Multiple sequence alignment - TraesCS2A01G502800

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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 TraesCS2A01G502800 chr2A 100.000 4928 0 0 1 4928 732284554 732279627 0.000000e+00 9101.0
1 TraesCS2A01G502800 chr2A 97.426 272 4 1 4660 4928 145216202 145216473 1.250000e-125 460.0
2 TraesCS2A01G502800 chr2A 75.828 1026 160 43 2861 3843 729532804 729533784 1.630000e-119 440.0
3 TraesCS2A01G502800 chr2A 75.728 721 112 30 2842 3514 727612147 727612852 2.230000e-78 303.0
4 TraesCS2A01G502800 chr2A 85.227 264 39 0 2896 3159 729279650 729279387 6.290000e-69 272.0
5 TraesCS2A01G502800 chr2A 94.488 127 4 3 4059 4183 732280394 732280269 5.030000e-45 193.0
6 TraesCS2A01G502800 chr2B 93.996 3231 113 21 872 4033 726224018 726227236 0.000000e+00 4817.0
7 TraesCS2A01G502800 chr2B 78.919 1129 176 28 2830 3917 122266602 122265495 0.000000e+00 710.0
8 TraesCS2A01G502800 chr2B 91.085 516 33 6 4158 4663 658470258 658470770 0.000000e+00 686.0
9 TraesCS2A01G502800 chr2B 90.184 489 40 1 4183 4663 480910271 480910759 9.000000e-177 630.0
10 TraesCS2A01G502800 chr2B 98.127 267 4 1 4662 4928 305758531 305758266 9.660000e-127 464.0
11 TraesCS2A01G502800 chr2B 97.761 268 6 0 4661 4928 217830962 217831229 3.480000e-126 462.0
12 TraesCS2A01G502800 chr2B 75.244 1026 166 46 2861 3843 723134768 723135748 1.650000e-109 407.0
13 TraesCS2A01G502800 chr2B 74.528 1060 182 51 2830 3843 723333070 723334087 1.000000e-101 381.0
14 TraesCS2A01G502800 chr2B 94.964 139 5 2 4046 4183 658470248 658470385 2.990000e-52 217.0
15 TraesCS2A01G502800 chr2B 82.514 183 23 8 1706 1886 122266889 122266714 8.540000e-33 152.0
16 TraesCS2A01G502800 chr2B 75.649 308 57 4 3553 3860 723432487 723432776 2.390000e-28 137.0
17 TraesCS2A01G502800 chr2B 84.091 132 21 0 1722 1853 722508108 722507977 1.440000e-25 128.0
18 TraesCS2A01G502800 chr2D 95.638 2224 48 16 1 2193 597627713 597629918 0.000000e+00 3524.0
19 TraesCS2A01G502800 chr2D 98.458 1686 23 2 2226 3910 597629917 597631600 0.000000e+00 2966.0
20 TraesCS2A01G502800 chr2D 73.864 1056 172 50 2830 3814 595431072 595432094 4.760000e-85 326.0
21 TraesCS2A01G502800 chr2D 86.792 265 35 0 2895 3159 595120666 595120402 3.730000e-76 296.0
22 TraesCS2A01G502800 chr2D 74.799 373 81 9 1479 1845 595121092 595120727 6.600000e-34 156.0
23 TraesCS2A01G502800 chr2D 97.674 86 2 0 3940 4025 597644674 597644759 1.110000e-31 148.0
24 TraesCS2A01G502800 chr2D 75.974 308 55 7 3553 3860 595511382 595511670 1.850000e-29 141.0
25 TraesCS2A01G502800 chr3B 90.234 512 36 5 4161 4663 401011984 401011478 0.000000e+00 656.0
26 TraesCS2A01G502800 chr3B 98.141 269 4 1 4660 4928 776516209 776515942 7.470000e-128 468.0
27 TraesCS2A01G502800 chr3B 93.284 134 9 0 4050 4183 401011993 401011860 1.080000e-46 198.0
28 TraesCS2A01G502800 chr3B 89.706 136 14 0 4048 4183 160123906 160124041 1.820000e-39 174.0
29 TraesCS2A01G502800 chr6A 90.928 485 37 3 4185 4663 593689001 593688518 0.000000e+00 645.0
30 TraesCS2A01G502800 chr6A 90.511 137 13 0 4047 4183 593689036 593688900 1.090000e-41 182.0
31 TraesCS2A01G502800 chr6A 100.000 28 0 0 2335 2362 149829950 149829977 9.000000e-03 52.8
32 TraesCS2A01G502800 chr7D 89.452 493 38 6 4183 4663 416254027 416254517 1.170000e-170 610.0
33 TraesCS2A01G502800 chr7D 89.249 493 39 6 4183 4663 56642096 56642586 5.460000e-169 604.0
34 TraesCS2A01G502800 chr7D 87.978 366 35 8 4161 4521 573966135 573965774 1.640000e-114 424.0
35 TraesCS2A01G502800 chr3D 88.372 516 43 9 4161 4663 610341938 610341427 5.460000e-169 604.0
36 TraesCS2A01G502800 chr5B 98.507 268 4 0 4661 4928 509747196 509746929 1.610000e-129 473.0
37 TraesCS2A01G502800 chr5B 97.761 268 5 1 4661 4928 54502961 54502695 1.250000e-125 460.0
38 TraesCS2A01G502800 chr5B 89.781 137 14 0 4047 4183 388401479 388401343 5.070000e-40 176.0
39 TraesCS2A01G502800 chr4B 97.770 269 5 1 4660 4928 175080140 175079873 3.480000e-126 462.0
40 TraesCS2A01G502800 chr7B 97.753 267 6 0 4662 4928 252283308 252283042 1.250000e-125 460.0
41 TraesCS2A01G502800 chr1A 97.091 275 5 2 4657 4928 329580878 329580604 1.250000e-125 460.0
42 TraesCS2A01G502800 chr1A 96.000 250 7 3 4161 4409 5065324 5065077 2.140000e-108 403.0
43 TraesCS2A01G502800 chr1A 93.333 270 10 1 4402 4663 5056889 5056620 4.620000e-105 392.0
44 TraesCS2A01G502800 chr1A 98.551 138 2 0 4046 4183 5065337 5065200 1.370000e-60 244.0
45 TraesCS2A01G502800 chr1B 88.384 198 11 3 4478 4663 4627519 4627322 1.380000e-55 228.0
