Multiple sequence alignment - TraesCS4D01G122900

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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 TraesCS4D01G122900 chr4D 100.000 2821 0 0 1 2821 106740408 106737588 0.000000e+00 5210.0
1 TraesCS4D01G122900 chr4D 91.980 611 42 3 1117 1726 107435273 107434669 0.000000e+00 850.0
2 TraesCS4D01G122900 chr4D 82.205 517 72 10 215 719 337464123 337463615 7.220000e-116 427.0
3 TraesCS4D01G122900 chr4D 97.015 67 0 1 2366 2432 106737978 106737914 8.260000e-21 111.0
4 TraesCS4D01G122900 chr4D 97.015 67 0 1 2431 2495 106738043 106737977 8.260000e-21 111.0
5 TraesCS4D01G122900 chr4D 94.643 56 3 0 11 66 477510784 477510839 1.390000e-13 87.9
6 TraesCS4D01G122900 chr4D 86.842 76 7 3 1944 2016 359359842 359359917 6.480000e-12 82.4
7 TraesCS4D01G122900 chr4B 92.079 1212 51 20 762 1958 169792181 169793362 0.000000e+00 1664.0
8 TraesCS4D01G122900 chr4B 89.645 705 58 12 1126 1819 169597570 169598270 0.000000e+00 883.0
9 TraesCS4D01G122900 chr4B 83.610 543 81 4 219 754 389961682 389962223 1.170000e-138 503.0
10 TraesCS4D01G122900 chr4B 87.192 406 24 8 2432 2819 169793768 169794163 1.200000e-118 436.0
11 TraesCS4D01G122900 chr4B 80.586 546 83 11 219 754 300885195 300884663 1.570000e-107 399.0
12 TraesCS4D01G122900 chr4B 95.000 160 7 1 2017 2175 169793370 169793529 1.680000e-62 250.0
13 TraesCS4D01G122900 chr4A 92.731 1073 39 13 859 1930 469101706 469102740 0.000000e+00 1513.0
14 TraesCS4D01G122900 chr4A 89.347 704 62 11 1126 1819 468757526 468758226 0.000000e+00 872.0
15 TraesCS4D01G122900 chr4A 86.371 653 65 12 1 631 469052625 469053275 0.000000e+00 691.0
16 TraesCS4D01G122900 chr4A 90.617 373 16 7 2007 2360 469102770 469103142 7.070000e-131 477.0
17 TraesCS4D01G122900 chr4A 87.915 331 24 1 2480 2794 469103142 469103472 2.650000e-100 375.0
18 TraesCS4D01G122900 chr4A 100.000 52 0 0 1969 2020 737485768 737485717 2.310000e-16 97.1
19 TraesCS4D01G122900 chr5A 88.913 460 50 1 1166 1624 316659242 316659701 1.470000e-157 566.0
20 TraesCS4D01G122900 chr5B 88.938 452 50 0 1166 1617 267417430 267417881 2.450000e-155 558.0
21 TraesCS4D01G122900 chr5B 90.033 301 30 0 1321 1621 704276902 704276602 9.470000e-105 390.0
22 TraesCS4D01G122900 chr5B 80.186 323 41 10 1203 1524 704272903 704272603 1.320000e-53 220.0
23 TraesCS4D01G122900 chr5B 98.148 54 1 0 1963 2016 257333314 257333261 8.320000e-16 95.3
24 TraesCS4D01G122900 chr6B 85.138 545 70 6 219 754 149574117 149573575 5.310000e-152 547.0
25 TraesCS4D01G122900 chr3D 84.587 545 69 10 219 754 30507987 30507449 6.920000e-146 527.0
26 TraesCS4D01G122900 chr3D 83.425 543 82 4 219 754 439204001 439204542 5.430000e-137 497.0
27 TraesCS4D01G122900 chr3D 92.857 70 3 2 1 69 524718552 524718484 1.790000e-17 100.0
28 TraesCS4D01G122900 chr3D 88.571 70 7 1 1 69 40556044 40555975 1.800000e-12 84.2
29 TraesCS4D01G122900 chr6D 83.853 545 76 8 219 754 70212419 70211878 2.510000e-140 508.0
30 TraesCS4D01G122900 chr6D 82.689 543 85 5 219 754 155045047 155045587 9.150000e-130 473.0
31 TraesCS4D01G122900 chr6D 95.082 61 2 1 1957 2016 27179444 27179504 8.320000e-16 95.3
32 TraesCS4D01G122900 chr6D 91.176 68 5 1 1 67 62207871 62207938 1.080000e-14 91.6
33 TraesCS4D01G122900 chr6D 93.878 49 3 0 2661 2709 191275118 191275070 1.080000e-09 75.0
34 TraesCS4D01G122900 chr5D 83.794 543 80 4 219 754 255766209 255766750 2.510000e-140 508.0
35 TraesCS4D01G122900 chr2A 82.909 550 73 9 219 754 717553236 717552694 2.540000e-130 475.0
36 TraesCS4D01G122900 chr3B 81.268 347 52 9 416 754 766659270 766658929 4.630000e-68 268.0
37 TraesCS4D01G122900 chr7D 96.491 57 1 1 1965 2020 635688879 635688935 2.990000e-15 93.5
38 TraesCS4D01G122900 chr7D 96.491 57 1 1 1965 2020 636310258 636310202 2.990000e-15 93.5
39 TraesCS4D01G122900 chr7D 90.000 70 6 1 1 69 403417460 403417391 3.870000e-14 89.8
40 TraesCS4D01G122900 chr7D 100.000 31 0 0 2574 2604 348128926 348128896 1.090000e-04 58.4
41 TraesCS4D01G122900 chr3A 94.915 59 3 0 1969 2027 638437104 638437046 2.990000e-15 93.5
