Multiple sequence alignment - TraesCS7B01G310300

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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 TraesCS7B01G310300 chr7B 100.000 6703 0 0 1 6703 554777233 554783935 0.000000e+00 12379.0
1 TraesCS7B01G310300 chr7B 88.989 5340 386 71 545 5771 554359512 554364762 0.000000e+00 6418.0
2 TraesCS7B01G310300 chr7B 89.593 2873 209 41 1202 4037 555216914 555219733 0.000000e+00 3567.0
3 TraesCS7B01G310300 chr7B 90.684 2136 124 22 755 2833 555417192 555419309 0.000000e+00 2772.0
4 TraesCS7B01G310300 chr7B 87.407 1350 134 14 3931 5255 555419333 555420671 0.000000e+00 1519.0
5 TraesCS7B01G310300 chr7B 84.375 1152 116 18 4147 5255 555219730 555220860 0.000000e+00 1072.0
6 TraesCS7B01G310300 chr7B 88.824 680 41 14 96 741 555416386 555417064 0.000000e+00 802.0
7 TraesCS7B01G310300 chr7B 87.842 584 33 16 545 1112 555216355 555216916 0.000000e+00 651.0
8 TraesCS7B01G310300 chr7B 91.429 455 32 5 96 546 595527396 595526945 9.550000e-173 617.0
9 TraesCS7B01G310300 chr7B 86.183 427 42 6 5341 5757 555420880 555421299 4.770000e-121 446.0
10 TraesCS7B01G310300 chr7B 82.338 385 59 9 6208 6586 555421690 555422071 6.480000e-85 326.0
11 TraesCS7B01G310300 chr7B 96.939 98 3 0 1 98 743706814 743706717 1.500000e-36 165.0
12 TraesCS7B01G310300 chr7B 86.207 116 8 3 5797 5911 554364847 554364955 1.180000e-22 119.0
13 TraesCS7B01G310300 chr7D 95.379 6102 154 28 275 6291 520943938 520949996 0.000000e+00 9588.0
14 TraesCS7B01G310300 chr7D 89.027 4101 309 53 1775 5801 520877092 520881125 0.000000e+00 4950.0
15 TraesCS7B01G310300 chr7D 92.404 1672 90 15 1186 2833 521708139 521709797 0.000000e+00 2350.0
16 TraesCS7B01G310300 chr7D 90.692 1633 101 16 1202 2800 521571550 521573165 0.000000e+00 2126.0
17 TraesCS7B01G310300 chr7D 90.741 1134 53 24 96 1187 521706989 521708112 0.000000e+00 1465.0
18 TraesCS7B01G310300 chr7D 86.751 1336 119 22 3945 5255 521709799 521711101 0.000000e+00 1434.0
19 TraesCS7B01G310300 chr7D 87.568 1279 95 22 2796 4037 521576050 521577301 0.000000e+00 1423.0
20 TraesCS7B01G310300 chr7D 84.878 1144 118 15 4147 5255 521577298 521578421 0.000000e+00 1103.0
21 TraesCS7B01G310300 chr7D 81.056 1383 187 30 4435 5795 521593702 521595031 0.000000e+00 1033.0
22 TraesCS7B01G310300 chr7D 92.769 650 26 7 546 1181 520875747 520876389 0.000000e+00 920.0
23 TraesCS7B01G310300 chr7D 89.003 582 30 14 545 1112 521570991 521571552 0.000000e+00 689.0
24 TraesCS7B01G310300 chr7D 83.121 628 63 21 5126 5743 521711014 521711608 3.560000e-147 532.0
25 TraesCS7B01G310300 chr7D 80.579 587 89 14 6012 6585 521524893 521525467 4.800000e-116 429.0
26 TraesCS7B01G310300 chr7D 93.310 284 16 2 96 376 520875335 520875618 3.740000e-112 416.0
27 TraesCS7B01G310300 chr7D 84.774 243 32 5 6346 6586 521711952 521712191 8.690000e-59 239.0
28 TraesCS7B01G310300 chr7D 97.917 96 1 1 1 96 611166622 611166528 1.500000e-36 165.0
29 TraesCS7B01G310300 chr7A 95.941 4237 107 16 1556 5771 600552789 600556981 0.000000e+00 6811.0
30 TraesCS7B01G310300 chr7A 88.470 4692 368 64 1185 5795 599500168 599504767 0.000000e+00 5507.0
31 TraesCS7B01G310300 chr7A 88.478 4678 367 69 1185 5771 598950439 598955035 0.000000e+00 5494.0
32 TraesCS7B01G310300 chr7A 89.359 2885 206 44 1202 4037 601466781 601469613 0.000000e+00 3533.0
33 TraesCS7B01G310300 chr7A 92.220 1671 96 14 1186 2833 602021009 602022668 0.000000e+00 2335.0
34 TraesCS7B01G310300 chr7A 93.771 1509 38 14 96 1572 600550494 600551978 0.000000e+00 2215.0