46 TraesCS2A01G502800 chr1B 91.912 136 11 0 4048 4183 4627791 4627656 1.810000e-44 191.0
47 TraesCS2A01G502800 chr6B 89.706 136 14 0 4048 4183 51417176 51417311 1.820000e-39 174.0
48 TraesCS2A01G502800 chr6B 100.000 28 0 0 2335 2362 214090313 214090286 9.000000e-03 52.8
49 TraesCS2A01G502800 chr4A 79.612 103 12 7 2574 2670 681287838 681287937 1.150000e-06 65.8
50 TraesCS2A01G502800 chr4A 94.595 37 0 2 2327 2362 185385125 185385160 6.890000e-04 56.5
51 TraesCS2A01G502800 chr4D 100.000 28 0 0 2335 2362 51846893 51846866 9.000000e-03 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 TraesCS2A01G502800 chr2A 732279627 732284554 4927 True 9101.0 9101 100.0000 1 4928 1 chr2A.!!$R2 4927
1 TraesCS2A01G502800 chr2A 729532804 729533784 980 False 440.0 440 75.8280 2861 3843 1 chr2A.!!$F3 982
2 TraesCS2A01G502800 chr2A 727612147 727612852 705 False 303.0 303 75.7280 2842 3514 1 chr2A.!!$F2 672
3 TraesCS2A01G502800 chr2B 726224018 726227236 3218 False 4817.0 4817 93.9960 872 4033 1 chr2B.!!$F6 3161
4 TraesCS2A01G502800 chr2B 658470248 658470770 522 False 451.5 686 93.0245 4046 4663 2 chr2B.!!$F7 617
5 TraesCS2A01G502800 chr2B 122265495 122266889 1394 True 431.0 710 80.7165 1706 3917 2 chr2B.!!$R3 2211
6 TraesCS2A01G502800 chr2B 723134768 723135748 980 False 407.0 407 75.2440 2861 3843 1 chr2B.!!$F3 982
7 TraesCS2A01G502800 chr2B 723333070 723334087 1017 False 381.0 381 74.5280 2830 3843 1 chr2B.!!$F4 1013
8 TraesCS2A01G502800 chr2D 597627713 597631600 3887 False 3245.0 3524 97.0480 1 3910 2 chr2D.!!$F4 3909
9 TraesCS2A01G502800 chr2D 595431072 595432094 1022 False 326.0 326 73.8640 2830 3814 1 chr2D.!!$F1 984
10 TraesCS2A01G502800 chr2D 595120402 595121092 690 True 226.0 296 80.7955 1479 3159 2 chr2D.!!$R1 1680
11 TraesCS2A01G502800 chr3B 401011478 401011993 515 True 427.0 656 91.7590 4050 4663 2 chr3B.!!$R2 613
12 TraesCS2A01G502800 chr6A 593688518 593689036 518 True 413.5 645 90.7195 4047 4663 2 chr6A.!!$R1 616
13 TraesCS2A01G502800 chr3D 610341427 610341938 511 True 604.0 604 88.3720 4161 4663 1 chr3D.!!$R1 502

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
750 751 0.179081 GGATGGCTCTGGGTACGTTC 60.179 60.000 0.00 0.00 0.00 3.95 F
1073 1109 0.111253 CCTTTGCCTCACCTTCCACT 59.889 55.000 0.00 0.00 0.00 4.00 F
1124 1175 0.317479 AAGAAAGGACGGACGGTGAG 59.683 55.000 0.00 0.00 0.00 3.51 F
1720 1780 1.072965 GATGTGGATGAGGATGGGGAC 59.927 57.143 0.00 0.00 0.00 4.46 F
2214 2274 4.464112 TCGCATCGTTAGATCATCTTACG 58.536 43.478 18.12 18.12 46.87 3.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1720 1780 0.663688 CCTCCTCATACTCGTCCACG 59.336 60.000 0.00 0.00 41.45 4.94 R
2679 2739 1.520494 ATCGCTAGCAGGCATCATTG 58.480 50.000 16.45 0.00 0.00 2.82 R
2681 2741 1.898472 AGTATCGCTAGCAGGCATCAT 59.102 47.619 16.45 0.04 0.00 2.45 R
2714 2774 5.772825 TGCAGCAAGTACAAGAAGAAAAT 57.227 34.783 0.00 0.00 0.00 1.82 R
4010 4203 2.094649 ACGCTAGACAGGAACAAGTAGC 60.095 50.000 0.00 0.00 0.00 3.58 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
205 206 1.622811 GGAGAGGGGTGAGATATGCAG 59.377 57.143 0.00 0.00 0.00 4.41
309 310 7.855784 ACCCCTTTTTGAGTGAATATTCTTT 57.144 32.000 16.24 4.68 0.00 2.52
414 415 4.016444 GGATAACCCTCAAATCAAGCACA 58.984 43.478 0.00 0.00 0.00 4.57
442 443 2.302445 TCCATTTGGCCCACTTTTGATG 59.698 45.455 0.00 0.00 34.44 3.07
583 584 4.208632 GGCTAGATGCGCACAAGT 57.791 55.556 14.90 0.00 44.05 3.16
585 586 0.375106 GGCTAGATGCGCACAAGTTC 59.625 55.000 14.90 5.91 44.05 3.01
639 640 0.957395 CTGCGAACACTGGATTGGCT 60.957 55.000 0.00 0.00 32.55 4.75
745 746 1.140852 CAAATCGGATGGCTCTGGGTA 59.859 52.381 0.00 0.00 0.00 3.69
746 747 0.759346 AATCGGATGGCTCTGGGTAC 59.241 55.000 0.00 0.00 0.00 3.34
747 748 1.464376 ATCGGATGGCTCTGGGTACG 61.464 60.000 0.00 0.00 0.00 3.67
748 749 2.423898 CGGATGGCTCTGGGTACGT 61.424 63.158 0.00 0.00 0.00 3.57
749 750 1.905512 GGATGGCTCTGGGTACGTT 59.094 57.895 0.00 0.00 0.00 3.99
750 751 0.179081 GGATGGCTCTGGGTACGTTC 60.179 60.000 0.00 0.00 0.00 3.95
770 771 1.153289 CTGGAATCTCACCCCAGCG 60.153 63.158 0.00 0.00 40.69 5.18
771 772 1.612146 TGGAATCTCACCCCAGCGA 60.612 57.895 0.00 0.00 0.00 4.93
772 773 1.153349 GGAATCTCACCCCAGCGAC 60.153 63.158 0.00 0.00 0.00 5.19
773 774 1.153349 GAATCTCACCCCAGCGACC 60.153 63.158 0.00 0.00 0.00 4.79
774 775 2.907897 GAATCTCACCCCAGCGACCG 62.908 65.000 0.00 0.00 0.00 4.79
775 776 4.988716 TCTCACCCCAGCGACCGT 62.989 66.667 0.00 0.00 0.00 4.83