42 TraesCS4D01G122900 chr3A 97.297 37 1 0 78 114 165092555 165092591 2.350000e-06 63.9
43 TraesCS4D01G122900 chr2D 100.000 49 0 0 1968 2016 419675611 419675563 1.080000e-14 91.6
44 TraesCS4D01G122900 chr2D 100.000 32 0 0 2572 2603 204389818 204389849 3.030000e-05 60.2
45 TraesCS4D01G122900 chr2B 93.443 61 4 0 1956 2016 789965979 789966039 1.080000e-14 91.6
46 TraesCS4D01G122900 chr2B 88.060 67 7 1 1 66 226521024 226521090 8.380000e-11 78.7
47 TraesCS4D01G122900 chr1D 91.045 67 5 1 1 66 472292330 472292396 3.870000e-14 89.8
48 TraesCS4D01G122900 chr1D 100.000 30 0 0 2574 2603 276504856 276504885 3.930000e-04 56.5
49 TraesCS4D01G122900 chr1D 100.000 29 0 0 2575 2603 159139632 159139604 1.000000e-03 54.7
50 TraesCS4D01G122900 chr6A 89.552 67 5 2 2 66 487781682 487781748 1.800000e-12 84.2
51 TraesCS4D01G122900 chr6A 100.000 30 0 0 2574 2603 448060661 448060632 3.930000e-04 56.5
52 TraesCS4D01G122900 chr7A 91.379 58 5 0 9 66 730422573 730422630 2.330000e-11 80.5
53 TraesCS4D01G122900 chr7B 100.000 30 0 0 2574 2603 422859544 422859515 3.930000e-04 56.5
54 TraesCS4D01G122900 chr1B 100.000 30 0 0 2574 2603 528134664 528134693 3.930000e-04 56.5
55 TraesCS4D01G122900 chr1A 100.000 30 0 0 2574 2603 376346284 376346313 3.930000e-04 56.5


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 TraesCS4D01G122900 chr4D 106737588 106740408 2820 True 1810.666667 5210 98.010000 1 2821 3 chr4D.!!$R3 2820
1 TraesCS4D01G122900 chr4D 107434669 107435273 604 True 850.000000 850 91.980000 1117 1726 1 chr4D.!!$R1 609
2 TraesCS4D01G122900 chr4D 337463615 337464123 508 True 427.000000 427 82.205000 215 719 1 chr4D.!!$R2 504
3 TraesCS4D01G122900 chr4B 169597570 169598270 700 False 883.000000 883 89.645000 1126 1819 1 chr4B.!!$F1 693
4 TraesCS4D01G122900 chr4B 169792181 169794163 1982 False 783.333333 1664 91.423667 762 2819 3 chr4B.!!$F3 2057
5 TraesCS4D01G122900 chr4B 389961682 389962223 541 False 503.000000 503 83.610000 219 754 1 chr4B.!!$F2 535
6 TraesCS4D01G122900 chr4B 300884663 300885195 532 True 399.000000 399 80.586000 219 754 1 chr4B.!!$R1 535
7 TraesCS4D01G122900 chr4A 468757526 468758226 700 False 872.000000 872 89.347000 1126 1819 1 chr4A.!!$F1 693
8 TraesCS4D01G122900 chr4A 469101706 469103472 1766 False 788.333333 1513 90.421000 859 2794 3 chr4A.!!$F3 1935
9 TraesCS4D01G122900 chr4A 469052625 469053275 650 False 691.000000 691 86.371000 1 631 1 chr4A.!!$F2 630
10 TraesCS4D01G122900 chr5B 704272603 704276902 4299 True 305.000000 390 85.109500 1203 1621 2 chr5B.!!$R2 418
11 TraesCS4D01G122900 chr6B 149573575 149574117 542 True 547.000000 547 85.138000 219 754 1 chr6B.!!$R1 535
12 TraesCS4D01G122900 chr3D 30507449 30507987 538 True 527.000000 527 84.587000 219 754 1 chr3D.!!$R1 535
13 TraesCS4D01G122900 chr3D 439204001 439204542 541 False 497.000000 497 83.425000 219 754 1 chr3D.!!$F1 535
14 TraesCS4D01G122900 chr6D 70211878 70212419 541 True 508.000000 508 83.853000 219 754 1 chr6D.!!$R1 535
15 TraesCS4D01G122900 chr6D 155045047 155045587 540 False 473.000000 473 82.689000 219 754 1 chr6D.!!$F3 535
16 TraesCS4D01G122900 chr5D 255766209 255766750 541 False 508.000000 508 83.794000 219 754 1 chr5D.!!$F1 535
17 TraesCS4D01G122900 chr2A 717552694 717553236 542 True 475.000000 475 82.909000 219 754 1 chr2A.!!$R1 535

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
842 889 0.902531 CGAAACCCTAAGCTCCCTCA 59.097 55.0 0.0 0.0 0.0 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2779 5717 0.524862 GCACAGAAATGTGAGCCCAG 59.475 55.0 12.34 0.0 42.02 4.45 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
29 31 2.143419 GCTCCGATGAGGGATGGGT 61.143 63.158 0.00 0.00 41.52 4.51
35 37 1.202580 CGATGAGGGATGGGTGAAGAC 60.203 57.143 0.00 0.00 0.00 3.01
65 67 2.206515 CTTCGACTCGCTCCAGTGCT 62.207 60.000 0.00 0.00 0.00 4.40
74 93 1.678627 CGCTCCAGTGCTAGTCTACAT 59.321 52.381 0.00 0.00 0.00 2.29
75 94 2.879026 CGCTCCAGTGCTAGTCTACATA 59.121 50.000 0.00 0.00 0.00 2.29
80 99 6.202202 TCCAGTGCTAGTCTACATACCTAT 57.798 41.667 0.00 0.00 0.00 2.57