35 TraesCS7B01G310300 chr7A 84.241 1929 197 52 3931 5801 602022692 602024571 0.000000e+00 1779.0
36 TraesCS7B01G310300 chr7A 84.682 1149 117 21 4147 5259 601469610 601470735 0.000000e+00 1092.0
37 TraesCS7B01G310300 chr7A 93.881 621 26 5 567 1181 599499511 599500125 0.000000e+00 926.0
38 TraesCS7B01G310300 chr7A 92.473 651 29 6 545 1181 598949752 598950396 0.000000e+00 913.0
39 TraesCS7B01G310300 chr7A 92.215 578 31 6 614 1187 602020415 602020982 0.000000e+00 806.0
40 TraesCS7B01G310300 chr7A 89.175 582 29 13 545 1112 601466222 601466783 0.000000e+00 695.0
41 TraesCS7B01G310300 chr7A 93.598 453 26 2 96 546 602019817 602020268 0.000000e+00 673.0
42 TraesCS7B01G310300 chr7A 81.544 596 90 17 6002 6582 601478565 601479155 2.190000e-129 473.0
43 TraesCS7B01G310300 chr7A 91.570 344 18 5 6030 6365 600557512 600557852 1.320000e-126 464.0
44 TraesCS7B01G310300 chr7A 81.058 586 85 15 6012 6585 600640745 600641316 1.720000e-120 444.0
45 TraesCS7B01G310300 chr7A 93.972 282 15 2 96 376 598949344 598949624 6.210000e-115 425.0
46 TraesCS7B01G310300 chr7A 93.617 282 16 2 96 376 601465582 601465862 2.890000e-113 420.0
47 TraesCS7B01G310300 chr7A 93.262 282 17 2 96 376 599499073 599499353 1.340000e-111 414.0
48 TraesCS7B01G310300 chr6D 98.980 98 0 1 1 98 447916651 447916555 2.480000e-39 174.0
49 TraesCS7B01G310300 chr3B 98.958 96 1 0 1 96 395853532 395853627 8.940000e-39 172.0
50 TraesCS7B01G310300 chr1B 93.578 109 7 0 6595 6703 205432046 205431938 5.380000e-36 163.0
51 TraesCS7B01G310300 chr6A 93.878 98 6 0 1 98 149954854 149954757 1.510000e-31 148.0
52 TraesCS7B01G310300 chr4B 93.750 96 6 0 1 96 32498824 32498729 1.950000e-30 145.0
53 TraesCS7B01G310300 chr4A 90.909 44 3 1 6475 6517 618858180 618858137 2.610000e-04 58.4


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 TraesCS7B01G310300 chr7B 554777233 554783935 6702 False 12379.000000 12379 100.000000 1 6703 1 chr7B.!!$F1 6702
1 TraesCS7B01G310300 chr7B 554359512 554364955 5443 False 3268.500000 6418 87.598000 545 5911 2 chr7B.!!$F2 5366
2 TraesCS7B01G310300 chr7B 555216355 555220860 4505 False 1763.333333 3567 87.270000 545 5255 3 chr7B.!!$F3 4710
3 TraesCS7B01G310300 chr7B 555416386 555422071 5685 False 1173.000000 2772 87.087200 96 6586 5 chr7B.!!$F4 6490
4 TraesCS7B01G310300 chr7D 520943938 520949996 6058 False 9588.000000 9588 95.379000 275 6291 1 chr7D.!!$F1 6016
5 TraesCS7B01G310300 chr7D 520875335 520881125 5790 False 2095.333333 4950 91.702000 96 5801 3 chr7D.!!$F4 5705
6 TraesCS7B01G310300 chr7D 521570991 521578421 7430 False 1335.250000 2126 88.035250 545 5255 4 chr7D.!!$F5 4710
7 TraesCS7B01G310300 chr7D 521706989 521712191 5202 False 1204.000000 2350 87.558200 96 6586 5 chr7D.!!$F6 6490
8 TraesCS7B01G310300 chr7D 521593702 521595031 1329 False 1033.000000 1033 81.056000 4435 5795 1 chr7D.!!$F3 1360
9 TraesCS7B01G310300 chr7D 521524893 521525467 574 False 429.000000 429 80.579000 6012 6585 1 chr7D.!!$F2 573
10 TraesCS7B01G310300 chr7A 600550494 600557852 7358 False 3163.333333 6811 93.760667 96 6365 3 chr7A.!!$F5 6269
11 TraesCS7B01G310300 chr7A 599499073 599504767 5694 False 2282.333333 5507 91.871000 96 5795 3 chr7A.!!$F4 5699
12 TraesCS7B01G310300 chr7A 598949344 598955035 5691 False 2277.333333 5494 91.641000 96 5771 3 chr7A.!!$F3 5675
13 TraesCS7B01G310300 chr7A 601465582 601470735 5153 False 1435.000000 3533 89.208250 96 5259 4 chr7A.!!$F6 5163
14 TraesCS7B01G310300 chr7A 602019817 602024571 4754 False 1398.250000 2335 90.568500 96 5801 4 chr7A.!!$F7 5705
