Multiple sequence alignment - TraesCS7D01G006100

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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 TraesCS7D01G006100 chr7D 100.000 1848 0 0 1 1848 2885942 2884095 0.000000e+00 3413.0
1 TraesCS7D01G006100 chr7D 100.000 1836 0 0 2262 4097 2883681 2881846 0.000000e+00 3391.0
2 TraesCS7D01G006100 chr7D 96.196 368 12 2 1482 1848 2883681 2883315 5.860000e-168 601.0
3 TraesCS7D01G006100 chr4A 89.576 1650 116 16 152 1755 739680249 739681888 0.000000e+00 2043.0
4 TraesCS7D01G006100 chr4A 89.576 1650 116 16 152 1755 742074237 742075876 0.000000e+00 2043.0
5 TraesCS7D01G006100 chr4A 86.685 1780 161 34 2265 4001 739999326 739997580 0.000000e+00 1905.0
6 TraesCS7D01G006100 chr4A 89.635 1370 112 16 497 1848 740604600 740603243 0.000000e+00 1716.0
7 TraesCS7D01G006100 chr4A 85.105 1665 182 34 208 1848 740156040 740157662 0.000000e+00 1640.0
8 TraesCS7D01G006100 chr4A 86.424 1510 154 25 330 1807 741780918 741779428 0.000000e+00 1605.0
9 TraesCS7D01G006100 chr4A 86.536 1478 117 35 2321 3751 740603262 740601820 0.000000e+00 1552.0
10 TraesCS7D01G006100 chr4A 86.176 1331 137 29 329 1633 741045143 741046452 0.000000e+00 1395.0
11 TraesCS7D01G006100 chr4A 85.419 967 116 16 2267 3229 739681908 739682853 0.000000e+00 981.0
12 TraesCS7D01G006100 chr4A 86.039 924 117 10 2265 3183 740157443 740158359 0.000000e+00 981.0
13 TraesCS7D01G006100 chr4A 85.315 967 117 16 2267 3229 742075896 742076841 0.000000e+00 976.0
14 TraesCS7D01G006100 chr4A 88.005 767 35 26 3333 4095 741046863 741047576 0.000000e+00 854.0
15 TraesCS7D01G006100 chr4A 86.358 777 96 6 1075 1848 740000020 739999251 0.000000e+00 839.0
16 TraesCS7D01G006100 chr4A 85.659 774 97 11 2462 3227 741778833 741778066 0.000000e+00 802.0
17 TraesCS7D01G006100 chr4A 80.765 863 160 6 2262 3121 740603609 740602750 0.000000e+00 669.0
18 TraesCS7D01G006100 chr4A 79.667 900 167 15 2265 3156 739999470 739998579 5.780000e-178 634.0
19 TraesCS7D01G006100 chr4A 91.121 428 18 6 1 423 740000432 740000020 2.770000e-156 562.0
20 TraesCS7D01G006100 chr4A 96.667 300 7 2 1 299 741781502 741781205 2.840000e-136 496.0
21 TraesCS7D01G006100 chr4A 81.419 592 94 16 1265 1848 740603538 740602955 1.720000e-128 470.0
22 TraesCS7D01G006100 chr4A 80.602 598 102 10 1256 1846 739681677 739682267 2.250000e-122 449.0
23 TraesCS7D01G006100 chr4A 80.435 598 103 10 1256 1846 742075665 742076255 1.050000e-120 444.0
24 TraesCS7D01G006100 chr4A 81.468 545 89 10 1310 1848 740157268 740157806 1.750000e-118 436.0
25 TraesCS7D01G006100 chr4A 78.659 731 91 29 265 945 739739855 739740570 3.790000e-115 425.0
26 TraesCS7D01G006100 chr4A 86.630 359 46 2 1454 1811 741779493 741779136 2.970000e-106 396.0
27 TraesCS7D01G006100 chr4A 79.745 548 93 15 1310 1848 739999645 739999107 8.310000e-102 381.0
28 TraesCS7D01G006100 chr4A 84.900 351 53 0 1498 1848 740603161 740602811 5.040000e-94 355.0
29 TraesCS7D01G006100 chr4A 96.178 157 5 1 1 156 739662091 739662247 5.260000e-64 255.0
30 TraesCS7D01G006100 chr4A 96.178 157 5 1 1 156 742068870 742069026 5.260000e-64 255.0
31 TraesCS7D01G006100 chr4A 92.073 164 10 3 3831 3992 741777138 741776976 1.150000e-55 228.0
32 TraesCS7D01G006100 chr4A 87.755 98 7 3 3946 4039 739836244 739836148 4.330000e-20 110.0
33 TraesCS7D01G006100 chr4A 95.385 65 3 0 4033 4097 739997579 739997515 2.010000e-18 104.0
34 TraesCS7D01G006100 chr4A 85.714 98 9 4 3831 3926 739683301 739683395 9.370000e-17 99.0
35 TraesCS7D01G006100 chr4A 88.608 79 5 3 3831 3907 742077285 742077361 4.360000e-15 93.5
36 TraesCS7D01G006100 chr4A 91.803 61 5 0 3963 4023 742266808 742266868 7.300000e-13 86.1
37 TraesCS7D01G006100 chr4A 95.349 43 1 1 4054 4095 741776978 741776936 2.640000e-07 67.6
38 TraesCS7D01G006100 chr4A 94.444 36 2 0 3859 3894 740601565 740601530 5.720000e-04 56.5
39 TraesCS7D01G006100 chr7A 78.795 1311 242 22 552 1848 3029426 3030714 0.000000e+00 848.0
40 TraesCS7D01G006100 chr7A 82.075 954 144 23 2269 3211 2940252 2941189 0.000000e+00 789.0
41 TraesCS7D01G006100 chr7A 77.419 1364 269 27 498 1848 2742333 2743670 0.000000e+00 776.0