148 167 8.090788 ACTAACCTATAATACTATGCATGGGG 57.909 38.462 15.11 6.38 0.00 4.96
149 168 5.975988 ACCTATAATACTATGCATGGGGG 57.024 43.478 15.11 6.96 0.00 5.40
150 169 5.359173 ACCTATAATACTATGCATGGGGGT 58.641 41.667 15.11 8.09 0.00 4.95
152 171 5.191722 CCTATAATACTATGCATGGGGGTGT 59.808 44.000 15.11 4.19 0.00 4.16
173 193 6.582295 GGTGTTGCATTATGAAAGTAGTGTTG 59.418 38.462 0.00 0.00 0.00 3.33
348 375 3.407967 ATGGGTAGGGCACGGGTG 61.408 66.667 0.00 0.00 0.00 4.61
371 398 8.812972 GGTGTAGTCTTGTATCCATGGATATAA 58.187 37.037 32.15 31.42 39.04 0.98
412 440 9.634021 TTTATACTGGCATGTTACATATTTGGA 57.366 29.630 0.00 0.00 0.00 3.53
491 520 7.984050 TCACCAGTTGCAAATTTAAATTGAGAA 59.016 29.630 14.04 2.58 0.00 2.87
727 774 6.501805 TGAGAATGGGTATGGTATTGCTCTAT 59.498 38.462 0.00 0.00 0.00 1.98
743 790 4.045974 TGCTCTATCTGTCCCATACCCTAT 59.954 45.833 0.00 0.00 0.00 2.57
754 801 4.855018 TCCCATACCCTATTCATTGCCATA 59.145 41.667 0.00 0.00 0.00 2.74
755 802 4.949856 CCCATACCCTATTCATTGCCATAC 59.050 45.833 0.00 0.00 0.00 2.39
756 803 4.635765 CCATACCCTATTCATTGCCATACG 59.364 45.833 0.00 0.00 0.00 3.06
757 804 2.504367 ACCCTATTCATTGCCATACGC 58.496 47.619 0.00 0.00 38.31 4.42
773 820 3.589579 GCATGGCGGTGACAATGA 58.410 55.556 0.00 0.00 0.00 2.57
783 830 1.501292 TGACAATGATGGCAACGCG 59.499 52.632 3.53 3.53 43.21 6.01
800 847 3.532155 GGCAGGACTCGCTCGGAT 61.532 66.667 0.00 0.00 0.00 4.18
842 889 0.902531 CGAAACCCTAAGCTCCCTCA 59.097 55.000 0.00 0.00 0.00 3.86
845 892 2.270434 AACCCTAAGCTCCCTCATCA 57.730 50.000 0.00 0.00 0.00 3.07
847 894 3.637821 ACCCTAAGCTCCCTCATCATA 57.362 47.619 0.00 0.00 0.00 2.15
848 895 4.153371 ACCCTAAGCTCCCTCATCATAT 57.847 45.455 0.00 0.00 0.00 1.78
874 936 1.068474 ACTCGACTTCAAAATCGCCG 58.932 50.000 0.00 0.00 38.24 6.46
922 984 1.407437 GCCCACATAGAGTCCAACTGG 60.407 57.143 0.00 0.00 0.00 4.00
926 988 3.007940 CCACATAGAGTCCAACTGGTTCA 59.992 47.826 0.00 0.00 36.34 3.18
1038 1100 0.608308 TCTTCTTCGTCGCCTCTCCA 60.608 55.000 0.00 0.00 0.00 3.86
1093 1155 4.688419 CGCACTGCCGCAACCAAG 62.688 66.667 0.00 0.00 0.00 3.61
1095 1157 3.594775 CACTGCCGCAACCAAGCA 61.595 61.111 0.00 0.00 34.79 3.91
1096 1158 3.595758 ACTGCCGCAACCAAGCAC 61.596 61.111 0.00 0.00 32.06 4.40
1097 1159 3.594775 CTGCCGCAACCAAGCACA 61.595 61.111 0.00 0.00 32.06 4.57
1098 1160 3.829272 CTGCCGCAACCAAGCACAC 62.829 63.158 0.00 0.00 32.06 3.82
1099 1161 4.645921 GCCGCAACCAAGCACACC 62.646 66.667 0.00 0.00 0.00 4.16
1100 1162 3.215568 CCGCAACCAAGCACACCA 61.216 61.111 0.00 0.00 0.00 4.17
1101 1163 2.026014 CGCAACCAAGCACACCAC 59.974 61.111 0.00 0.00 0.00 4.16
1102 1164 2.417097 GCAACCAAGCACACCACC 59.583 61.111 0.00 0.00 0.00 4.61
1103 1165 2.721231 CAACCAAGCACACCACCG 59.279 61.111 0.00 0.00 0.00 4.94
1104 1166 3.216292 AACCAAGCACACCACCGC 61.216 61.111 0.00 0.00 0.00 5.68
1107 1169 4.954970 CAAGCACACCACCGCCCT 62.955 66.667 0.00 0.00 0.00 5.19
1108 1170 4.643387 AAGCACACCACCGCCCTC 62.643 66.667 0.00 0.00 0.00 4.30
1153 1216 1.298563 CACAGCAACCAAGCACACG 60.299 57.895 0.00 0.00 36.85 4.49
1183 1246 1.376424 CATGGCAGCCGTTCTCACT 60.376 57.895 2.24 0.00 0.00 3.41
1510 1573 4.434195 AGAAGGAGGTGAAGGAGATCTTT 58.566 43.478 0.00 0.00 35.50 2.52
1513 1576 2.573915 GGAGGTGAAGGAGATCTTTGGT 59.426 50.000 0.00 0.00 35.50 3.67
1886 1957 7.987268 TTTAGTTGATCTGATAGTACAAGCG 57.013 36.000 0.00 0.00 0.00 4.68
1893 1964 3.926527 TCTGATAGTACAAGCGTTTGCAG 59.073 43.478 12.28 9.83 46.23 4.41
1900 1975 3.542712 ACAAGCGTTTGCAGATAACAG 57.457 42.857 12.28 0.00 46.23 3.16
1932 2007 3.342377 TGCCAATCATTTCGTGGACTA 57.658 42.857 0.00 0.00 34.05 2.59
1973 2048 5.765510 TGGAAAATATGCCAACCATCTACT 58.234 37.500 0.00 0.00 35.34 2.57
1974 2049 5.827797 TGGAAAATATGCCAACCATCTACTC 59.172 40.000 0.00 0.00 35.34 2.59
1975 2050 5.241728 GGAAAATATGCCAACCATCTACTCC 59.758 44.000 0.00 0.00 35.34 3.85
1976 2051 4.373156 AATATGCCAACCATCTACTCCC 57.627 45.455 0.00 0.00 35.34 4.30
1977 2052 1.898863 ATGCCAACCATCTACTCCCT 58.101 50.000 0.00 0.00 0.00 4.20
1979 2054 0.470341 GCCAACCATCTACTCCCTCC 59.530 60.000 0.00 0.00 0.00 4.30