15 TraesCS7B01G310300 chr7A 601478565 601479155 590 False 473.000000 473 81.544000 6002 6582 1 chr7A.!!$F2 580
16 TraesCS7B01G310300 chr7A 600640745 600641316 571 False 444.000000 444 81.058000 6012 6585 1 chr7A.!!$F1 573

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
28 29 0.248289 GCGGACCACACTTTAGCCTA 59.752 55.0 0.00 0.00 0.00 3.93 F
1272 1877 0.107993 ACACAGGCACATCTGATCGG 60.108 55.0 0.00 0.00 38.11 4.18 F
1521 2143 2.422479 CTCATGATGTGAAGCTTGGTGG 59.578 50.0 2.10 0.00 36.14 4.61 F
3323 7828 0.320946 TGGCACGTTAAGTACCAGCC 60.321 55.0 1.11 1.11 41.23 4.85 F
3833 8390 0.682852 ACACAGTTACGGGCAAGCTA 59.317 50.0 0.00 0.00 0.00 3.32 F
5579 10367 0.391661 ACAACGCACCCATAGCTGAG 60.392 55.0 0.00 0.00 0.00 3.35 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1901 3450 4.095410 TGCATGTACTATTGCAACAAGC 57.905 40.909 0.00 4.89 45.30 4.01 R
2234 3804 0.936297 GCTGCAGCCAAGAAACAACG 60.936 55.000 28.76 0.00 34.31 4.10 R
3349 7854 2.111162 CGAGCCAGATTCGGAGACT 58.889 57.895 0.00 0.00 34.32 3.24 R
5315 10009 1.476845 TACCGTCAAGCAGGGCTTCA 61.477 55.000 0.00 0.00 46.77 3.02 R
5634 10422 1.006571 AGAACACGTTGTCGGCGAT 60.007 52.632 14.79 0.00 41.85 4.58 R
6608 11799 3.452990 TGACCTCAACTTTAGTGACCACA 59.547 43.478 2.78 0.00 0.00 4.17 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
22 23 2.030562 CGGAGCGGACCACACTTT 59.969 61.111 0.00 0.00 0.00 2.66
23 24 1.290955 CGGAGCGGACCACACTTTA 59.709 57.895 0.00 0.00 0.00 1.85
24 25 0.736325 CGGAGCGGACCACACTTTAG 60.736 60.000 0.00 0.00 0.00 1.85
25 26 1.019805 GGAGCGGACCACACTTTAGC 61.020 60.000 0.00 0.00 0.00 3.09
26 27 1.003718 AGCGGACCACACTTTAGCC 60.004 57.895 0.00 0.00 0.00 3.93
27 28 1.003718 GCGGACCACACTTTAGCCT 60.004 57.895 0.00 0.00 0.00 4.58
28 29 0.248289 GCGGACCACACTTTAGCCTA 59.752 55.000 0.00 0.00 0.00 3.93
29 30 1.338389 GCGGACCACACTTTAGCCTAA 60.338 52.381 0.00 0.00 0.00 2.69
30 31 2.679930 GCGGACCACACTTTAGCCTAAT 60.680 50.000 0.00 0.00 0.00 1.73
31 32 3.606687 CGGACCACACTTTAGCCTAATT 58.393 45.455 0.00 0.00 0.00 1.40
32 33 4.007659 CGGACCACACTTTAGCCTAATTT 58.992 43.478 0.00 0.00 0.00 1.82
33 34 4.142687 CGGACCACACTTTAGCCTAATTTG 60.143 45.833 0.00 0.00 0.00 2.32
34 35 4.380550 GGACCACACTTTAGCCTAATTTGC 60.381 45.833 0.00 0.00 0.00 3.68
35 36 3.509967 ACCACACTTTAGCCTAATTTGCC 59.490 43.478 0.00 0.00 0.00 4.52
36 37 3.427503 CCACACTTTAGCCTAATTTGCCG 60.428 47.826 0.00 0.00 0.00 5.69
37 38 2.752903 ACACTTTAGCCTAATTTGCCGG 59.247 45.455 0.00 0.00 0.00 6.13
38 39 3.013921 CACTTTAGCCTAATTTGCCGGA 58.986 45.455 5.05 0.00 0.00 5.14
39 40 3.065371 CACTTTAGCCTAATTTGCCGGAG 59.935 47.826 5.05 0.00 0.00 4.63
40 41 1.675552 TTAGCCTAATTTGCCGGAGC 58.324 50.000 5.05 0.00 40.48 4.70
41 42 0.837272 TAGCCTAATTTGCCGGAGCT 59.163 50.000 5.05 1.62 40.80 4.09
42 43 0.749454 AGCCTAATTTGCCGGAGCTG 60.749 55.000 5.05 0.00 40.80 4.24
43 44 1.729881 CCTAATTTGCCGGAGCTGC 59.270 57.895 5.05 0.00 40.80 5.25
44 45 1.728490 CCTAATTTGCCGGAGCTGCC 61.728 60.000 5.05 0.00 40.80 4.85
45 46 1.001517 TAATTTGCCGGAGCTGCCA 60.002 52.632 5.05 0.00 40.80 4.92
46 47 0.610509 TAATTTGCCGGAGCTGCCAA 60.611 50.000 5.05 0.00 40.80 4.52
47 48 1.470996 AATTTGCCGGAGCTGCCAAA 61.471 50.000 5.05 11.00 40.80 3.28
48 49 1.470996 ATTTGCCGGAGCTGCCAAAA 61.471 50.000 5.05 5.63 40.80 2.44
49 50 2.362329 TTTGCCGGAGCTGCCAAAAC 62.362 55.000 5.05 0.00 40.80 2.43
50 51 4.056125 GCCGGAGCTGCCAAAACC 62.056 66.667 5.05 0.00 35.94 3.27
51 52 3.373565 CCGGAGCTGCCAAAACCC 61.374 66.667 0.00 0.00 35.94 4.11
