Multiple sequence alignment - TraesCS2B01G595400

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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 TraesCS2B01G595400 chr2B 100.000 3638 0 0 896 4533 779353710 779357347 0.000000e+00 6719.0
1 TraesCS2B01G595400 chr2B 100.000 364 0 0 1 364 779352815 779353178 0.000000e+00 673.0
2 TraesCS2B01G595400 chr2B 94.340 53 2 1 3940 3992 489001673 489001622 3.760000e-11 80.5
3 TraesCS2B01G595400 chr2B 91.379 58 4 1 3934 3990 221488467 221488524 1.350000e-10 78.7
4 TraesCS2B01G595400 chr2D 92.759 1671 76 14 2017 3658 635244425 635246079 0.000000e+00 2374.0
5 TraesCS2B01G595400 chr2D 91.522 1156 56 22 896 2047 635243372 635244489 0.000000e+00 1554.0
6 TraesCS2B01G595400 chr2D 89.863 365 21 9 1 364 635243024 635243373 5.350000e-124 455.0
7 TraesCS2B01G595400 chr2D 94.340 53 2 1 3940 3992 503441309 503441258 3.760000e-11 80.5
8 TraesCS2B01G595400 chr2A 91.043 1697 94 31 896 2566 777506196 777504532 0.000000e+00 2239.0
9 TraesCS2B01G595400 chr2A 86.912 978 91 27 2696 3658 777504422 777503467 0.000000e+00 1062.0
10 TraesCS2B01G595400 chr2A 92.266 556 38 5 3981 4533 777502362 777501809 0.000000e+00 784.0
11 TraesCS2B01G595400 chr2A 86.740 362 32 6 3 364 777506540 777506195 5.500000e-104 388.0
12 TraesCS2B01G595400 chr2A 86.364 154 13 4 3793 3944 777502506 777502359 1.310000e-35 161.0
13 TraesCS2B01G595400 chr2A 87.013 77 7 2 2004 2078 777505122 777505047 2.910000e-12 84.2
14 TraesCS2B01G595400 chr4D 91.525 59 4 1 3934 3992 481440709 481440652 3.760000e-11 80.5
15 TraesCS2B01G595400 chr3D 94.231 52 3 0 3941 3992 465530650 465530599 3.760000e-11 80.5
16 TraesCS2B01G595400 chr3B 91.525 59 3 2 3935 3992 547332212 547332269 3.760000e-11 80.5
17 TraesCS2B01G595400 chr1A 92.857 56 2 2 3938 3992 299072432 299072378 3.760000e-11 80.5
18 TraesCS2B01G595400 chr5B 92.727 55 3 1 3938 3992 566561674 566561727 1.350000e-10 78.7
19 TraesCS2B01G595400 chr4A 91.379 58 3 2 3924 3980 697941975 697942031 1.350000e-10 78.7


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 TraesCS2B01G595400 chr2B 779352815 779357347 4532 False 3696.000000 6719 100.000000 1 4533 2 chr2B.!!$F2 4532
1 TraesCS2B01G595400 chr2D 635243024 635246079 3055 False 1461.000000 2374 91.381333 1 3658 3 chr2D.!!$F1 3657
2 TraesCS2B01G595400 chr2A 777501809 777506540 4731 True 786.366667 2239 88.389667 3 4533 6 chr2A.!!$R1 4530

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
916 920 1.533711 CATCCTCCACCCACCCATC 59.466 63.158 0.0 0.0 0.00 3.51 F
1715 1739 0.248907 GCGCTCCTTGTCGTATAGCA 60.249 55.000 0.0 0.0 32.69 3.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2437 2500 0.110644 GCAGTCAAGGCGTCGAAAAG 60.111 55.0 0.0 0.0 0.0 2.27 R
3592 3740 0.681564 AACCAAGGTGAACAACGGCA 60.682 50.0 0.0 0.0 0.0 5.69 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
116 119 7.398829 TGCATACCTAGAATAAACAGGTGAAA 58.601 34.615 2.77 0.00 42.65 2.69
158 161 9.866655 TGCTCCCTATAAATCTGATAAATGTTT 57.133 29.630 0.00 0.00 0.00 2.83
171 174 5.538053 TGATAAATGTTTTCTCTTGGTGGCA 59.462 36.000 0.00 0.00 0.00 4.92
184 187 2.203625 TGGCAAACCAAGGGCCTC 60.204 61.111 6.46 0.00 45.37 4.70
187 190 2.335712 GCAAACCAAGGGCCTCTCG 61.336 63.158 6.46 0.00 0.00 4.04
203 206 3.181967 CGGCGAACAGAGAAGCGG 61.182 66.667 0.00 0.00 0.00 5.52
915 919 2.693871 GCATCCTCCACCCACCCAT 61.694 63.158 0.00 0.00 0.00 4.00
916 920 1.533711 CATCCTCCACCCACCCATC 59.466 63.158 0.00 0.00 0.00 3.51
1129 1133 2.176273 CAATCTCTCCCCGCGCAAG 61.176 63.158 8.75 0.00 43.44 4.01
1143 1147 2.626780 GCAAGGCGGGTTCTTGTCC 61.627 63.158 0.00 0.00 42.44 4.02
1148 1152 1.227853 GCGGGTTCTTGTCCTGTGT 60.228 57.895 0.00 0.00 34.14 3.72
1157 1161 2.489722 TCTTGTCCTGTGTCTGATCGAG 59.510 50.000 0.00 0.00 0.00 4.04
1158 1162 2.200373 TGTCCTGTGTCTGATCGAGA 57.800 50.000 0.00 0.00 0.00 4.04
1196 1204 0.382873 GTTTGGTTGGTTGGTCGGTC 59.617 55.000 0.00 0.00 0.00 4.79
1197 1205 1.096386 TTTGGTTGGTTGGTCGGTCG 61.096 55.000 0.00 0.00 0.00 4.79
1198 1206 2.667199 GGTTGGTTGGTCGGTCGG 60.667 66.667 0.00 0.00 0.00 4.79
1199 1207 2.109593 GTTGGTTGGTCGGTCGGT 59.890 61.111 0.00 0.00 0.00 4.69