1980 2055 0.753262 CCAACCATCTACTCCCTCCG 59.247 60.000 0.00 0.00 0.00 4.63
1983 2058 1.777941 ACCATCTACTCCCTCCGTTC 58.222 55.000 0.00 0.00 0.00 3.95
1984 2059 1.041437 CCATCTACTCCCTCCGTTCC 58.959 60.000 0.00 0.00 0.00 3.62
1985 2060 1.688311 CCATCTACTCCCTCCGTTCCA 60.688 57.143 0.00 0.00 0.00 3.53
1986 2061 2.108168 CATCTACTCCCTCCGTTCCAA 58.892 52.381 0.00 0.00 0.00 3.53
1987 2062 2.314071 TCTACTCCCTCCGTTCCAAA 57.686 50.000 0.00 0.00 0.00 3.28
1988 2063 2.612000 TCTACTCCCTCCGTTCCAAAA 58.388 47.619 0.00 0.00 0.00 2.44
1989 2064 3.178865 TCTACTCCCTCCGTTCCAAAAT 58.821 45.455 0.00 0.00 0.00 1.82
1990 2065 4.355549 TCTACTCCCTCCGTTCCAAAATA 58.644 43.478 0.00 0.00 0.00 1.40
1991 2066 3.629142 ACTCCCTCCGTTCCAAAATAG 57.371 47.619 0.00 0.00 0.00 1.73
1992 2067 3.178865 ACTCCCTCCGTTCCAAAATAGA 58.821 45.455 0.00 0.00 0.00 1.98
1993 2068 3.780850 ACTCCCTCCGTTCCAAAATAGAT 59.219 43.478 0.00 0.00 0.00 1.98
1994 2069 4.130118 CTCCCTCCGTTCCAAAATAGATG 58.870 47.826 0.00 0.00 0.00 2.90
1995 2070 3.778075 TCCCTCCGTTCCAAAATAGATGA 59.222 43.478 0.00 0.00 0.00 2.92
1996 2071 3.877508 CCCTCCGTTCCAAAATAGATGAC 59.122 47.826 0.00 0.00 0.00 3.06
1998 2073 4.811557 CCTCCGTTCCAAAATAGATGACTC 59.188 45.833 0.00 0.00 0.00 3.36
2001 2076 5.642063 TCCGTTCCAAAATAGATGACTCAAC 59.358 40.000 0.00 0.00 0.00 3.18
2002 2077 5.643777 CCGTTCCAAAATAGATGACTCAACT 59.356 40.000 0.00 0.00 0.00 3.16
2003 2078 6.149474 CCGTTCCAAAATAGATGACTCAACTT 59.851 38.462 0.00 0.00 0.00 2.66
2005 2080 7.535258 CGTTCCAAAATAGATGACTCAACTTTG 59.465 37.037 0.00 0.00 0.00 2.77
2006 2081 8.352942 GTTCCAAAATAGATGACTCAACTTTGT 58.647 33.333 0.00 0.00 0.00 2.83
2007 2082 9.567776 TTCCAAAATAGATGACTCAACTTTGTA 57.432 29.630 0.00 0.00 0.00 2.41
2008 2083 8.999431 TCCAAAATAGATGACTCAACTTTGTAC 58.001 33.333 0.00 0.00 0.00 2.90
2091 2166 6.026513 GCTTTGTAGATTCATGCTTCTGTTC 58.973 40.000 7.31 0.95 0.00 3.18
2097 2172 2.189594 TCATGCTTCTGTTCCTGTGG 57.810 50.000 0.00 0.00 0.00 4.17
2165 2241 3.320541 CCGCCAAGATTAGTGATCTCTCT 59.679 47.826 0.00 0.00 44.41 3.10
2175 2251 9.146586 AGATTAGTGATCTCTCTGCTAGAAATT 57.853 33.333 0.00 0.00 41.31 1.82
2203 2315 6.570672 AAGATATCATGCATGTTGTCATCC 57.429 37.500 26.59 11.19 31.15 3.51
2362 2490 4.276058 AGCTTTGCTTTTATGGTGCATT 57.724 36.364 0.00 0.00 33.89 3.56
2365 2493 2.937469 TGCTTTTATGGTGCATTCGG 57.063 45.000 0.00 0.00 0.00 4.30
2370 2498 4.143137 GCTTTTATGGTGCATTCGGTTTTG 60.143 41.667 0.00 0.00 0.00 2.44
2374 2502 1.365633 GTGCATTCGGTTTTGGCCA 59.634 52.632 0.00 0.00 0.00 5.36
2395 2523 4.322801 CCAGTCTTAGGGTTCAACCTGTAG 60.323 50.000 6.51 1.44 42.02 2.74
2428 2556 9.630098 CATTGTTTATAATGCCCATTCTCATAC 57.370 33.333 0.00 0.00 31.96 2.39
2429 2557 8.759481 TTGTTTATAATGCCCATTCTCATACA 57.241 30.769 0.00 0.00 32.50 2.29
2430 2558 8.394971 TGTTTATAATGCCCATTCTCATACAG 57.605 34.615 0.00 0.00 32.50 2.74
2431 2559 7.998383 TGTTTATAATGCCCATTCTCATACAGT 59.002 33.333 0.00 0.00 32.50 3.55
2432 2560 8.850156 GTTTATAATGCCCATTCTCATACAGTT 58.150 33.333 0.00 0.00 32.50 3.16
2433 2561 8.995027 TTATAATGCCCATTCTCATACAGTTT 57.005 30.769 0.00 0.00 32.50 2.66
2434 2562 7.902920 ATAATGCCCATTCTCATACAGTTTT 57.097 32.000 0.00 0.00 32.50 2.43
2435 2563 5.587388 ATGCCCATTCTCATACAGTTTTG 57.413 39.130 0.00 0.00 0.00 2.44
2436 2564 3.763360 TGCCCATTCTCATACAGTTTTGG 59.237 43.478 0.00 0.00 0.00 3.28
2437 2565 3.429410 GCCCATTCTCATACAGTTTTGGC 60.429 47.826 0.00 0.00 0.00 4.52
2438 2566 3.131046 CCCATTCTCATACAGTTTTGGCC 59.869 47.826 0.00 0.00 0.00 5.36
2439 2567 3.763360 CCATTCTCATACAGTTTTGGCCA 59.237 43.478 0.00 0.00 0.00 5.36
2440 2568 4.142315 CCATTCTCATACAGTTTTGGCCAG 60.142 45.833 5.11 0.00 0.00 4.85
2441 2569 3.788227 TCTCATACAGTTTTGGCCAGT 57.212 42.857 5.11 2.01 0.00 4.00
2442 2570 3.674997 TCTCATACAGTTTTGGCCAGTC 58.325 45.455 5.11 0.11 0.00 3.51
2443 2571 3.327757 TCTCATACAGTTTTGGCCAGTCT 59.672 43.478 5.11 2.82 0.00 3.24
2444 2572 4.074970 CTCATACAGTTTTGGCCAGTCTT 58.925 43.478 5.11 0.00 0.00 3.01
2445 2573 5.012664 TCTCATACAGTTTTGGCCAGTCTTA 59.987 40.000 5.11 0.00 0.00 2.10