52 53 2.597217 CGGAGCTGCCAAAACCCA 60.597 61.111 0.00 0.00 35.94 4.51
53 54 2.629656 CGGAGCTGCCAAAACCCAG 61.630 63.158 0.00 0.00 35.94 4.45
57 58 3.369921 CTGCCAAAACCCAGCTCC 58.630 61.111 0.00 0.00 0.00 4.70
58 59 2.203625 TGCCAAAACCCAGCTCCC 60.204 61.111 0.00 0.00 0.00 4.30
59 60 2.997315 GCCAAAACCCAGCTCCCC 60.997 66.667 0.00 0.00 0.00 4.81
60 61 2.283894 CCAAAACCCAGCTCCCCC 60.284 66.667 0.00 0.00 0.00 5.40
61 62 2.525592 CAAAACCCAGCTCCCCCA 59.474 61.111 0.00 0.00 0.00 4.96
62 63 1.152355 CAAAACCCAGCTCCCCCAA 60.152 57.895 0.00 0.00 0.00 4.12
63 64 1.152333 AAAACCCAGCTCCCCCAAC 60.152 57.895 0.00 0.00 0.00 3.77
64 65 1.664956 AAAACCCAGCTCCCCCAACT 61.665 55.000 0.00 0.00 0.00 3.16
65 66 2.081585 AAACCCAGCTCCCCCAACTC 62.082 60.000 0.00 0.00 0.00 3.01
66 67 3.732849 CCCAGCTCCCCCAACTCC 61.733 72.222 0.00 0.00 0.00 3.85
67 68 4.101448 CCAGCTCCCCCAACTCCG 62.101 72.222 0.00 0.00 0.00 4.63
68 69 4.785453 CAGCTCCCCCAACTCCGC 62.785 72.222 0.00 0.00 0.00 5.54
83 84 2.434359 CGCGGAGTGGGGAAGTTC 60.434 66.667 0.00 0.00 0.00 3.01
84 85 2.046217 GCGGAGTGGGGAAGTTCC 60.046 66.667 13.99 13.99 35.23 3.62
85 86 2.264794 CGGAGTGGGGAAGTTCCG 59.735 66.667 15.80 0.00 45.45 4.30
86 87 3.801620 GGAGTGGGGAAGTTCCGA 58.198 61.111 15.80 1.92 37.43 4.55
87 88 2.063774 GGAGTGGGGAAGTTCCGAA 58.936 57.895 15.80 3.44 37.43 4.30
88 89 0.321387 GGAGTGGGGAAGTTCCGAAC 60.321 60.000 15.80 15.20 37.43 3.95
89 90 0.395312 GAGTGGGGAAGTTCCGAACA 59.605 55.000 21.35 15.25 37.43 3.18
90 91 0.396811 AGTGGGGAAGTTCCGAACAG 59.603 55.000 21.35 0.00 37.43 3.16
91 92 0.605589 GTGGGGAAGTTCCGAACAGG 60.606 60.000 15.80 0.00 37.43 4.00
92 93 1.002502 GGGGAAGTTCCGAACAGGG 60.003 63.158 15.80 0.00 41.52 4.45
93 94 1.674651 GGGAAGTTCCGAACAGGGC 60.675 63.158 15.80 0.00 41.52 5.19
94 95 1.674651 GGAAGTTCCGAACAGGGCC 60.675 63.158 13.69 0.00 41.52 5.80
103 104 1.187087 CGAACAGGGCCTTACTCTCT 58.813 55.000 1.32 0.00 0.00 3.10
373 542 6.092259 GTCCTATATGCGCCTTAGGTAAATTG 59.908 42.308 20.39 0.00 35.13 2.32
448 621 6.822667 TGCATCTGTTCAATATGTTTGTCT 57.177 33.333 0.00 0.00 0.00 3.41
496 670 2.570415 TTCGAAATGCAGGTTGGGTA 57.430 45.000 0.00 0.00 0.00 3.69
741 1014 6.259550 AGCACAAGAGGACAAAATAATGAC 57.740 37.500 0.00 0.00 0.00 3.06
1272 1877 0.107993 ACACAGGCACATCTGATCGG 60.108 55.000 0.00 0.00 38.11 4.18
1521 2143 2.422479 CTCATGATGTGAAGCTTGGTGG 59.578 50.000 2.10 0.00 36.14 4.61
1620 3073 9.677567 GCATTTCCGTACATATATGACATTTTT 57.322 29.630 19.63 0.00 0.00 1.94
2189 3756 8.737168 AAGCATTTGTATTGAGAGCTGTATTA 57.263 30.769 0.00 0.00 0.00 0.98
2234 3804 5.930135 TCCCAAACTCATAAATCTAGGAGC 58.070 41.667 0.00 0.00 39.14 4.70
2263 3833 1.748122 GGCTGCAGCTATGTGTGCT 60.748 57.895 35.82 0.00 40.54 4.40
2729 4300 7.014615 GGGTGATGGATTTAGTTTATCTGCAAT 59.985 37.037 0.00 0.00 0.00 3.56
2767 4341 1.581934 TCAATAGGCAGCATGTACGC 58.418 50.000 0.00 0.00 39.31 4.42
2833 7304 4.157289 AGAAGCTGACAACCTATGCATTTG 59.843 41.667 3.54 6.26 0.00 2.32
2919 7392 3.372206 CCTATGCACTTTCCTGAACGAAG 59.628 47.826 0.00 0.00 0.00 3.79
2925 7404 4.672409 CACTTTCCTGAACGAAGCTTTTT 58.328 39.130 0.00 0.00 0.00 1.94
3254 7759 4.178540 TCATTACACGATTCCCGAAGTTC 58.821 43.478 0.00 0.00 41.76 3.01
3323 7828 0.320946 TGGCACGTTAAGTACCAGCC 60.321 55.000 1.11 1.11 41.23 4.85
3349 7854 0.880278 GCTGCTCGGACAAAGTCACA 60.880 55.000 0.00 0.00 33.68 3.58
3568 8113 4.207891 ACACCTACTGGAATAGCAACAG 57.792 45.455 0.00 0.00 38.19 3.16
3833 8390 0.682852 ACACAGTTACGGGCAAGCTA 59.317 50.000 0.00 0.00 0.00 3.32