1037 1073 1.379527 CCCCTTTGAACCGTATCTGC 58.620 55.000 0.00 0.00 0.00 4.26
1069 1105 3.005472 GGTTTTACCTTTGCCTCACCTTC 59.995 47.826 0.00 0.00 34.73 3.46
1071 1107 1.440618 TACCTTTGCCTCACCTTCCA 58.559 50.000 0.00 0.00 0.00 3.53
1073 1109 0.111253 CCTTTGCCTCACCTTCCACT 59.889 55.000 0.00 0.00 0.00 4.00
1074 1110 1.351017 CCTTTGCCTCACCTTCCACTA 59.649 52.381 0.00 0.00 0.00 2.74
1124 1175 0.317479 AAGAAAGGACGGACGGTGAG 59.683 55.000 0.00 0.00 0.00 3.51
1125 1176 1.737008 GAAAGGACGGACGGTGAGC 60.737 63.158 0.00 0.00 0.00 4.26
1126 1177 2.430382 GAAAGGACGGACGGTGAGCA 62.430 60.000 0.00 0.00 0.00 4.26
1127 1178 2.710724 AAAGGACGGACGGTGAGCAC 62.711 60.000 0.00 0.00 0.00 4.40
1302 1353 2.890808 TCGGATATGCTCCAGTTGTC 57.109 50.000 0.00 0.00 45.24 3.18
1317 1368 2.105821 AGTTGTCGGAAAAGATCACCCA 59.894 45.455 0.00 0.00 0.00 4.51
1720 1780 1.072965 GATGTGGATGAGGATGGGGAC 59.927 57.143 0.00 0.00 0.00 4.46
2065 2125 5.892686 TCATTCCAATGATATCCAGCACAAA 59.107 36.000 0.00 0.00 40.32 2.83
2193 2253 6.254804 GGCACATAAAACCGTATTTTTCCATC 59.745 38.462 0.55 0.00 31.15 3.51
2196 2256 4.506886 AAAACCGTATTTTTCCATCGCA 57.493 36.364 0.00 0.00 0.00 5.10
2214 2274 4.464112 TCGCATCGTTAGATCATCTTACG 58.536 43.478 18.12 18.12 46.87 3.18
2414 2474 8.204836 ACTCATATGAAACTAGATAACACCCAC 58.795 37.037 6.90 0.00 0.00 4.61
2546 2606 6.942576 GGTGCATATGAGAATAATACTGGGTT 59.057 38.462 6.97 0.00 0.00 4.11
2874 2960 8.910351 AATTTGTGAGCTCTTAAGTTAGTTCT 57.090 30.769 16.19 0.00 0.00 3.01
3260 3381 2.436087 CTTGACTGGCCCGTCTCGTT 62.436 60.000 25.36 0.00 35.00 3.85
3549 3695 4.336713 ACTTCTTGAGGACAAAACTGAAGC 59.663 41.667 0.00 0.00 37.73 3.86
3787 3957 3.072330 TGGAGATAACTGTTGCTTGGTCA 59.928 43.478 2.69 0.00 0.00 4.02
3921 4091 4.666512 AGATGGGTTAGCATGTTCACTTT 58.333 39.130 0.00 0.00 0.00 2.66
4005 4198 7.551585 TGTAATGTTTCATGGTGAACTTTTGT 58.448 30.769 0.00 0.00 35.89 2.83
4007 4200 4.180057 TGTTTCATGGTGAACTTTTGTGC 58.820 39.130 0.00 0.00 35.89 4.57
4008 4201 4.081752 TGTTTCATGGTGAACTTTTGTGCT 60.082 37.500 0.00 0.00 35.89 4.40
4009 4202 5.126222 TGTTTCATGGTGAACTTTTGTGCTA 59.874 36.000 0.00 0.00 35.89 3.49
4010 4203 5.437289 TTCATGGTGAACTTTTGTGCTAG 57.563 39.130 0.00 0.00 30.26 3.42
4011 4204 3.253188 TCATGGTGAACTTTTGTGCTAGC 59.747 43.478 8.10 8.10 0.00 3.42
4033 4226 3.851976 ACTTGTTCCTGTCTAGCGTAG 57.148 47.619 0.00 0.00 0.00 3.51
4094 4287 4.753107 CACGTCTTGGCTAAAACTCCTTTA 59.247 41.667 0.00 0.00 0.00 1.85
4102 4295 9.620259 CTTGGCTAAAACTCCTTTAGAAGATAT 57.380 33.333 8.15 0.00 46.58 1.63
4178 4371 3.739167 GCACGTGCAACCCTGTTA 58.261 55.556 34.52 0.00 41.59 2.41
4180 4373 1.444836 GCACGTGCAACCCTGTTATA 58.555 50.000 34.52 0.00 41.59 0.98
4181 4374 1.807742 GCACGTGCAACCCTGTTATAA 59.192 47.619 34.52 0.00 41.59 0.98
4189 4382 5.184287 GTGCAACCCTGTTATAAGGCTAAAA 59.816 40.000 0.00 0.00 35.85 1.52
4193 4386 5.752650 ACCCTGTTATAAGGCTAAAACTCC 58.247 41.667 0.00 0.00 35.85 3.85
4197 4390 8.050930 CCCTGTTATAAGGCTAAAACTCCTTTA 58.949 37.037 0.00 0.00 42.32 1.85
4259 4452 9.851686 TTGTAGTTATATTTCTTCATGGCAGAT 57.148 29.630 0.00 0.00 0.00 2.90
4261 4454 7.211966 AGTTATATTTCTTCATGGCAGATGC 57.788 36.000 0.00 0.00 41.14 3.91
4298 4491 6.946009 ACCCTGTTATAAGCTTAGCAAGAAAA 59.054 34.615 12.54 0.00 0.00 2.29
4351 4544 9.959721 TGAACAAAATAAGCTACTAATCTCCTT 57.040 29.630 0.00 0.00 0.00 3.36
4392 4585 6.005066 TCCCTTGATCAATAATCAGAGCAA 57.995 37.500 8.96 0.00 45.05 3.91
4429 4626 4.331168 CCTCAACGGCAATCTTCTCTTTAG 59.669 45.833 0.00 0.00 0.00 1.85
4439 4636 3.422796 TCTTCTCTTTAGTGGTCGCTCT 58.577 45.455 0.00 0.00 0.00 4.09
4517 4717 3.480470 CCATGAAGGCGATGGTAGATTT 58.520 45.455 0.00 0.00 36.38 2.17
4570 4770 2.082231 CTGCTCACTCCAACCATGAAG 58.918 52.381 0.00 0.00 0.00 3.02
4592 4792 0.958382 GACCACCCGCAGCAAACATA 60.958 55.000 0.00 0.00 0.00 2.29
4663 4873 2.544480 GGCTGTAGTGGCGAAAAATC 57.456 50.000 0.00 0.00 0.00 2.17
4664 4874 2.084546 GGCTGTAGTGGCGAAAAATCT 58.915 47.619 0.00 0.00 0.00 2.40
4665 4875 2.096013 GGCTGTAGTGGCGAAAAATCTC 59.904 50.000 0.00 0.00 0.00 2.75
4666 4876 3.003480 GCTGTAGTGGCGAAAAATCTCT 58.997 45.455 0.00 0.00 0.00 3.10
4667 4877 4.181578 GCTGTAGTGGCGAAAAATCTCTA 58.818 43.478 0.00 0.00 0.00 2.43
4668 4878 4.033014 GCTGTAGTGGCGAAAAATCTCTAC 59.967 45.833 0.00 0.00 0.00 2.59
4669 4879 5.401531 TGTAGTGGCGAAAAATCTCTACT 57.598 39.130 0.00 0.00 0.00 2.57
4670 4880 5.408356 TGTAGTGGCGAAAAATCTCTACTC 58.592 41.667 0.00 0.00 0.00 2.59
4671 4881 3.863041 AGTGGCGAAAAATCTCTACTCC 58.137 45.455 0.00 0.00 0.00 3.85