1304 1312 4.601794 CTGCCCAACCACCAGCCA 62.602 66.667 0.00 0.00 0.00 4.75
1305 1313 3.892104 CTGCCCAACCACCAGCCAT 62.892 63.158 0.00 0.00 0.00 4.40
1343 1364 0.462581 TGACTGATTGATCCGCTGGC 60.463 55.000 0.00 0.00 0.00 4.85
1349 1370 0.323725 ATTGATCCGCTGGCTTGGTT 60.324 50.000 0.00 0.00 0.00 3.67
1351 1372 0.960364 TGATCCGCTGGCTTGGTTTC 60.960 55.000 0.00 0.00 0.00 2.78
1402 1424 3.511699 TCATCGTCAGTTTCGAATCTGG 58.488 45.455 27.58 16.97 40.61 3.86
1556 1579 2.159627 GTCGTTACCTGCCACAATTCTG 59.840 50.000 0.00 0.00 0.00 3.02
1565 1588 3.489355 TGCCACAATTCTGTTCTGACAT 58.511 40.909 0.00 0.00 34.72 3.06
1580 1603 4.242475 TCTGACATGTAACAATCGTGGTC 58.758 43.478 0.00 0.00 0.00 4.02
1715 1739 0.248907 GCGCTCCTTGTCGTATAGCA 60.249 55.000 0.00 0.00 32.69 3.49
1720 1744 4.320275 CGCTCCTTGTCGTATAGCATAGAA 60.320 45.833 0.00 0.00 32.69 2.10
1728 1752 6.197276 TGTCGTATAGCATAGAAGTTCGTTC 58.803 40.000 0.00 0.00 35.08 3.95
1853 1878 4.082125 CCATTATTTCCATGGCCTAGGAC 58.918 47.826 14.75 11.51 34.98 3.85
1983 2009 8.212317 GCATATGCAAAAATTTAATTCTGGGT 57.788 30.769 22.84 0.00 41.59 4.51
1984 2010 8.124199 GCATATGCAAAAATTTAATTCTGGGTG 58.876 33.333 22.84 0.00 41.59 4.61
1985 2011 9.381033 CATATGCAAAAATTTAATTCTGGGTGA 57.619 29.630 0.00 0.00 0.00 4.02
1986 2012 7.671495 ATGCAAAAATTTAATTCTGGGTGAC 57.329 32.000 0.00 0.00 0.00 3.67
1987 2013 6.825610 TGCAAAAATTTAATTCTGGGTGACT 58.174 32.000 0.00 0.00 0.00 3.41
1988 2014 6.705381 TGCAAAAATTTAATTCTGGGTGACTG 59.295 34.615 0.00 0.00 0.00 3.51
1989 2015 6.705825 GCAAAAATTTAATTCTGGGTGACTGT 59.294 34.615 0.00 0.00 0.00 3.55
1990 2016 7.870445 GCAAAAATTTAATTCTGGGTGACTGTA 59.130 33.333 0.00 0.00 0.00 2.74
1991 2017 9.757227 CAAAAATTTAATTCTGGGTGACTGTAA 57.243 29.630 0.00 0.00 0.00 2.41
1997 2023 6.759497 AATTCTGGGTGACTGTAAAATAGC 57.241 37.500 0.00 0.00 0.00 2.97
1998 2024 4.901197 TCTGGGTGACTGTAAAATAGCA 57.099 40.909 0.00 0.00 0.00 3.49
1999 2025 4.832248 TCTGGGTGACTGTAAAATAGCAG 58.168 43.478 0.00 0.00 38.58 4.24
2000 2026 4.530553 TCTGGGTGACTGTAAAATAGCAGA 59.469 41.667 0.00 0.00 36.62 4.26
2001 2027 5.189736 TCTGGGTGACTGTAAAATAGCAGAT 59.810 40.000 0.00 0.00 36.62 2.90
2002 2028 5.815581 TGGGTGACTGTAAAATAGCAGATT 58.184 37.500 0.00 0.00 36.62 2.40
2003 2029 6.953101 TGGGTGACTGTAAAATAGCAGATTA 58.047 36.000 0.00 0.00 36.62 1.75
2004 2030 7.573710 TGGGTGACTGTAAAATAGCAGATTAT 58.426 34.615 0.00 0.00 36.62 1.28
2005 2031 8.052748 TGGGTGACTGTAAAATAGCAGATTATT 58.947 33.333 0.00 0.00 36.62 1.40
2006 2032 8.345565 GGGTGACTGTAAAATAGCAGATTATTG 58.654 37.037 0.00 0.00 36.62 1.90
2007 2033 8.893727 GGTGACTGTAAAATAGCAGATTATTGT 58.106 33.333 0.00 0.00 36.62 2.71
2008 2034 9.708222 GTGACTGTAAAATAGCAGATTATTGTG 57.292 33.333 0.00 0.00 36.62 3.33
2009 2035 9.448438 TGACTGTAAAATAGCAGATTATTGTGT 57.552 29.630 0.00 0.00 36.62 3.72
2312 2375 1.420430 TCACTGAACCCCTTCGACTT 58.580 50.000 0.00 0.00 0.00 3.01
2313 2376 2.600790 TCACTGAACCCCTTCGACTTA 58.399 47.619 0.00 0.00 0.00 2.24
2314 2377 3.170717 TCACTGAACCCCTTCGACTTAT 58.829 45.455 0.00 0.00 0.00 1.73
2316 2379 4.960469 TCACTGAACCCCTTCGACTTATAT 59.040 41.667 0.00 0.00 0.00 0.86
2317 2380 6.131264 TCACTGAACCCCTTCGACTTATATA 58.869 40.000 0.00 0.00 0.00 0.86
2319 2382 6.924060 CACTGAACCCCTTCGACTTATATAAG 59.076 42.308 18.99 18.99 39.18 1.73
2321 2384 7.781693 ACTGAACCCCTTCGACTTATATAAGTA 59.218 37.037 24.69 10.46 45.84 2.24
2396 2459 0.621571 TCATGCTGGCCCTAACTCCT 60.622 55.000 0.00 0.00 0.00 3.69
2402 2465 1.763545 CTGGCCCTAACTCCTAAGTCC 59.236 57.143 0.00 0.00 33.48 3.85
2403 2466 1.365028 TGGCCCTAACTCCTAAGTCCT 59.635 52.381 0.00 0.00 33.48 3.85
2404 2467 2.225805 TGGCCCTAACTCCTAAGTCCTT 60.226 50.000 0.00 0.00 33.48 3.36
2405 2468 2.170817 GGCCCTAACTCCTAAGTCCTTG 59.829 54.545 0.00 0.00 33.48 3.61
2417 2480 0.984995 AGTCCTTGGTCCTTACAGCC 59.015 55.000 0.00 0.00 0.00 4.85
2418 2481 0.690762 GTCCTTGGTCCTTACAGCCA 59.309 55.000 0.00 0.00 0.00 4.75
2424 2487 1.771854 TGGTCCTTACAGCCACAGAAA 59.228 47.619 0.00 0.00 0.00 2.52
2425 2488 2.224523 TGGTCCTTACAGCCACAGAAAG 60.225 50.000 0.00 0.00 0.00 2.62
2437 2500 2.481952 CCACAGAAAGACTAAGCTGCAC 59.518 50.000 1.02 0.00 31.74 4.57
2450 2513 1.941812 CTGCACTTTTCGACGCCTT 59.058 52.632 0.00 0.00 0.00 4.35