3941 8498 8.581578 TGTGTCCCCTTTGTTATTTCTTTATTC 58.418 33.333 0.00 0.00 0.00 1.75
3960 8517 8.463930 TTTATTCTCCAGAAGAAACACATGTT 57.536 30.769 0.00 0.00 46.85 2.71
3990 8547 6.990341 TGTCTTATACTTGCGTCAGTACTA 57.010 37.500 0.00 0.00 31.92 1.82
3992 8549 7.819644 TGTCTTATACTTGCGTCAGTACTAAA 58.180 34.615 0.00 0.00 31.92 1.85
4373 8951 4.095782 TGTCCTTGTTGCTAGTGTTTGTTC 59.904 41.667 0.00 0.00 0.00 3.18
4479 9062 6.145534 TGCATACTCTACAAGTTTCAAGTTCG 59.854 38.462 0.00 0.00 39.55 3.95
4525 9113 3.774066 AGCGCTAAAATTTCTGCATTCC 58.226 40.909 8.99 2.26 0.00 3.01
4785 9395 0.974010 GTACCCTGGGATCGTGTGGA 60.974 60.000 22.23 0.00 0.00 4.02
4788 9398 1.676968 CCTGGGATCGTGTGGACAA 59.323 57.895 0.00 0.00 0.00 3.18
4874 9484 3.787001 GGGGAGAGTTCGGCCAGG 61.787 72.222 2.24 0.00 0.00 4.45
5119 9729 3.842923 CATCGGCCTGGAGAGCGT 61.843 66.667 0.00 0.00 0.00 5.07
5315 10009 2.122768 GATCTGATGGACCTTGGGAGT 58.877 52.381 0.00 0.00 0.00 3.85
5393 10169 1.000955 GAGCCTTTCAGTGACTCGGAA 59.999 52.381 0.00 0.00 0.00 4.30
5425 10201 3.609853 TGGAGAAATTCTGGATGAACCG 58.390 45.455 0.00 0.00 42.61 4.44
5466 10245 1.741770 CAGCAAGGCCTCGTACCAC 60.742 63.158 5.23 0.00 0.00 4.16
5579 10367 0.391661 ACAACGCACCCATAGCTGAG 60.392 55.000 0.00 0.00 0.00 3.35
5634 10422 4.351938 CGAACCAGTCCGGCGTCA 62.352 66.667 6.01 0.00 39.03 4.35
5695 10484 1.592669 GCGATGACTACGGCATGCT 60.593 57.895 18.92 0.24 0.00 3.79
5911 10814 7.718314 AGTCCGTATATGTGTGTCAGTTCTATA 59.282 37.037 0.00 0.00 0.00 1.31
5913 10816 8.727910 TCCGTATATGTGTGTCAGTTCTATATC 58.272 37.037 0.00 0.00 0.00 1.63
5966 10877 5.948842 TCTAGCCTAGGGTTTTTGTTCTTT 58.051 37.500 20.59 0.00 0.00 2.52
6023 11008 5.422012 ACAACACTTTGGTTTTCAGGATTCT 59.578 36.000 0.00 0.00 37.00 2.40
6119 11288 7.749539 AAAAGTGTAGTTTGTTTGATTTCCG 57.250 32.000 0.00 0.00 0.00 4.30
6123 11292 4.571580 TGTAGTTTGTTTGATTTCCGTCGT 59.428 37.500 0.00 0.00 0.00 4.34
6190 11360 7.983484 GCATCTATTTGGAGGAAAATGTTCATT 59.017 33.333 0.00 0.00 35.25 2.57
6370 11556 2.962421 AGGCTTTTTGGATTCAACCGAA 59.038 40.909 0.00 0.00 35.05 4.30
6449 11638 3.472283 TGTTTGATTTGCATTGCAGGT 57.528 38.095 11.76 4.53 40.61 4.00
6451 11640 3.560481 TGTTTGATTTGCATTGCAGGTTG 59.440 39.130 11.76 0.00 40.61 3.77
6464 11655 6.759827 GCATTGCAGGTTGAATTCATAGAAAT 59.240 34.615 9.40 3.54 0.00 2.17
6465 11656 7.279313 GCATTGCAGGTTGAATTCATAGAAATT 59.721 33.333 9.40 0.00 0.00 1.82
6470 11661 8.375465 GCAGGTTGAATTCATAGAAATTTTTCG 58.625 33.333 9.40 0.00 41.92 3.46
6518 11709 4.527816 TGGAGGAAAAATTTGATCCACTGG 59.472 41.667 19.90 0.00 35.62 4.00
6540 11731 4.440663 GGCACAATGCTTCTATTTCTTCCC 60.441 45.833 0.13 0.00 44.28 3.97
6557 11748 1.032657 CCCGTGGTTTTCACACACCA 61.033 55.000 0.00 0.00 46.36 4.17
6613 11804 8.836268 TTAAACGAGATAAATACACTTGTGGT 57.164 30.769 5.72 0.00 0.00 4.16
6614 11805 6.963049 AACGAGATAAATACACTTGTGGTC 57.037 37.500 5.72 0.00 0.00 4.02
6615 11806 6.032956 ACGAGATAAATACACTTGTGGTCA 57.967 37.500 5.72 0.00 0.00 4.02
6616 11807 5.867716 ACGAGATAAATACACTTGTGGTCAC 59.132 40.000 5.72 0.00 0.00 3.67
6617 11808 6.100004 CGAGATAAATACACTTGTGGTCACT 58.900 40.000 5.72 0.00 0.00 3.41
6618 11809 7.094075 ACGAGATAAATACACTTGTGGTCACTA 60.094 37.037 5.72 0.00 0.00 2.74
6619 11810 7.758076 CGAGATAAATACACTTGTGGTCACTAA 59.242 37.037 5.72 0.00 0.00 2.24
6620 11811 9.431887 GAGATAAATACACTTGTGGTCACTAAA 57.568 33.333 5.72 0.00 0.00 1.85
6621 11812 9.436957 AGATAAATACACTTGTGGTCACTAAAG 57.563 33.333 5.72 1.88 0.00 1.85
6622 11813 9.216117 GATAAATACACTTGTGGTCACTAAAGT 57.784 33.333 5.72 2.45 0.00 2.66