4672 4882 3.515901 AGTGGCGAAAAATCTCTACTCCT 59.484 43.478 0.00 0.00 0.00 3.69
4673 4883 4.710375 AGTGGCGAAAAATCTCTACTCCTA 59.290 41.667 0.00 0.00 0.00 2.94
4674 4884 5.187186 AGTGGCGAAAAATCTCTACTCCTAA 59.813 40.000 0.00 0.00 0.00 2.69
4675 4885 6.049790 GTGGCGAAAAATCTCTACTCCTAAT 58.950 40.000 0.00 0.00 0.00 1.73
4676 4886 6.018669 GTGGCGAAAAATCTCTACTCCTAATG 60.019 42.308 0.00 0.00 0.00 1.90
4677 4887 5.467063 GGCGAAAAATCTCTACTCCTAATGG 59.533 44.000 0.00 0.00 0.00 3.16
4678 4888 6.281405 GCGAAAAATCTCTACTCCTAATGGA 58.719 40.000 0.00 0.00 40.69 3.41
4679 4889 6.201234 GCGAAAAATCTCTACTCCTAATGGAC 59.799 42.308 0.00 0.00 37.46 4.02
4680 4890 6.418226 CGAAAAATCTCTACTCCTAATGGACG 59.582 42.308 0.00 0.00 37.46 4.79
4681 4891 7.419711 AAAAATCTCTACTCCTAATGGACGA 57.580 36.000 0.00 0.00 37.46 4.20
4682 4892 7.419711 AAAATCTCTACTCCTAATGGACGAA 57.580 36.000 0.00 0.00 37.46 3.85
4683 4893 7.604657 AAATCTCTACTCCTAATGGACGAAT 57.395 36.000 0.00 0.00 37.46 3.34
4684 4894 7.604657 AATCTCTACTCCTAATGGACGAATT 57.395 36.000 0.00 0.00 37.46 2.17
4685 4895 6.392625 TCTCTACTCCTAATGGACGAATTG 57.607 41.667 0.00 0.00 37.46 2.32
4686 4896 5.302059 TCTCTACTCCTAATGGACGAATTGG 59.698 44.000 0.00 0.00 37.46 3.16
4687 4897 4.960469 TCTACTCCTAATGGACGAATTGGT 59.040 41.667 0.00 0.00 37.46 3.67
4688 4898 4.569719 ACTCCTAATGGACGAATTGGTT 57.430 40.909 0.00 0.00 37.46 3.67
4689 4899 4.261801 ACTCCTAATGGACGAATTGGTTG 58.738 43.478 0.00 0.00 37.46 3.77
4690 4900 4.019681 ACTCCTAATGGACGAATTGGTTGA 60.020 41.667 0.00 0.00 37.46 3.18
4691 4901 4.912586 TCCTAATGGACGAATTGGTTGAA 58.087 39.130 0.00 0.00 37.46 2.69
4692 4902 5.505780 TCCTAATGGACGAATTGGTTGAAT 58.494 37.500 0.00 0.00 37.46 2.57
4693 4903 6.654959 TCCTAATGGACGAATTGGTTGAATA 58.345 36.000 0.00 0.00 37.46 1.75
4694 4904 6.765989 TCCTAATGGACGAATTGGTTGAATAG 59.234 38.462 0.00 0.00 37.46 1.73
4695 4905 6.542370 CCTAATGGACGAATTGGTTGAATAGT 59.458 38.462 0.00 0.00 34.57 2.12
4696 4906 6.436843 AATGGACGAATTGGTTGAATAGTC 57.563 37.500 0.00 0.00 33.96 2.59
4697 4907 4.258543 TGGACGAATTGGTTGAATAGTCC 58.741 43.478 0.00 0.00 44.47 3.85
4698 4908 3.626217 GGACGAATTGGTTGAATAGTCCC 59.374 47.826 0.00 0.00 41.56 4.46
4699 4909 3.617284 ACGAATTGGTTGAATAGTCCCC 58.383 45.455 0.00 0.00 0.00 4.81
4700 4910 2.949644 CGAATTGGTTGAATAGTCCCCC 59.050 50.000 0.00 0.00 0.00 5.40
4716 4926 2.518933 CCCCCACTTTCAACCGGT 59.481 61.111 0.00 0.00 0.00 5.28
4717 4927 1.152631 CCCCCACTTTCAACCGGTT 60.153 57.895 15.86 15.86 0.00 4.44
4718 4928 0.757561 CCCCCACTTTCAACCGGTTT 60.758 55.000 19.55 0.00 0.00 3.27
4719 4929 1.479021 CCCCCACTTTCAACCGGTTTA 60.479 52.381 19.55 7.23 0.00 2.01
4720 4930 2.521126 CCCCACTTTCAACCGGTTTAT 58.479 47.619 19.55 0.00 0.00 1.40
4721 4931 2.894765 CCCCACTTTCAACCGGTTTATT 59.105 45.455 19.55 0.00 0.00 1.40
4722 4932 3.322541 CCCCACTTTCAACCGGTTTATTT 59.677 43.478 19.55 0.00 0.00 1.40
4723 4933 4.202274 CCCCACTTTCAACCGGTTTATTTT 60.202 41.667 19.55 0.00 0.00 1.82
4724 4934 4.986034 CCCACTTTCAACCGGTTTATTTTC 59.014 41.667 19.55 0.00 0.00 2.29
4725 4935 5.452077 CCCACTTTCAACCGGTTTATTTTCA 60.452 40.000 19.55 0.00 0.00 2.69
4726 4936 6.043411 CCACTTTCAACCGGTTTATTTTCAA 58.957 36.000 19.55 0.00 0.00 2.69
4727 4937 6.019398 CCACTTTCAACCGGTTTATTTTCAAC 60.019 38.462 19.55 0.00 0.00 3.18
4728 4938 6.019398 CACTTTCAACCGGTTTATTTTCAACC 60.019 38.462 19.55 0.00 40.46 3.77
4740 4950 9.043079 GGTTTATTTTCAACCGGTTTATTTTCA 57.957 29.630 19.55 0.00 34.59 2.69
4743 4953 6.905544 TTTTCAACCGGTTTATTTTCAACC 57.094 33.333 19.55 0.00 40.46 3.77
4753 4963 7.542534 GGTTTATTTTCAACCGGTTTTTCTT 57.457 32.000 19.55 5.58 34.59 2.52
4754 4964 7.623770 GGTTTATTTTCAACCGGTTTTTCTTC 58.376 34.615 19.55 3.05 34.59 2.87
4755 4965 7.331792 GTTTATTTTCAACCGGTTTTTCTTCG 58.668 34.615 19.55 4.46 0.00 3.79
4756 4966 4.437772 TTTTCAACCGGTTTTTCTTCGT 57.562 36.364 19.55 0.00 0.00 3.85
4757 4967 3.678915 TTCAACCGGTTTTTCTTCGTC 57.321 42.857 19.55 0.00 0.00 4.20
4758 4968 1.941975 TCAACCGGTTTTTCTTCGTCC 59.058 47.619 19.55 0.00 0.00 4.79
4759 4969 1.002142 CAACCGGTTTTTCTTCGTCCC 60.002 52.381 19.55 0.00 0.00 4.46
4760 4970 0.180878 ACCGGTTTTTCTTCGTCCCA 59.819 50.000 0.00 0.00 0.00 4.37
4761 4971 0.589708 CCGGTTTTTCTTCGTCCCAC 59.410 55.000 0.00 0.00 0.00 4.61
4762 4972 0.589708 CGGTTTTTCTTCGTCCCACC 59.410 55.000 0.00 0.00 0.00 4.61
4763 4973 1.812708 CGGTTTTTCTTCGTCCCACCT 60.813 52.381 0.00 0.00 0.00 4.00
4764 4974 1.878088 GGTTTTTCTTCGTCCCACCTC 59.122 52.381 0.00 0.00 0.00 3.85
