Multiple sequence alignment - TraesCS1D01G075600

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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 TraesCS1D01G075600 chr1D 100.000 9074 0 0 1 9074 57507742 57498669 0.000000e+00 16757.0
1 TraesCS1D01G075600 chr1D 86.593 813 61 16 1035 1818 57954725 57955518 0.000000e+00 854.0
2 TraesCS1D01G075600 chr1D 86.819 349 45 1 7123 7471 57960141 57960488 1.100000e-103 388.0
3 TraesCS1D01G075600 chr1D 89.057 265 23 3 7497 7759 57960485 57960745 3.160000e-84 324.0
4 TraesCS1D01G075600 chr1D 84.665 313 17 19 1931 2215 57955703 57956012 5.360000e-72 283.0
5 TraesCS1D01G075600 chr1D 81.505 319 43 10 6443 6755 57959542 57959850 1.960000e-61 248.0
6 TraesCS1D01G075600 chr1D 84.454 238 23 9 664 888 57508940 57509176 1.190000e-53 222.0
7 TraesCS1D01G075600 chr1D 81.818 154 19 6 4519 4670 57956940 57957086 4.450000e-23 121.0
8 TraesCS1D01G075600 chr1D 90.698 86 6 2 5251 5334 411756911 411756996 7.450000e-21 113.0
9 TraesCS1D01G075600 chr1D 81.757 148 13 10 2339 2473 355173959 355174105 2.680000e-20 111.0
10 TraesCS1D01G075600 chr1D 87.879 66 7 1 5476 5540 57958996 57959061 9.770000e-10 76.8
11 TraesCS1D01G075600 chr1D 95.652 46 2 0 1821 1866 57955544 57955589 3.510000e-09 75.0
12 TraesCS1D01G075600 chr1A 94.735 3571 123 27 888 4400 56628033 56624470 0.000000e+00 5493.0
13 TraesCS1D01G075600 chr1A 93.237 3105 142 28 4871 7949 56623728 56620666 0.000000e+00 4508.0
14 TraesCS1D01G075600 chr1A 90.089 1120 67 17 7982 9064 56620664 56619552 0.000000e+00 1413.0
15 TraesCS1D01G075600 chr1A 86.797 818 64 16 1035 1818 56918350 56919157 0.000000e+00 872.0
16 TraesCS1D01G075600 chr1A 89.633 463 6 9 4425 4873 56624244 56623810 1.330000e-152 551.0
17 TraesCS1D01G075600 chr1A 87.536 345 42 1 7123 7467 56923246 56923589 1.840000e-106 398.0
18 TraesCS1D01G075600 chr1A 86.940 268 28 6 7493 7759 56923585 56923846 2.480000e-75 294.0
19 TraesCS1D01G075600 chr1A 80.045 441 42 25 1931 2330 56919346 56919781 1.490000e-72 285.0
20 TraesCS1D01G075600 chr1A 77.684 354 56 17 2665 3011 59960453 59960116 2.590000e-45 195.0
21 TraesCS1D01G075600 chr1A 77.619 210 31 11 4522 4729 56920514 56920709 7.450000e-21 113.0
22 TraesCS1D01G075600 chr1A 93.443 61 2 2 5481 5540 56921922 56921981 1.250000e-13 89.8
23 TraesCS1D01G075600 chr1A 100.000 41 0 0 1826 1866 56919188 56919228 9.770000e-10 76.8
24 TraesCS1D01G075600 chr1B 90.420 2359 153 26 6023 8342 92877475 92875151 0.000000e+00 3037.0
25 TraesCS1D01G075600 chr1B 95.097 1081 31 8 976 2034 92883178 92882098 0.000000e+00 1683.0
26 TraesCS1D01G075600 chr1B 88.213 1035 76 17 3534 4529 92880616 92879589 0.000000e+00 1194.0
27 TraesCS1D01G075600 chr1B 85.519 877 70 23 1035 1866 93290512 93291376 0.000000e+00 863.0
28 TraesCS1D01G075600 chr1B 79.685 699 83 34 2854 3522 92881326 92880657 5.000000e-122 449.0
29 TraesCS1D01G075600 chr1B 88.252 349 40 1 7123 7471 93295359 93295706 5.070000e-112 416.0
30 TraesCS1D01G075600 chr1B 92.126 254 18 1 5474 5727 92878044 92877793 3.120000e-94 357.0
31 TraesCS1D01G075600 chr1B 88.235 306 13 11 1991 2274 92882095 92881791 2.430000e-90 344.0
32 TraesCS1D01G075600 chr1B 80.931 451 53 16 2350 2785 92881779 92881347 8.790000e-85 326.0
33 TraesCS1D01G075600 chr1B 86.424 302 32 3 8780 9074 92874305 92874006 1.140000e-83 322.0
34 TraesCS1D01G075600 chr1B 81.567 434 40 28 1931 2330 93291490 93291917 1.140000e-83 322.0
35 TraesCS1D01G075600 chr1B 87.925 265 26 3 7497 7759 93295703 93295963 3.180000e-79 307.0
36 TraesCS1D01G075600 chr1B 87.226 274 26 4 4865 5135 92879050 92878783 4.120000e-78 303.0
37 TraesCS1D01G075600 chr1B 82.667 225 33 4 5826 6044 604554055 604553831 2.590000e-45 195.0
38 TraesCS1D01G075600 chr1B 81.333 150 21 4 3577 3719 93292011 93292160 2.070000e-21 115.0
39 TraesCS1D01G075600 chr1B 90.278 72 5 2 5470 5540 93294157 93294227 9.700000e-15 93.5
40 TraesCS1D01G075600 chr6D 94.444 900 27 8 1 889 424180183 424179296 0.000000e+00 1363.0
41 TraesCS1D01G075600 chr6D 75.523 478 101 13 3048 3512 380560201 380560675 4.270000e-53 220.0
42 TraesCS1D01G075600 chr6D 74.815 540 106 19 3048 3563 357342058 357342591 5.520000e-52 217.0
43 TraesCS1D01G075600 chr6D 83.898 236 25 10 664 887 424181388 424181622 7.140000e-51 213.0