2446 2574 5.245531 TCATACAGTTTTGGCCAGTCTTAG 58.754 41.667 5.11 0.00 0.00 2.18
2447 2575 2.863809 ACAGTTTTGGCCAGTCTTAGG 58.136 47.619 5.11 0.00 0.00 2.69
2448 2576 2.162681 CAGTTTTGGCCAGTCTTAGGG 58.837 52.381 5.11 0.00 0.00 3.53
2449 2577 1.780919 AGTTTTGGCCAGTCTTAGGGT 59.219 47.619 5.11 0.00 0.00 4.34
2450 2578 2.177016 AGTTTTGGCCAGTCTTAGGGTT 59.823 45.455 5.11 0.00 0.00 4.11
2451 2579 2.557056 GTTTTGGCCAGTCTTAGGGTTC 59.443 50.000 5.11 0.00 0.00 3.62
2452 2580 1.440618 TTGGCCAGTCTTAGGGTTCA 58.559 50.000 5.11 0.00 0.00 3.18
2453 2581 1.440618 TGGCCAGTCTTAGGGTTCAA 58.559 50.000 0.00 0.00 0.00 2.69
2454 2582 1.073284 TGGCCAGTCTTAGGGTTCAAC 59.927 52.381 0.00 0.00 0.00 3.18
2455 2583 1.613520 GGCCAGTCTTAGGGTTCAACC 60.614 57.143 0.00 0.00 37.60 3.77
2456 2584 1.351350 GCCAGTCTTAGGGTTCAACCT 59.649 52.381 6.51 0.00 44.75 3.50
2457 2585 2.876079 GCCAGTCTTAGGGTTCAACCTG 60.876 54.545 6.51 0.00 42.02 4.00
2458 2586 2.372172 CCAGTCTTAGGGTTCAACCTGT 59.628 50.000 6.51 0.00 42.02 4.00
2459 2587 3.581332 CCAGTCTTAGGGTTCAACCTGTA 59.419 47.826 6.51 0.00 42.02 2.74
2460 2588 4.322801 CCAGTCTTAGGGTTCAACCTGTAG 60.323 50.000 6.51 1.44 42.02 2.74
2461 2589 4.527038 CAGTCTTAGGGTTCAACCTGTAGA 59.473 45.833 6.51 3.89 42.02 2.59
2462 2590 4.527427 AGTCTTAGGGTTCAACCTGTAGAC 59.473 45.833 19.43 19.43 44.94 2.59
2463 2591 3.836562 TCTTAGGGTTCAACCTGTAGACC 59.163 47.826 6.51 0.00 42.02 3.85
2464 2592 2.112279 AGGGTTCAACCTGTAGACCA 57.888 50.000 6.51 0.00 40.04 4.02
2465 2593 2.632537 AGGGTTCAACCTGTAGACCAT 58.367 47.619 6.51 0.00 40.04 3.55
2466 2594 2.305927 AGGGTTCAACCTGTAGACCATG 59.694 50.000 6.51 0.00 40.04 3.66
2467 2595 2.084546 GGTTCAACCTGTAGACCATGC 58.915 52.381 0.00 0.00 34.73 4.06
2468 2596 2.552155 GGTTCAACCTGTAGACCATGCA 60.552 50.000 0.00 0.00 34.73 3.96
2469 2597 3.347216 GTTCAACCTGTAGACCATGCAT 58.653 45.455 0.00 0.00 0.00 3.96
2470 2598 3.719268 TCAACCTGTAGACCATGCATT 57.281 42.857 0.00 0.00 0.00 3.56
2471 2599 3.346315 TCAACCTGTAGACCATGCATTG 58.654 45.455 0.00 0.00 0.00 2.82
2472 2600 3.084039 CAACCTGTAGACCATGCATTGT 58.916 45.455 2.50 2.50 0.00 2.71
2473 2601 3.439857 ACCTGTAGACCATGCATTGTT 57.560 42.857 4.71 0.00 0.00 2.83
2474 2602 3.766545 ACCTGTAGACCATGCATTGTTT 58.233 40.909 4.71 1.95 0.00 2.83
2475 2603 4.917385 ACCTGTAGACCATGCATTGTTTA 58.083 39.130 4.71 0.92 0.00 2.01
2476 2604 5.509498 ACCTGTAGACCATGCATTGTTTAT 58.491 37.500 4.71 0.00 0.00 1.40
2477 2605 6.658849 ACCTGTAGACCATGCATTGTTTATA 58.341 36.000 4.71 1.75 0.00 0.98
2478 2606 7.116075 ACCTGTAGACCATGCATTGTTTATAA 58.884 34.615 4.71 0.00 0.00 0.98
2479 2607 7.067008 ACCTGTAGACCATGCATTGTTTATAAC 59.933 37.037 4.71 0.00 0.00 1.89
2480 2608 7.328277 TGTAGACCATGCATTGTTTATAACC 57.672 36.000 4.71 0.00 0.00 2.85
2481 2609 5.852282 AGACCATGCATTGTTTATAACCC 57.148 39.130 4.71 0.00 0.00 4.11
2482 2610 5.268387 AGACCATGCATTGTTTATAACCCA 58.732 37.500 4.71 0.00 0.00 4.51
2483 2611 5.898972 AGACCATGCATTGTTTATAACCCAT 59.101 36.000 4.71 0.00 0.00 4.00
2484 2612 6.383726 AGACCATGCATTGTTTATAACCCATT 59.616 34.615 4.71 0.00 0.00 3.16
2485 2613 6.581712 ACCATGCATTGTTTATAACCCATTC 58.418 36.000 0.00 0.00 0.00 2.67
2486 2614 6.383726 ACCATGCATTGTTTATAACCCATTCT 59.616 34.615 0.00 0.00 0.00 2.40
2487 2615 6.925165 CCATGCATTGTTTATAACCCATTCTC 59.075 38.462 0.00 0.00 0.00 2.87
2555 2925 4.776837 TCATAACAATCCCATTTGTTGCCT 59.223 37.500 11.66 0.00 46.43 4.75
2579 2949 3.201045 ACCTCTTAGGCCTCATTTCCTTC 59.799 47.826 9.68 0.00 39.63 3.46
2695 4093 3.593096 TCATAGGATTCGAGATGCATGC 58.407 45.455 11.82 11.82 0.00 4.06
2710 4108 4.160642 TGCATGCTATCTCATTTCCTGT 57.839 40.909 20.33 0.00 0.00 4.00
2711 4109 3.881089 TGCATGCTATCTCATTTCCTGTG 59.119 43.478 20.33 0.00 0.00 3.66
2736 4134 3.416156 ACATCTCTTTCCCTGCAAGTTC 58.584 45.455 0.00 0.00 0.00 3.01
2770 5708 9.261035 CTGTGATATACCTATCCTATGAACCTT 57.739 37.037 0.00 0.00 34.03 3.50
2779 5717 9.036980 ACCTATCCTATGAACCTTATATCACAC 57.963 37.037 0.00 0.00 0.00 3.82
2795 5733 1.538512 CACACTGGGCTCACATTTCTG 59.461 52.381 0.00 0.00 0.00 3.02