2465 2528 1.242076 GCCTTGACTGCAACTGTGAT 58.758 50.000 0.00 0.00 0.00 3.06
2467 2530 3.012518 GCCTTGACTGCAACTGTGATAT 58.987 45.455 0.00 0.00 0.00 1.63
2475 2538 5.655488 ACTGCAACTGTGATATAGTCTCAC 58.345 41.667 0.00 0.00 42.68 3.51
2495 2558 7.912250 GTCTCACAAAATTAAGCTGACCATATG 59.088 37.037 0.00 0.00 0.00 1.78
2505 2568 9.726438 ATTAAGCTGACCATATGTAATTAGGAC 57.274 33.333 1.24 0.00 0.00 3.85
2631 2699 9.368416 TCCTGATTCTATAGTATTTGCTGTACT 57.632 33.333 0.00 0.00 36.44 2.73
2736 2854 6.751888 GGATTTTTGTTGGGATAACTGAATCG 59.248 38.462 0.00 0.00 0.00 3.34
2945 3063 3.821748 TGCGACATAGATAGTCTGGTCT 58.178 45.455 0.00 0.00 33.06 3.85
3029 3147 4.097741 TCAATGTGCAAGCTGTTTTACTGT 59.902 37.500 0.00 0.00 0.00 3.55
3037 3155 6.699642 TGCAAGCTGTTTTACTGTAAATTTCC 59.300 34.615 13.29 4.25 0.00 3.13
3041 3159 5.854866 GCTGTTTTACTGTAAATTTCCGGAC 59.145 40.000 1.83 7.70 0.00 4.79
3043 3161 4.666928 TTTACTGTAAATTTCCGGACGC 57.333 40.909 1.83 0.00 0.00 5.19
3064 3182 4.609113 CGCTGTGTTATTTCCATATCTGCG 60.609 45.833 0.00 0.00 0.00 5.18
3151 3269 1.739562 CTGCTTCTCCGTGACTGCC 60.740 63.158 0.00 0.00 0.00 4.85
3207 3328 9.197306 ACCAGTGTTTTCTTTCCTAATAAACTT 57.803 29.630 0.00 0.00 31.71 2.66
3208 3329 9.463443 CCAGTGTTTTCTTTCCTAATAAACTTG 57.537 33.333 0.00 0.00 31.71 3.16
3247 3371 0.948623 AGTGCTTCAACGCGTGCATA 60.949 50.000 22.40 4.56 37.76 3.14
3284 3408 1.630369 GGGTAAGTTAACGGGGTTCCT 59.370 52.381 0.00 0.00 0.00 3.36
3346 3487 0.250295 AACCACATGACACCTGACGG 60.250 55.000 0.00 0.00 0.00 4.79
3358 3499 1.737735 CTGACGGCTCACATTGCGA 60.738 57.895 0.00 0.00 0.00 5.10
3359 3500 1.079197 TGACGGCTCACATTGCGAT 60.079 52.632 0.00 0.00 0.00 4.58
3364 3506 0.799534 GGCTCACATTGCGATGTTGC 60.800 55.000 23.65 23.65 43.92 4.17
3391 3533 3.098636 GCTTGTGTGAAAACGACAGTTC 58.901 45.455 0.00 0.00 40.18 3.01
3575 3723 4.858935 TCGTGTAAACTGTTAGTAAGCGT 58.141 39.130 0.00 0.00 0.00 5.07
3658 3806 1.006043 TGTTTGGTCCAACTCCAACCA 59.994 47.619 2.98 0.00 43.45 3.67
3659 3807 2.316108 GTTTGGTCCAACTCCAACCAT 58.684 47.619 2.98 0.00 43.45 3.55
3660 3808 2.698274 GTTTGGTCCAACTCCAACCATT 59.302 45.455 2.98 0.00 43.45 3.16
3661 3809 3.885976 TTGGTCCAACTCCAACCATTA 57.114 42.857 0.00 0.00 42.41 1.90
3662 3810 3.433306 TGGTCCAACTCCAACCATTAG 57.567 47.619 0.00 0.00 38.14 1.73
3685 4163 7.211966 AGCAGAATTTGGCACATTATCTATC 57.788 36.000 0.00 0.00 39.30 2.08
3686 4164 7.002879 AGCAGAATTTGGCACATTATCTATCT 58.997 34.615 0.00 0.00 39.30 1.98
3687 4165 7.040617 AGCAGAATTTGGCACATTATCTATCTG 60.041 37.037 0.00 3.03 39.30 2.90
3688 4166 7.255381 GCAGAATTTGGCACATTATCTATCTGT 60.255 37.037 10.67 0.00 39.30 3.41
3695 4173 8.382030 TGGCACATTATCTATCTGTAATGTTG 57.618 34.615 7.75 5.97 44.72 3.33
3698 4176 7.041167 GCACATTATCTATCTGTAATGTTGGCA 60.041 37.037 7.75 0.00 44.72 4.92
3709 4187 0.471591 ATGTTGGCAGGAAAAGGGCA 60.472 50.000 0.00 0.00 37.85 5.36
3713 4191 2.301583 GTTGGCAGGAAAAGGGCATTTA 59.698 45.455 0.00 0.00 39.46 1.40
3720 4198 5.637810 GCAGGAAAAGGGCATTTAACTAAAC 59.362 40.000 0.00 0.00 0.00 2.01
3735 4214 3.886123 ACTAAACCACTGTCAACAAGCT 58.114 40.909 0.00 0.00 0.00 3.74
3736 4215 3.627577 ACTAAACCACTGTCAACAAGCTG 59.372 43.478 0.00 0.00 0.00 4.24
3737 4216 2.128771 AACCACTGTCAACAAGCTGT 57.871 45.000 0.00 0.00 0.00 4.40
3739 4218 0.664761 CCACTGTCAACAAGCTGTGG 59.335 55.000 1.64 1.64 44.22 4.17
3740 4219 0.029834 CACTGTCAACAAGCTGTGGC 59.970 55.000 0.00 0.00 39.06 5.01
3765 4244 3.905678 CCAGCGAGGAGGCTACGG 61.906 72.222 9.50 0.00 42.53 4.02
3766 4245 3.141488 CAGCGAGGAGGCTACGGT 61.141 66.667 7.01 7.01 42.53 4.83
3767 4246 1.822613 CAGCGAGGAGGCTACGGTA 60.823 63.158 11.24 0.00 42.53 4.02
3768 4247 1.526455 AGCGAGGAGGCTACGGTAG 60.526 63.158 10.83 10.83 42.62 3.18
3769 4248 2.553727 GCGAGGAGGCTACGGTAGG 61.554 68.421 16.43 0.00 0.00 3.18
3770 4249 1.897615 CGAGGAGGCTACGGTAGGG 60.898 68.421 16.43 0.00 0.00 3.53
3771 4250 1.535685 GAGGAGGCTACGGTAGGGA 59.464 63.158 16.43 0.00 0.00 4.20
3772 4251 0.112801 GAGGAGGCTACGGTAGGGAT 59.887 60.000 16.43 0.00 0.00 3.85
3773 4252 0.178958 AGGAGGCTACGGTAGGGATG 60.179 60.000 16.43 0.00 0.00 3.51
