65 3.68
1921 2092 6.073602 GCACGATGAGATAAACTATCATGCAA 60.074 38.462 0.00 0.00 37.65 4.08
2096 2350 5.243507 TCACAAAGTCGTGGTATTAGGTGTA 59.756 40.000 0.00 0.00 37.50 2.90
2102 2356 4.877378 AGGTCACAAAGTCGTGGTATTA 57.123 40.909 0.00 0.00 37.50 0.98
2142 2396 5.398603 TGGGGTTATTTGCAACTAACATG 57.601 39.130 29.62 0.00 30.98 3.21
2166 2420 6.909550 TTATTGAAACATTAGGTTGCTGGT 57.090 33.333 0.00 0.00 40.35 4.00
2167 2421 7.818930 ACAATTATTGAAACATTAGGTTGCTGG 59.181 33.333 12.28 0.00 40.35 4.85
2234 2516 8.425703 TGATGTAAACATAACCCGATCATTCTA 58.574 33.333 0.00 0.00 36.57 2.10
2263 2545 6.968263 TGACTACCATGGAAATTGAAAACA 57.032 33.333 21.47 1.80 0.00 2.83
2447 2729 7.656948 GCATGAGATAAGAAGAGAAGCATACTT 59.343 37.037 0.00 0.00 39.43 2.24
2820 3128 0.466372 GCAGGAATACCTTGGAGGCC 60.466 60.000 0.00 0.00 45.36 5.19
2873 3185 7.571244 GCGATCTGTATTGTTCTTTTCTCAACA 60.571 37.037 0.00 0.00 0.00 3.33
2926 3238 8.100791 TGACATAACTAGTTATTGCTGGAACTT 58.899 33.333 22.81 0.00 37.16 2.66
3071 3383 7.559533 TGACCCATGATTTAGCTAGCATAAAAA 59.440 33.333 18.83 11.67 0.00 1.94
3072 3384 7.059788 TGACCCATGATTTAGCTAGCATAAAA 58.940 34.615 18.83 14.13 0.00 1.52
3117 3429 6.275381 AGGATGTGATGGGGAATATGACAATA 59.725 38.462 0.00 0.00 0.00 1.90
3152 3464 1.163554 GCTTCAGAGTTCAGCCAAGG 58.836 55.000 0.00 0.00 0.00 3.61
3231 3548 3.492309 CCTGCAGAGACAGATATGTGGTC 60.492 52.174 17.39 0.99 40.25 4.02
3308 3625 1.765904 TGAGACACCTTGGCAACTGTA 59.234 47.619 0.00 0.00 37.61 2.74
3313 3630 0.961019 GCAATGAGACACCTTGGCAA 59.039 50.000 0.00 0.00 0.00 4.52
3394 3711 7.387948 CCTGTATAAGACATACCCTGTTTATGC 59.612 40.741 0.00 0.00 38.54 3.14
3399 3716 5.365895 GGTCCTGTATAAGACATACCCTGTT 59.634 44.000 0.00 0.00 38.54 3.16
3407 3724 7.392418 CATGATGATGGTCCTGTATAAGACAT 58.608 38.462 0.00 0.00 37.45 3.06
3437 3762 1.651631 GTGCGACAACCAACAAACAAC 59.348 47.619 0.00 0.00 0.00 3.32
3438 3763 1.269723 TGTGCGACAACCAACAAACAA 59.730 42.857 0.00 0.00 0.00 2.83
3439 3764 0.881796 TGTGCGACAACCAACAAACA 59.118 45.000 0.00 0.00 0.00 2.83
3440 3765 1.264672 GTGTGCGACAACCAACAAAC 58.735 50.000 0.00 0.00 0.00 2.93
3441 3766 0.171455 GGTGTGCGACAACCAACAAA 59.829 50.000 0.00 0.00 26.97 2.83
3442 3767 0.960861 TGGTGTGCGACAACCAACAA 60.961 50.000 1.48 0.00 34.14 2.83
3443 3768 0.749818 ATGGTGTGCGACAACCAACA 60.750 50.000 7.49 0.35 34.14 3.33
3444 3769 0.383949 AATGGTGTGCGACAACCAAC 59.616 50.000 7.49 0.00 34.14 3.77