42 TraesCS7D01G006100 chr7A 81.712 771 114 15 498 1261 2763104 2763854 5.820000e-173 617.0
43 TraesCS7D01G006100 chr7A 78.497 958 186 19 2262 3210 3030347 3031293 9.740000e-171 610.0
44 TraesCS7D01G006100 chr7A 93.548 248 10 3 3831 4078 2658675 2658434 8.370000e-97 364.0
45 TraesCS7D01G006100 chr7A 91.418 268 17 4 3831 4095 2947169 2947433 3.010000e-96 363.0
46 TraesCS7D01G006100 chr7A 85.816 282 26 6 505 785 2664255 2663987 1.860000e-73 287.0
47 TraesCS7D01G006100 chr7A 85.106 235 18 4 208 430 2605897 2605668 1.480000e-54 224.0
48 TraesCS7D01G006100 chr7A 79.339 363 36 9 49 376 2664650 2664292 6.900000e-53 219.0
49 TraesCS7D01G006100 chr7A 92.683 123 9 0 208 330 2741953 2742075 1.170000e-40 178.0
50 TraesCS7D01G006100 chr7A 92.683 123 9 0 208 330 2762724 2762846 1.170000e-40 178.0
51 TraesCS7D01G006100 chr7A 88.000 125 12 1 62 186 2741712 2741833 1.190000e-30 145.0
52 TraesCS7D01G006100 chr7A 78.462 260 19 13 3468 3725 2765427 2765651 7.140000e-28 135.0
53 TraesCS7D01G006100 chr7A 89.815 108 5 2 3831 3938 3031962 3032063 2.570000e-27 134.0
54 TraesCS7D01G006100 chr7A 96.226 53 2 0 208 260 2939371 2939423 2.030000e-13 87.9
55 TraesCS7D01G006100 chr7A 94.545 55 3 0 329 383 2939486 2939540 7.300000e-13 86.1
56 TraesCS7D01G006100 chr1B 89.796 98 10 0 3963 4060 142319599 142319502 4.300000e-25 126.0
57 TraesCS7D01G006100 chr1D 85.833 120 11 2 3941 4060 89128822 89128709 5.560000e-24 122.0
58 TraesCS7D01G006100 chr1A 89.583 96 10 0 3965 4060 85037661 85037566 5.560000e-24 122.0
59 TraesCS7D01G006100 chr2A 82.075 106 12 2 332 432 3537485 3537588 2.620000e-12 84.2


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 TraesCS7D01G006100 chr7D 2881846 2885942 4096 True 2468.333333 3413 98.732000 1 4097 3 chr7D.!!$R1 4096
1 TraesCS7D01G006100 chr4A 741045143 741047576 2433 False 1124.500000 1395 87.090500 329 4095 2 chr4A.!!$F7 3766
2 TraesCS7D01G006100 chr4A 740156040 740158359 2319 False 1019.000000 1640 84.204000 208 3183 3 chr4A.!!$F6 2975
3 TraesCS7D01G006100 chr4A 739680249 739683395 3146 False 893.000000 2043 85.327750 152 3926 4 chr4A.!!$F5 3774
4 TraesCS7D01G006100 chr4A 742074237 742077361 3124 False 889.125000 2043 85.983500 152 3907 4 chr4A.!!$F8 3755
5 TraesCS7D01G006100 chr4A 740601530 740604600 3070 True 803.083333 1716 86.283167 497 3894 6 chr4A.!!$R3 3397
6 TraesCS7D01G006100 chr4A 739997515 740000432 2917 True 737.500000 1905 86.493500 1 4097 6 chr4A.!!$R2 4096
7 TraesCS7D01G006100 chr4A 741776936 741781502 4566 True 599.100000 1605 90.467000 1 4095 6 chr4A.!!$R4 4094
8 TraesCS7D01G006100 chr4A 739739855 739740570 715 False 425.000000 425 78.659000 265 945 1 chr4A.!!$F2 680
9 TraesCS7D01G006100 chr7A 3029426 3032063 2637 False 530.666667 848 82.369000 552 3938 3 chr7A.!!$F5 3386
10 TraesCS7D01G006100 chr7A 2741712 2743670 1958 False 366.333333 776 86.034000 62 1848 3 chr7A.!!$F2 1786
11 TraesCS7D01G006100 chr7A 2939371 2941189 1818 False 321.000000 789 90.948667 208 3211 3 chr7A.!!$F4 3003
12 TraesCS7D01G006100 chr7A 2762724 2765651 2927 False 310.000000 617 84.285667 208 3725 3 chr7A.!!$F3 3517
13 TraesCS7D01G006100 chr7A 2663987 2664650 663 True 253.000000 287 82.577500 49 785 2 chr7A.!!$R3 736

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
349 797 0.179059 ACCGTGTGAGACATGCAACA 60.179 50.0 0.00 0.0 33.88 3.33 F
1586 2221 0.179078 ACCAAACTCACCGCGTTGTA 60.179 50.0 4.92 0.0 0.00 2.41 F
1827 2462 0.036671 GCACTAACGCCCTAACTGGT 60.037 55.0 0.00 0.0 0.00 4.00 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1808 2443 0.036671 ACCAGTTAGGGCGTTAGTGC 60.037 55.000 0.00 0.0 43.89 4.40 R
3094 5315 0.037160 GGCCCGGAAAGTTGGTTCTA 59.963 55.000 0.73 0.0 0.00 2.10 R
3385 5881 2.260434 GCTGGCGTCGAGTTACCA 59.740 61.111 0.00 0.0 0.00 3.25 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
189 224 2.233676 TGCATCATACACTTGACCGAGT 59.766 45.455 0.00 0.00 0.00 4.18
190 225 3.445805 TGCATCATACACTTGACCGAGTA 59.554 43.478 0.00 0.00 0.00 2.59
191 226 3.797256 GCATCATACACTTGACCGAGTAC 59.203 47.826 0.00 0.00 0.00 2.73
192 227 4.676986 GCATCATACACTTGACCGAGTACA 60.677 45.833 0.00 0.00 0.00 2.90
193 228 5.592054 CATCATACACTTGACCGAGTACAT 58.408 41.667 0.00 0.00 0.00 2.29