3776 4255 2.249139 GAGGCTACGGTAGGGATGATT 58.751 52.381 16.43 0.00 0.00 2.57
3777 4256 2.633481 GAGGCTACGGTAGGGATGATTT 59.367 50.000 16.43 0.00 0.00 2.17
3778 4257 3.046374 AGGCTACGGTAGGGATGATTTT 58.954 45.455 16.43 0.00 0.00 1.82
3781 4260 5.309806 AGGCTACGGTAGGGATGATTTTTAT 59.690 40.000 16.43 0.00 0.00 1.40
3782 4261 6.002082 GGCTACGGTAGGGATGATTTTTATT 58.998 40.000 16.43 0.00 0.00 1.40
3783 4262 6.072673 GGCTACGGTAGGGATGATTTTTATTG 60.073 42.308 16.43 0.00 0.00 1.90
3784 4263 6.072673 GCTACGGTAGGGATGATTTTTATTGG 60.073 42.308 16.43 0.00 0.00 3.16
3785 4264 5.137551 ACGGTAGGGATGATTTTTATTGGG 58.862 41.667 0.00 0.00 0.00 4.12
3786 4265 5.137551 CGGTAGGGATGATTTTTATTGGGT 58.862 41.667 0.00 0.00 0.00 4.51
3787 4266 5.240844 CGGTAGGGATGATTTTTATTGGGTC 59.759 44.000 0.00 0.00 0.00 4.46
3788 4267 5.538813 GGTAGGGATGATTTTTATTGGGTCC 59.461 44.000 0.00 0.00 0.00 4.46
3789 4268 5.219468 AGGGATGATTTTTATTGGGTCCA 57.781 39.130 0.00 0.00 0.00 4.02
3791 4270 5.840693 AGGGATGATTTTTATTGGGTCCATC 59.159 40.000 0.00 0.00 0.00 3.51
3800 4777 6.884472 TTTATTGGGTCCATCTAAGACTCA 57.116 37.500 0.00 0.00 42.95 3.41
3801 4778 4.762289 ATTGGGTCCATCTAAGACTCAC 57.238 45.455 0.00 0.00 44.30 3.51
3807 4784 3.131400 GTCCATCTAAGACTCACCTGGAC 59.869 52.174 0.00 9.94 42.93 4.02
3809 4786 4.229812 TCCATCTAAGACTCACCTGGACTA 59.770 45.833 0.00 0.00 0.00 2.59
3822 4799 1.004745 CTGGACTATGGCCCTTGTGTT 59.995 52.381 0.00 0.00 0.00 3.32
3824 4801 2.158385 TGGACTATGGCCCTTGTGTTTT 60.158 45.455 0.00 0.00 0.00 2.43
3830 4807 2.114616 TGGCCCTTGTGTTTTGTCATT 58.885 42.857 0.00 0.00 0.00 2.57
3832 4809 3.068873 TGGCCCTTGTGTTTTGTCATTAC 59.931 43.478 0.00 0.00 0.00 1.89
3834 4811 4.546570 GCCCTTGTGTTTTGTCATTACTC 58.453 43.478 0.00 0.00 0.00 2.59
3840 4817 7.759433 CCTTGTGTTTTGTCATTACTCTTGTTT 59.241 33.333 0.00 0.00 0.00 2.83
3842 4819 8.459521 TGTGTTTTGTCATTACTCTTGTTTTG 57.540 30.769 0.00 0.00 0.00 2.44
3844 4821 9.562583 GTGTTTTGTCATTACTCTTGTTTTGTA 57.437 29.630 0.00 0.00 0.00 2.41
3845 4822 9.562583 TGTTTTGTCATTACTCTTGTTTTGTAC 57.437 29.630 0.00 0.00 0.00 2.90
3846 4823 9.783256 GTTTTGTCATTACTCTTGTTTTGTACT 57.217 29.630 0.00 0.00 0.00 2.73
3857 4834 9.662947 ACTCTTGTTTTGTACTTACTACACTTT 57.337 29.630 0.00 0.00 34.91 2.66
3860 4837 9.698617 CTTGTTTTGTACTTACTACACTTTGTC 57.301 33.333 0.00 0.00 34.91 3.18
3861 4838 8.774890 TGTTTTGTACTTACTACACTTTGTCA 57.225 30.769 0.00 0.00 34.91 3.58
3862 4839 9.386010 TGTTTTGTACTTACTACACTTTGTCAT 57.614 29.630 0.00 0.00 34.91 3.06
3863 4840 9.859692 GTTTTGTACTTACTACACTTTGTCATC 57.140 33.333 0.00 0.00 34.91 2.92
3864 4841 7.862741 TTGTACTTACTACACTTTGTCATCG 57.137 36.000 0.00 0.00 34.91 3.84
3954 4931 6.416631 AGTATTTATTACTCCCTCCGTTCC 57.583 41.667 0.00 0.00 36.34 3.62
3955 4932 3.806625 TTTATTACTCCCTCCGTTCCG 57.193 47.619 0.00 0.00 0.00 4.30
3956 4933 2.734755 TATTACTCCCTCCGTTCCGA 57.265 50.000 0.00 0.00 0.00 4.55
3957 4934 2.083628 ATTACTCCCTCCGTTCCGAT 57.916 50.000 0.00 0.00 0.00 4.18
3958 4935 1.856629 TTACTCCCTCCGTTCCGATT 58.143 50.000 0.00 0.00 0.00 3.34
3959 4936 1.856629 TACTCCCTCCGTTCCGATTT 58.143 50.000 0.00 0.00 0.00 2.17
3960 4937 1.856629 ACTCCCTCCGTTCCGATTTA 58.143 50.000 0.00 0.00 0.00 1.40
3961 4938 1.479730 ACTCCCTCCGTTCCGATTTAC 59.520 52.381 0.00 0.00 0.00 2.01
3962 4939 1.755380 CTCCCTCCGTTCCGATTTACT 59.245 52.381 0.00 0.00 0.00 2.24
3963 4940 1.753073 TCCCTCCGTTCCGATTTACTC 59.247 52.381 0.00 0.00 0.00 2.59
3965 4942 1.133790 CCTCCGTTCCGATTTACTCGT 59.866 52.381 0.00 0.00 46.18 4.18
3966 4943 2.448219 CTCCGTTCCGATTTACTCGTC 58.552 52.381 0.00 0.00 46.18 4.20
3967 4944 1.186030 CCGTTCCGATTTACTCGTCG 58.814 55.000 0.00 0.00 46.18 5.12
3968 4945 1.466360 CCGTTCCGATTTACTCGTCGT 60.466 52.381 0.00 0.00 46.18 4.34
3969 4946 1.576246 CGTTCCGATTTACTCGTCGTG 59.424 52.381 0.00 0.00 46.18 4.35
3970 4947 1.916000 GTTCCGATTTACTCGTCGTGG 59.084 52.381 0.00 0.00 46.18 4.94
3971 4948 1.167851 TCCGATTTACTCGTCGTGGT 58.832 50.000 0.00 0.00 46.18 4.16
3972 4949 1.541147 TCCGATTTACTCGTCGTGGTT 59.459 47.619 0.00 0.00 46.18 3.67
3973 4950 2.030007 TCCGATTTACTCGTCGTGGTTT 60.030 45.455 0.00 0.00 46.18 3.27
3974 4951 2.733026 CCGATTTACTCGTCGTGGTTTT 59.267 45.455 0.00 0.00 46.18 2.43