2805 5743 2.132517 CACATTTCTGTGCGCTGGCA 62.133 55.000 9.73 4.23 45.79 4.92
2818 5756 1.334869 CGCTGGCAATTGTTAGATCCC 59.665 52.381 7.40 0.00 0.00 3.85
2819 5757 2.378038 GCTGGCAATTGTTAGATCCCA 58.622 47.619 7.40 3.06 0.00 4.37
2820 5758 2.961062 GCTGGCAATTGTTAGATCCCAT 59.039 45.455 7.40 0.00 0.00 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
50 52 2.185238 ACTAGCACTGGAGCGAGTC 58.815 57.895 4.76 0.00 45.42 3.36
51 53 4.425099 ACTAGCACTGGAGCGAGT 57.575 55.556 4.76 4.76 44.06 4.18
55 57 3.004944 GGTATGTAGACTAGCACTGGAGC 59.995 52.174 0.00 0.00 0.00 4.70
145 164 2.831526 ACTTTCATAATGCAACACCCCC 59.168 45.455 0.00 0.00 0.00 5.40
146 165 4.705023 ACTACTTTCATAATGCAACACCCC 59.295 41.667 0.00 0.00 0.00 4.95
148 167 6.254281 ACACTACTTTCATAATGCAACACC 57.746 37.500 0.00 0.00 0.00 4.16
149 168 7.138736 ACAACACTACTTTCATAATGCAACAC 58.861 34.615 0.00 0.00 0.00 3.32
150 169 7.270757 ACAACACTACTTTCATAATGCAACA 57.729 32.000 0.00 0.00 0.00 3.33
152 171 8.286800 GTGTACAACACTACTTTCATAATGCAA 58.713 33.333 0.00 0.00 45.27 4.08
212 233 7.309990 CCATGGTAAAATTGACATCCTCTGTTT 60.310 37.037 2.57 0.00 38.54 2.83
224 245 8.983702 GGTACTTATACCCATGGTAAAATTGA 57.016 34.615 11.73 0.00 44.75 2.57
314 341 3.628646 ATGACTCAACGGGCAGGGC 62.629 63.158 0.00 0.00 0.00 5.19
326 353 1.144057 CGTGCCCTACCCATGACTC 59.856 63.158 0.00 0.00 0.00 3.36
371 398 4.590222 CAGTATAAACGGGTAGGGTATGGT 59.410 45.833 0.00 0.00 0.00 3.55
412 440 5.385198 ACACACTTCACCAAATAACATCCT 58.615 37.500 0.00 0.00 0.00 3.24
505 534 8.151141 TCTCAACTCAATAATACGTAGACGAT 57.849 34.615 9.41 0.00 43.02 3.73
584 619 8.943002 CCCAACGGGTAAATCAAATAGTATATC 58.057 37.037 0.00 0.00 38.25 1.63
695 742 5.975988 ACCATACCCATTCTCATGTAGTT 57.024 39.130 0.00 0.00 0.00 2.24
704 751 6.732862 AGATAGAGCAATACCATACCCATTCT 59.267 38.462 0.00 0.00 0.00 2.40
706 753 6.273260 ACAGATAGAGCAATACCATACCCATT 59.727 38.462 0.00 0.00 0.00 3.16
756 803 0.248743 CATCATTGTCACCGCCATGC 60.249 55.000 0.00 0.00 0.00 4.06
757 804 0.382873 CCATCATTGTCACCGCCATG 59.617 55.000 0.00 0.00 0.00 3.66
758 805 1.386525 GCCATCATTGTCACCGCCAT 61.387 55.000 0.00 0.00 0.00 4.40
759 806 2.045708 GCCATCATTGTCACCGCCA 61.046 57.895 0.00 0.00 0.00 5.69
760 807 1.594194 TTGCCATCATTGTCACCGCC 61.594 55.000 0.00 0.00 0.00 6.13
783 830 2.579684 AAATCCGAGCGAGTCCTGCC 62.580 60.000 0.00 0.00 0.00 4.85
787 834 0.391263 ACCAAAATCCGAGCGAGTCC 60.391 55.000 0.00 0.00 0.00 3.85
789 836 0.320374 TGACCAAAATCCGAGCGAGT 59.680 50.000 0.00 0.00 0.00 4.18
800 847 3.244044 GCCCAAGCACTATTTGACCAAAA 60.244 43.478 0.00 0.00 39.53 2.44
833 880 5.016173 GTGACTCTATATGATGAGGGAGCT 58.984 45.833 0.00 0.00 34.84 4.09
922 984 1.767681 AGGATCTGGGCTGAGATGAAC 59.232 52.381 4.58 0.00 32.57 3.18
926 988 2.438763 CTGAAAGGATCTGGGCTGAGAT 59.561 50.000 0.00 0.00 35.27 2.75
1079 1141 3.595758 GTGCTTGGTTGCGGCAGT 61.596 61.111 1.67 0.00 36.62 4.40
1082 1144 4.645921 GGTGTGCTTGGTTGCGGC 62.646 66.667 0.00 0.00 35.36 6.53
1084 1146 2.026014 GTGGTGTGCTTGGTTGCG 59.974 61.111 0.00 0.00 35.36 4.85
1085 1147 2.417097 GGTGGTGTGCTTGGTTGC 59.583 61.111 0.00 0.00 0.00 4.17
1086 1148 2.721231 CGGTGGTGTGCTTGGTTG 59.279 61.111 0.00 0.00 0.00 3.77
1087 1149 3.216292 GCGGTGGTGTGCTTGGTT 61.216 61.111 0.00 0.00 0.00 3.67
1090 1152 4.954970 AGGGCGGTGGTGTGCTTG 62.955 66.667 0.00 0.00 0.00 4.01
1091 1153 4.643387 GAGGGCGGTGGTGTGCTT 62.643 66.667 0.00 0.00 0.00 3.91
1094 1156 4.248842 TGTGAGGGCGGTGGTGTG 62.249 66.667 0.00 0.00 0.00 3.82
1095 1157 3.941188 CTGTGAGGGCGGTGGTGT 61.941 66.667 0.00 0.00 0.00 4.16
1098 1160 4.641645 TTGCTGTGAGGGCGGTGG 62.642 66.667 0.00 0.00 0.00 4.61
1099 1161 3.357079 GTTGCTGTGAGGGCGGTG 61.357 66.667 0.00 0.00 0.00 4.94
1100 1162 4.643387 GGTTGCTGTGAGGGCGGT 62.643 66.667 0.00 0.00 0.00 5.68
1101 1163 4.641645 TGGTTGCTGTGAGGGCGG 62.642 66.667 0.00 0.00 0.00 6.13
1102 1164 2.594303 TTGGTTGCTGTGAGGGCG 60.594 61.111 0.00 0.00 0.00 6.13
1103 1165 2.924105 GCTTGGTTGCTGTGAGGGC 61.924 63.158 0.00 0.00 0.00 5.19
1104 1166 1.529010 TGCTTGGTTGCTGTGAGGG 60.529 57.895 0.00 0.00 0.00 4.30