44 TraesCS1D01G075600 chr6D 77.885 208 45 1 2806 3013 347301015 347300809 2.660000e-25 128.0
45 TraesCS1D01G075600 chr6D 76.214 206 26 12 5845 6030 115813585 115813383 4.510000e-13 87.9
46 TraesCS1D01G075600 chr2B 93.222 900 35 8 1 888 467929051 467928166 0.000000e+00 1301.0
47 TraesCS1D01G075600 chr2B 86.281 933 79 24 1 890 695835489 695834563 0.000000e+00 968.0
48 TraesCS1D01G075600 chr2B 81.538 260 37 8 5781 6032 688373670 688373926 4.300000e-48 204.0
49 TraesCS1D01G075600 chr2B 85.496 131 16 3 3049 3179 615331036 615330909 5.720000e-27 134.0
50 TraesCS1D01G075600 chr5A 91.944 571 36 1 1 571 430994403 430993843 0.000000e+00 791.0
51 TraesCS1D01G075600 chr5A 88.856 341 24 8 567 894 430993817 430993478 3.050000e-109 407.0
52 TraesCS1D01G075600 chr5A 82.203 118 16 2 2340 2456 620406420 620406307 7.500000e-16 97.1
53 TraesCS1D01G075600 chr5A 87.952 83 7 2 7605 7684 597504868 597504950 2.700000e-15 95.3
54 TraesCS1D01G075600 chr6B 87.895 570 50 7 3 571 684143120 684142569 0.000000e+00 652.0
55 TraesCS1D01G075600 chr6B 87.798 336 28 7 566 889 684142544 684142210 1.850000e-101 381.0
56 TraesCS1D01G075600 chr6B 75.486 514 100 16 3049 3543 538943280 538943786 2.550000e-55 228.0
57 TraesCS1D01G075600 chr6B 84.821 224 21 8 664 875 684144996 684145218 7.140000e-51 213.0
58 TraesCS1D01G075600 chr6B 89.583 96 5 3 5242 5337 501774045 501773955 5.760000e-22 117.0
59 TraesCS1D01G075600 chr6B 84.615 78 12 0 2933 3010 458018482 458018559 2.720000e-10 78.7
60 TraesCS1D01G075600 chr4A 88.822 331 26 8 571 890 149093264 149092934 6.600000e-106 396.0
61 TraesCS1D01G075600 chr4A 87.027 185 13 2 387 571 149093467 149093294 2.000000e-46 198.0
62 TraesCS1D01G075600 chr4A 84.043 188 30 0 3032 3219 578217997 578218184 2.010000e-41 182.0
63 TraesCS1D01G075600 chr2D 82.083 240 34 4 5799 6029 197870814 197870575 7.190000e-46 196.0
64 TraesCS1D01G075600 chr2D 94.118 51 3 0 2964 3014 505801634 505801684 2.720000e-10 78.7
65 TraesCS1D01G075600 chr2D 86.154 65 5 4 3315 3376 82838058 82837995 5.880000e-07 67.6
66 TraesCS1D01G075600 chr7D 84.211 171 27 0 3050 3220 174677707 174677537 5.640000e-37 167.0
67 TraesCS1D01G075600 chr7D 83.432 169 22 5 3048 3216 305119642 305119480 1.580000e-32 152.0
68 TraesCS1D01G075600 chr7D 90.625 96 5 3 5240 5333 29876363 29876456 3.440000e-24 124.0
69 TraesCS1D01G075600 chr7D 74.648 213 38 10 2802 3013 12618283 12618086 7.550000e-11 80.5
70 TraesCS1D01G075600 chr7A 77.903 267 44 12 5775 6032 81771924 81772184 1.580000e-32 152.0
71 TraesCS1D01G075600 chr5B 86.429 140 16 3 5895 6032 551228474 551228336 5.680000e-32 150.0
72 TraesCS1D01G075600 chr5B 90.110 91 6 3 5252 5339 263519673 263519583 2.070000e-21 115.0
73 TraesCS1D01G075600 chr5B 87.952 83 7 2 7605 7684 586279838 586279920 2.700000e-15 95.3
74 TraesCS1D01G075600 chr5B 87.805 82 4 4 2806 2884 690975927 690976005 3.490000e-14 91.6
75 TraesCS1D01G075600 chr7B 90.323 93 5 3 5241 5333 84186603 84186515 1.600000e-22 119.0
76 TraesCS1D01G075600 chr7B 85.455 110 11 5 5230 5335 741667084 741667192 9.630000e-20 110.0
77 TraesCS1D01G075600 chr3D 89.474 95 6 4 5246 5336 66523469 66523375 5.760000e-22 117.0
78 TraesCS1D01G075600 chr3D 81.169 154 18 6 2341 2483 12422735 12422888 7.450000e-21 113.0
79 TraesCS1D01G075600 chr3D 81.818 77 11 3 2939 3014 363247786 363247712 2.740000e-05 62.1
80 TraesCS1D01G075600 chr6A 81.560 141 23 2 2342 2482 181560694 181560831 7.450000e-21 113.0
81 TraesCS1D01G075600 chr3B 88.660 97 4 5 5244 5336 256200748 256200655 2.680000e-20 111.0
82 TraesCS1D01G075600 chr5D 81.343 134 18 4 2360 2493 496552824 496552698 1.610000e-17 102.0
83 TraesCS1D01G075600 chr5D 87.952 83 7 2 7605 7684 478453818 478453900 2.700000e-15 95.3
84 TraesCS1D01G075600 chr5D 84.146 82 13 0 2933 3014 376274431 376274350 7.550000e-11 80.5
85 TraesCS1D01G075600 chr5D 83.750 80 10 3 5713 5790 459222317 459222239 1.260000e-08 73.1
86 TraesCS1D01G075600 chr3A 85.714 77 11 0 2934 3010 277520657 277520733 2.100000e-11 82.4
87 TraesCS1D01G075600 chr4B 97.727 44 1 0 2961 3004 448891631 448891588 9.770000e-10 76.8
88 TraesCS1D01G075600 chr4D 80.851 94 10 2 2350 2442 365865475 365865389 5.880000e-07 67.6