6623 11814 7.875327 AAATACACTTGTGGTCACTAAAGTT 57.125 32.000 5.72 0.72 0.00 2.66
6624 11815 6.861065 ATACACTTGTGGTCACTAAAGTTG 57.139 37.500 5.72 3.64 0.00 3.16
6625 11816 4.839121 ACACTTGTGGTCACTAAAGTTGA 58.161 39.130 5.72 0.00 0.00 3.18
6626 11817 4.876107 ACACTTGTGGTCACTAAAGTTGAG 59.124 41.667 5.72 0.00 0.00 3.02
6627 11818 4.273480 CACTTGTGGTCACTAAAGTTGAGG 59.727 45.833 2.66 0.00 0.00 3.86
6628 11819 4.080526 ACTTGTGGTCACTAAAGTTGAGGT 60.081 41.667 2.66 0.00 0.00 3.85
6629 11820 4.067972 TGTGGTCACTAAAGTTGAGGTC 57.932 45.455 2.66 0.00 0.00 3.85
6630 11821 3.452990 TGTGGTCACTAAAGTTGAGGTCA 59.547 43.478 2.66 0.00 0.00 4.02
6631 11822 4.080807 TGTGGTCACTAAAGTTGAGGTCAA 60.081 41.667 2.66 0.00 0.00 3.18
6632 11823 4.879545 GTGGTCACTAAAGTTGAGGTCAAA 59.120 41.667 0.00 0.00 37.63 2.69
6633 11824 5.355910 GTGGTCACTAAAGTTGAGGTCAAAA 59.644 40.000 0.00 0.00 37.63 2.44
6634 11825 5.355910 TGGTCACTAAAGTTGAGGTCAAAAC 59.644 40.000 0.00 0.00 37.63 2.43
6635 11826 5.355910 GGTCACTAAAGTTGAGGTCAAAACA 59.644 40.000 0.00 0.00 37.63 2.83
6636 11827 6.255950 GTCACTAAAGTTGAGGTCAAAACAC 58.744 40.000 0.00 0.00 37.63 3.32
6637 11828 5.941058 TCACTAAAGTTGAGGTCAAAACACA 59.059 36.000 0.00 0.00 37.63 3.72
6638 11829 6.431543 TCACTAAAGTTGAGGTCAAAACACAA 59.568 34.615 0.00 0.00 37.63 3.33
6639 11830 7.122055 TCACTAAAGTTGAGGTCAAAACACAAT 59.878 33.333 0.00 0.00 37.63 2.71
6640 11831 8.402472 CACTAAAGTTGAGGTCAAAACACAATA 58.598 33.333 0.00 0.00 37.63 1.90
6641 11832 8.403236 ACTAAAGTTGAGGTCAAAACACAATAC 58.597 33.333 0.00 0.00 37.63 1.89
6642 11833 5.418310 AGTTGAGGTCAAAACACAATACG 57.582 39.130 0.00 0.00 37.63 3.06
6643 11834 4.274950 AGTTGAGGTCAAAACACAATACGG 59.725 41.667 0.00 0.00 37.63 4.02
6644 11835 3.811083 TGAGGTCAAAACACAATACGGT 58.189 40.909 0.00 0.00 0.00 4.83
6645 11836 3.810941 TGAGGTCAAAACACAATACGGTC 59.189 43.478 0.00 0.00 0.00 4.79
6646 11837 3.810941 GAGGTCAAAACACAATACGGTCA 59.189 43.478 0.00 0.00 0.00 4.02
6647 11838 4.200874 AGGTCAAAACACAATACGGTCAA 58.799 39.130 0.00 0.00 0.00 3.18
6648 11839 4.825085 AGGTCAAAACACAATACGGTCAAT 59.175 37.500 0.00 0.00 0.00 2.57
6649 11840 4.915085 GGTCAAAACACAATACGGTCAATG 59.085 41.667 0.00 0.00 0.00 2.82
6650 11841 5.278071 GGTCAAAACACAATACGGTCAATGA 60.278 40.000 0.00 0.00 0.00 2.57
6651 11842 6.202937 GTCAAAACACAATACGGTCAATGAA 58.797 36.000 0.00 0.00 0.00 2.57
6652 11843 6.141685 GTCAAAACACAATACGGTCAATGAAC 59.858 38.462 0.00 0.00 0.00 3.18
6653 11844 6.038825 TCAAAACACAATACGGTCAATGAACT 59.961 34.615 0.00 0.00 0.00 3.01
6654 11845 6.385649 AAACACAATACGGTCAATGAACTT 57.614 33.333 0.00 0.00 0.00 2.66
6655 11846 5.607119 ACACAATACGGTCAATGAACTTC 57.393 39.130 0.00 0.00 0.00 3.01
6656 11847 5.060506 ACACAATACGGTCAATGAACTTCA 58.939 37.500 0.00 0.00 0.00 3.02
6657 11848 5.529430 ACACAATACGGTCAATGAACTTCAA 59.471 36.000 0.00 0.00 0.00 2.69
6658 11849 6.038825 ACACAATACGGTCAATGAACTTCAAA 59.961 34.615 0.00 0.00 0.00 2.69
6659 11850 6.915300 CACAATACGGTCAATGAACTTCAAAA 59.085 34.615 0.00 0.00 0.00 2.44
6660 11851 7.594758 CACAATACGGTCAATGAACTTCAAAAT 59.405 33.333 0.00 0.00 0.00 1.82
6661 11852 8.788806 ACAATACGGTCAATGAACTTCAAAATA 58.211 29.630 0.00 0.00 0.00 1.40
6662 11853 9.061610 CAATACGGTCAATGAACTTCAAAATAC 57.938 33.333 0.00 0.00 0.00 1.89
6663 11854 5.685841 ACGGTCAATGAACTTCAAAATACG 58.314 37.500 0.00 1.98 0.00 3.06
6664 11855 4.553429 CGGTCAATGAACTTCAAAATACGC 59.447 41.667 0.00 0.00 0.00 4.42
6665 11856 5.616866 CGGTCAATGAACTTCAAAATACGCT 60.617 40.000 0.00 0.00 0.00 5.07