194 229 4.993905 TCATACACTTGACCGAGTACATG 58.006 43.478 0.00 0.00 0.00 3.21
195 230 4.703093 TCATACACTTGACCGAGTACATGA 59.297 41.667 0.00 8.11 31.71 3.07
196 231 3.577649 ACACTTGACCGAGTACATGAG 57.422 47.619 0.00 0.00 0.00 2.90
197 232 3.154710 ACACTTGACCGAGTACATGAGA 58.845 45.455 0.00 0.00 0.00 3.27
198 233 3.057456 ACACTTGACCGAGTACATGAGAC 60.057 47.826 0.00 0.00 0.00 3.36
199 234 3.057526 CACTTGACCGAGTACATGAGACA 60.058 47.826 0.00 0.00 0.00 3.41
200 235 3.191581 ACTTGACCGAGTACATGAGACAG 59.808 47.826 0.00 0.00 0.00 3.51
201 236 3.067684 TGACCGAGTACATGAGACAGA 57.932 47.619 0.00 0.00 0.00 3.41
202 237 3.010420 TGACCGAGTACATGAGACAGAG 58.990 50.000 0.00 0.00 0.00 3.35
272 419 2.289547 GGTTAAGCAACAAGAGCGACAA 59.710 45.455 0.00 0.00 36.29 3.18
349 797 0.179059 ACCGTGTGAGACATGCAACA 60.179 50.000 0.00 0.00 33.88 3.33
448 902 1.490490 TCATGCCTACTCCCCATCAAC 59.510 52.381 0.00 0.00 0.00 3.18
617 1153 2.622977 GGATCCACCACCCAAAATGCTA 60.623 50.000 6.95 0.00 38.79 3.49
654 1199 6.675413 TCACCATACTGATGATGATGATGA 57.325 37.500 0.00 0.00 29.89 2.92
655 1200 7.253905 TCACCATACTGATGATGATGATGAT 57.746 36.000 0.00 0.00 29.89 2.45
656 1201 7.103641 TCACCATACTGATGATGATGATGATG 58.896 38.462 0.00 0.00 29.89 3.07
657 1202 7.038587 TCACCATACTGATGATGATGATGATGA 60.039 37.037 0.00 0.00 29.89 2.92
658 1203 7.770897 CACCATACTGATGATGATGATGATGAT 59.229 37.037 0.00 0.00 34.73 2.45
659 1204 7.770897 ACCATACTGATGATGATGATGATGATG 59.229 37.037 0.00 0.00 34.73 3.07
660 1205 7.987458 CCATACTGATGATGATGATGATGATGA 59.013 37.037 0.00 0.00 34.73 2.92
661 1206 9.553064 CATACTGATGATGATGATGATGATGAT 57.447 33.333 0.00 0.00 34.73 2.45
662 1207 7.856145 ACTGATGATGATGATGATGATGATG 57.144 36.000 0.00 0.00 0.00 3.07
683 1231 4.393155 ACCTCCATCGCGCTTGCA 62.393 61.111 5.56 0.00 39.07 4.08
984 1544 4.328536 GAGCATTCCTCCTAGTATCGAGA 58.671 47.826 0.00 0.00 34.35 4.04
1194 1754 3.054434 TGGTTGGTCATATCCCTTGTGAG 60.054 47.826 0.00 0.00 0.00 3.51
1428 2063 9.364989 CCACGAAATTTACATAATTTGACCAAT 57.635 29.630 0.00 0.00 30.68 3.16
1448 2083 6.595716 ACCAATCTCACTGTGTTAATTCTAGC 59.404 38.462 7.79 0.00 0.00 3.42
1450 2085 5.638596 TCTCACTGTGTTAATTCTAGCGA 57.361 39.130 7.79 0.00 0.00 4.93
1559 2194 4.665009 AGGTTCCATCCCAAATAGCATAGA 59.335 41.667 0.00 0.00 0.00 1.98
1578 2213 6.366061 GCATAGAAAATTTGACCAAACTCACC 59.634 38.462 0.00 0.00 32.51 4.02
1579 2214 4.932146 AGAAAATTTGACCAAACTCACCG 58.068 39.130 0.00 0.00 32.51 4.94
1581 2216 0.591170 ATTTGACCAAACTCACCGCG 59.409 50.000 0.00 0.00 32.51 6.46
1586 2221 0.179078 ACCAAACTCACCGCGTTGTA 60.179 50.000 4.92 0.00 0.00 2.41
1588 2223 0.931702 CAAACTCACCGCGTTGTACA 59.068 50.000 4.92 0.00 0.00 2.90
1591 2226 1.873698 ACTCACCGCGTTGTACATTT 58.126 45.000 4.92 0.00 0.00 2.32
1592 2227 2.215196 ACTCACCGCGTTGTACATTTT 58.785 42.857 4.92 0.00 0.00 1.82
1595 2230 2.809119 TCACCGCGTTGTACATTTTCAT 59.191 40.909 4.92 0.00 0.00 2.57
1641 2276 1.732732 CGAGAACTAGGTCGCCTTGTG 60.733 57.143 5.89 3.80 38.53 3.33
1649 2284 1.692519 AGGTCGCCTTGTGAACTTAGT 59.307 47.619 0.00 0.00 36.66 2.24
1651 2286 2.547218 GGTCGCCTTGTGAACTTAGTGA 60.547 50.000 0.00 0.00 0.00 3.41
1653 2288 3.746492 GTCGCCTTGTGAACTTAGTGAAT 59.254 43.478 0.00 0.00 0.00 2.57
1657 2292 4.154918 GCCTTGTGAACTTAGTGAATCTGG 59.845 45.833 0.00 0.00 0.00 3.86
1658 2293 5.551233 CCTTGTGAACTTAGTGAATCTGGA 58.449 41.667 0.00 0.00 0.00 3.86
1665 2300 4.775236 ACTTAGTGAATCTGGATCTTGGC 58.225 43.478 0.00 0.00 0.00 4.52
1666 2301 4.225942 ACTTAGTGAATCTGGATCTTGGCA 59.774 41.667 0.00 0.00 0.00 4.92
1667 2302 2.996631 AGTGAATCTGGATCTTGGCAC 58.003 47.619 0.00 0.00 0.00 5.01
1668 2303 2.575279 AGTGAATCTGGATCTTGGCACT 59.425 45.455 0.00 0.00 0.00 4.40
1673 2308 3.334583 TCTGGATCTTGGCACTAACAC 57.665 47.619 0.00 0.00 0.00 3.32
1674 2309 2.027192 TCTGGATCTTGGCACTAACACC 60.027 50.000 0.00 0.00 0.00 4.16
1677 2312 2.504175 GGATCTTGGCACTAACACCCTA 59.496 50.000 0.00 0.00 0.00 3.53
1678 2313 3.054655 GGATCTTGGCACTAACACCCTAA 60.055 47.826 0.00 0.00 0.00 2.69
1680 2315 2.976882 TCTTGGCACTAACACCCTAACT 59.023 45.455 0.00 0.00 0.00 2.24
1689 2324 3.895704 AACACCCTAACTGGTTCCATT 57.104 42.857 0.00 0.00 36.12 3.16