4765 4975 1.878088 GTTTTTCTTCGTCCCACCTCC 59.122 52.381 0.00 0.00 0.00 4.30
4766 4976 0.399075 TTTTCTTCGTCCCACCTCCC 59.601 55.000 0.00 0.00 0.00 4.30
4767 4977 0.765135 TTTCTTCGTCCCACCTCCCA 60.765 55.000 0.00 0.00 0.00 4.37
4768 4978 1.477685 TTCTTCGTCCCACCTCCCAC 61.478 60.000 0.00 0.00 0.00 4.61
4769 4979 2.926242 TTCGTCCCACCTCCCACC 60.926 66.667 0.00 0.00 0.00 4.61
4770 4980 3.777818 TTCGTCCCACCTCCCACCA 62.778 63.158 0.00 0.00 0.00 4.17
4771 4981 3.706373 CGTCCCACCTCCCACCAG 61.706 72.222 0.00 0.00 0.00 4.00
4772 4982 4.035102 GTCCCACCTCCCACCAGC 62.035 72.222 0.00 0.00 0.00 4.85
4787 4997 4.265056 AGCCGCTCCCACCGTTTT 62.265 61.111 0.00 0.00 0.00 2.43
4788 4998 3.292159 GCCGCTCCCACCGTTTTT 61.292 61.111 0.00 0.00 0.00 1.94
4807 5017 5.986004 TTTTTCTCTTTTCTCGTCTGACC 57.014 39.130 1.55 0.00 0.00 4.02
4808 5018 2.991434 TCTCTTTTCTCGTCTGACCG 57.009 50.000 1.55 0.00 0.00 4.79
4809 5019 1.540267 TCTCTTTTCTCGTCTGACCGG 59.460 52.381 0.00 0.00 0.00 5.28
4810 5020 0.038526 TCTTTTCTCGTCTGACCGGC 60.039 55.000 0.00 0.00 0.00 6.13
4811 5021 0.319555 CTTTTCTCGTCTGACCGGCA 60.320 55.000 0.00 0.00 0.00 5.69
4812 5022 0.105224 TTTTCTCGTCTGACCGGCAA 59.895 50.000 0.00 0.00 0.00 4.52
4813 5023 0.320374 TTTCTCGTCTGACCGGCAAT 59.680 50.000 0.00 0.00 0.00 3.56
4814 5024 1.179152 TTCTCGTCTGACCGGCAATA 58.821 50.000 0.00 0.00 0.00 1.90
4815 5025 0.454600 TCTCGTCTGACCGGCAATAC 59.545 55.000 0.00 1.40 0.00 1.89
4816 5026 0.527817 CTCGTCTGACCGGCAATACC 60.528 60.000 0.00 0.00 0.00 2.73
4817 5027 1.520787 CGTCTGACCGGCAATACCC 60.521 63.158 0.00 0.00 33.26 3.69
4818 5028 1.600107 GTCTGACCGGCAATACCCA 59.400 57.895 0.00 0.00 33.26 4.51
4819 5029 0.035820 GTCTGACCGGCAATACCCAA 60.036 55.000 0.00 0.00 33.26 4.12
4820 5030 0.916086 TCTGACCGGCAATACCCAAT 59.084 50.000 0.00 0.00 33.26 3.16
4821 5031 1.024271 CTGACCGGCAATACCCAATG 58.976 55.000 0.00 0.00 33.26 2.82
4822 5032 0.329931 TGACCGGCAATACCCAATGT 59.670 50.000 0.00 0.00 33.26 2.71
4823 5033 1.560146 TGACCGGCAATACCCAATGTA 59.440 47.619 0.00 0.00 33.26 2.29
4824 5034 2.173782 TGACCGGCAATACCCAATGTAT 59.826 45.455 0.00 0.00 42.06 2.29
4826 5036 3.634910 GACCGGCAATACCCAATGTATTT 59.365 43.478 0.00 0.00 45.78 1.40
4827 5037 4.794334 ACCGGCAATACCCAATGTATTTA 58.206 39.130 0.00 0.00 45.78 1.40
4828 5038 5.390387 ACCGGCAATACCCAATGTATTTAT 58.610 37.500 0.00 0.00 45.78 1.40
4829 5039 5.242838 ACCGGCAATACCCAATGTATTTATG 59.757 40.000 0.00 0.00 45.78 1.90
4830 5040 5.336372 CCGGCAATACCCAATGTATTTATGG 60.336 44.000 0.00 0.00 45.78 2.74
4831 5041 5.242838 CGGCAATACCCAATGTATTTATGGT 59.757 40.000 0.00 0.00 45.78 3.55
4832 5042 6.431543 CGGCAATACCCAATGTATTTATGGTA 59.568 38.462 0.00 0.00 45.78 3.25
4833 5043 7.040340 CGGCAATACCCAATGTATTTATGGTAA 60.040 37.037 0.00 0.00 45.78 2.85
4834 5044 8.811994 GGCAATACCCAATGTATTTATGGTAAT 58.188 33.333 0.00 0.00 45.78 1.89
4835 5045 9.855021 GCAATACCCAATGTATTTATGGTAATC 57.145 33.333 0.00 0.00 45.78 1.75
4840 5050 9.653516 ACCCAATGTATTTATGGTAATCAATCA 57.346 29.630 0.00 0.00 32.13 2.57
4854 5064 9.567776 TGGTAATCAATCATAATTAATCCACGT 57.432 29.630 0.00 0.00 0.00 4.49
4874 5084 9.923143 TCCACGTATAGTAATAAATCAATCCAG 57.077 33.333 0.00 0.00 0.00 3.86
4875 5085 9.151471 CCACGTATAGTAATAAATCAATCCAGG 57.849 37.037 0.00 0.00 0.00 4.45
4876 5086 9.706691 CACGTATAGTAATAAATCAATCCAGGT 57.293 33.333 0.00 0.00 0.00 4.00
4893 5103 5.888982 CCAGGTATGGTAAGGTCATAACT 57.111 43.478 0.00 0.00 43.57 2.24
4894 5104 5.855045 CCAGGTATGGTAAGGTCATAACTC 58.145 45.833 0.00 0.00 41.60 3.01
4895 5105 5.365605 CCAGGTATGGTAAGGTCATAACTCA 59.634 44.000 0.00 0.00 41.60 3.41
4896 5106 6.463049 CCAGGTATGGTAAGGTCATAACTCAG 60.463 46.154 0.00 0.00 41.60 3.35
4897 5107 5.602978 AGGTATGGTAAGGTCATAACTCAGG 59.397 44.000 0.00 0.00 40.04 3.86
4898 5108 5.601313 GGTATGGTAAGGTCATAACTCAGGA 59.399 44.000 0.00 0.00 33.35 3.86
4899 5109 6.099269 GGTATGGTAAGGTCATAACTCAGGAA 59.901 42.308 0.00 0.00 33.35 3.36
4900 5110 6.636454 ATGGTAAGGTCATAACTCAGGAAA 57.364 37.500 0.00 0.00 0.00 3.13
4901 5111 6.636454 TGGTAAGGTCATAACTCAGGAAAT 57.364 37.500 0.00 0.00 0.00 2.17
4902 5112 7.027874 TGGTAAGGTCATAACTCAGGAAATT 57.972 36.000 0.00 0.00 0.00 1.82
4903 5113 7.466804 TGGTAAGGTCATAACTCAGGAAATTT 58.533 34.615 0.00 0.00 0.00 1.82
4904 5114 7.947890 TGGTAAGGTCATAACTCAGGAAATTTT 59.052 33.333 0.00 0.00 0.00 1.82
4905 5115 8.244113 GGTAAGGTCATAACTCAGGAAATTTTG 58.756 37.037 0.00 0.00 0.00 2.44
4906 5116 9.010029 GTAAGGTCATAACTCAGGAAATTTTGA 57.990 33.333 0.00 0.00 0.00 2.69