3448 3773 2.603652 GGTTACAATGGTGTGCGACAAC 60.604 50.000 0.00 0.00 38.82 3.32
3471 3796 3.690422 ACAATTGCACTGTACAACAACG 58.310 40.909 5.05 5.62 0.00 4.10
3595 3921 2.556189 ACGCAGCAAATGGACACAAATA 59.444 40.909 0.00 0.00 0.00 1.40
3647 3975 5.404066 CGAATGAAAATACGGCAAGGTTTTT 59.596 36.000 0.00 0.00 0.00 1.94
3659 3987 7.538678 ACATTCTTTCTGTGCGAATGAAAATAC 59.461 33.333 15.61 0.00 44.17 1.89
3670 3998 3.788434 ACGTAACATTCTTTCTGTGCG 57.212 42.857 0.00 0.00 34.30 5.34
3675 4003 8.529476 AGATAACCTGTACGTAACATTCTTTCT 58.471 33.333 0.00 0.00 37.50 2.52
3689 4017 8.320396 TCATACACGAGATAGATAACCTGTAC 57.680 38.462 0.00 0.00 0.00 2.90
3726 4054 7.662258 TCAAAAACGTTCTTATATTCTGGGACA 59.338 33.333 0.00 0.00 0.00 4.02
3727 4055 7.961283 GTCAAAAACGTTCTTATATTCTGGGAC 59.039 37.037 0.00 0.00 0.00 4.46
3728 4056 7.662258 TGTCAAAAACGTTCTTATATTCTGGGA 59.338 33.333 0.00 0.00 0.00 4.37
3729 4057 7.812648 TGTCAAAAACGTTCTTATATTCTGGG 58.187 34.615 0.00 0.00 0.00 4.45
3730 4058 9.277565 CATGTCAAAAACGTTCTTATATTCTGG 57.722 33.333 0.00 0.00 0.00 3.86
3734 4062 9.289303 GCATCATGTCAAAAACGTTCTTATATT 57.711 29.630 0.00 0.00 0.00 1.28
3735 4063 8.677300 AGCATCATGTCAAAAACGTTCTTATAT 58.323 29.630 0.00 0.00 0.00 0.86
3736 4064 8.039603 AGCATCATGTCAAAAACGTTCTTATA 57.960 30.769 0.00 0.00 0.00 0.98
3737 4065 6.913170 AGCATCATGTCAAAAACGTTCTTAT 58.087 32.000 0.00 0.00 0.00 1.73
3738 4066 6.312399 AGCATCATGTCAAAAACGTTCTTA 57.688 33.333 0.00 0.00 0.00 2.10
3739 4067 5.186996 AGCATCATGTCAAAAACGTTCTT 57.813 34.783 0.00 0.00 0.00 2.52
3740 4068 4.836125 AGCATCATGTCAAAAACGTTCT 57.164 36.364 0.00 0.00 0.00 3.01
3741 4069 5.565259 CACTAGCATCATGTCAAAAACGTTC 59.435 40.000 0.00 0.00 0.00 3.95
3742 4070 5.008613 ACACTAGCATCATGTCAAAAACGTT 59.991 36.000 0.00 0.00 0.00 3.99
3743 4071 4.515191 ACACTAGCATCATGTCAAAAACGT 59.485 37.500 0.00 0.00 0.00 3.99
3744 4072 5.034554 ACACTAGCATCATGTCAAAAACG 57.965 39.130 0.00 0.00 0.00 3.60
3745 4073 8.795786 TTTAACACTAGCATCATGTCAAAAAC 57.204 30.769 0.00 0.00 0.00 2.43
3746 4074 9.809096 TTTTTAACACTAGCATCATGTCAAAAA 57.191 25.926 1.87 1.87 0.00 1.94
3747 4075 9.243637 GTTTTTAACACTAGCATCATGTCAAAA 57.756 29.630 0.00 0.00 0.00 2.44
3748 4076 8.409371 TGTTTTTAACACTAGCATCATGTCAAA 58.591 29.630 0.00 0.00 36.25 2.69
3749 4077 7.935520 TGTTTTTAACACTAGCATCATGTCAA 58.064 30.769 0.00 0.00 36.25 3.18
3750 4078 7.503521 TGTTTTTAACACTAGCATCATGTCA 57.496 32.000 0.00 0.00 36.25 3.58