3975 4952 3.919804 CCGATTTACTCGTCGTGGTTTTA 59.080 43.478 0.00 0.00 46.18 1.52
3976 4953 4.030977 CCGATTTACTCGTCGTGGTTTTAG 59.969 45.833 0.00 0.00 46.18 1.85
3977 4954 4.618489 CGATTTACTCGTCGTGGTTTTAGT 59.382 41.667 0.00 0.00 42.56 2.24
3978 4955 5.117592 CGATTTACTCGTCGTGGTTTTAGTT 59.882 40.000 0.00 0.00 42.56 2.24
3979 4956 5.888412 TTTACTCGTCGTGGTTTTAGTTC 57.112 39.130 0.00 0.00 0.00 3.01
3980 4957 3.722728 ACTCGTCGTGGTTTTAGTTCT 57.277 42.857 0.00 0.00 0.00 3.01
3981 4958 4.836125 ACTCGTCGTGGTTTTAGTTCTA 57.164 40.909 0.00 0.00 0.00 2.10
3982 4959 4.540824 ACTCGTCGTGGTTTTAGTTCTAC 58.459 43.478 0.00 0.00 0.00 2.59
3983 4960 4.276926 ACTCGTCGTGGTTTTAGTTCTACT 59.723 41.667 0.00 0.00 0.00 2.57
3984 4961 5.186996 TCGTCGTGGTTTTAGTTCTACTT 57.813 39.130 0.00 0.00 0.00 2.24
3985 4962 6.017109 ACTCGTCGTGGTTTTAGTTCTACTTA 60.017 38.462 0.00 0.00 0.00 2.24
3986 4963 6.913170 TCGTCGTGGTTTTAGTTCTACTTAT 58.087 36.000 0.00 0.00 0.00 1.73
3987 4964 8.039603 TCGTCGTGGTTTTAGTTCTACTTATA 57.960 34.615 0.00 0.00 0.00 0.98
3988 4965 8.511321 TCGTCGTGGTTTTAGTTCTACTTATAA 58.489 33.333 0.00 0.00 0.00 0.98
3989 4966 9.128107 CGTCGTGGTTTTAGTTCTACTTATAAA 57.872 33.333 0.00 0.00 0.00 1.40
4053 5030 2.543777 TGTCAGTTTTCCCTCCTTCG 57.456 50.000 0.00 0.00 0.00 3.79
4084 5061 8.651588 AGCTTATATTATTTCTTCTTCGCGATG 58.348 33.333 10.88 13.53 0.00 3.84
4086 5063 9.732893 CTTATATTATTTCTTCTTCGCGATGTG 57.267 33.333 19.92 14.31 0.00 3.21
4104 5081 0.991146 TGCTTCAGGCCAGACCATAA 59.009 50.000 5.01 0.00 43.14 1.90
4111 5088 2.126882 AGGCCAGACCATAACTATGCA 58.873 47.619 5.01 0.00 43.14 3.96
4112 5089 2.158755 AGGCCAGACCATAACTATGCAC 60.159 50.000 5.01 0.00 43.14 4.57
4161 5138 2.046314 GGCAGCGTGTACATGGGT 60.046 61.111 16.68 6.49 0.00 4.51
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 31 4.282957 TGGCATATTTGTGTGTGGTCATTT 59.717 37.500 0.00 0.00 0.00 2.32
31 33 3.429492 TGGCATATTTGTGTGTGGTCAT 58.571 40.909 0.00 0.00 0.00 3.06
32 34 2.868899 TGGCATATTTGTGTGTGGTCA 58.131 42.857 0.00 0.00 0.00 4.02
33 35 3.932545 TTGGCATATTTGTGTGTGGTC 57.067 42.857 0.00 0.00 0.00 4.02
83 86 9.976511 TGTTTATTCTAGGTATGCATACAGTAC 57.023 33.333 32.19 18.12 34.98 2.73
93 96 7.465513 GCGTTTCACCTGTTTATTCTAGGTATG 60.466 40.741 0.00 0.00 42.72 2.39
108 111 2.118683 CACAAATGTGCGTTTCACCTG 58.881 47.619 0.00 0.00 45.03 4.00
155 158 2.821546 GGTTTGCCACCAAGAGAAAAC 58.178 47.619 0.00 0.00 46.42 2.43
183 186 1.213013 GCTTCTCTGTTCGCCGAGA 59.787 57.895 0.00 0.00 34.66 4.04
184 187 2.155194 CGCTTCTCTGTTCGCCGAG 61.155 63.158 0.00 0.00 0.00 4.63
187 190 2.815647 CCCGCTTCTCTGTTCGCC 60.816 66.667 0.00 0.00 0.00 5.54
981 985 1.740296 CGCCTTACCCTGTTCACGG 60.740 63.158 0.00 0.00 0.00 4.94
1129 1133 1.966451 CACAGGACAAGAACCCGCC 60.966 63.158 0.00 0.00 0.00 6.13
1148 1152 2.003301 CGTCAGTCAGTCTCGATCAGA 58.997 52.381 0.00 0.00 0.00 3.27
1157 1161 1.597663 CAAACCAACCGTCAGTCAGTC 59.402 52.381 0.00 0.00 0.00 3.51
1158 1162 1.065709 ACAAACCAACCGTCAGTCAGT 60.066 47.619 0.00 0.00 0.00 3.41
1159 1163 1.663695 ACAAACCAACCGTCAGTCAG 58.336 50.000 0.00 0.00 0.00 3.51
1160 1164 2.116827 AACAAACCAACCGTCAGTCA 57.883 45.000 0.00 0.00 0.00 3.41
1304 1312 5.011329 AGTCAATCAAACAGTTGCATTCCAT 59.989 36.000 0.00 0.00 34.50 3.41
1305 1313 4.341806 AGTCAATCAAACAGTTGCATTCCA 59.658 37.500 0.00 0.00 34.50 3.53
1373 1395 4.929211 TCGAAACTGACGATGAACATGAAT 59.071 37.500 0.00 0.00 34.85 2.57
1374 1396 4.303282 TCGAAACTGACGATGAACATGAA 58.697 39.130 0.00 0.00 34.85 2.57
1375 1397 3.908213 TCGAAACTGACGATGAACATGA 58.092 40.909 0.00 0.00 34.85 3.07
1376 1398 4.645667 TTCGAAACTGACGATGAACATG 57.354 40.909 0.00 0.00 39.45 3.21
1383 1405 3.594603 ACCAGATTCGAAACTGACGAT 57.405 42.857 30.38 13.94 39.45 3.73
1470 1493 7.573469 GCCAATTCAACAACACATGCATAATTT 60.573 33.333 0.00 0.00 0.00 1.82
1556 1579 4.451096 ACCACGATTGTTACATGTCAGAAC 59.549 41.667 0.00 1.81 0.00 3.01
1720 1744 8.129211 GCATAGCCATATTTAAAAGAACGAACT 58.871 33.333 0.00 0.00 0.00 3.01
1728 1752 9.677567 ATTTACACGCATAGCCATATTTAAAAG 57.322 29.630 0.00 0.00 0.00 2.27
1785 1810 2.430332 CAAGGCACCAAGACTGGAAAAA 59.570 45.455 0.00 0.00 46.92 1.94