1723 2358 5.520376 AGGAAATTTGACCAAACTCACAG 57.480 39.130 0.00 0.00 32.51 3.66
1725 2360 3.354089 AATTTGACCAAACTCACAGCG 57.646 42.857 0.00 0.00 32.51 5.18
1730 2365 2.206750 GACCAAACTCACAGCGTTGTA 58.793 47.619 4.02 0.00 35.25 2.41
1732 2367 1.937223 CCAAACTCACAGCGTTGTACA 59.063 47.619 4.02 0.00 35.25 2.90
1736 2371 4.893424 AACTCACAGCGTTGTACATTTT 57.107 36.364 4.02 0.00 35.25 1.82
1739 2374 4.515191 ACTCACAGCGTTGTACATTTTCAT 59.485 37.500 4.02 0.00 35.25 2.57
1777 2412 2.359531 CACATCCCTCGAGAACTAGGTC 59.640 54.545 15.71 0.00 0.00 3.85
1778 2413 1.604755 CATCCCTCGAGAACTAGGTCG 59.395 57.143 15.71 3.65 37.54 4.79
1779 2414 0.747283 TCCCTCGAGAACTAGGTCGC 60.747 60.000 15.71 0.92 36.11 5.19
1780 2415 1.726533 CCCTCGAGAACTAGGTCGCC 61.727 65.000 15.71 0.00 36.11 5.54
1781 2416 0.748729 CCTCGAGAACTAGGTCGCCT 60.749 60.000 15.71 3.87 36.11 5.52
1782 2417 1.096416 CTCGAGAACTAGGTCGCCTT 58.904 55.000 6.58 0.00 36.11 4.35
1783 2418 0.809385 TCGAGAACTAGGTCGCCTTG 59.191 55.000 5.89 4.97 36.11 3.61
1784 2419 0.526662 CGAGAACTAGGTCGCCTTGT 59.473 55.000 5.89 5.57 40.98 3.16
1785 2420 1.732732 CGAGAACTAGGTCGCCTTGTG 60.733 57.143 5.89 3.80 38.53 3.33
1786 2421 1.544691 GAGAACTAGGTCGCCTTGTGA 59.455 52.381 12.04 0.00 38.53 3.58
1787 2422 1.968493 AGAACTAGGTCGCCTTGTGAA 59.032 47.619 12.04 0.00 38.53 3.18
1788 2423 2.067013 GAACTAGGTCGCCTTGTGAAC 58.933 52.381 12.04 5.72 38.53 3.18
1789 2424 1.339097 ACTAGGTCGCCTTGTGAACT 58.661 50.000 10.91 0.46 43.00 3.01
1790 2425 1.692519 ACTAGGTCGCCTTGTGAACTT 59.307 47.619 10.91 0.00 36.66 2.66
1791 2426 2.895404 ACTAGGTCGCCTTGTGAACTTA 59.105 45.455 10.91 0.00 36.66 2.24
1792 2427 2.457366 AGGTCGCCTTGTGAACTTAG 57.543 50.000 0.00 0.00 36.66 2.18
1793 2428 1.692519 AGGTCGCCTTGTGAACTTAGT 59.307 47.619 0.00 0.00 36.66 2.24
1794 2429 1.798813 GGTCGCCTTGTGAACTTAGTG 59.201 52.381 0.00 0.00 0.00 2.74
1795 2430 2.547218 GGTCGCCTTGTGAACTTAGTGA 60.547 50.000 0.00 0.00 0.00 3.41
1796 2431 3.128349 GTCGCCTTGTGAACTTAGTGAA 58.872 45.455 0.00 0.00 0.00 3.18
1797 2432 3.746492 GTCGCCTTGTGAACTTAGTGAAT 59.254 43.478 0.00 0.00 0.00 2.57
1798 2433 3.994392 TCGCCTTGTGAACTTAGTGAATC 59.006 43.478 0.00 0.00 0.00 2.52
1799 2434 3.997021 CGCCTTGTGAACTTAGTGAATCT 59.003 43.478 0.00 0.00 0.00 2.40
1800 2435 4.143030 CGCCTTGTGAACTTAGTGAATCTG 60.143 45.833 0.00 0.00 0.00 2.90
1801 2436 4.154918 GCCTTGTGAACTTAGTGAATCTGG 59.845 45.833 0.00 0.00 0.00 3.86
1802 2437 5.551233 CCTTGTGAACTTAGTGAATCTGGA 58.449 41.667 0.00 0.00 0.00 3.86
1803 2438 6.176183 CCTTGTGAACTTAGTGAATCTGGAT 58.824 40.000 0.00 0.00 0.00 3.41
1804 2439 6.314896 CCTTGTGAACTTAGTGAATCTGGATC 59.685 42.308 0.00 0.00 0.00 3.36
1805 2440 6.611613 TGTGAACTTAGTGAATCTGGATCT 57.388 37.500 0.00 0.00 0.00 2.75
1806 2441 7.009179 TGTGAACTTAGTGAATCTGGATCTT 57.991 36.000 0.00 0.00 0.00 2.40
1807 2442 6.875726 TGTGAACTTAGTGAATCTGGATCTTG 59.124 38.462 0.00 0.00 0.00 3.02
1808 2443 6.314896 GTGAACTTAGTGAATCTGGATCTTGG 59.685 42.308 0.00 0.00 0.00 3.61
1809 2444 4.775236 ACTTAGTGAATCTGGATCTTGGC 58.225 43.478 0.00 0.00 0.00 4.52
1810 2445 4.225942 ACTTAGTGAATCTGGATCTTGGCA 59.774 41.667 0.00 0.00 0.00 4.92
1811 2446 2.996631 AGTGAATCTGGATCTTGGCAC 58.003 47.619 0.00 0.00 0.00 5.01
1812 2447 2.575279 AGTGAATCTGGATCTTGGCACT 59.425 45.455 0.00 0.00 0.00 4.40
1813 2448 3.776969 AGTGAATCTGGATCTTGGCACTA 59.223 43.478 0.00 0.00 33.99 2.74
1814 2449 4.225942 AGTGAATCTGGATCTTGGCACTAA 59.774 41.667 0.00 0.00 33.99 2.24
1815 2450 4.333926 GTGAATCTGGATCTTGGCACTAAC 59.666 45.833 0.00 0.00 0.00 2.34
1816 2451 2.672961 TCTGGATCTTGGCACTAACG 57.327 50.000 0.00 0.00 0.00 3.18
1817 2452 1.009829 CTGGATCTTGGCACTAACGC 58.990 55.000 0.00 0.00 0.00 4.84
1826 2461 2.763651 GCACTAACGCCCTAACTGG 58.236 57.895 0.00 0.00 0.00 4.00
1827 2462 0.036671 GCACTAACGCCCTAACTGGT 60.037 55.000 0.00 0.00 0.00 4.00
1828 2463 1.609841 GCACTAACGCCCTAACTGGTT 60.610 52.381 0.00 0.00 0.00 3.67
1829 2464 2.344025 CACTAACGCCCTAACTGGTTC 58.656 52.381 0.00 0.00 0.00 3.62
1830 2465 1.277273 ACTAACGCCCTAACTGGTTCC 59.723 52.381 0.00 0.00 0.00 3.62
1831 2466 1.276989 CTAACGCCCTAACTGGTTCCA 59.723 52.381 0.00 0.00 0.00 3.53
1832 2467 0.696501 AACGCCCTAACTGGTTCCAT 59.303 50.000 0.00 0.00 0.00 3.41