3751 4079 8.970691 AATGTTTTTAACACTAGCATCATGTC 57.029 30.769 0.00 0.00 45.50 3.06
3770 4098 8.856103 CCTCCGTCCCAAAATATAATAATGTTT 58.144 33.333 0.00 0.00 0.00 2.83
3771 4099 7.450323 CCCTCCGTCCCAAAATATAATAATGTT 59.550 37.037 0.00 0.00 0.00 2.71
3772 4100 6.946009 CCCTCCGTCCCAAAATATAATAATGT 59.054 38.462 0.00 0.00 0.00 2.71
3773 4101 7.172342 TCCCTCCGTCCCAAAATATAATAATG 58.828 38.462 0.00 0.00 0.00 1.90
3774 4102 7.018249 ACTCCCTCCGTCCCAAAATATAATAAT 59.982 37.037 0.00 0.00 0.00 1.28
3775 4103 6.330778 ACTCCCTCCGTCCCAAAATATAATAA 59.669 38.462 0.00 0.00 0.00 1.40
3776 4104 5.847817 ACTCCCTCCGTCCCAAAATATAATA 59.152 40.000 0.00 0.00 0.00 0.98
3777 4105 4.663592 ACTCCCTCCGTCCCAAAATATAAT 59.336 41.667 0.00 0.00 0.00 1.28
3778 4106 4.042174 ACTCCCTCCGTCCCAAAATATAA 58.958 43.478 0.00 0.00 0.00 0.98
3779 4107 3.660959 ACTCCCTCCGTCCCAAAATATA 58.339 45.455 0.00 0.00 0.00 0.86
3780 4108 2.488836 ACTCCCTCCGTCCCAAAATAT 58.511 47.619 0.00 0.00 0.00 1.28
3781 4109 1.961133 ACTCCCTCCGTCCCAAAATA 58.039 50.000 0.00 0.00 0.00 1.40
3782 4110 1.558294 GTACTCCCTCCGTCCCAAAAT 59.442 52.381 0.00 0.00 0.00 1.82
3783 4111 0.978907 GTACTCCCTCCGTCCCAAAA 59.021 55.000 0.00 0.00 0.00 2.44
3784 4112 0.178926 TGTACTCCCTCCGTCCCAAA 60.179 55.000 0.00 0.00 0.00 3.28
3785 4113 0.042131 ATGTACTCCCTCCGTCCCAA 59.958 55.000 0.00 0.00 0.00 4.12
3786 4114 0.686441 CATGTACTCCCTCCGTCCCA 60.686 60.000 0.00 0.00 0.00 4.37
3787 4115 0.686769 ACATGTACTCCCTCCGTCCC 60.687 60.000 0.00 0.00 0.00 4.46
3788 4116 1.192428 AACATGTACTCCCTCCGTCC 58.808 55.000 0.00 0.00 0.00 4.79
3789 4117 4.667519 ATAAACATGTACTCCCTCCGTC 57.332 45.455 0.00 0.00 0.00 4.79
3790 4118 5.431179 AAATAAACATGTACTCCCTCCGT 57.569 39.130 0.00 0.00 0.00 4.69
3791 4119 6.598064 AGAAAAATAAACATGTACTCCCTCCG 59.402 38.462 0.00 0.00 0.00 4.63
3792 4120 7.939784 AGAAAAATAAACATGTACTCCCTCC 57.060 36.000 0.00 0.00 0.00 4.30
3793 4121 9.668497 ACTAGAAAAATAAACATGTACTCCCTC 57.332 33.333 0.00 0.00 0.00 4.30
3798 4126 9.802039 TGGGAACTAGAAAAATAAACATGTACT 57.198 29.630 0.00 0.00 0.00 2.73
3892 4224 8.474831 AGGGCCAATATTAACAATGTTTACTTC 58.525 33.333 6.18 0.00 0.00 3.01
3976 4308 5.652014 ACTGAACCTCAAAATGTGAACTTGA 59.348 36.000 0.00 0.00 35.22 3.02
4179 4611 7.306013 TGAGGTCACTGATATACTAATTCCCT 58.694 38.462 0.00 0.00 0.00 4.20
4199 4631 1.542375 ACAGGGATGGCCTTGAGGT 60.542 57.895 3.32 0.00 43.61 3.85