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 TraesCS1D01G075600 chr1D 57498669 57507742 9073 True 16757.000000 16757 100.000000 1 9074 1 chr1D.!!$R1 9073
1 TraesCS1D01G075600 chr1D 57954725 57960745 6020 False 296.225000 854 86.748500 1035 7759 8 chr1D.!!$F4 6724
2 TraesCS1D01G075600 chr1A 56619552 56628033 8481 True 2991.250000 5493 91.923500 888 9064 4 chr1A.!!$R2 8176
3 TraesCS1D01G075600 chr1A 56918350 56923846 5496 False 304.085714 872 87.482857 1035 7759 7 chr1A.!!$F1 6724
4 TraesCS1D01G075600 chr1B 92874006 92883178 9172 True 890.555556 3037 87.595222 976 9074 9 chr1B.!!$R2 8098
5 TraesCS1D01G075600 chr1B 93290512 93295963 5451 False 352.750000 863 85.812333 1035 7759 6 chr1B.!!$F1 6724
6 TraesCS1D01G075600 chr6D 424179296 424180183 887 True 1363.000000 1363 94.444000 1 889 1 chr6D.!!$R3 888
7 TraesCS1D01G075600 chr6D 357342058 357342591 533 False 217.000000 217 74.815000 3048 3563 1 chr6D.!!$F1 515
8 TraesCS1D01G075600 chr2B 467928166 467929051 885 True 1301.000000 1301 93.222000 1 888 1 chr2B.!!$R1 887
9 TraesCS1D01G075600 chr2B 695834563 695835489 926 True 968.000000 968 86.281000 1 890 1 chr2B.!!$R3 889
10 TraesCS1D01G075600 chr5A 430993478 430994403 925 True 599.000000 791 90.400000 1 894 2 chr5A.!!$R2 893
11 TraesCS1D01G075600 chr6B 684142210 684143120 910 True 516.500000 652 87.846500 3 889 2 chr6B.!!$R2 886
12 TraesCS1D01G075600 chr6B 538943280 538943786 506 False 228.000000 228 75.486000 3049 3543 1 chr6B.!!$F2 494
13 TraesCS1D01G075600 chr4A 149092934 149093467 533 True 297.000000 396 87.924500 387 890 2 chr4A.!!$R1 503

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
138 140 0.177836 CCATGCGTATGAGGTCACCA 59.822 55.000 15.64 0.0 36.36 4.17 F
535 543 0.179121 CTCGTATGGTTACTGCCGCA 60.179 55.000 0.00 0.0 0.00 5.69 F
1275 1326 0.247185 GGTCCGTCCGTGTCCAAATA 59.753 55.000 0.00 0.0 0.00 1.40 F
1416 1486 1.821936 CTCGCTGCTGGAGGAGATT 59.178 57.895 8.32 0.0 35.31 2.40 F
3251 3582 0.814410 CGGCTAGAGCGACAGAGGTA 60.814 60.000 0.00 0.0 43.26 3.08 F
4401 4856 0.326927 CCTTAAGCGGAGTTGGGGAA 59.673 55.000 0.00 0.0 0.00 3.97 F
5150 7081 1.486726 CTACTCAATGTGTCCCCTCCC 59.513 57.143 0.00 0.0 0.00 4.30 F
6039 9351 0.313987 GAGCCAAAACGGAAACCCAG 59.686 55.000 0.00 0.0 36.56 4.45 F
6121 9441 1.115467 CCCTAGAGCGTCAACCTCAT 58.885 55.000 0.00 0.0 0.00 2.90 F
7006 10482 1.408969 GGTGCCTTTGGGTTCTGAAA 58.591 50.000 0.00 0.0 34.45 2.69 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1600 1690 1.592400 CCTCCTTGTACCGCGACAGA 61.592 60.000 8.23 0.00 0.00 3.41 R
1770 1877 2.566824 GCCGGAGAAAATCAAGGCA 58.433 52.632 5.05 0.00 46.52 4.75 R
2610 2911 0.535328 TTTGATGGACGGCGTTGGAA 60.535 50.000 16.19 0.00 0.00 3.53 R
3345 3686 0.310854 CACAAAAACCCAGCTCGGAC 59.689 55.000 3.62 0.00 36.56 4.79 R
4491 5148 0.835941 AGAGCTTAGTGAGGGCCATG 59.164 55.000 6.18 0.00 0.00 3.66 R
6018 9330 0.313987 GGGTTTCCGTTTTGGCTCTG 59.686 55.000 0.00 0.00 37.80 3.35 R
6758 10206 0.108041 TATCGGTCCGAAAACCCAGC 60.108 55.000 19.76 0.00 39.99 4.85 R
7118 10599 1.003545 GCATGGCAGTAATACAGCACG 60.004 52.381 9.90 0.00 31.72 5.34 R
7119 10600 2.016318 TGCATGGCAGTAATACAGCAC 58.984 47.619 9.90 0.64 31.72 4.40 R
8967 12959 0.531974 GCTCTTGTTGGTGACGGTGA 60.532 55.000 0.00 0.00 0.00 4.02 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
98 100 2.890474 GGCATTGACGACGCCGAT 60.890 61.111 0.00 0.00 39.50 4.18
138 140 0.177836 CCATGCGTATGAGGTCACCA 59.822 55.000 15.64 0.00 36.36 4.17
142 144 1.831106 TGCGTATGAGGTCACCATCTT 59.169 47.619 0.00 0.00 0.00 2.40
256 259 6.038825 TCCTTGTGTTTGATAAATTCGTGTGT 59.961 34.615 0.00 0.00 0.00 3.72
535 543 0.179121 CTCGTATGGTTACTGCCGCA 60.179 55.000 0.00 0.00 0.00 5.69
766 807 2.791092 GCCAAACGCCAAAGTTACG 58.209 52.632 0.00 0.00 33.41 3.18
768 809 0.662077 CCAAACGCCAAAGTTACGGC 60.662 55.000 6.22 6.22 45.28 5.68
890 941 6.819146 GGTTAAAACAGAAATTTTGTCCACCA 59.181 34.615 0.00 0.00 33.80 4.17
891 942 7.497579 GGTTAAAACAGAAATTTTGTCCACCAT 59.502 33.333 0.00 0.00 33.80 3.55
892 943 6.923928 AAAACAGAAATTTTGTCCACCATG 57.076 33.333 0.00 0.00 30.56 3.66
893 944 3.993920 ACAGAAATTTTGTCCACCATGC 58.006 40.909 0.00 0.00 0.00 4.06
894 945 3.387374 ACAGAAATTTTGTCCACCATGCA 59.613 39.130 0.00 0.00 0.00 3.96
895 946 4.040706 ACAGAAATTTTGTCCACCATGCAT 59.959 37.500 0.00 0.00 0.00 3.96