1833 2468 0.252197 ACGCCCTAACTGGTTCCATC 59.748 55.000 0.00 0.00 0.00 3.51
1834 2469 0.463833 CGCCCTAACTGGTTCCATCC 60.464 60.000 0.00 0.00 0.00 3.51
1835 2470 0.106669 GCCCTAACTGGTTCCATCCC 60.107 60.000 0.00 0.00 0.00 3.85
1836 2471 1.295020 CCCTAACTGGTTCCATCCCA 58.705 55.000 0.00 0.00 0.00 4.37
1837 2472 1.638589 CCCTAACTGGTTCCATCCCAA 59.361 52.381 0.00 0.00 0.00 4.12
1838 2473 2.042433 CCCTAACTGGTTCCATCCCAAA 59.958 50.000 0.00 0.00 0.00 3.28
1839 2474 3.309848 CCCTAACTGGTTCCATCCCAAAT 60.310 47.826 0.00 0.00 0.00 2.32
1840 2475 4.079443 CCCTAACTGGTTCCATCCCAAATA 60.079 45.833 0.00 0.00 0.00 1.40
1841 2476 5.133221 CCTAACTGGTTCCATCCCAAATAG 58.867 45.833 0.00 0.00 0.00 1.73
1842 2477 3.018423 ACTGGTTCCATCCCAAATAGC 57.982 47.619 0.00 0.00 0.00 2.97
1843 2478 2.311542 ACTGGTTCCATCCCAAATAGCA 59.688 45.455 0.00 0.00 0.00 3.49
1844 2479 3.052642 ACTGGTTCCATCCCAAATAGCAT 60.053 43.478 0.00 0.00 0.00 3.79
1845 2480 4.167892 ACTGGTTCCATCCCAAATAGCATA 59.832 41.667 0.00 0.00 0.00 3.14
1846 2481 4.728772 TGGTTCCATCCCAAATAGCATAG 58.271 43.478 0.00 0.00 0.00 2.23
1847 2482 4.082125 GGTTCCATCCCAAATAGCATAGG 58.918 47.826 0.00 0.00 0.00 2.57
2299 2934 5.357314 TCGAACTTAGAGTACCTGGATCTTG 59.643 44.000 0.00 1.08 0.00 3.02
2358 2993 6.366061 GCATAGAAAATTTGACCAAACTCACC 59.634 38.462 0.00 0.00 32.51 4.02
2359 2994 4.932146 AGAAAATTTGACCAAACTCACCG 58.068 39.130 0.00 0.00 32.51 4.94
2361 2996 0.591170 ATTTGACCAAACTCACCGCG 59.409 50.000 0.00 0.00 32.51 6.46
2368 3003 0.931702 CAAACTCACCGCGTTGTACA 59.068 50.000 4.92 0.00 0.00 2.90
2372 3007 2.215196 ACTCACCGCGTTGTACATTTT 58.785 42.857 4.92 0.00 0.00 1.82
2429 3352 1.692519 AGGTCGCCTTGTGAACTTAGT 59.307 47.619 0.00 0.00 36.66 2.24
2434 3357 3.994392 TCGCCTTGTGAACTTAGTGAATC 59.006 43.478 0.00 0.00 0.00 2.52
2452 3375 2.672961 TCTGGATCTTGGCACTAACG 57.327 50.000 0.00 0.00 0.00 3.18
2505 3572 3.354089 AATTTGACCAAACTCACAGCG 57.646 42.857 0.00 0.00 32.51 5.18
2512 3579 1.937223 CCAAACTCACAGCGTTGTACA 59.063 47.619 4.02 0.00 35.25 2.90
2519 3586 4.515191 ACTCACAGCGTTGTACATTTTCAT 59.485 37.500 4.02 0.00 35.25 2.57
2557 4489 2.761208 CACATCCCTCGAGAACTAGGTT 59.239 50.000 15.71 0.00 0.00 3.50
2575 4507 2.226674 GGTTGCCTTGTGAACTTAGAGC 59.773 50.000 0.00 0.00 0.00 4.09
2577 4509 2.771089 TGCCTTGTGAACTTAGAGCAG 58.229 47.619 0.00 0.00 0.00 4.24
2581 4513 4.380531 CCTTGTGAACTTAGAGCAGTTGA 58.619 43.478 0.00 0.00 37.11 3.18
2582 4514 4.999950 CCTTGTGAACTTAGAGCAGTTGAT 59.000 41.667 0.00 0.00 37.11 2.57
2583 4515 5.106791 CCTTGTGAACTTAGAGCAGTTGATG 60.107 44.000 0.00 0.00 37.11 3.07
2647 4579 7.605449 CATAGGAAATTTGACCAAACTCACAT 58.395 34.615 0.00 0.00 32.51 3.21
2652 4584 7.255801 GGAAATTTGACCAAACTCACATCCTTA 60.256 37.037 0.00 0.00 32.51 2.69
2659 4591 6.180472 ACCAAACTCACATCCTTATACCTTG 58.820 40.000 0.00 0.00 0.00 3.61
2660 4592 6.012858 ACCAAACTCACATCCTTATACCTTGA 60.013 38.462 0.00 0.00 0.00 3.02
2663 4595 6.620877 ACTCACATCCTTATACCTTGACAA 57.379 37.500 0.00 0.00 0.00 3.18
2669 4601 5.836024 TCCTTATACCTTGACAACAACCT 57.164 39.130 0.00 0.00 32.27 3.50
2677 4609 6.243216 ACCTTGACAACAACCTACTTTCTA 57.757 37.500 0.00 0.00 32.27 2.10
2719 4651 2.263945 GTCGCCTTGAGAACTTAGAGC 58.736 52.381 0.00 0.00 0.00 4.09
2721 4653 2.094494 TCGCCTTGAGAACTTAGAGCAG 60.094 50.000 0.00 0.00 0.00 4.24
2762 4694 4.582656 CACACTAACAGGTTTCATCCCAAA 59.417 41.667 0.00 0.00 0.00 3.28
2765 4697 7.007723 ACACTAACAGGTTTCATCCCAAATAA 58.992 34.615 0.00 0.00 0.00 1.40
2781 4713 7.767261 TCCCAAATAACATAGGAAATTTGACG 58.233 34.615 15.64 8.83 40.24 4.35
2789 4721 7.687941 ACATAGGAAATTTGACGAAACTCAT 57.312 32.000 0.00 0.00 0.00 2.90
2897 4975 5.730296 AGCTATAACACACTGACAGACTT 57.270 39.130 10.08 0.00 0.00 3.01
2978 5056 2.779742 CTTTCCGGCCACATTCCCCA 62.780 60.000 2.24 0.00 0.00 4.96
3094 5315 4.278310 ACTCAAAAGGTTGTACTTTGGCT 58.722 39.130 5.10 0.00 40.36 4.75
3813 6584 4.748102 CACGGTAAAGTGAAGAAAGCTACA 59.252 41.667 0.00 0.00 44.43 2.74
3814 6585 4.989168 ACGGTAAAGTGAAGAAAGCTACAG 59.011 41.667 0.00 0.00 0.00 2.74
3922 6808 7.672983 TTATCATTAATTACTGCTGCTAGGC 57.327 36.000 0.00 0.00 0.00 3.93
4021 6919 1.728971 GTGACTTCGACATTGCTGGAG 59.271 52.381 0.00 0.00 0.00 3.86