4907 5117 8.477419 AAGGTCATAACTCAGGAAATTTTGAA 57.523 30.769 0.00 0.00 0.00 2.69
4908 5118 8.655935 AGGTCATAACTCAGGAAATTTTGAAT 57.344 30.769 0.00 0.00 0.00 2.57
4909 5119 9.753674 AGGTCATAACTCAGGAAATTTTGAATA 57.246 29.630 0.00 0.00 0.00 1.75
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
171 172 2.224329 CCCTCTCCATCTCTCTTGCATG 60.224 54.545 0.00 0.00 0.00 4.06
205 206 2.825836 CTCACCTTGCCCCGATGC 60.826 66.667 0.00 0.00 0.00 3.91
255 256 1.352056 GCGAAAAGCTGGCGGATAC 59.648 57.895 0.00 0.00 44.04 2.24
309 310 3.114606 TGACTGGGGATAGCTTGATTCA 58.885 45.455 0.00 0.00 0.00 2.57
414 415 1.153756 GGGCCAAATGGATCCGGAT 59.846 57.895 19.21 19.21 37.39 4.18
442 443 4.024556 CAGCCGTAATCATCAAATCAGGAC 60.025 45.833 0.00 0.00 0.00 3.85
613 614 2.972505 AGTGTTCGCAGTTGCCGG 60.973 61.111 0.00 0.00 37.91 6.13
639 640 1.149986 TCACCCCCACCACATAAACA 58.850 50.000 0.00 0.00 0.00 2.83
731 732 0.179081 GAACGTACCCAGAGCCATCC 60.179 60.000 0.00 0.00 0.00 3.51
745 746 1.002087 GGGTGAGATTCCAGTGAACGT 59.998 52.381 0.00 0.00 32.13 3.99
746 747 1.676014 GGGGTGAGATTCCAGTGAACG 60.676 57.143 0.00 0.00 32.13 3.95
747 748 1.351017 TGGGGTGAGATTCCAGTGAAC 59.649 52.381 0.00 0.00 32.13 3.18
748 749 1.630369 CTGGGGTGAGATTCCAGTGAA 59.370 52.381 0.00 0.00 42.17 3.18
749 750 1.279496 CTGGGGTGAGATTCCAGTGA 58.721 55.000 0.00 0.00 42.17 3.41
750 751 3.869623 CTGGGGTGAGATTCCAGTG 57.130 57.895 0.00 0.00 42.17 3.66
1317 1368 2.223688 CGAGTCTCAGAATCGGCAAGAT 60.224 50.000 16.75 0.00 44.58 2.40
1468 1519 0.458543 CGTCCCACAGGTCATCGAAG 60.459 60.000 0.00 0.00 0.00 3.79
1720 1780 0.663688 CCTCCTCATACTCGTCCACG 59.336 60.000 0.00 0.00 41.45 4.94
1853 1913 8.910351 AAGAAGAGCAAACTAACTGAAGTATT 57.090 30.769 0.00 0.00 0.00 1.89
1906 1966 9.494271 CCTATATATAATTCCTACGCAATGCAT 57.506 33.333 5.91 0.00 0.00 3.96
1941 2001 5.185454 TCCCACAGACAACATCAATACATC 58.815 41.667 0.00 0.00 0.00 3.06
1949 2009 3.214328 ACAAGTTCCCACAGACAACATC 58.786 45.455 0.00 0.00 0.00 3.06
2065 2125 6.950619 AGCAAAGAGTCTTATTTTCCCAATCT 59.049 34.615 5.65 0.00 0.00 2.40
2179 2239 2.286833 ACGATGCGATGGAAAAATACGG 59.713 45.455 0.00 0.00 0.00 4.02
2193 2253 4.219802 ACGTAAGATGATCTAACGATGCG 58.780 43.478 0.00 0.00 43.62 4.73
2196 2256 8.182881 GGCTATAACGTAAGATGATCTAACGAT 58.817 37.037 0.00 4.35 43.62 3.73
2414 2474 2.642139 AAATTCTCGCAGCAACATGG 57.358 45.000 0.00 0.00 0.00 3.66
2546 2606 3.123050 CCGTTCATATGACGAGAATGCA 58.877 45.455 21.50 0.00 0.00 3.96
2679 2739 1.520494 ATCGCTAGCAGGCATCATTG 58.480 50.000 16.45 0.00 0.00 2.82
2681 2741 1.898472 AGTATCGCTAGCAGGCATCAT 59.102 47.619 16.45 0.04 0.00 2.45
2714 2774 5.772825 TGCAGCAAGTACAAGAAGAAAAT 57.227 34.783 0.00 0.00 0.00 1.82
3549 3695 5.981174 CTTGTGAATCAAGCAACAAAATGG 58.019 37.500 0.00 0.00 45.37 3.16
3787 3957 2.378038 TGCTGGCTTTCAACAAGAAGT 58.622 42.857 0.00 0.00 37.57 3.01
3921 4091 7.264221 ACAAAGTGCATGACTTAATTTTCACA 58.736 30.769 0.00 0.00 44.68 3.58
3993 4186 4.065789 AGTAGCTAGCACAAAAGTTCACC 58.934 43.478 18.83 0.00 0.00 4.02
4005 4198 3.165875 AGACAGGAACAAGTAGCTAGCA 58.834 45.455 18.83 0.00 0.00 3.49
4007 4200 4.496673 CGCTAGACAGGAACAAGTAGCTAG 60.497 50.000 0.00 0.00 0.00 3.42
4008 4201 3.377485 CGCTAGACAGGAACAAGTAGCTA 59.623 47.826 0.00 0.00 0.00 3.32
4009 4202 2.164624 CGCTAGACAGGAACAAGTAGCT 59.835 50.000 0.00 0.00 0.00 3.32
4010 4203 2.094649 ACGCTAGACAGGAACAAGTAGC 60.095 50.000 0.00 0.00 0.00 3.58
4011 4204 3.851976 ACGCTAGACAGGAACAAGTAG 57.148 47.619 0.00 0.00 0.00 2.57
4033 4226 9.327529 CAAGCTTACTAGTACTGTATAATACGC 57.672 37.037 5.39 2.28 0.00 4.42
4034 4227 9.327529 GCAAGCTTACTAGTACTGTATAATACG 57.672 37.037 5.39 0.00 0.00 3.06
4037 4230 7.861372 CGTGCAAGCTTACTAGTACTGTATAAT 59.139 37.037 5.39 0.00 0.00 1.28
4038 4231 7.148188 ACGTGCAAGCTTACTAGTACTGTATAA 60.148 37.037 5.39 0.73 0.00 0.98
4039 4232 6.317140 ACGTGCAAGCTTACTAGTACTGTATA 59.683 38.462 5.39 0.00 0.00 1.47
4040 4233 5.125097 ACGTGCAAGCTTACTAGTACTGTAT 59.875 40.000 5.39 0.00 0.00 2.29
4041 4234 4.456911 ACGTGCAAGCTTACTAGTACTGTA 59.543 41.667 5.39 3.47 0.00 2.74
4042 4235 3.255149 ACGTGCAAGCTTACTAGTACTGT 59.745 43.478 5.39 4.48 0.00 3.55
4043 4236 3.608506 CACGTGCAAGCTTACTAGTACTG 59.391 47.826 0.82 0.00 0.00 2.74
4044 4237 3.834610 CACGTGCAAGCTTACTAGTACT 58.165 45.455 0.82 0.00 0.00 2.73
4172 4365 7.939784 AAAGGAGTTTTAGCCTTATAACAGG 57.060 36.000 0.00 0.00 43.46 4.00
4235 4428 8.233190 GCATCTGCCATGAAGAAATATAACTAC 58.767 37.037 0.00 0.00 34.31 2.73
4266 4459 2.081462 GCTTATAACAGGGTTGCACGT 58.919 47.619 0.00 0.00 0.00 4.49