1793 1818 1.006922 GCAAGCAAGGCACCAAGAC 60.007 57.895 0.00 0.00 0.00 3.01
1974 2000 6.245408 TGCTATTTTACAGTCACCCAGAATT 58.755 36.000 0.00 0.00 0.00 2.17
1975 2001 5.815581 TGCTATTTTACAGTCACCCAGAAT 58.184 37.500 0.00 0.00 0.00 2.40
1976 2002 5.012664 TCTGCTATTTTACAGTCACCCAGAA 59.987 40.000 0.00 0.00 35.37 3.02
1977 2003 4.530553 TCTGCTATTTTACAGTCACCCAGA 59.469 41.667 0.00 0.00 35.37 3.86
1978 2004 4.832248 TCTGCTATTTTACAGTCACCCAG 58.168 43.478 0.00 0.00 35.37 4.45
1980 2006 8.345565 CAATAATCTGCTATTTTACAGTCACCC 58.654 37.037 0.00 0.00 35.37 4.61
1981 2007 8.893727 ACAATAATCTGCTATTTTACAGTCACC 58.106 33.333 0.00 0.00 35.37 4.02
1983 2009 9.448438 ACACAATAATCTGCTATTTTACAGTCA 57.552 29.630 0.00 0.00 35.37 3.41
1993 2019 9.890629 TCACTAAGAAACACAATAATCTGCTAT 57.109 29.630 0.00 0.00 0.00 2.97
1994 2020 9.151471 GTCACTAAGAAACACAATAATCTGCTA 57.849 33.333 0.00 0.00 0.00 3.49
1995 2021 7.880195 AGTCACTAAGAAACACAATAATCTGCT 59.120 33.333 0.00 0.00 0.00 4.24
1996 2022 7.959651 CAGTCACTAAGAAACACAATAATCTGC 59.040 37.037 0.00 0.00 0.00 4.26
1997 2023 8.993121 ACAGTCACTAAGAAACACAATAATCTG 58.007 33.333 0.00 0.00 0.00 2.90
2005 2031 8.770828 GCTATTTTACAGTCACTAAGAAACACA 58.229 33.333 0.00 0.00 0.00 3.72
2006 2032 8.770828 TGCTATTTTACAGTCACTAAGAAACAC 58.229 33.333 0.00 0.00 0.00 3.32
2007 2033 8.896320 TGCTATTTTACAGTCACTAAGAAACA 57.104 30.769 0.00 0.00 0.00 2.83
2008 2034 9.204570 TCTGCTATTTTACAGTCACTAAGAAAC 57.795 33.333 0.00 0.00 35.37 2.78
2009 2035 9.944376 ATCTGCTATTTTACAGTCACTAAGAAA 57.056 29.630 0.00 0.00 35.37 2.52
2010 2036 9.944376 AATCTGCTATTTTACAGTCACTAAGAA 57.056 29.630 0.00 0.00 35.37 2.52
2011 2037 9.371136 CAATCTGCTATTTTACAGTCACTAAGA 57.629 33.333 0.00 0.00 35.37 2.10
2012 2038 9.155975 ACAATCTGCTATTTTACAGTCACTAAG 57.844 33.333 0.00 0.00 35.37 2.18
2013 2039 9.502091 AACAATCTGCTATTTTACAGTCACTAA 57.498 29.630 0.00 0.00 35.37 2.24
2014 2040 8.935844 CAACAATCTGCTATTTTACAGTCACTA 58.064 33.333 0.00 0.00 35.37 2.74
2015 2041 7.445402 ACAACAATCTGCTATTTTACAGTCACT 59.555 33.333 0.00 0.00 35.37 3.41
2212 2275 1.478916 GAGTAACTGTCCTCTCCTGGC 59.521 57.143 0.00 0.00 0.00 4.85
2278 2341 4.120792 TCAGTGATGAGAAGACATCTGC 57.879 45.455 0.00 0.00 44.61 4.26
2316 2379 9.685828 GGTTGTTGCATAACAGATTTTTACTTA 57.314 29.630 14.08 0.00 46.63 2.24
2317 2380 7.655732 GGGTTGTTGCATAACAGATTTTTACTT 59.344 33.333 14.08 0.00 46.63 2.24
2319 2382 6.926272 TGGGTTGTTGCATAACAGATTTTTAC 59.074 34.615 14.08 0.00 46.63 2.01
2320 2383 7.055667 TGGGTTGTTGCATAACAGATTTTTA 57.944 32.000 14.08 0.00 46.63 1.52
2321 2384 5.923204 TGGGTTGTTGCATAACAGATTTTT 58.077 33.333 14.08 0.00 46.63 1.94
2396 2459 2.570302 GGCTGTAAGGACCAAGGACTTA 59.430 50.000 0.00 0.00 0.00 2.24
2402 2465 1.347707 TCTGTGGCTGTAAGGACCAAG 59.652 52.381 0.00 0.00 34.63 3.61
2403 2466 1.429930 TCTGTGGCTGTAAGGACCAA 58.570 50.000 0.00 0.00 34.63 3.67
2404 2467 1.429930 TTCTGTGGCTGTAAGGACCA 58.570 50.000 0.00 0.00 0.00 4.02
2405 2468 2.038557 TCTTTCTGTGGCTGTAAGGACC 59.961 50.000 0.00 0.00 0.00 4.46
2417 2480 3.397482 AGTGCAGCTTAGTCTTTCTGTG 58.603 45.455 0.00 0.00 0.00 3.66
2418 2481 3.760580 AGTGCAGCTTAGTCTTTCTGT 57.239 42.857 0.00 0.00 0.00 3.41
2424 2487 3.060602 GTCGAAAAGTGCAGCTTAGTCT 58.939 45.455 0.00 0.00 36.17 3.24
2425 2488 2.159960 CGTCGAAAAGTGCAGCTTAGTC 60.160 50.000 0.00 0.00 36.17 2.59
2437 2500 0.110644 GCAGTCAAGGCGTCGAAAAG 60.111 55.000 0.00 0.00 0.00 2.27
2450 2513 5.418840 TGAGACTATATCACAGTTGCAGTCA 59.581 40.000 0.00 0.00 34.70 3.41
2465 2528 8.318412 TGGTCAGCTTAATTTTGTGAGACTATA 58.682 33.333 0.00 0.00 0.00 1.31
2467 2530 6.530120 TGGTCAGCTTAATTTTGTGAGACTA 58.470 36.000 0.00 0.00 0.00 2.59
2483 2546 6.554982 TCAGTCCTAATTACATATGGTCAGCT 59.445 38.462 7.80 0.00 0.00 4.24
2495 2558 8.008513 TCACACTCCTATTCAGTCCTAATTAC 57.991 38.462 0.00 0.00 0.00 1.89
2505 2568 5.163468 ACAGCAGTATCACACTCCTATTCAG 60.163 44.000 0.00 0.00 34.26 3.02
2736 2854 8.822855 CAAGTTTTAAATACAGGGAAAACCAAC 58.177 33.333 5.67 0.00 40.86 3.77
2904 3022 5.814188 TCGCATTAATATTTGCATGCCAAAA 59.186 32.000 16.68 10.53 45.80 2.44
2945 3063 2.682594 ACCAGCCAGCTGATAGATACA 58.317 47.619 21.01 0.00 46.30 2.29
3029 3147 2.172851 ACACAGCGTCCGGAAATTTA 57.827 45.000 5.23 0.00 0.00 1.40