6666 11857 6.149633 GGTCAATGAACTTCAAAATACGCTT 58.850 36.000 0.00 0.00 0.00 4.68
6667 11858 7.302524 GGTCAATGAACTTCAAAATACGCTTA 58.697 34.615 0.00 0.00 0.00 3.09
6668 11859 7.806014 GGTCAATGAACTTCAAAATACGCTTAA 59.194 33.333 0.00 0.00 0.00 1.85
6669 11860 9.341899 GTCAATGAACTTCAAAATACGCTTAAT 57.658 29.630 0.00 0.00 0.00 1.40
6672 11863 9.485591 AATGAACTTCAAAATACGCTTAATACG 57.514 29.630 0.00 0.00 0.00 3.06
6673 11864 7.457868 TGAACTTCAAAATACGCTTAATACGG 58.542 34.615 3.47 0.00 34.00 4.02
6674 11865 6.973229 ACTTCAAAATACGCTTAATACGGT 57.027 33.333 3.47 0.00 34.00 4.83
6675 11866 7.368480 ACTTCAAAATACGCTTAATACGGTT 57.632 32.000 3.47 0.00 34.00 4.44
6676 11867 8.477984 ACTTCAAAATACGCTTAATACGGTTA 57.522 30.769 3.47 0.00 34.00 2.85
6677 11868 9.101655 ACTTCAAAATACGCTTAATACGGTTAT 57.898 29.630 3.47 0.00 34.00 1.89
6678 11869 9.925268 CTTCAAAATACGCTTAATACGGTTATT 57.075 29.630 3.47 0.00 34.00 1.40
6679 11870 9.705471 TTCAAAATACGCTTAATACGGTTATTG 57.295 29.630 3.47 3.92 34.00 1.90
6680 11871 9.096160 TCAAAATACGCTTAATACGGTTATTGA 57.904 29.630 3.47 5.66 34.00 2.57
6681 11872 9.705471 CAAAATACGCTTAATACGGTTATTGAA 57.295 29.630 3.47 0.00 34.00 2.69
6685 11876 7.097342 ACGCTTAATACGGTTATTGAATACG 57.903 36.000 3.47 0.00 34.00 3.06
6686 11877 6.917477 ACGCTTAATACGGTTATTGAATACGA 59.083 34.615 2.78 0.00 34.00 3.43
6687 11878 7.113965 ACGCTTAATACGGTTATTGAATACGAG 59.886 37.037 2.78 0.00 34.00 4.18
6688 11879 7.113965 CGCTTAATACGGTTATTGAATACGAGT 59.886 37.037 2.78 0.00 0.00 4.18
6689 11880 8.758715 GCTTAATACGGTTATTGAATACGAGTT 58.241 33.333 2.78 0.91 0.00 3.01
6691 11882 9.585099 TTAATACGGTTATTGAATACGAGTTGT 57.415 29.630 2.78 0.00 0.00 3.32
6692 11883 5.773239 ACGGTTATTGAATACGAGTTGTG 57.227 39.130 2.78 0.00 0.00 3.33
6693 11884 5.472148 ACGGTTATTGAATACGAGTTGTGA 58.528 37.500 2.78 0.00 0.00 3.58
6694 11885 6.103997 ACGGTTATTGAATACGAGTTGTGAT 58.896 36.000 2.78 0.00 0.00 3.06
6695 11886 6.035650 ACGGTTATTGAATACGAGTTGTGATG 59.964 38.462 2.78 0.00 0.00 3.07
6696 11887 6.254804 CGGTTATTGAATACGAGTTGTGATGA 59.745 38.462 0.00 0.00 0.00 2.92
6697 11888 7.042725 CGGTTATTGAATACGAGTTGTGATGAT 60.043 37.037 0.00 0.00 0.00 2.45
6698 11889 8.612619 GGTTATTGAATACGAGTTGTGATGATT 58.387 33.333 0.00 0.00 0.00 2.57
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
5 6 0.736325 CTAAAGTGTGGTCCGCTCCG 60.736 60.000 3.62 0.00 32.07 4.63
6 7 1.019805 GCTAAAGTGTGGTCCGCTCC 61.020 60.000 3.62 0.00 32.07 4.70
7 8 1.019805 GGCTAAAGTGTGGTCCGCTC 61.020 60.000 3.62 0.00 32.07 5.03
8 9 1.003718 GGCTAAAGTGTGGTCCGCT 60.004 57.895 3.62 0.00 34.65 5.52
9 10 0.248289 TAGGCTAAAGTGTGGTCCGC 59.752 55.000 0.00 0.00 0.00 5.54
10 11 2.754946 TTAGGCTAAAGTGTGGTCCG 57.245 50.000 4.06 0.00 0.00 4.79
11 12 4.380550 GCAAATTAGGCTAAAGTGTGGTCC 60.381 45.833 11.59 0.00 0.00 4.46
12 13 4.380550 GGCAAATTAGGCTAAAGTGTGGTC 60.381 45.833 11.59 0.33 0.00 4.02
13 14 3.509967 GGCAAATTAGGCTAAAGTGTGGT 59.490 43.478 11.59 0.00 0.00 4.16
14 15 3.427503 CGGCAAATTAGGCTAAAGTGTGG 60.428 47.826 11.59 5.18 0.00 4.17
15 16 3.427503 CCGGCAAATTAGGCTAAAGTGTG 60.428 47.826 11.59 8.03 0.00 3.82
16 17 2.752903 CCGGCAAATTAGGCTAAAGTGT 59.247 45.455 11.59 0.00 0.00 3.55
17 18 3.013921 TCCGGCAAATTAGGCTAAAGTG 58.986 45.455 11.59 12.72 0.00 3.16
18 19 3.279434 CTCCGGCAAATTAGGCTAAAGT 58.721 45.455 11.59 0.00 0.00 2.66
19 20 2.033424 GCTCCGGCAAATTAGGCTAAAG 59.967 50.000 11.59 5.78 38.54 1.85
20 21 2.021457 GCTCCGGCAAATTAGGCTAAA 58.979 47.619 11.59 0.00 38.54 1.85