896 947 5.245751 ACAGAAATTTTGTCCACCATGCATA 59.754 36.000 0.00 0.00 0.00 3.14
897 948 6.070653 ACAGAAATTTTGTCCACCATGCATAT 60.071 34.615 0.00 0.00 0.00 1.78
1164 1215 3.756783 CTCCTCCCCCTCCTCCGT 61.757 72.222 0.00 0.00 0.00 4.69
1275 1326 0.247185 GGTCCGTCCGTGTCCAAATA 59.753 55.000 0.00 0.00 0.00 1.40
1282 1333 4.392445 CCGTCCGTGTCCAAATACATTTTA 59.608 41.667 0.00 0.00 0.00 1.52
1333 1393 4.277476 AGCTAGCTAGTTCACTCACTCAT 58.723 43.478 17.69 0.00 0.00 2.90
1377 1447 5.049405 ACGTTGATTCTTGATTTGTCAGGTC 60.049 40.000 0.00 0.00 0.00 3.85
1416 1486 1.821936 CTCGCTGCTGGAGGAGATT 59.178 57.895 8.32 0.00 35.31 2.40
2441 2734 4.986659 CGGGTAAAATCCAACGGTATAGAG 59.013 45.833 0.00 0.00 0.00 2.43
2446 2739 7.986889 GGTAAAATCCAACGGTATAGAGGTTAA 59.013 37.037 0.00 0.00 0.00 2.01
2596 2891 5.227391 CAGACGTGCGTTATAGACTTACAAG 59.773 44.000 0.00 0.00 0.00 3.16
2610 2911 7.017319 AGACTTACAAGTTACTAAGGGCATT 57.983 36.000 0.00 0.00 39.88 3.56
2658 2959 1.133606 ACCCCAAACGTTCAAGGACAT 60.134 47.619 15.12 0.26 0.00 3.06
2979 3284 2.556144 AACTGCTCATGAGTTGCTCA 57.444 45.000 23.38 11.55 44.99 4.26
3013 3318 9.675464 ATTTGTTGATGCATTTGGATAAATTCT 57.325 25.926 0.00 0.00 34.34 2.40
3014 3319 8.706492 TTGTTGATGCATTTGGATAAATTCTC 57.294 30.769 0.00 0.00 34.34 2.87
3114 3443 4.573021 AAATTTGGCTATGGCATTTGGT 57.427 36.364 4.78 0.00 38.08 3.67
3138 3469 1.228245 ACTTGCCAGGCGTGATGTT 60.228 52.632 8.24 0.00 0.00 2.71
3251 3582 0.814410 CGGCTAGAGCGACAGAGGTA 60.814 60.000 0.00 0.00 43.26 3.08
3284 3616 2.803479 GGCGGAGTAGGTGGTACG 59.197 66.667 0.00 0.00 36.66 3.67
3352 3693 1.549170 TGAGAAAAGTAGGGTCCGAGC 59.451 52.381 0.00 0.00 0.00 5.03
3645 4025 8.491331 TTGTTTACGAACTTAACTGGTTAACT 57.509 30.769 5.42 0.00 36.70 2.24
4001 4440 5.337578 AGTATGGTTTTGTGCACTTGTTT 57.662 34.783 19.41 0.00 0.00 2.83
4064 4503 2.070783 GTGTGGCCTTGATTTGCAATG 58.929 47.619 3.32 0.00 35.59 2.82
4401 4856 0.326927 CCTTAAGCGGAGTTGGGGAA 59.673 55.000 0.00 0.00 0.00 3.97
4402 4857 1.679032 CCTTAAGCGGAGTTGGGGAAG 60.679 57.143 0.00 0.00 0.00 3.46
4403 4858 0.326927 TTAAGCGGAGTTGGGGAAGG 59.673 55.000 0.00 0.00 0.00 3.46
4404 4859 1.559065 TAAGCGGAGTTGGGGAAGGG 61.559 60.000 0.00 0.00 0.00 3.95
4405 4860 4.426313 GCGGAGTTGGGGAAGGGG 62.426 72.222 0.00 0.00 0.00 4.79
4406 4861 3.728373 CGGAGTTGGGGAAGGGGG 61.728 72.222 0.00 0.00 0.00 5.40
4616 5389 8.644374 ACCAGTTTTAACTATCTGCCATTAAA 57.356 30.769 0.00 0.00 37.08 1.52
4818 6330 2.618241 TGAAACTGGTGTGACAATGCTC 59.382 45.455 0.00 0.00 0.00 4.26
5003 6741 5.521372 GGATTCAAGAAAGCCATTAATGTGC 59.479 40.000 14.25 15.60 43.27 4.57
5026 6764 9.508567 GTGCCTATTCTGATTTTATTCAAGAAC 57.491 33.333 0.00 0.00 0.00 3.01
5150 7081 1.486726 CTACTCAATGTGTCCCCTCCC 59.513 57.143 0.00 0.00 0.00 4.30
5175 7634 5.009911 TCAATTCTGGTGTGAGAAACAATGG 59.990 40.000 0.00 0.00 41.57 3.16
5198 7657 5.178996 GGTAGAATGATCTGCTAAGCATGTG 59.821 44.000 0.00 0.00 38.13 3.21
5205 7665 5.826208 TGATCTGCTAAGCATGTGATCATTT 59.174 36.000 0.00 0.00 40.35 2.32
5225 7686 4.397481 TTCAAAATGTCACATTGCACCA 57.603 36.364 3.07 0.00 0.00 4.17
5279 7740 7.434492 TCCCTCTGTAAAGAAATATAAGAGCG 58.566 38.462 0.00 0.00 0.00 5.03
5347 7808 6.486657 CAGAGGGAGTACTTCAATTTCAACAA 59.513 38.462 2.92 0.00 0.00 2.83
5376 7837 2.735151 TAGGGGTAGGGTGTGCGTGT 62.735 60.000 0.00 0.00 0.00 4.49
5575 8637 6.748198 GCACGGTAATATTGTCTAGCTAGATC 59.252 42.308 25.74 18.55 34.39 2.75
5728 8948 4.809426 CCTACGTAAATTCAATTCGGCTCT 59.191 41.667 0.00 0.00 0.00 4.09
5818 9079 3.441101 AGGGGGAAAGCTTAACCATTTC 58.559 45.455 19.58 4.58 33.20 2.17
5824 9085 1.734163 AGCTTAACCATTTCGACCCG 58.266 50.000 0.00 0.00 0.00 5.28
6039 9351 0.313987 GAGCCAAAACGGAAACCCAG 59.686 55.000 0.00 0.00 36.56 4.45
6121 9441 1.115467 CCCTAGAGCGTCAACCTCAT 58.885 55.000 0.00 0.00 0.00 2.90
6145 9465 6.307776 TGTTCATTAACATCAACTAACCCCA 58.692 36.000 0.00 0.00 40.69 4.96
6235 9560 2.017049 GGACACTGAGCTCTCTCTCTC 58.983 57.143 16.19 2.07 40.03 3.20
6236 9561 2.356125 GGACACTGAGCTCTCTCTCTCT 60.356 54.545 16.19 0.00 40.03 3.10
6563 10008 4.154737 GCACTTGATTGCAGTACATGAAGA 59.845 41.667 0.00 0.00 42.49 2.87
6616 10063 2.473760 CCACAAAACGCCGGTCACA 61.474 57.895 1.90 0.00 0.00 3.58
6618 10065 1.450669 ACAAAACGCCGGTCACAGT 60.451 52.632 1.90 0.00 0.00 3.55