1105 1167 1.102809 TGTGCTTGGTTGCTGTGAGG 61.103 55.000 0.00 0.00 0.00 3.86
1106 1168 0.029834 GTGTGCTTGGTTGCTGTGAG 59.970 55.000 0.00 0.00 0.00 3.51
1107 1169 1.383456 GGTGTGCTTGGTTGCTGTGA 61.383 55.000 0.00 0.00 0.00 3.58
1108 1170 1.066257 GGTGTGCTTGGTTGCTGTG 59.934 57.895 0.00 0.00 0.00 3.66
1109 1171 1.379710 TGGTGTGCTTGGTTGCTGT 60.380 52.632 0.00 0.00 0.00 4.40
1132 1194 1.102809 TGTGCTTGGTTGCTGTGAGG 61.103 55.000 0.00 0.00 0.00 3.86
1161 1224 2.672996 GAACGGCTGCCATGGTGT 60.673 61.111 20.29 4.80 0.00 4.16
1201 1264 4.680237 CGGCCGAAGCACTGGACA 62.680 66.667 24.07 0.00 42.56 4.02
1886 1957 3.667960 CGCAACTCCTGTTATCTGCAAAC 60.668 47.826 0.00 0.00 34.60 2.93
1893 1964 3.433615 GGCATATCGCAACTCCTGTTATC 59.566 47.826 0.00 0.00 45.17 1.75
1900 1975 2.221169 TGATTGGCATATCGCAACTCC 58.779 47.619 0.00 0.00 45.17 3.85
1958 2033 1.771255 GAGGGAGTAGATGGTTGGCAT 59.229 52.381 0.00 0.00 0.00 4.40
1973 2048 3.778075 TCATCTATTTTGGAACGGAGGGA 59.222 43.478 0.00 0.00 0.00 4.20
1974 2049 3.877508 GTCATCTATTTTGGAACGGAGGG 59.122 47.826 0.00 0.00 0.00 4.30
1975 2050 4.770795 AGTCATCTATTTTGGAACGGAGG 58.229 43.478 0.00 0.00 0.00 4.30
1976 2051 5.419542 TGAGTCATCTATTTTGGAACGGAG 58.580 41.667 0.00 0.00 0.00 4.63
1977 2052 5.414789 TGAGTCATCTATTTTGGAACGGA 57.585 39.130 0.00 0.00 0.00 4.69
1979 2054 6.727824 AGTTGAGTCATCTATTTTGGAACG 57.272 37.500 1.70 0.00 0.00 3.95
1980 2055 8.352942 ACAAAGTTGAGTCATCTATTTTGGAAC 58.647 33.333 14.35 0.00 40.00 3.62
1983 2058 9.003658 AGTACAAAGTTGAGTCATCTATTTTGG 57.996 33.333 14.35 0.00 40.00 3.28
1990 2065 9.262358 GAAAGTTAGTACAAAGTTGAGTCATCT 57.738 33.333 0.00 0.00 0.00 2.90
1991 2066 9.262358 AGAAAGTTAGTACAAAGTTGAGTCATC 57.738 33.333 0.00 0.00 0.00 2.92
1996 2071 9.813080 GCATTAGAAAGTTAGTACAAAGTTGAG 57.187 33.333 0.00 0.00 0.00 3.02
1998 2073 9.599322 CTGCATTAGAAAGTTAGTACAAAGTTG 57.401 33.333 0.00 0.00 0.00 3.16
2002 2077 9.944663 CAAACTGCATTAGAAAGTTAGTACAAA 57.055 29.630 0.00 0.00 33.09 2.83
2003 2078 8.564574 CCAAACTGCATTAGAAAGTTAGTACAA 58.435 33.333 0.00 0.00 33.09 2.41
2005 2080 8.319143 TCCAAACTGCATTAGAAAGTTAGTAC 57.681 34.615 0.00 0.00 33.09 2.73
2006 2081 7.606456 CCTCCAAACTGCATTAGAAAGTTAGTA 59.394 37.037 0.00 0.00 33.09 1.82
2007 2082 6.431234 CCTCCAAACTGCATTAGAAAGTTAGT 59.569 38.462 0.00 0.00 33.09 2.24
2008 2083 6.431234 ACCTCCAAACTGCATTAGAAAGTTAG 59.569 38.462 0.00 0.00 33.09 2.34
2019 2094 8.995027 TTGATTTATATACCTCCAAACTGCAT 57.005 30.769 0.00 0.00 0.00 3.96
2175 2251 9.729281 ATGACAACATGCATGATATCTTATACA 57.271 29.630 32.75 15.10 35.21 2.29
2231 2343 4.141597 TGGGTCATGAATCGCTATAACCAA 60.142 41.667 0.00 0.00 0.00 3.67
2232 2344 3.389656 TGGGTCATGAATCGCTATAACCA 59.610 43.478 0.00 0.00 0.00 3.67
2233 2345 3.997021 CTGGGTCATGAATCGCTATAACC 59.003 47.826 0.00 0.00 0.00 2.85
2362 2490 1.271163 CCTAAGACTGGCCAAAACCGA 60.271 52.381 7.01 0.00 0.00 4.69
2365 2493 2.287977 ACCCTAAGACTGGCCAAAAC 57.712 50.000 7.01 0.54 0.00 2.43
2370 2498 1.613520 GGTTGAACCCTAAGACTGGCC 60.614 57.143 2.08 0.00 30.04 5.36
2374 2502 4.527427 GTCTACAGGTTGAACCCTAAGACT 59.473 45.833 22.87 0.00 40.42 3.24
2424 2552 4.396166 CCTAAGACTGGCCAAAACTGTATG 59.604 45.833 7.01 0.00 0.00 2.39
2425 2553 4.567747 CCCTAAGACTGGCCAAAACTGTAT 60.568 45.833 7.01 0.00 0.00 2.29
2426 2554 3.244770 CCCTAAGACTGGCCAAAACTGTA 60.245 47.826 7.01 0.00 0.00 2.74
2427 2555 2.489073 CCCTAAGACTGGCCAAAACTGT 60.489 50.000 7.01 0.00 0.00 3.55
2428 2556 2.162681 CCCTAAGACTGGCCAAAACTG 58.837 52.381 7.01 0.00 0.00 3.16
2429 2557 1.780919 ACCCTAAGACTGGCCAAAACT 59.219 47.619 7.01 3.28 0.00 2.66
2430 2558 2.287977 ACCCTAAGACTGGCCAAAAC 57.712 50.000 7.01 0.54 0.00 2.43
2431 2559 2.175931 TGAACCCTAAGACTGGCCAAAA 59.824 45.455 7.01 0.00 0.00 2.44
2432 2560 1.777878 TGAACCCTAAGACTGGCCAAA 59.222 47.619 7.01 0.00 0.00 3.28
2433 2561 1.440618 TGAACCCTAAGACTGGCCAA 58.559 50.000 7.01 0.00 0.00 4.52
2434 2562 1.073284 GTTGAACCCTAAGACTGGCCA 59.927 52.381 4.71 4.71 0.00 5.36
2435 2563 1.613520 GGTTGAACCCTAAGACTGGCC 60.614 57.143 2.08 0.00 30.04 5.36
2436 2564 1.351350 AGGTTGAACCCTAAGACTGGC 59.649 52.381 11.41 0.00 39.75 4.85