4022 6920 1.344438 TGACTTCGACATTGCTGGAGT 59.656 47.619 0.00 0.00 0.00 3.85
4023 6921 1.996191 GACTTCGACATTGCTGGAGTC 59.004 52.381 2.44 2.44 0.00 3.36
4024 6922 1.620819 ACTTCGACATTGCTGGAGTCT 59.379 47.619 0.00 0.00 0.00 3.24
4025 6923 2.826128 ACTTCGACATTGCTGGAGTCTA 59.174 45.455 0.00 0.00 0.00 2.59
4026 6924 2.941453 TCGACATTGCTGGAGTCTAC 57.059 50.000 0.00 0.00 0.00 2.59
4027 6925 1.132453 TCGACATTGCTGGAGTCTACG 59.868 52.381 0.00 0.00 0.00 3.51
4028 6926 1.132453 CGACATTGCTGGAGTCTACGA 59.868 52.381 0.00 0.00 0.00 3.43
4029 6927 2.792890 CGACATTGCTGGAGTCTACGAG 60.793 54.545 0.00 0.00 0.00 4.18
4030 6928 1.134965 ACATTGCTGGAGTCTACGAGC 60.135 52.381 0.00 0.00 40.91 5.03
4031 6929 0.461961 ATTGCTGGAGTCTACGAGCC 59.538 55.000 0.00 0.00 40.06 4.70
4036 6934 0.965866 TGGAGTCTACGAGCCACTGG 60.966 60.000 0.00 0.00 0.00 4.00
4061 6959 6.496338 ACCAGATTTCGAGGTTATCAAAAC 57.504 37.500 0.00 0.00 29.58 2.43
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
189 224 2.432146 GCATGTCCCTCTGTCTCATGTA 59.568 50.000 0.00 0.00 38.35 2.29
190 225 1.209019 GCATGTCCCTCTGTCTCATGT 59.791 52.381 0.00 0.00 38.35 3.21
191 226 1.485480 AGCATGTCCCTCTGTCTCATG 59.515 52.381 0.00 0.00 38.87 3.07
192 227 1.876849 AGCATGTCCCTCTGTCTCAT 58.123 50.000 0.00 0.00 0.00 2.90
193 228 1.552337 GAAGCATGTCCCTCTGTCTCA 59.448 52.381 0.00 0.00 0.00 3.27
194 229 1.552337 TGAAGCATGTCCCTCTGTCTC 59.448 52.381 0.00 0.00 0.00 3.36
195 230 1.649321 TGAAGCATGTCCCTCTGTCT 58.351 50.000 0.00 0.00 0.00 3.41
196 231 2.479566 TTGAAGCATGTCCCTCTGTC 57.520 50.000 0.00 0.00 0.00 3.51
197 232 2.107204 ACTTTGAAGCATGTCCCTCTGT 59.893 45.455 0.00 0.00 0.00 3.41
198 233 2.746362 GACTTTGAAGCATGTCCCTCTG 59.254 50.000 0.00 0.00 0.00 3.35
199 234 2.290577 GGACTTTGAAGCATGTCCCTCT 60.291 50.000 0.00 0.00 42.11 3.69
200 235 2.087646 GGACTTTGAAGCATGTCCCTC 58.912 52.381 0.00 0.00 42.11 4.30
201 236 2.206576 GGACTTTGAAGCATGTCCCT 57.793 50.000 0.00 0.00 42.11 4.20
272 419 1.301244 CAGGCAGCAGAACGAGTGT 60.301 57.895 0.00 0.00 0.00 3.55
349 797 0.322816 ACTGATTTGCGGATGGCTGT 60.323 50.000 0.00 0.00 44.05 4.40
448 902 0.179156 GTCTGCGAAACATGCCATGG 60.179 55.000 7.63 7.63 33.60 3.66
484 938 5.180868 GCACACATCTGTCAAAGAAGAGAAT 59.819 40.000 0.00 0.00 38.79 2.40
617 1153 0.252421 TGGTGATGGTGAGAGAGGCT 60.252 55.000 0.00 0.00 0.00 4.58
654 1199 1.155323 ATGGAGGTGGCCATCATCAT 58.845 50.000 20.62 17.64 45.36 2.45
655 1200 2.636644 ATGGAGGTGGCCATCATCA 58.363 52.632 20.62 16.05 45.36 3.07
984 1544 1.147824 CATGGAGCTCGCCAAGGAT 59.852 57.895 7.83 0.00 42.16 3.24
1194 1754 5.665459 ACTAAGTGCTTCATGTGTCCTATC 58.335 41.667 0.00 0.00 0.00 2.08
1428 2063 5.414765 TCTCGCTAGAATTAACACAGTGAGA 59.585 40.000 7.81 13.37 45.65 3.27
1448 2083 1.944709 ACCCGGAAAGTTTGTTTCTCG 59.055 47.619 0.73 0.94 0.00 4.04
1450 2085 6.461927 GGAATTAACCCGGAAAGTTTGTTTCT 60.462 38.462 0.73 0.00 0.00 2.52
1559 2194 3.453424 GCGGTGAGTTTGGTCAAATTTT 58.547 40.909 0.00 0.00 32.36 1.82
1578 2213 3.602062 GGTTGATGAAAATGTACAACGCG 59.398 43.478 3.53 3.53 40.78 6.01
1579 2214 4.541779 TGGTTGATGAAAATGTACAACGC 58.458 39.130 0.00 0.00 40.78 4.84
1581 2216 8.419076 AAAGTTGGTTGATGAAAATGTACAAC 57.581 30.769 0.00 0.00 39.67 3.32
1586 2221 6.098124 TCCAGAAAGTTGGTTGATGAAAATGT 59.902 34.615 0.00 0.00 39.35 2.71
1588 2223 6.098124 TGTCCAGAAAGTTGGTTGATGAAAAT 59.902 34.615 0.00 0.00 39.35 1.82
1591 2226 4.338118 GTGTCCAGAAAGTTGGTTGATGAA 59.662 41.667 0.00 0.00 39.35 2.57
1592 2227 3.882888 GTGTCCAGAAAGTTGGTTGATGA 59.117 43.478 0.00 0.00 39.35 2.92
1595 2230 3.358111 TGTGTCCAGAAAGTTGGTTGA 57.642 42.857 0.00 0.00 39.35 3.18
1641 2276 5.295540 GCCAAGATCCAGATTCACTAAGTTC 59.704 44.000 0.00 0.00 0.00 3.01
1649 2284 4.019411 TGTTAGTGCCAAGATCCAGATTCA 60.019 41.667 0.00 0.00 0.00 2.57
1651 2286 4.265073 GTGTTAGTGCCAAGATCCAGATT 58.735 43.478 0.00 0.00 0.00 2.40
1653 2288 2.027192 GGTGTTAGTGCCAAGATCCAGA 60.027 50.000 0.00 0.00 0.00 3.86
1657 2292 2.789409 AGGGTGTTAGTGCCAAGATC 57.211 50.000 0.00 0.00 0.00 2.75
1658 2293 3.587506 AGTTAGGGTGTTAGTGCCAAGAT 59.412 43.478 0.00 0.00 0.00 2.40
1665 2300 3.071892 TGGAACCAGTTAGGGTGTTAGTG 59.928 47.826 0.00 0.00 37.53 2.74