6649 10097 6.420913 TGCTTATATAGTCTCTGTTTCCCC 57.579 41.667 0.00 0.00 0.00 4.81
6758 10206 6.985188 TTTCATCCCATTTTCTTAGACTCG 57.015 37.500 0.00 0.00 0.00 4.18
6773 10248 2.031465 TCGCTGGGTTTTCGGACC 59.969 61.111 0.00 0.00 39.04 4.46
6774 10249 3.419759 CGCTGGGTTTTCGGACCG 61.420 66.667 7.84 7.84 40.75 4.79
6793 10268 5.335035 GGACCGATACTTGCTACTACAGATC 60.335 48.000 0.00 0.00 0.00 2.75
6827 10302 9.177304 CAATCGATAATCAGGTTTCATTCATTG 57.823 33.333 0.00 0.00 0.00 2.82
6919 10395 5.573282 TCTGAAGTTCATTCGATCGTCTTTC 59.427 40.000 15.94 10.60 41.14 2.62
6964 10440 1.908619 TCTGTCTGCAGCTTCCCATAA 59.091 47.619 9.47 0.00 42.29 1.90
6987 10463 9.834628 ATAATGTTGTTTGTTAAGTATCCAACG 57.165 29.630 0.00 0.00 34.85 4.10
7006 10482 1.408969 GGTGCCTTTGGGTTCTGAAA 58.591 50.000 0.00 0.00 34.45 2.69
7083 10564 4.556233 TCGATGTTGTCCTGTTCTAGTTG 58.444 43.478 0.00 0.00 0.00 3.16
7087 10568 4.839121 TGTTGTCCTGTTCTAGTTGTGTT 58.161 39.130 0.00 0.00 0.00 3.32
7092 10573 5.105106 TGTCCTGTTCTAGTTGTGTTTCTGA 60.105 40.000 0.00 0.00 0.00 3.27
7095 10576 6.049149 CCTGTTCTAGTTGTGTTTCTGAAGA 58.951 40.000 0.00 0.00 0.00 2.87
7097 10578 7.254590 CCTGTTCTAGTTGTGTTTCTGAAGAAG 60.255 40.741 0.00 0.00 35.21 2.85
7101 10582 3.879892 AGTTGTGTTTCTGAAGAAGCTCC 59.120 43.478 8.16 0.96 36.42 4.70
7102 10583 2.483876 TGTGTTTCTGAAGAAGCTCCG 58.516 47.619 8.16 0.00 36.42 4.63
7103 10584 1.801178 GTGTTTCTGAAGAAGCTCCGG 59.199 52.381 0.00 0.00 36.42 5.14
7104 10585 1.416401 TGTTTCTGAAGAAGCTCCGGT 59.584 47.619 0.00 0.00 36.42 5.28
7105 10586 2.158813 TGTTTCTGAAGAAGCTCCGGTT 60.159 45.455 0.00 0.00 36.42 4.44
7106 10587 2.879026 GTTTCTGAAGAAGCTCCGGTTT 59.121 45.455 0.00 0.00 35.21 3.27
7107 10588 2.930826 TCTGAAGAAGCTCCGGTTTT 57.069 45.000 0.00 0.00 0.00 2.43
7110 10591 2.878406 CTGAAGAAGCTCCGGTTTTTCA 59.122 45.455 0.00 5.24 40.17 2.69
7111 10592 2.878406 TGAAGAAGCTCCGGTTTTTCAG 59.122 45.455 0.00 0.00 38.53 3.02
7112 10593 2.640316 AGAAGCTCCGGTTTTTCAGT 57.360 45.000 0.00 0.00 0.00 3.41
7113 10594 2.495084 AGAAGCTCCGGTTTTTCAGTC 58.505 47.619 0.00 0.00 0.00 3.51
7114 10595 2.104963 AGAAGCTCCGGTTTTTCAGTCT 59.895 45.455 0.00 0.00 0.00 3.24
7115 10596 3.323979 AGAAGCTCCGGTTTTTCAGTCTA 59.676 43.478 0.00 0.00 0.00 2.59
7116 10597 3.764237 AGCTCCGGTTTTTCAGTCTAA 57.236 42.857 0.00 0.00 0.00 2.10
7117 10598 4.081322 AGCTCCGGTTTTTCAGTCTAAA 57.919 40.909 0.00 0.00 0.00 1.85
7118 10599 3.813724 AGCTCCGGTTTTTCAGTCTAAAC 59.186 43.478 0.00 0.00 34.34 2.01
7119 10600 3.363673 GCTCCGGTTTTTCAGTCTAAACG 60.364 47.826 0.00 0.00 35.59 3.60
7121 10602 3.556775 TCCGGTTTTTCAGTCTAAACGTG 59.443 43.478 0.00 0.00 35.59 4.49
7170 10660 2.360483 TGACGCCACACATCATTTTGTT 59.640 40.909 0.00 0.00 0.00 2.83
7409 10899 1.821332 GAAGCTCCCCAAGGATGCG 60.821 63.158 0.00 0.00 42.93 4.73
7518 11009 1.640149 TGAAAATCTCCCATCCCTGCA 59.360 47.619 0.00 0.00 0.00 4.41
7803 11296 2.401766 CGCGGGCATGAAGCTCTTT 61.402 57.895 0.00 0.00 43.47 2.52
7836 11335 3.494398 GGTTGTGTGACTAGCAAGGAAGA 60.494 47.826 0.00 0.00 0.00 2.87
7857 11366 5.892568 AGAGGTACATCAAACGATGAGTAC 58.107 41.667 10.58 16.86 42.54 2.73
7904 11417 1.069513 TGTATGTAGTACATGGGCGCC 59.930 52.381 21.18 21.18 39.53 6.53
7928 11441 5.975344 CGTAAGGGAAAACTTTTCTGAAACC 59.025 40.000 12.88 6.36 32.02 3.27
8017 11531 0.682209 CCCAGGGATTGCCAGTGAAG 60.682 60.000 0.00 0.00 35.15 3.02
8018 11532 0.329261 CCAGGGATTGCCAGTGAAGA 59.671 55.000 0.00 0.00 35.15 2.87
8051 11573 5.222130 GGATAGGGAGGAATCAAAGGCAATA 60.222 44.000 0.00 0.00 0.00 1.90
8061 11583 8.636213 AGGAATCAAAGGCAATATGAATAAGTG 58.364 33.333 0.00 0.00 0.00 3.16
8066 11588 6.382869 AAGGCAATATGAATAAGTGTCAGC 57.617 37.500 0.00 0.00 0.00 4.26
8262 11818 3.740832 TGTTGCTACAGTTCTTCATGTCG 59.259 43.478 0.00 0.00 0.00 4.35
8318 11874 0.881118 TGAAATTCGGCCTGAACAGC 59.119 50.000 11.39 5.56 40.00 4.40
8490 12263 1.030457 ACCTCGTTCGTGTCTCTTGT 58.970 50.000 0.00 0.00 0.00 3.16
8513 12286 2.554344 GCACTGGTTGAATTCTACCCCA 60.554 50.000 28.74 15.21 40.33 4.96
8613 12393 7.010160 TGAAATGAAAGGAAATCAAGGTACCT 58.990 34.615 9.21 9.21 0.00 3.08
8614 12394 7.508977 TGAAATGAAAGGAAATCAAGGTACCTT 59.491 33.333 21.96 21.96 41.83 3.50
8637 12417 4.787135 TTTCCCCCTGAAAAAGCAATTT 57.213 36.364 0.00 0.00 39.98 1.82
8655 12435 5.163893 GCAATTTTCTTGCAGATCCACATTG 60.164 40.000 5.13 0.00 44.34 2.82