3037 3155 1.434555 TGGAAATAACACAGCGTCCG 58.565 50.000 0.00 0.00 0.00 4.79
3041 3159 4.609113 CGCAGATATGGAAATAACACAGCG 60.609 45.833 0.00 0.00 0.00 5.18
3043 3161 5.755375 ACTCGCAGATATGGAAATAACACAG 59.245 40.000 0.00 0.00 33.89 3.66
3064 3182 6.695278 GCAGTAAGACAGAATCATACAGACTC 59.305 42.308 0.00 0.00 34.53 3.36
3165 3285 7.186873 AAACACTGGTTACTGAATCTGTCAGG 61.187 42.308 8.15 4.57 46.61 3.86
3247 3371 1.274416 ACCCTGTATCCACACCCAGAT 60.274 52.381 0.00 0.00 0.00 2.90
3284 3408 0.880278 GGAAGCCATATTGCTCGCGA 60.880 55.000 9.26 9.26 41.80 5.87
3346 3487 1.129879 CGCAACATCGCAATGTGAGC 61.130 55.000 2.12 5.61 45.48 4.26
3358 3499 1.925847 CACACAAGCAAAACGCAACAT 59.074 42.857 0.00 0.00 46.13 2.71
3359 3500 1.068264 TCACACAAGCAAAACGCAACA 60.068 42.857 0.00 0.00 46.13 3.33
3391 3533 0.870307 CTTTCTCCGCCGGTATGTCG 60.870 60.000 1.63 0.00 0.00 4.35
3427 3569 2.349755 GGCTTGGACGGCCTGTTA 59.650 61.111 9.82 0.00 45.57 2.41
3498 3646 4.980805 GCACGTCTTCACCGGCCA 62.981 66.667 0.00 0.00 0.00 5.36
3533 3681 2.298411 AAATTTGGCGTCATCATGGC 57.702 45.000 0.00 0.00 34.56 4.40
3543 3691 4.039032 ACAGTTTACACGAAAATTTGGCG 58.961 39.130 10.95 10.95 0.00 5.69
3592 3740 0.681564 AACCAAGGTGAACAACGGCA 60.682 50.000 0.00 0.00 0.00 5.69
3658 3806 7.592885 AGATAATGTGCCAAATTCTGCTAAT 57.407 32.000 0.00 0.00 0.00 1.73
3659 3807 8.696043 ATAGATAATGTGCCAAATTCTGCTAA 57.304 30.769 0.00 0.00 0.00 3.09
3660 3808 8.159447 AGATAGATAATGTGCCAAATTCTGCTA 58.841 33.333 0.00 0.00 0.00 3.49
3661 3809 7.002879 AGATAGATAATGTGCCAAATTCTGCT 58.997 34.615 0.00 0.00 0.00 4.24
3662 3810 7.082602 CAGATAGATAATGTGCCAAATTCTGC 58.917 38.462 0.00 0.00 0.00 4.26
3685 4163 3.056607 CCCTTTTCCTGCCAACATTACAG 60.057 47.826 0.00 0.00 0.00 2.74
3686 4164 2.896685 CCCTTTTCCTGCCAACATTACA 59.103 45.455 0.00 0.00 0.00 2.41
3687 4165 2.353704 GCCCTTTTCCTGCCAACATTAC 60.354 50.000 0.00 0.00 0.00 1.89
3688 4166 1.899142 GCCCTTTTCCTGCCAACATTA 59.101 47.619 0.00 0.00 0.00 1.90
3695 4173 2.567169 AGTTAAATGCCCTTTTCCTGCC 59.433 45.455 0.00 0.00 0.00 4.85
3698 4176 5.841783 TGGTTTAGTTAAATGCCCTTTTCCT 59.158 36.000 0.00 0.00 0.00 3.36
3709 4187 7.068226 AGCTTGTTGACAGTGGTTTAGTTAAAT 59.932 33.333 0.00 0.00 0.00 1.40
3713 4191 4.096382 CAGCTTGTTGACAGTGGTTTAGTT 59.904 41.667 0.00 0.00 0.00 2.24
3720 4198 0.664761 CCACAGCTTGTTGACAGTGG 59.335 55.000 1.64 1.64 40.32 4.00
3745 4224 2.829003 TAGCCTCCTCGCTGGACG 60.829 66.667 0.00 0.00 40.56 4.79
3746 4225 2.809010 GTAGCCTCCTCGCTGGAC 59.191 66.667 0.00 0.00 40.56 4.02
3747 4226 2.829003 CGTAGCCTCCTCGCTGGA 60.829 66.667 0.00 0.00 43.86 3.86
3748 4227 3.905678 CCGTAGCCTCCTCGCTGG 61.906 72.222 0.00 0.00 40.08 4.85
3750 4229 1.526455 CTACCGTAGCCTCCTCGCT 60.526 63.158 0.00 0.00 43.09 4.93
3751 4230 2.553727 CCTACCGTAGCCTCCTCGC 61.554 68.421 0.00 0.00 0.00 5.03
3752 4231 1.897615 CCCTACCGTAGCCTCCTCG 60.898 68.421 0.00 0.00 0.00 4.63
3753 4232 0.112801 ATCCCTACCGTAGCCTCCTC 59.887 60.000 0.00 0.00 0.00 3.71
3754 4233 0.178958 CATCCCTACCGTAGCCTCCT 60.179 60.000 0.00 0.00 0.00 3.69
3755 4234 0.178970 TCATCCCTACCGTAGCCTCC 60.179 60.000 0.00 0.00 0.00 4.30
3756 4235 1.926108 ATCATCCCTACCGTAGCCTC 58.074 55.000 0.00 0.00 0.00 4.70
3757 4236 2.400467 AATCATCCCTACCGTAGCCT 57.600 50.000 0.00 0.00 0.00 4.58
3758 4237 3.487120 AAAATCATCCCTACCGTAGCC 57.513 47.619 0.00 0.00 0.00 3.93
3759 4238 6.072673 CCAATAAAAATCATCCCTACCGTAGC 60.073 42.308 0.00 0.00 0.00 3.58
3760 4239 6.430000 CCCAATAAAAATCATCCCTACCGTAG 59.570 42.308 0.00 0.00 0.00 3.51
3761 4240 6.126420 ACCCAATAAAAATCATCCCTACCGTA 60.126 38.462 0.00 0.00 0.00 4.02
3762 4241 5.137551 CCCAATAAAAATCATCCCTACCGT 58.862 41.667 0.00 0.00 0.00 4.83
3763 4242 5.137551 ACCCAATAAAAATCATCCCTACCG 58.862 41.667 0.00 0.00 0.00 4.02
3765 4244 6.133356 TGGACCCAATAAAAATCATCCCTAC 58.867 40.000 0.00 0.00 0.00 3.18
3766 4245 6.348478 TGGACCCAATAAAAATCATCCCTA 57.652 37.500 0.00 0.00 0.00 3.53
3767 4246 5.219468 TGGACCCAATAAAAATCATCCCT 57.781 39.130 0.00 0.00 0.00 4.20
3768 4247 5.840693 AGATGGACCCAATAAAAATCATCCC 59.159 40.000 0.00 0.00 32.61 3.85
3769 4248 6.983906 AGATGGACCCAATAAAAATCATCC 57.016 37.500 0.00 0.00 32.61 3.51