2437 2565 2.372172 ACAGGTTGAACCCTAAGACTGG 59.628 50.000 11.41 0.00 39.75 4.00
2438 2566 3.771577 ACAGGTTGAACCCTAAGACTG 57.228 47.619 11.41 3.29 39.75 3.51
2439 2567 4.527427 GTCTACAGGTTGAACCCTAAGACT 59.473 45.833 22.87 0.00 40.42 3.24
2440 2568 4.322574 GGTCTACAGGTTGAACCCTAAGAC 60.323 50.000 22.42 22.42 41.59 3.01
2441 2569 3.836562 GGTCTACAGGTTGAACCCTAAGA 59.163 47.826 11.41 8.29 39.75 2.10
2442 2570 3.581332 TGGTCTACAGGTTGAACCCTAAG 59.419 47.826 11.41 5.95 39.75 2.18
2443 2571 3.589641 TGGTCTACAGGTTGAACCCTAA 58.410 45.455 11.41 0.00 39.75 2.69
2444 2572 3.263369 TGGTCTACAGGTTGAACCCTA 57.737 47.619 11.41 0.00 39.75 3.53
2445 2573 2.112279 TGGTCTACAGGTTGAACCCT 57.888 50.000 11.41 0.00 39.75 4.34
2446 2574 2.711542 CATGGTCTACAGGTTGAACCC 58.288 52.381 11.41 0.00 39.75 4.11
2447 2575 2.084546 GCATGGTCTACAGGTTGAACC 58.915 52.381 6.16 6.16 38.99 3.62
2448 2576 2.778299 TGCATGGTCTACAGGTTGAAC 58.222 47.619 0.00 0.00 32.37 3.18
2449 2577 3.719268 ATGCATGGTCTACAGGTTGAA 57.281 42.857 0.00 0.00 32.37 2.69
2450 2578 3.244875 ACAATGCATGGTCTACAGGTTGA 60.245 43.478 0.00 0.00 32.37 3.18
2451 2579 3.084039 ACAATGCATGGTCTACAGGTTG 58.916 45.455 0.00 0.00 32.37 3.77
2452 2580 3.439857 ACAATGCATGGTCTACAGGTT 57.560 42.857 0.00 0.00 32.37 3.50
2453 2581 3.439857 AACAATGCATGGTCTACAGGT 57.560 42.857 7.31 0.00 32.37 4.00
2454 2582 7.417612 GTTATAAACAATGCATGGTCTACAGG 58.582 38.462 7.31 0.00 0.00 4.00
2455 2583 7.417612 GGTTATAAACAATGCATGGTCTACAG 58.582 38.462 7.31 0.00 0.00 2.74
2456 2584 6.320164 GGGTTATAAACAATGCATGGTCTACA 59.680 38.462 7.31 0.00 0.00 2.74
2457 2585 6.320164 TGGGTTATAAACAATGCATGGTCTAC 59.680 38.462 7.31 1.89 0.00 2.59
2458 2586 6.427441 TGGGTTATAAACAATGCATGGTCTA 58.573 36.000 7.31 0.00 0.00 2.59
2459 2587 5.268387 TGGGTTATAAACAATGCATGGTCT 58.732 37.500 7.31 0.00 0.00 3.85
2460 2588 5.590530 TGGGTTATAAACAATGCATGGTC 57.409 39.130 7.31 0.00 0.00 4.02
2461 2589 6.383726 AGAATGGGTTATAAACAATGCATGGT 59.616 34.615 0.00 0.00 0.00 3.55
2462 2590 6.819284 AGAATGGGTTATAAACAATGCATGG 58.181 36.000 0.00 0.00 0.00 3.66
2463 2591 7.490840 TGAGAATGGGTTATAAACAATGCATG 58.509 34.615 0.00 0.00 0.00 4.06
2464 2592 7.658525 TGAGAATGGGTTATAAACAATGCAT 57.341 32.000 2.32 0.00 0.00 3.96
2465 2593 7.658525 ATGAGAATGGGTTATAAACAATGCA 57.341 32.000 2.32 0.00 0.00 3.96
2466 2594 8.629158 TGTATGAGAATGGGTTATAAACAATGC 58.371 33.333 2.32 0.00 0.00 3.56
2468 2596 9.920946 ACTGTATGAGAATGGGTTATAAACAAT 57.079 29.630 2.32 0.00 0.00 2.71
2474 2602 9.429109 TCAACTACTGTATGAGAATGGGTTATA 57.571 33.333 0.00 0.00 0.00 0.98
2475 2603 8.319057 TCAACTACTGTATGAGAATGGGTTAT 57.681 34.615 0.00 0.00 0.00 1.89
2476 2604 7.727578 TCAACTACTGTATGAGAATGGGTTA 57.272 36.000 0.00 0.00 0.00 2.85
2477 2605 6.620877 TCAACTACTGTATGAGAATGGGTT 57.379 37.500 0.00 0.00 0.00 4.11
2478 2606 6.814954 ATCAACTACTGTATGAGAATGGGT 57.185 37.500 0.00 0.00 0.00 4.51
2479 2607 7.050377 ACAATCAACTACTGTATGAGAATGGG 58.950 38.462 0.00 0.00 0.00 4.00
2480 2608 8.498054 AACAATCAACTACTGTATGAGAATGG 57.502 34.615 0.00 0.00 0.00 3.16
2484 2612 9.856488 GAAGTAACAATCAACTACTGTATGAGA 57.144 33.333 0.00 0.00 0.00 3.27
2485 2613 9.639601 TGAAGTAACAATCAACTACTGTATGAG 57.360 33.333 0.00 0.00 0.00 2.90
2555 2925 4.371681 AGGAAATGAGGCCTAAGAGGTAA 58.628 43.478 4.42 0.00 37.80 2.85
2579 2949 2.162681 CCTACAAACCAAAGGGCTCTG 58.837 52.381 0.00 0.00 37.90 3.35
2690 4088 4.132336 TCACAGGAAATGAGATAGCATGC 58.868 43.478 10.51 10.51 0.00 4.06
2695 4093 7.443477 AGATGTCATCACAGGAAATGAGATAG 58.557 38.462 15.20 0.00 37.15 2.08
2710 4108 2.573009 TGCAGGGAAAGAGATGTCATCA 59.427 45.455 15.20 0.00 0.00 3.07
2711 4109 3.272574 TGCAGGGAAAGAGATGTCATC 57.727 47.619 4.52 4.52 0.00 2.92
2770 5708 5.130975 AGAAATGTGAGCCCAGTGTGATATA 59.869 40.000 0.00 0.00 0.00 0.86
2775 5713 1.538512 CAGAAATGTGAGCCCAGTGTG 59.461 52.381 0.00 0.00 0.00 3.82
2779 5717 0.524862 GCACAGAAATGTGAGCCCAG 59.475 55.000 12.34 0.00 42.02 4.45


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

AutoCloner maintained by Alex Coulton.