4275 4468 9.860898 AAATTTTCTTGCTAAGCTTATAACAGG 57.139 29.630 6.64 6.82 0.00 4.00
4351 4544 6.042552 TCAAGGGAGCATTGGTTTGATTTAAA 59.957 34.615 0.00 0.00 0.00 1.52
4392 4585 1.956477 GTTGAGGTTGTTGTGCAGGAT 59.044 47.619 0.00 0.00 0.00 3.24
4429 4626 0.798776 CACAAATGGAGAGCGACCAC 59.201 55.000 2.05 0.00 40.36 4.16
4517 4717 3.529341 ATGCGCAACAGTCCCACGA 62.529 57.895 17.11 0.00 0.00 4.35
4592 4792 3.966979 TGCAACACATAATGACCATCCT 58.033 40.909 0.00 0.00 0.00 3.24
4663 4873 5.069251 ACCAATTCGTCCATTAGGAGTAGAG 59.931 44.000 0.00 0.00 46.92 2.43
4664 4874 4.960469 ACCAATTCGTCCATTAGGAGTAGA 59.040 41.667 0.00 0.00 46.92 2.59
4665 4875 5.277857 ACCAATTCGTCCATTAGGAGTAG 57.722 43.478 0.00 0.00 46.92 2.57
4666 4876 5.188163 TCAACCAATTCGTCCATTAGGAGTA 59.812 40.000 0.00 0.00 46.92 2.59
4667 4877 4.019681 TCAACCAATTCGTCCATTAGGAGT 60.020 41.667 0.00 0.00 46.92 3.85
4668 4878 4.513442 TCAACCAATTCGTCCATTAGGAG 58.487 43.478 0.00 0.00 46.92 3.69
4669 4879 4.561500 TCAACCAATTCGTCCATTAGGA 57.438 40.909 0.00 0.00 43.21 2.94
4670 4880 5.835113 ATTCAACCAATTCGTCCATTAGG 57.165 39.130 0.00 0.00 0.00 2.69
4671 4881 7.254795 GGACTATTCAACCAATTCGTCCATTAG 60.255 40.741 0.00 0.00 40.39 1.73
4672 4882 6.540914 GGACTATTCAACCAATTCGTCCATTA 59.459 38.462 0.00 0.00 40.39 1.90
4673 4883 5.357032 GGACTATTCAACCAATTCGTCCATT 59.643 40.000 0.00 0.00 40.39 3.16
4674 4884 4.881850 GGACTATTCAACCAATTCGTCCAT 59.118 41.667 0.00 0.00 40.39 3.41
4675 4885 4.258543 GGACTATTCAACCAATTCGTCCA 58.741 43.478 0.00 0.00 40.39 4.02
4676 4886 3.626217 GGGACTATTCAACCAATTCGTCC 59.374 47.826 0.00 0.00 40.18 4.79
4677 4887 3.626217 GGGGACTATTCAACCAATTCGTC 59.374 47.826 0.00 0.00 0.00 4.20
4678 4888 3.617284 GGGGACTATTCAACCAATTCGT 58.383 45.455 0.00 0.00 0.00 3.85
4679 4889 2.949644 GGGGGACTATTCAACCAATTCG 59.050 50.000 0.00 0.00 0.00 3.34
4699 4909 0.757561 AAACCGGTTGAAAGTGGGGG 60.758 55.000 23.08 0.00 0.00 5.40
4700 4910 1.984066 TAAACCGGTTGAAAGTGGGG 58.016 50.000 23.08 0.00 0.00 4.96
4701 4911 4.594123 AAATAAACCGGTTGAAAGTGGG 57.406 40.909 23.08 0.00 0.00 4.61
4702 4912 5.593010 TGAAAATAAACCGGTTGAAAGTGG 58.407 37.500 23.08 0.00 0.00 4.00
4703 4913 6.019398 GGTTGAAAATAAACCGGTTGAAAGTG 60.019 38.462 23.08 0.00 37.90 3.16
4704 4914 6.044046 GGTTGAAAATAAACCGGTTGAAAGT 58.956 36.000 23.08 7.21 37.90 2.66
4705 4915 6.519353 GGTTGAAAATAAACCGGTTGAAAG 57.481 37.500 23.08 0.00 37.90 2.62
4714 4924 9.043079 TGAAAATAAACCGGTTGAAAATAAACC 57.957 29.630 23.08 4.41 43.11 3.27
4717 4927 9.043079 GGTTGAAAATAAACCGGTTGAAAATAA 57.957 29.630 23.08 8.64 37.90 1.40
4718 4928 8.590719 GGTTGAAAATAAACCGGTTGAAAATA 57.409 30.769 23.08 9.55 37.90 1.40
4719 4929 7.485418 GGTTGAAAATAAACCGGTTGAAAAT 57.515 32.000 23.08 7.21 37.90 1.82
4720 4930 6.905544 GGTTGAAAATAAACCGGTTGAAAA 57.094 33.333 23.08 7.52 37.90 2.29
4729 4939 7.515528 CGAAGAAAAACCGGTTGAAAATAAACC 60.516 37.037 23.08 2.95 43.11 3.27
4730 4940 7.009448 ACGAAGAAAAACCGGTTGAAAATAAAC 59.991 33.333 23.08 6.56 0.00 2.01
4731 4941 7.034397 ACGAAGAAAAACCGGTTGAAAATAAA 58.966 30.769 23.08 0.00 0.00 1.40
4732 4942 6.562518 ACGAAGAAAAACCGGTTGAAAATAA 58.437 32.000 23.08 0.00 0.00 1.40
4733 4943 6.134040 ACGAAGAAAAACCGGTTGAAAATA 57.866 33.333 23.08 0.00 0.00 1.40
4734 4944 5.001237 ACGAAGAAAAACCGGTTGAAAAT 57.999 34.783 23.08 7.80 0.00 1.82
4735 4945 4.413969 GACGAAGAAAAACCGGTTGAAAA 58.586 39.130 23.08 0.00 0.00 2.29
4736 4946 3.181498 GGACGAAGAAAAACCGGTTGAAA 60.181 43.478 23.08 0.00 0.00 2.69
4737 4947 2.355444 GGACGAAGAAAAACCGGTTGAA 59.645 45.455 23.08 0.00 0.00 2.69
4738 4948 1.941975 GGACGAAGAAAAACCGGTTGA 59.058 47.619 23.08 0.00 0.00 3.18
4739 4949 1.002142 GGGACGAAGAAAAACCGGTTG 60.002 52.381 23.08 8.93 0.00 3.77
4740 4950 1.311859 GGGACGAAGAAAAACCGGTT 58.688 50.000 15.86 15.86 0.00 4.44
4741 4951 0.180878 TGGGACGAAGAAAAACCGGT 59.819 50.000 0.00 0.00 0.00 5.28
4742 4952 0.589708 GTGGGACGAAGAAAAACCGG 59.410 55.000 0.00 0.00 0.00 5.28
4743 4953 0.589708 GGTGGGACGAAGAAAAACCG 59.410 55.000 0.00 0.00 0.00 4.44
4744 4954 1.878088 GAGGTGGGACGAAGAAAAACC 59.122 52.381 0.00 0.00 0.00 3.27
4745 4955 1.878088 GGAGGTGGGACGAAGAAAAAC 59.122 52.381 0.00 0.00 0.00 2.43
4746 4956 1.202842 GGGAGGTGGGACGAAGAAAAA 60.203 52.381 0.00 0.00 0.00 1.94
4747 4957 0.399075 GGGAGGTGGGACGAAGAAAA 59.601 55.000 0.00 0.00 0.00 2.29
4748 4958 0.765135 TGGGAGGTGGGACGAAGAAA 60.765 55.000 0.00 0.00 0.00 2.52
4749 4959 1.152204 TGGGAGGTGGGACGAAGAA 60.152 57.895 0.00 0.00 0.00 2.52