8661 12441 2.516906 TGCAGATCCACATTGCAAGAA 58.483 42.857 4.94 0.00 44.13 2.52
8667 12447 6.338146 CAGATCCACATTGCAAGAAATCAAT 58.662 36.000 4.94 0.00 33.56 2.57
8675 12455 8.767085 CACATTGCAAGAAATCAATTTACAACT 58.233 29.630 4.94 0.00 31.15 3.16
8709 12489 9.965824 GGGTAATATCAATTTACAACTGAATGG 57.034 33.333 0.00 0.00 32.38 3.16
8726 12506 2.033194 GGCAAGCCCGACACACTAC 61.033 63.158 0.00 0.00 0.00 2.73
8728 12508 1.287815 CAAGCCCGACACACTACGA 59.712 57.895 0.00 0.00 0.00 3.43
8753 12533 4.381411 AGTCTTCTTTTCTACACTGCCAC 58.619 43.478 0.00 0.00 0.00 5.01
8773 12553 4.700213 CCACCACTCAATAGAACGGAATTT 59.300 41.667 0.00 0.00 0.00 1.82
8810 12794 0.813184 CACCATCGGCTGCAAAATCT 59.187 50.000 0.50 0.00 0.00 2.40
8860 12848 3.848272 ATGTACCATTTGGCTTCAACG 57.152 42.857 0.00 0.00 39.32 4.10
8876 12864 1.069227 CAACGCGGGAAAAGAAAGAGG 60.069 52.381 12.47 0.00 0.00 3.69
8880 12868 1.079503 CGGGAAAAGAAAGAGGAGCG 58.920 55.000 0.00 0.00 0.00 5.03
8906 12894 5.248870 ACTGTGTCAAAAACCAAGATCAC 57.751 39.130 0.00 0.00 0.00 3.06
8996 12988 2.031120 CCAACAAGAGCAAAGGGTCAA 58.969 47.619 0.00 0.00 43.97 3.18
9065 13057 6.071728 CCAAAAATCACTAGCTCCATGACTTT 60.072 38.462 0.00 0.00 0.00 2.66
9069 13061 2.676839 CACTAGCTCCATGACTTTGCTG 59.323 50.000 0.00 0.00 35.47 4.41
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
71 73 1.075979 CGTCAATGCCGTCATCGTCA 61.076 55.000 0.00 0.00 35.01 4.35
285 288 2.671619 CGGCCATCCAACCGTGTT 60.672 61.111 2.24 0.00 44.46 3.32
318 321 0.386113 GATGGAGACCAGTCTACGGC 59.614 60.000 5.57 0.00 43.55 5.68
535 543 1.220206 CGAGCAGACAAGGGCATCT 59.780 57.895 0.00 0.00 0.00 2.90
759 800 2.962142 TTTGGGTGGCGCCGTAACTT 62.962 55.000 23.90 0.00 38.44 2.66
762 803 2.979120 GTTTGGGTGGCGCCGTAA 60.979 61.111 23.90 11.14 38.44 3.18
771 822 3.977244 GTGCCTGGCGTTTGGGTG 61.977 66.667 14.98 0.00 0.00 4.61
893 944 7.641760 TGTTGTGCTACTTCATGCATAATATG 58.358 34.615 0.00 0.00 41.02 1.78
894 945 7.806409 TGTTGTGCTACTTCATGCATAATAT 57.194 32.000 0.00 0.00 41.02 1.28
895 946 7.716560 AGATGTTGTGCTACTTCATGCATAATA 59.283 33.333 0.00 0.00 41.02 0.98
896 947 6.544931 AGATGTTGTGCTACTTCATGCATAAT 59.455 34.615 0.00 0.00 41.02 1.28
897 948 5.882000 AGATGTTGTGCTACTTCATGCATAA 59.118 36.000 0.00 0.00 41.45 1.90
928 979 3.425525 CGTGTGCGATACAATCATACTCC 59.574 47.826 0.00 0.00 41.89 3.85
964 1015 0.670162 ACTACGGCGCCACGTATTAT 59.330 50.000 28.98 9.23 46.77 1.28
967 1018 2.410469 GACTACGGCGCCACGTAT 59.590 61.111 28.98 12.88 46.77 3.06
1164 1215 3.822192 CGTCAGATCCGCCGGTGA 61.822 66.667 18.79 7.52 0.00 4.02
1275 1326 4.396166 GGACTACTGCAGCATGTAAAATGT 59.604 41.667 15.27 0.00 39.31 2.71
1282 1333 3.198635 ACTTATGGACTACTGCAGCATGT 59.801 43.478 15.27 10.17 39.31 3.21
1333 1393 4.704540 ACGTGGCAATTAATTCTTGGATGA 59.295 37.500 0.00 0.00 0.00 2.92
1455 1525 3.822035 TCGAGGCCGATCTCCCCT 61.822 66.667 0.00 0.00 40.30 4.79
1600 1690 1.592400 CCTCCTTGTACCGCGACAGA 61.592 60.000 8.23 0.00 0.00 3.41
1770 1877 2.566824 GCCGGAGAAAATCAAGGCA 58.433 52.632 5.05 0.00 46.52 4.75
2578 2873 9.778993 CTTAGTAACTTGTAAGTCTATAACGCA 57.221 33.333 0.00 0.00 38.57 5.24
2596 2891 4.351131 CGTTGGAAATGCCCTTAGTAAC 57.649 45.455 0.00 0.00 34.97 2.50
2610 2911 0.535328 TTTGATGGACGGCGTTGGAA 60.535 50.000 16.19 0.00 0.00 3.53
2681 2982 1.151810 GATGGCCTCCCCCTATCCA 60.152 63.158 3.32 0.00 0.00 3.41
2798 3103 6.399743 TGTTGCATCAGAATATTTGCACAAT 58.600 32.000 11.20 0.00 44.16 2.71
2799 3104 5.780984 TGTTGCATCAGAATATTTGCACAA 58.219 33.333 11.20 1.99 44.16 3.33
2904 3209 4.828829 TCGAGGGGAGAAGTCAAAAATAC 58.171 43.478 0.00 0.00 0.00 1.89
2979 3284 3.316071 TGCATCAACAAATTCGGCATT 57.684 38.095 0.00 0.00 0.00 3.56
3013 3318 4.801330 TCTATCGAACTTCCAAAGCAGA 57.199 40.909 0.00 0.00 0.00 4.26
3014 3319 5.862924 TTTCTATCGAACTTCCAAAGCAG 57.137 39.130 0.00 0.00 0.00 4.24
3040 3362 2.706636 CGATGGATTCGGCAATGGT 58.293 52.632 0.00 0.00 44.28 3.55
3114 3443 2.664851 CGCCTGGCAAGTGTTCGA 60.665 61.111 20.29 0.00 0.00 3.71
3237 3568 2.408241 GCCGTACCTCTGTCGCTCT 61.408 63.158 0.00 0.00 0.00 4.09
3245 3576 1.258445 CCAGACCTTGCCGTACCTCT 61.258 60.000 0.00 0.00 0.00 3.69
3284 3616 3.475774 CGTACAGACGTTGCCGCC 61.476 66.667 0.00 0.00 44.31 6.13
3296 3628 2.809119 CCTTGTGGTGTATTTGCGTACA 59.191 45.455 0.00 0.00 32.43 2.90