1666 2301 3.320129 TGGAACCAGTTAGGGTGTTAGT 58.680 45.455 0.00 0.00 37.53 2.24
1667 2302 4.569719 ATGGAACCAGTTAGGGTGTTAG 57.430 45.455 0.00 0.00 37.53 2.34
1668 2303 4.263594 GGAATGGAACCAGTTAGGGTGTTA 60.264 45.833 0.00 0.00 37.53 2.41
1673 2308 3.449746 TTGGAATGGAACCAGTTAGGG 57.550 47.619 0.00 0.00 43.89 3.53
1674 2309 5.067805 GCTATTTGGAATGGAACCAGTTAGG 59.932 44.000 0.00 0.00 45.67 2.69
1677 2312 4.415596 TGCTATTTGGAATGGAACCAGTT 58.584 39.130 0.00 0.00 38.70 3.16
1678 2313 4.046286 TGCTATTTGGAATGGAACCAGT 57.954 40.909 0.00 0.00 38.70 4.00
1680 2315 5.103728 TCCTATGCTATTTGGAATGGAACCA 60.104 40.000 0.00 0.00 35.47 3.67
1689 2324 6.894654 TGGTCAAATTTCCTATGCTATTTGGA 59.105 34.615 0.00 0.00 38.12 3.53
1723 2358 4.541779 TGGTTGATGAAAATGTACAACGC 58.458 39.130 0.00 0.00 40.78 4.84
1725 2360 8.419076 AAAGTTGGTTGATGAAAATGTACAAC 57.581 30.769 0.00 0.00 39.67 3.32
1730 2365 6.098124 TCCAGAAAGTTGGTTGATGAAAATGT 59.902 34.615 0.00 0.00 39.35 2.71
1732 2367 6.098124 TGTCCAGAAAGTTGGTTGATGAAAAT 59.902 34.615 0.00 0.00 39.35 1.82
1736 2371 3.882888 GTGTCCAGAAAGTTGGTTGATGA 59.117 43.478 0.00 0.00 39.35 2.92
1739 2374 3.358111 TGTGTCCAGAAAGTTGGTTGA 57.642 42.857 0.00 0.00 39.35 3.18
1777 2412 3.997021 AGATTCACTAAGTTCACAAGGCG 59.003 43.478 0.00 0.00 0.00 5.52
1778 2413 4.154918 CCAGATTCACTAAGTTCACAAGGC 59.845 45.833 0.00 0.00 0.00 4.35
1779 2414 5.551233 TCCAGATTCACTAAGTTCACAAGG 58.449 41.667 0.00 0.00 0.00 3.61
1780 2415 7.102346 AGATCCAGATTCACTAAGTTCACAAG 58.898 38.462 0.00 0.00 0.00 3.16
1781 2416 7.009179 AGATCCAGATTCACTAAGTTCACAA 57.991 36.000 0.00 0.00 0.00 3.33
1782 2417 6.611613 AGATCCAGATTCACTAAGTTCACA 57.388 37.500 0.00 0.00 0.00 3.58
1783 2418 6.314896 CCAAGATCCAGATTCACTAAGTTCAC 59.685 42.308 0.00 0.00 0.00 3.18
1784 2419 6.409704 CCAAGATCCAGATTCACTAAGTTCA 58.590 40.000 0.00 0.00 0.00 3.18
1785 2420 5.295540 GCCAAGATCCAGATTCACTAAGTTC 59.704 44.000 0.00 0.00 0.00 3.01
1786 2421 5.189180 GCCAAGATCCAGATTCACTAAGTT 58.811 41.667 0.00 0.00 0.00 2.66
1787 2422 4.225942 TGCCAAGATCCAGATTCACTAAGT 59.774 41.667 0.00 0.00 0.00 2.24
1788 2423 4.574013 GTGCCAAGATCCAGATTCACTAAG 59.426 45.833 0.00 0.00 0.00 2.18
1789 2424 4.225942 AGTGCCAAGATCCAGATTCACTAA 59.774 41.667 0.00 0.00 32.49 2.24
1790 2425 3.776969 AGTGCCAAGATCCAGATTCACTA 59.223 43.478 0.00 0.00 32.49 2.74
1791 2426 2.575279 AGTGCCAAGATCCAGATTCACT 59.425 45.455 0.00 0.00 0.00 3.41
1792 2427 2.996631 AGTGCCAAGATCCAGATTCAC 58.003 47.619 0.00 0.00 0.00 3.18
1793 2428 4.517285 GTTAGTGCCAAGATCCAGATTCA 58.483 43.478 0.00 0.00 0.00 2.57
1794 2429 3.557595 CGTTAGTGCCAAGATCCAGATTC 59.442 47.826 0.00 0.00 0.00 2.52
1795 2430 3.535561 CGTTAGTGCCAAGATCCAGATT 58.464 45.455 0.00 0.00 0.00 2.40
1796 2431 2.743183 GCGTTAGTGCCAAGATCCAGAT 60.743 50.000 0.00 0.00 0.00 2.90
1797 2432 1.405526 GCGTTAGTGCCAAGATCCAGA 60.406 52.381 0.00 0.00 0.00 3.86
1798 2433 1.009829 GCGTTAGTGCCAAGATCCAG 58.990 55.000 0.00 0.00 0.00 3.86
1799 2434 3.153024 GCGTTAGTGCCAAGATCCA 57.847 52.632 0.00 0.00 0.00 3.41
1808 2443 0.036671 ACCAGTTAGGGCGTTAGTGC 60.037 55.000 0.00 0.00 43.89 4.40
1809 2444 2.344025 GAACCAGTTAGGGCGTTAGTG 58.656 52.381 0.00 0.00 43.89 2.74
1810 2445 1.277273 GGAACCAGTTAGGGCGTTAGT 59.723 52.381 0.00 0.00 43.89 2.24
1811 2446 1.276989 TGGAACCAGTTAGGGCGTTAG 59.723 52.381 0.00 0.00 43.89 2.34
1812 2447 1.350071 TGGAACCAGTTAGGGCGTTA 58.650 50.000 0.00 0.00 43.89 3.18
1813 2448 0.696501 ATGGAACCAGTTAGGGCGTT 59.303 50.000 0.00 0.00 43.89 4.84
1814 2449 0.252197 GATGGAACCAGTTAGGGCGT 59.748 55.000 0.00 0.00 43.89 5.68
1815 2450 0.463833 GGATGGAACCAGTTAGGGCG 60.464 60.000 0.00 0.00 43.89 6.13
1816 2451 0.106669 GGGATGGAACCAGTTAGGGC 60.107 60.000 0.00 0.00 43.89 5.19
1817 2452 1.295020 TGGGATGGAACCAGTTAGGG 58.705 55.000 0.00 0.00 43.89 3.53
1818 2453 3.449746 TTTGGGATGGAACCAGTTAGG 57.550 47.619 0.00 0.00 45.67 2.69
1819 2454 4.580580 GCTATTTGGGATGGAACCAGTTAG 59.419 45.833 0.00 0.00 39.57 2.34
1820 2455 4.017958 TGCTATTTGGGATGGAACCAGTTA 60.018 41.667 0.00 0.00 39.57 2.24
1821 2456 3.245586 TGCTATTTGGGATGGAACCAGTT 60.246 43.478 0.00 0.00 39.57 3.16
1822 2457 2.311542 TGCTATTTGGGATGGAACCAGT 59.688 45.455 0.00 0.00 39.57 4.00