4750 4960 1.911766 GTGGGAGGTGGGACGAAGA 60.912 63.158 0.00 0.00 0.00 2.87
4751 4961 2.663196 GTGGGAGGTGGGACGAAG 59.337 66.667 0.00 0.00 0.00 3.79
4752 4962 2.926242 GGTGGGAGGTGGGACGAA 60.926 66.667 0.00 0.00 0.00 3.85
4753 4963 4.242586 TGGTGGGAGGTGGGACGA 62.243 66.667 0.00 0.00 0.00 4.20
4754 4964 3.706373 CTGGTGGGAGGTGGGACG 61.706 72.222 0.00 0.00 0.00 4.79
4755 4965 4.035102 GCTGGTGGGAGGTGGGAC 62.035 72.222 0.00 0.00 0.00 4.46
4770 4980 3.785122 AAAAACGGTGGGAGCGGCT 62.785 57.895 0.00 0.00 44.33 5.52
4771 4981 3.292159 AAAAACGGTGGGAGCGGC 61.292 61.111 0.00 0.00 44.33 6.53
4785 4995 4.506654 CGGTCAGACGAGAAAAGAGAAAAA 59.493 41.667 0.00 0.00 35.47 1.94
4786 4996 4.049186 CGGTCAGACGAGAAAAGAGAAAA 58.951 43.478 0.00 0.00 35.47 2.29
4787 4997 3.552273 CCGGTCAGACGAGAAAAGAGAAA 60.552 47.826 0.00 0.00 35.47 2.52
4788 4998 2.030185 CCGGTCAGACGAGAAAAGAGAA 60.030 50.000 0.00 0.00 35.47 2.87
4789 4999 1.540267 CCGGTCAGACGAGAAAAGAGA 59.460 52.381 0.00 0.00 35.47 3.10
4790 5000 1.983972 CCGGTCAGACGAGAAAAGAG 58.016 55.000 0.00 0.00 35.47 2.85
4791 5001 0.038526 GCCGGTCAGACGAGAAAAGA 60.039 55.000 1.90 0.00 35.47 2.52
4792 5002 0.319555 TGCCGGTCAGACGAGAAAAG 60.320 55.000 1.90 0.00 35.47 2.27
4793 5003 0.105224 TTGCCGGTCAGACGAGAAAA 59.895 50.000 1.90 0.00 35.47 2.29
4794 5004 0.320374 ATTGCCGGTCAGACGAGAAA 59.680 50.000 1.90 0.00 35.47 2.52
4795 5005 1.135199 GTATTGCCGGTCAGACGAGAA 60.135 52.381 1.90 0.00 35.47 2.87
4796 5006 0.454600 GTATTGCCGGTCAGACGAGA 59.545 55.000 1.90 0.00 35.47 4.04
4797 5007 0.527817 GGTATTGCCGGTCAGACGAG 60.528 60.000 1.90 0.00 35.47 4.18
4798 5008 1.514087 GGTATTGCCGGTCAGACGA 59.486 57.895 1.90 0.00 35.47 4.20
4799 5009 1.520787 GGGTATTGCCGGTCAGACG 60.521 63.158 1.90 0.00 38.44 4.18
4800 5010 0.035820 TTGGGTATTGCCGGTCAGAC 60.036 55.000 1.90 4.12 38.44 3.51
4801 5011 0.916086 ATTGGGTATTGCCGGTCAGA 59.084 50.000 1.90 0.00 38.44 3.27
4802 5012 1.024271 CATTGGGTATTGCCGGTCAG 58.976 55.000 1.90 0.00 38.44 3.51
4803 5013 0.329931 ACATTGGGTATTGCCGGTCA 59.670 50.000 1.90 0.00 38.44 4.02
4804 5014 2.335316 TACATTGGGTATTGCCGGTC 57.665 50.000 1.90 0.00 38.44 4.79
4814 5024 9.653516 TGATTGATTACCATAAATACATTGGGT 57.346 29.630 0.00 0.00 34.72 4.51
4828 5038 9.567776 ACGTGGATTAATTATGATTGATTACCA 57.432 29.630 0.00 0.00 0.00 3.25
4848 5058 9.923143 CTGGATTGATTTATTACTATACGTGGA 57.077 33.333 0.00 0.00 0.00 4.02
4849 5059 9.151471 CCTGGATTGATTTATTACTATACGTGG 57.849 37.037 0.00 0.00 0.00 4.94
4850 5060 9.706691 ACCTGGATTGATTTATTACTATACGTG 57.293 33.333 0.00 0.00 0.00 4.49
4860 5070 8.511126 ACCTTACCATACCTGGATTGATTTATT 58.489 33.333 0.00 0.00 46.37 1.40
4861 5071 8.057246 ACCTTACCATACCTGGATTGATTTAT 57.943 34.615 0.00 0.00 46.37 1.40
4862 5072 7.128109 TGACCTTACCATACCTGGATTGATTTA 59.872 37.037 0.00 0.00 46.37 1.40
4863 5073 6.069088 TGACCTTACCATACCTGGATTGATTT 60.069 38.462 0.00 0.00 46.37 2.17
4864 5074 5.431731 TGACCTTACCATACCTGGATTGATT 59.568 40.000 0.00 0.00 46.37 2.57
4865 5075 4.975147 TGACCTTACCATACCTGGATTGAT 59.025 41.667 0.00 0.00 46.37 2.57
4866 5076 4.367166 TGACCTTACCATACCTGGATTGA 58.633 43.478 0.00 0.00 46.37 2.57
4867 5077 4.771114 TGACCTTACCATACCTGGATTG 57.229 45.455 0.00 0.00 46.37 2.67
4868 5078 6.619852 AGTTATGACCTTACCATACCTGGATT 59.380 38.462 0.00 0.00 46.37 3.01
4869 5079 6.151049 AGTTATGACCTTACCATACCTGGAT 58.849 40.000 0.00 0.00 46.37 3.41
4870 5080 5.535029 AGTTATGACCTTACCATACCTGGA 58.465 41.667 0.00 0.00 46.37 3.86
4872 5082 6.463049 CCTGAGTTATGACCTTACCATACCTG 60.463 46.154 0.00 0.00 0.00 4.00
4873 5083 5.602978 CCTGAGTTATGACCTTACCATACCT 59.397 44.000 0.00 0.00 0.00 3.08
4874 5084 5.601313 TCCTGAGTTATGACCTTACCATACC 59.399 44.000 0.00 0.00 0.00 2.73
4875 5085 6.726490 TCCTGAGTTATGACCTTACCATAC 57.274 41.667 0.00 0.00 0.00 2.39
4876 5086 7.743116 TTTCCTGAGTTATGACCTTACCATA 57.257 36.000 0.00 0.00 0.00 2.74
4877 5087 6.636454 TTTCCTGAGTTATGACCTTACCAT 57.364 37.500 0.00 0.00 0.00 3.55
4878 5088 6.636454 ATTTCCTGAGTTATGACCTTACCA 57.364 37.500 0.00 0.00 0.00 3.25
4879 5089 7.939784 AAATTTCCTGAGTTATGACCTTACC 57.060 36.000 0.00 0.00 0.00 2.85
4880 5090 9.010029 TCAAAATTTCCTGAGTTATGACCTTAC 57.990 33.333 0.00 0.00 0.00 2.34
4881 5091 9.581289 TTCAAAATTTCCTGAGTTATGACCTTA 57.419 29.630 0.00 0.00 0.00 2.69
4882 5092 8.477419 TTCAAAATTTCCTGAGTTATGACCTT 57.523 30.769 0.00 0.00 0.00 3.50
4883 5093 8.655935 ATTCAAAATTTCCTGAGTTATGACCT 57.344 30.769 0.00 0.00 0.00 3.85


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

AutoCloner maintained by Alex Coulton.