3311 3651 4.760047 CGTCCCTCCGCCCTTGTG 62.760 72.222 0.00 0.00 0.00 3.33
3341 3681 0.838987 AAAACCCAGCTCGGACCCTA 60.839 55.000 3.62 0.00 36.56 3.53
3345 3686 0.310854 CACAAAAACCCAGCTCGGAC 59.689 55.000 3.62 0.00 36.56 4.79
3352 3693 1.067250 CGCCCACACAAAAACCCAG 59.933 57.895 0.00 0.00 0.00 4.45
3400 3744 1.384222 GGGGATGGTTTGCGGATGTC 61.384 60.000 0.00 0.00 0.00 3.06
3645 4025 7.768807 AAACAACACCATAGCCTTGTTAATA 57.231 32.000 0.00 0.00 36.13 0.98
4001 4440 7.657336 TCGCATAACTATGATATCTGTGACAA 58.343 34.615 3.98 0.00 35.75 3.18
4064 4503 3.275617 ACCCCTTTTCTTTTTGCCAAC 57.724 42.857 0.00 0.00 0.00 3.77
4153 4592 8.970691 AAATTTATTGAACATCTGAAGTTCCG 57.029 30.769 19.48 0.00 43.57 4.30
4242 4682 7.148000 TGGACACAAGAACAATTGTTTGATACA 60.148 33.333 24.02 15.76 41.41 2.29
4243 4683 7.199766 TGGACACAAGAACAATTGTTTGATAC 58.800 34.615 24.02 11.47 41.41 2.24
4305 4748 5.185056 ACATTTCTACTTGGGTGCCAAATAC 59.815 40.000 0.00 0.00 43.44 1.89
4404 4859 3.394606 ACATGATACACCAGATTACCCCC 59.605 47.826 0.00 0.00 0.00 5.40
4405 4860 4.102524 TGACATGATACACCAGATTACCCC 59.897 45.833 0.00 0.00 0.00 4.95
4406 4861 5.290493 TGACATGATACACCAGATTACCC 57.710 43.478 0.00 0.00 0.00 3.69
4491 5148 0.835941 AGAGCTTAGTGAGGGCCATG 59.164 55.000 6.18 0.00 0.00 3.66
4492 5149 0.835941 CAGAGCTTAGTGAGGGCCAT 59.164 55.000 6.18 0.00 0.00 4.40
4616 5389 9.476202 GCCACAGTTTTTGTTAAAATTATCTCT 57.524 29.630 0.00 0.00 38.16 3.10
4734 6060 7.697691 CAAGTCATTGTGTGTCCTTTATATCC 58.302 38.462 0.00 0.00 0.00 2.59
4998 6733 9.412460 TCTTGAATAAAATCAGAATAGGCACAT 57.588 29.630 0.00 0.00 0.00 3.21
5003 6741 7.857885 GCCGTTCTTGAATAAAATCAGAATAGG 59.142 37.037 0.00 0.00 0.00 2.57
5150 7081 5.756195 TTGTTTCTCACACCAGAATTGAG 57.244 39.130 0.00 0.00 38.52 3.02
5175 7634 5.987953 TCACATGCTTAGCAGATCATTCTAC 59.012 40.000 13.74 0.00 43.65 2.59
5198 7657 7.231607 GTGCAATGTGACATTTTGAAATGATC 58.768 34.615 20.04 14.19 46.72 2.92
5205 7665 3.131755 TGTGGTGCAATGTGACATTTTGA 59.868 39.130 8.30 0.00 0.00 2.69
5303 7764 6.239345 CCCTCTGTAAAGGAATATAAGAGCGT 60.239 42.308 0.00 0.00 38.87 5.07
5347 7808 1.695989 CCCTACCCCTATGAGCACCTT 60.696 57.143 0.00 0.00 0.00 3.50
5376 7837 1.341482 ACCCCAATGAACACACACACA 60.341 47.619 0.00 0.00 0.00 3.72
5453 7934 2.040178 CGGACTAACCAGAGGCCTATT 58.960 52.381 4.42 0.04 43.31 1.73
5454 7935 1.705873 CGGACTAACCAGAGGCCTAT 58.294 55.000 4.42 0.00 43.31 2.57
5818 9079 0.661020 ACTTCTTTTTGCACGGGTCG 59.339 50.000 0.00 0.00 0.00 4.79
5824 9085 4.241681 TGGTGTTTGACTTCTTTTTGCAC 58.758 39.130 0.00 0.00 0.00 4.57
5877 9138 3.857010 GCGAAACAGGTTAGCAATGCTTT 60.857 43.478 14.85 0.00 40.44 3.51
5985 9297 6.553953 TGCTCCTGGATGTACAGTAAATTA 57.446 37.500 0.33 0.00 36.75 1.40
6016 9328 1.314730 GTTTCCGTTTTGGCTCTGGA 58.685 50.000 0.00 0.00 37.80 3.86
6018 9330 0.313987 GGGTTTCCGTTTTGGCTCTG 59.686 55.000 0.00 0.00 37.80 3.35
6039 9351 2.932130 GATGAGCCCAGGAGCCGAAC 62.932 65.000 0.00 0.00 0.00 3.95
6145 9465 2.493278 GCTGGCTCATACAAACCACATT 59.507 45.455 0.00 0.00 0.00 2.71
6318 9644 6.698008 TGAGACTTCAAGAATTTGCAAAGA 57.302 33.333 18.19 6.01 34.21 2.52
6482 9927 9.953825 GTTGAGTTTCATTAATACAAGTCGTAG 57.046 33.333 8.22 0.00 32.28 3.51
6616 10063 9.979578 CAGAGACTATATAAGCATTCTTTCACT 57.020 33.333 0.00 0.00 33.85 3.41
6758 10206 0.108041 TATCGGTCCGAAAACCCAGC 60.108 55.000 19.76 0.00 39.99 4.85
6827 10302 9.103861 AGAAATATACTTCTAAAAGAGCACTGC 57.896 33.333 0.00 0.00 33.81 4.40
6859 10334 7.423776 TCTCCATGAGAATCTGCTATGCAGTA 61.424 42.308 17.48 6.77 44.82 2.74
6919 10395 6.830873 AATCTTCTGGAAAATGTCTCAAGG 57.169 37.500 0.00 0.00 0.00 3.61
6964 10440 6.263617 ACCGTTGGATACTTAACAAACAACAT 59.736 34.615 0.00 0.00 37.24 2.71
6987 10463 1.341209 CTTTCAGAACCCAAAGGCACC 59.659 52.381 0.00 0.00 36.11 5.01
7006 10482 4.122776 CACAGAAACTACACAGAAGCACT 58.877 43.478 0.00 0.00 0.00 4.40
7083 10564 1.801178 CCGGAGCTTCTTCAGAAACAC 59.199 52.381 0.00 0.00 33.07 3.32
7087 10568 2.930826 AAACCGGAGCTTCTTCAGAA 57.069 45.000 9.46 0.00 0.00 3.02
7092 10573 2.879026 GACTGAAAAACCGGAGCTTCTT 59.121 45.455 9.46 0.00 0.00 2.52
7095 10576 2.640316 AGACTGAAAAACCGGAGCTT 57.360 45.000 9.46 0.00 0.00 3.74
7097 10578 3.363673 CGTTTAGACTGAAAAACCGGAGC 60.364 47.826 9.46 0.00 33.05 4.70