1823 2458 3.017048 TGCTATTTGGGATGGAACCAG 57.983 47.619 0.00 0.00 39.57 4.00
1824 2459 3.686227 ATGCTATTTGGGATGGAACCA 57.314 42.857 0.00 0.00 35.88 3.67
1825 2460 4.082125 CCTATGCTATTTGGGATGGAACC 58.918 47.826 0.00 0.00 0.00 3.62
2275 2910 5.113446 AGATCCAGGTACTCTAAGTTCGA 57.887 43.478 0.00 0.00 34.60 3.71
2299 2934 3.963428 ACCTGAGAGTATGTTGTCACC 57.037 47.619 0.00 0.00 0.00 4.02
2358 2993 3.602062 GGTTGATGAAAATGTACAACGCG 59.398 43.478 3.53 3.53 40.78 6.01
2359 2994 4.541779 TGGTTGATGAAAATGTACAACGC 58.458 39.130 0.00 0.00 40.78 4.84
2361 2996 8.419076 AAAGTTGGTTGATGAAAATGTACAAC 57.581 30.769 0.00 0.00 39.67 3.32
2368 3003 6.098124 TGTCCAGAAAGTTGGTTGATGAAAAT 59.902 34.615 0.00 0.00 39.35 1.82
2372 3007 3.882888 GTGTCCAGAAAGTTGGTTGATGA 59.117 43.478 0.00 0.00 39.35 2.92
2429 3352 4.517285 GTTAGTGCCAAGATCCAGATTCA 58.483 43.478 0.00 0.00 0.00 2.57
2434 3357 1.009829 GCGTTAGTGCCAAGATCCAG 58.990 55.000 0.00 0.00 0.00 3.86
2452 3375 0.106669 GGGATGGAACCAGTTAGGGC 60.107 60.000 0.00 0.00 43.89 5.19
2505 3572 8.419076 AAAGTTGGTTGATGAAAATGTACAAC 57.581 30.769 0.00 0.00 39.67 3.32
2512 3579 6.098124 TGTCCAGAAAGTTGGTTGATGAAAAT 59.902 34.615 0.00 0.00 39.35 1.82
2519 3586 3.358111 TGTGTCCAGAAAGTTGGTTGA 57.642 42.857 0.00 0.00 39.35 3.18
2557 4489 2.104792 ACTGCTCTAAGTTCACAAGGCA 59.895 45.455 0.00 0.00 0.00 4.75
2581 4513 1.238439 AGCGTGTTGTTGCTAAGCAT 58.762 45.000 0.00 0.00 40.28 3.79
2582 4514 1.872388 TAGCGTGTTGTTGCTAAGCA 58.128 45.000 0.00 0.00 40.53 3.91
2583 4515 2.961522 TTAGCGTGTTGTTGCTAAGC 57.038 45.000 2.76 0.00 45.85 3.09
2587 4519 0.944386 CCAGTTAGCGTGTTGTTGCT 59.056 50.000 0.00 0.00 45.04 3.91
2647 4579 5.836024 AGGTTGTTGTCAAGGTATAAGGA 57.164 39.130 0.00 0.00 33.97 3.36
2652 4584 6.838382 AGAAAGTAGGTTGTTGTCAAGGTAT 58.162 36.000 0.00 0.00 33.97 2.73
2659 4591 6.278363 TGTGTCTAGAAAGTAGGTTGTTGTC 58.722 40.000 0.00 0.00 0.00 3.18
2660 4592 6.229936 TGTGTCTAGAAAGTAGGTTGTTGT 57.770 37.500 0.00 0.00 0.00 3.32
2663 4595 5.046520 GGGATGTGTCTAGAAAGTAGGTTGT 60.047 44.000 0.00 0.00 0.00 3.32
2669 4601 4.851843 TCGAGGGATGTGTCTAGAAAGTA 58.148 43.478 0.00 0.00 0.00 2.24
2677 4609 2.223803 AGTTCTCGAGGGATGTGTCT 57.776 50.000 13.56 0.00 0.00 3.41
2762 4694 9.226606 TGAGTTTCGTCAAATTTCCTATGTTAT 57.773 29.630 0.00 0.00 0.00 1.89
2765 4697 7.687941 ATGAGTTTCGTCAAATTTCCTATGT 57.312 32.000 0.00 0.00 0.00 2.29
2781 4713 9.959749 TTGTCAAGGTACAAAAATATGAGTTTC 57.040 29.630 0.00 0.00 36.45 2.78
2789 4721 9.968870 GTTGGTTATTGTCAAGGTACAAAAATA 57.031 29.630 0.00 0.00 42.33 1.40
2864 4940 3.118038 TGTGTTATAGCTAAGCCCCAAGG 60.118 47.826 0.00 0.00 0.00 3.61
2897 4975 1.707989 TGCCTAGGTTGTTTGGGATGA 59.292 47.619 11.31 0.00 0.00 2.92
2978 5056 7.553504 AAGTTGGCCAAATAACCTAATTCTT 57.446 32.000 22.47 11.58 0.00 2.52
3094 5315 0.037160 GGCCCGGAAAGTTGGTTCTA 59.963 55.000 0.73 0.00 0.00 2.10
3385 5881 2.260434 GCTGGCGTCGAGTTACCA 59.740 61.111 0.00 0.00 0.00 3.25
3907 6792 2.787473 TGTTGCCTAGCAGCAGTAAT 57.213 45.000 1.74 0.00 44.16 1.89
3922 6808 0.457851 TTTCCCAAAGCCACGTGTTG 59.542 50.000 15.65 12.25 0.00 3.33
3968 6859 6.896021 ATTCTCGGTATCTTCCTTTCGATA 57.104 37.500 0.00 0.00 0.00 2.92
4021 6919 0.108756 GGTTCCAGTGGCTCGTAGAC 60.109 60.000 3.51 0.00 0.00 2.59
4022 6920 0.541063 TGGTTCCAGTGGCTCGTAGA 60.541 55.000 3.51 0.00 0.00 2.59
4023 6921 0.108615 CTGGTTCCAGTGGCTCGTAG 60.109 60.000 3.51 0.00 0.00 3.51
4024 6922 0.541063 TCTGGTTCCAGTGGCTCGTA 60.541 55.000 17.00 0.00 35.70 3.43
4025 6923 1.194781 ATCTGGTTCCAGTGGCTCGT 61.195 55.000 17.00 0.00 35.70 4.18
4026 6924 0.036010 AATCTGGTTCCAGTGGCTCG 60.036 55.000 17.00 0.00 35.70 5.03
4027 6925 2.087646 GAAATCTGGTTCCAGTGGCTC 58.912 52.381 17.00 0.00 35.70 4.70
4028 6926 1.611673 CGAAATCTGGTTCCAGTGGCT 60.612 52.381 17.00 2.81 35.70 4.75
4029 6927 0.804989 CGAAATCTGGTTCCAGTGGC 59.195 55.000 17.00 6.31 35.70 5.01
4030 6928 2.350522 CTCGAAATCTGGTTCCAGTGG 58.649 52.381 17.00 1.40 35.70 4.00
4031 6929 2.289694 ACCTCGAAATCTGGTTCCAGTG 60.290 50.000 17.00 5.47 35.70 3.66
4036 6934 6.737254 TTTGATAACCTCGAAATCTGGTTC 57.263 37.500 9.11 0.00 42.38 3.62


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

AutoCloner maintained by Alex Coulton.