3770 4249 9.354673 TCTTAGATGGACCCAATAAAAATCATC 57.645 33.333 0.00 0.00 0.00 2.92
3771 4250 9.136323 GTCTTAGATGGACCCAATAAAAATCAT 57.864 33.333 0.00 0.00 0.00 2.45
3772 4251 8.336235 AGTCTTAGATGGACCCAATAAAAATCA 58.664 33.333 0.00 0.00 34.56 2.57
3773 4252 8.753497 AGTCTTAGATGGACCCAATAAAAATC 57.247 34.615 0.00 0.00 34.56 2.17
3776 4255 7.110155 GTGAGTCTTAGATGGACCCAATAAAA 58.890 38.462 0.00 0.00 34.56 1.52
3777 4256 6.352737 GGTGAGTCTTAGATGGACCCAATAAA 60.353 42.308 0.00 0.00 34.56 1.40
3778 4257 5.130477 GGTGAGTCTTAGATGGACCCAATAA 59.870 44.000 0.00 0.00 34.56 1.40
3781 4260 2.838202 GGTGAGTCTTAGATGGACCCAA 59.162 50.000 0.00 0.00 34.56 4.12
3782 4261 2.044492 AGGTGAGTCTTAGATGGACCCA 59.956 50.000 0.00 0.00 34.56 4.51
3783 4262 2.432510 CAGGTGAGTCTTAGATGGACCC 59.567 54.545 0.00 0.00 34.56 4.46
3784 4263 2.432510 CCAGGTGAGTCTTAGATGGACC 59.567 54.545 0.00 0.00 34.56 4.46
3785 4264 3.131400 GTCCAGGTGAGTCTTAGATGGAC 59.869 52.174 12.74 12.74 45.86 4.02
3786 4265 3.011821 AGTCCAGGTGAGTCTTAGATGGA 59.988 47.826 0.00 0.00 33.11 3.41
3787 4266 3.370104 AGTCCAGGTGAGTCTTAGATGG 58.630 50.000 0.00 0.00 0.00 3.51
3788 4267 5.010516 CCATAGTCCAGGTGAGTCTTAGATG 59.989 48.000 0.00 0.00 0.00 2.90
3789 4268 5.144100 CCATAGTCCAGGTGAGTCTTAGAT 58.856 45.833 0.00 0.00 0.00 1.98
3791 4270 3.068873 GCCATAGTCCAGGTGAGTCTTAG 59.931 52.174 0.00 0.00 0.00 2.18
3800 4777 0.550147 ACAAGGGCCATAGTCCAGGT 60.550 55.000 6.18 0.00 41.85 4.00
3801 4778 0.107017 CACAAGGGCCATAGTCCAGG 60.107 60.000 6.18 0.00 41.85 4.45
3807 4784 2.890311 TGACAAAACACAAGGGCCATAG 59.110 45.455 6.18 0.00 0.00 2.23
3809 4786 1.786937 TGACAAAACACAAGGGCCAT 58.213 45.000 6.18 0.00 0.00 4.40
3824 4801 9.826574 AGTAAGTACAAAACAAGAGTAATGACA 57.173 29.630 0.00 0.00 0.00 3.58
3832 4809 9.916397 CAAAGTGTAGTAAGTACAAAACAAGAG 57.084 33.333 0.00 0.00 43.49 2.85
3834 4811 9.698617 GACAAAGTGTAGTAAGTACAAAACAAG 57.301 33.333 0.00 0.00 43.49 3.16
3840 4817 6.364165 GCGATGACAAAGTGTAGTAAGTACAA 59.636 38.462 0.00 0.00 43.49 2.41
3842 4819 6.091437 AGCGATGACAAAGTGTAGTAAGTAC 58.909 40.000 0.00 0.00 0.00 2.73
3844 4821 5.047943 AGAGCGATGACAAAGTGTAGTAAGT 60.048 40.000 0.00 0.00 0.00 2.24
3845 4822 5.403246 AGAGCGATGACAAAGTGTAGTAAG 58.597 41.667 0.00 0.00 0.00 2.34
3846 4823 5.386958 AGAGCGATGACAAAGTGTAGTAA 57.613 39.130 0.00 0.00 0.00 2.24
3847 4824 4.436986 CGAGAGCGATGACAAAGTGTAGTA 60.437 45.833 0.00 0.00 40.82 1.82
3848 4825 3.670895 CGAGAGCGATGACAAAGTGTAGT 60.671 47.826 0.00 0.00 40.82 2.73
3849 4826 2.848887 CGAGAGCGATGACAAAGTGTAG 59.151 50.000 0.00 0.00 40.82 2.74
3851 4828 1.702886 CGAGAGCGATGACAAAGTGT 58.297 50.000 0.00 0.00 40.82 3.55
3955 4932 6.364435 AGAACTAAAACCACGACGAGTAAATC 59.636 38.462 0.00 0.00 0.00 2.17
3956 4933 6.218746 AGAACTAAAACCACGACGAGTAAAT 58.781 36.000 0.00 0.00 0.00 1.40
3957 4934 5.591099 AGAACTAAAACCACGACGAGTAAA 58.409 37.500 0.00 0.00 0.00 2.01
3958 4935 5.186996 AGAACTAAAACCACGACGAGTAA 57.813 39.130 0.00 0.00 0.00 2.24
3959 4936 4.836125 AGAACTAAAACCACGACGAGTA 57.164 40.909 0.00 0.00 0.00 2.59
3960 4937 3.722728 AGAACTAAAACCACGACGAGT 57.277 42.857 0.00 0.00 0.00 4.18
3961 4938 4.791974 AGTAGAACTAAAACCACGACGAG 58.208 43.478 0.00 0.00 0.00 4.18
3962 4939 4.836125 AGTAGAACTAAAACCACGACGA 57.164 40.909 0.00 0.00 0.00 4.20
3963 4940 8.673626 TTATAAGTAGAACTAAAACCACGACG 57.326 34.615 0.00 0.00 0.00 5.12
4024 5001 7.344612 AGGAGGGAAAACTGACAAAAAGTAAAT 59.655 33.333 0.00 0.00 0.00 1.40
4028 5005 4.610333 AGGAGGGAAAACTGACAAAAAGT 58.390 39.130 0.00 0.00 0.00 2.66
4084 5061 0.253044 TATGGTCTGGCCTGAAGCAC 59.747 55.000 14.68 2.18 46.50 4.40
4086 5063 1.065126 AGTTATGGTCTGGCCTGAAGC 60.065 52.381 14.68 8.81 42.60 3.86
4104 5081 0.532573 CAGAGGACCACGTGCATAGT 59.467 55.000 10.91 1.81 0.00 2.12
4111 5088 1.134220 TGCTTTTTCAGAGGACCACGT 60.134 47.619 0.00 0.00 0.00 4.49
4112 5089 1.593196 TGCTTTTTCAGAGGACCACG 58.407 50.000 0.00 0.00 0.00 4.94
4233 5211 8.735692 AACTGTTTTGGAATTCATGAACATTT 57.264 26.923 11.07 10.97 33.98 2.32
4338 5316 8.819015 CATGAACATTTTGTGAGTTGATGAAAA 58.181 29.630 0.00 0.00 38.55 2.29


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

AutoCloner maintained by Alex Coulton.