7101 10582 3.001939 AGCACGTTTAGACTGAAAAACCG 59.998 43.478 0.00 0.00 33.05 4.44
7102 10583 4.201881 ACAGCACGTTTAGACTGAAAAACC 60.202 41.667 0.00 0.00 33.05 3.27
7103 10584 4.905269 ACAGCACGTTTAGACTGAAAAAC 58.095 39.130 0.00 0.00 33.77 2.43
7104 10585 6.854496 ATACAGCACGTTTAGACTGAAAAA 57.146 33.333 0.00 0.00 33.77 1.94
7105 10586 6.854496 AATACAGCACGTTTAGACTGAAAA 57.146 33.333 0.00 0.00 33.77 2.29
7106 10587 7.115805 CAGTAATACAGCACGTTTAGACTGAAA 59.884 37.037 0.00 0.00 33.77 2.69
7107 10588 6.584942 CAGTAATACAGCACGTTTAGACTGAA 59.415 38.462 0.00 0.00 33.77 3.02
7110 10591 4.863131 GCAGTAATACAGCACGTTTAGACT 59.137 41.667 2.83 0.00 30.40 3.24
7111 10592 4.032558 GGCAGTAATACAGCACGTTTAGAC 59.967 45.833 9.90 0.00 31.72 2.59
7112 10593 4.178540 GGCAGTAATACAGCACGTTTAGA 58.821 43.478 9.90 0.00 31.72 2.10
7113 10594 3.930229 TGGCAGTAATACAGCACGTTTAG 59.070 43.478 9.90 0.00 31.72 1.85
7114 10595 3.927854 TGGCAGTAATACAGCACGTTTA 58.072 40.909 9.90 0.00 31.72 2.01
7115 10596 2.773487 TGGCAGTAATACAGCACGTTT 58.227 42.857 9.90 0.00 31.72 3.60
7116 10597 2.465860 TGGCAGTAATACAGCACGTT 57.534 45.000 9.90 0.00 31.72 3.99
7117 10598 2.279741 CATGGCAGTAATACAGCACGT 58.720 47.619 9.90 0.00 31.72 4.49
7118 10599 1.003545 GCATGGCAGTAATACAGCACG 60.004 52.381 9.90 0.00 31.72 5.34
7119 10600 2.016318 TGCATGGCAGTAATACAGCAC 58.984 47.619 9.90 0.64 31.72 4.40
7121 10602 2.223572 GGTTGCATGGCAGTAATACAGC 60.224 50.000 0.00 0.00 40.61 4.40
7170 10660 6.610830 ACACCCCAAATCAGATATGCATTTAA 59.389 34.615 3.54 0.00 0.00 1.52
7180 10670 2.278245 TGGAGACACCCCAAATCAGAT 58.722 47.619 0.00 0.00 38.00 2.90
7243 10733 2.923035 CACCGGTGTCCCCTGAGT 60.923 66.667 26.95 0.00 0.00 3.41
7409 10899 4.742201 TCCACGAGAGCAAGCCGC 62.742 66.667 0.00 0.00 42.91 6.53
7803 11296 3.191836 CACAACCACCGTGTGCAA 58.808 55.556 0.00 0.00 39.93 4.08
7857 11366 5.881923 AATTGAGAAAATGATCATGGGGG 57.118 39.130 9.46 0.00 0.00 5.40
7904 11417 5.975344 GGTTTCAGAAAAGTTTTCCCTTACG 59.025 40.000 21.92 6.86 0.00 3.18
8017 11531 3.309296 TCCTCCCTATCCAGTGTGATTC 58.691 50.000 0.29 0.00 0.00 2.52
8018 11532 3.421394 TCCTCCCTATCCAGTGTGATT 57.579 47.619 0.29 0.00 0.00 2.57
8094 11617 7.792374 AAGACAGCGACATATGATTTATGTT 57.208 32.000 10.38 0.00 38.18 2.71
8145 11668 6.327365 ACAGGAACCCAATCTCTTCAATTTTT 59.673 34.615 0.00 0.00 0.00 1.94
8146 11669 5.840693 ACAGGAACCCAATCTCTTCAATTTT 59.159 36.000 0.00 0.00 0.00 1.82
8147 11670 5.244626 CACAGGAACCCAATCTCTTCAATTT 59.755 40.000 0.00 0.00 0.00 1.82
8149 11672 4.338879 CACAGGAACCCAATCTCTTCAAT 58.661 43.478 0.00 0.00 0.00 2.57
8150 11673 3.498481 CCACAGGAACCCAATCTCTTCAA 60.498 47.826 0.00 0.00 0.00 2.69
8151 11674 2.040278 CCACAGGAACCCAATCTCTTCA 59.960 50.000 0.00 0.00 0.00 3.02
8262 11818 6.438763 CCAAATTTAGTTCCGGCTAATGATC 58.561 40.000 0.00 0.00 31.83 2.92
8318 11874 3.369576 GGGCTCTAAACTGGGTACTTCTG 60.370 52.174 0.00 0.00 0.00 3.02
8369 11925 1.135721 GTTGAAGCCATGATGCCTTCC 59.864 52.381 12.87 0.00 0.00 3.46
8490 12263 2.554344 GGGTAGAATTCAACCAGTGCCA 60.554 50.000 8.44 0.00 37.51 4.92
8644 12424 5.988310 TTGATTTCTTGCAATGTGGATCT 57.012 34.783 0.00 0.00 0.00 2.75
8681 12461 8.528044 TTCAGTTGTAAATTGATATTACCCCC 57.472 34.615 0.00 0.00 42.34 5.40
8682 12462 9.965824 CATTCAGTTGTAAATTGATATTACCCC 57.034 33.333 0.00 0.00 42.34 4.95
8691 12471 5.229423 GCTTGCCATTCAGTTGTAAATTGA 58.771 37.500 0.00 0.00 41.04 2.57
8709 12489 2.380410 CGTAGTGTGTCGGGCTTGC 61.380 63.158 0.00 0.00 0.00 4.01
8750 12530 3.328382 TTCCGTTCTATTGAGTGGTGG 57.672 47.619 0.00 0.00 0.00 4.61
8753 12533 6.489675 CATCAAATTCCGTTCTATTGAGTGG 58.510 40.000 0.00 0.00 33.91 4.00
8773 12553 2.265739 GAGTGGTGGAGCGCATCA 59.734 61.111 11.47 4.01 0.00 3.07
8810 12794 1.713647 TCCCCAGCCAACCTAAAATCA 59.286 47.619 0.00 0.00 0.00 2.57
8860 12848 0.805614 GCTCCTCTTTCTTTTCCCGC 59.194 55.000 0.00 0.00 0.00 6.13
8876 12864 3.098636 GTTTTTGACACAGTTGACGCTC 58.901 45.455 0.00 0.00 0.00 5.03
8880 12868 5.054390 TCTTGGTTTTTGACACAGTTGAC 57.946 39.130 0.00 0.00 0.00 3.18
8906 12894 3.252215 TGGTGTTTTTCTGGCGTCATTAG 59.748 43.478 0.00 0.00 0.00 1.73
8967 12959 0.531974 GCTCTTGTTGGTGACGGTGA 60.532 55.000 0.00 0.00 0.00 4.02
8972 12964 1.338020 CCCTTTGCTCTTGTTGGTGAC 59.662 52.381 0.00 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.