4200 4632 1.077212 CACAGGGATGGCCTTGAGG 60.077 63.158 3.32 0.00 43.61 3.86
4201 4633 0.107312 CTCACAGGGATGGCCTTGAG 60.107 60.000 3.32 0.81 43.61 3.02
4203 4635 0.679002 CACTCACAGGGATGGCCTTG 60.679 60.000 3.32 0.00 46.15 3.61
4204 4636 1.687612 CACTCACAGGGATGGCCTT 59.312 57.895 3.32 0.00 0.00 4.35
4206 4638 2.439156 GCACTCACAGGGATGGCC 60.439 66.667 0.00 0.00 0.00 5.36
4207 4639 0.895100 TTTGCACTCACAGGGATGGC 60.895 55.000 0.00 0.00 0.00 4.40
4208 4640 1.171308 CTTTGCACTCACAGGGATGG 58.829 55.000 0.00 0.00 0.00 3.51
4209 4641 1.901591 ACTTTGCACTCACAGGGATG 58.098 50.000 0.00 0.00 0.00 3.51
4210 4642 2.664402 AACTTTGCACTCACAGGGAT 57.336 45.000 0.00 0.00 0.00 3.85
4212 4644 4.321230 GGATTAAACTTTGCACTCACAGGG 60.321 45.833 0.00 0.00 0.00 4.45
4213 4645 4.278170 TGGATTAAACTTTGCACTCACAGG 59.722 41.667 0.00 0.00 0.00 4.00
4214 4646 5.437289 TGGATTAAACTTTGCACTCACAG 57.563 39.130 0.00 0.00 0.00 3.66
4215 4647 4.261572 GCTGGATTAAACTTTGCACTCACA 60.262 41.667 0.00 0.00 0.00 3.58
4216 4648 4.022849 AGCTGGATTAAACTTTGCACTCAC 60.023 41.667 0.00 0.00 0.00 3.51
4217 4649 4.144297 AGCTGGATTAAACTTTGCACTCA 58.856 39.130 0.00 0.00 0.00 3.41
4218 4650 4.773323 AGCTGGATTAAACTTTGCACTC 57.227 40.909 0.00 0.00 0.00 3.51
4219 4651 5.048013 GGTTAGCTGGATTAAACTTTGCACT 60.048 40.000 0.00 0.00 0.00 4.40
4220 4652 5.048013 AGGTTAGCTGGATTAAACTTTGCAC 60.048 40.000 0.00 0.00 0.00 4.57
4221 4653 5.076873 AGGTTAGCTGGATTAAACTTTGCA 58.923 37.500 0.00 0.00 0.00 4.08
4222 4654 5.416013 AGAGGTTAGCTGGATTAAACTTTGC 59.584 40.000 0.00 0.00 28.52 3.68
4223 4655 7.454260 AAGAGGTTAGCTGGATTAAACTTTG 57.546 36.000 0.00 0.00 28.52 2.77
4224 4656 9.011095 GTTAAGAGGTTAGCTGGATTAAACTTT 57.989 33.333 0.00 0.00 28.52 2.66
4225 4657 8.161425 TGTTAAGAGGTTAGCTGGATTAAACTT 58.839 33.333 0.00 0.00 28.52 2.66
4226 4658 7.686434 TGTTAAGAGGTTAGCTGGATTAAACT 58.314 34.615 0.00 0.00 30.96 2.66
4227 4659 7.916914 TGTTAAGAGGTTAGCTGGATTAAAC 57.083 36.000 0.00 0.00 0.00 2.01
4228 4660 7.120726 GCTTGTTAAGAGGTTAGCTGGATTAAA 59.879 37.037 0.00 0.00 0.00 1.52
4229 4661 6.598064 GCTTGTTAAGAGGTTAGCTGGATTAA 59.402 38.462 0.00 0.00 0.00 1.40
4230 4662 6.070194 AGCTTGTTAAGAGGTTAGCTGGATTA 60.070 38.462 0.00 0.00 37.56 1.75
4231 4663 4.944317 GCTTGTTAAGAGGTTAGCTGGATT 59.056 41.667 0.00 0.00 0.00 3.01


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

AutoCloner maintained by Alex Coulton.