21 22 1.211949 AGCTCCGGCAAATTAGGCTAA 59.788 47.619 9.79 9.79 41.70 3.09
22 23 0.837272 AGCTCCGGCAAATTAGGCTA 59.163 50.000 0.00 0.00 41.70 3.93
23 24 0.749454 CAGCTCCGGCAAATTAGGCT 60.749 55.000 0.00 0.00 41.70 4.58
24 25 1.729881 CAGCTCCGGCAAATTAGGC 59.270 57.895 0.00 0.00 41.70 3.93
25 26 1.728490 GGCAGCTCCGGCAAATTAGG 61.728 60.000 0.00 0.00 41.70 2.69
26 27 1.031571 TGGCAGCTCCGGCAAATTAG 61.032 55.000 0.00 0.00 41.70 1.73
27 28 1.001517 TGGCAGCTCCGGCAAATTA 60.002 52.632 0.00 0.00 41.70 1.40
28 29 2.283101 TGGCAGCTCCGGCAAATT 60.283 55.556 0.00 0.00 41.70 1.82
32 33 3.294493 GTTTTGGCAGCTCCGGCA 61.294 61.111 0.00 0.00 41.70 5.69
33 34 4.056125 GGTTTTGGCAGCTCCGGC 62.056 66.667 0.00 0.00 37.80 6.13
34 35 3.373565 GGGTTTTGGCAGCTCCGG 61.374 66.667 0.00 0.00 37.80 5.14
35 36 2.597217 TGGGTTTTGGCAGCTCCG 60.597 61.111 0.00 0.00 37.80 4.63
36 37 2.935740 GCTGGGTTTTGGCAGCTCC 61.936 63.158 0.00 0.00 37.66 4.70
37 38 1.905354 AGCTGGGTTTTGGCAGCTC 60.905 57.895 0.00 0.00 46.74 4.09
38 39 2.199535 AGCTGGGTTTTGGCAGCT 59.800 55.556 0.00 0.00 45.07 4.24
39 40 2.653115 GAGCTGGGTTTTGGCAGC 59.347 61.111 0.00 0.00 40.66 5.25
40 41 2.278330 GGGAGCTGGGTTTTGGCAG 61.278 63.158 0.00 0.00 0.00 4.85
41 42 2.203625 GGGAGCTGGGTTTTGGCA 60.204 61.111 0.00 0.00 0.00 4.92
42 43 2.997315 GGGGAGCTGGGTTTTGGC 60.997 66.667 0.00 0.00 0.00 4.52
43 44 2.283894 GGGGGAGCTGGGTTTTGG 60.284 66.667 0.00 0.00 0.00 3.28
44 45 1.152355 TTGGGGGAGCTGGGTTTTG 60.152 57.895 0.00 0.00 0.00 2.44
45 46 1.152333 GTTGGGGGAGCTGGGTTTT 60.152 57.895 0.00 0.00 0.00 2.43
46 47 2.081585 GAGTTGGGGGAGCTGGGTTT 62.082 60.000 0.00 0.00 0.00 3.27
47 48 2.452491 AGTTGGGGGAGCTGGGTT 60.452 61.111 0.00 0.00 0.00 4.11
48 49 2.936032 GAGTTGGGGGAGCTGGGT 60.936 66.667 0.00 0.00 0.00 4.51
49 50 3.732849 GGAGTTGGGGGAGCTGGG 61.733 72.222 0.00 0.00 0.00 4.45
50 51 4.101448 CGGAGTTGGGGGAGCTGG 62.101 72.222 0.00 0.00 0.00 4.85
51 52 4.785453 GCGGAGTTGGGGGAGCTG 62.785 72.222 0.00 0.00 0.00 4.24
63 64 4.148825 CTTCCCCACTCCGCGGAG 62.149 72.222 45.26 45.26 46.91 4.63
65 66 3.952628 GAACTTCCCCACTCCGCGG 62.953 68.421 22.12 22.12 0.00 6.46
66 67 2.434359 GAACTTCCCCACTCCGCG 60.434 66.667 0.00 0.00 0.00 6.46
67 68 2.046217 GGAACTTCCCCACTCCGC 60.046 66.667 0.00 0.00 0.00 5.54
68 69 2.264794 CGGAACTTCCCCACTCCG 59.735 66.667 1.97 0.00 44.31 4.63
69 70 0.321387 GTTCGGAACTTCCCCACTCC 60.321 60.000 13.49 0.00 31.13 3.85
70 71 0.395312 TGTTCGGAACTTCCCCACTC 59.605 55.000 20.53 0.00 31.13 3.51
71 72 0.396811 CTGTTCGGAACTTCCCCACT 59.603 55.000 20.53 0.00 31.13 4.00
72 73 0.605589 CCTGTTCGGAACTTCCCCAC 60.606 60.000 20.53 0.27 31.13 4.61
73 74 1.758592 CCTGTTCGGAACTTCCCCA 59.241 57.895 20.53 0.00 31.13 4.96
74 75 1.002502 CCCTGTTCGGAACTTCCCC 60.003 63.158 20.53 0.00 31.13 4.81
75 76 1.674651 GCCCTGTTCGGAACTTCCC 60.675 63.158 20.53 4.79 31.13 3.97
76 77 1.674651 GGCCCTGTTCGGAACTTCC 60.675 63.158 20.53 12.27 33.16 3.46
77 78 0.250770 AAGGCCCTGTTCGGAACTTC 60.251 55.000 20.53 7.76 33.16 3.01
78 79 1.061546 TAAGGCCCTGTTCGGAACTT 58.938 50.000 20.53 8.81 34.40 2.66
79 80 0.323957 GTAAGGCCCTGTTCGGAACT 59.676 55.000 20.53 2.49 33.16 3.01
80 81 0.323957 AGTAAGGCCCTGTTCGGAAC 59.676 55.000 13.86 13.86 33.16 3.62
81 82 0.611714 GAGTAAGGCCCTGTTCGGAA 59.388 55.000 0.00 0.00 33.16 4.30
82 83 0.252103 AGAGTAAGGCCCTGTTCGGA 60.252 55.000 0.00 0.00 33.16 4.55
83 84 0.175989 GAGAGTAAGGCCCTGTTCGG 59.824 60.000 0.00 0.00 0.00 4.30
84 85 1.187087 AGAGAGTAAGGCCCTGTTCG 58.813 55.000 0.00 0.00 0.00 3.95
85 86 3.382227 GTCTAGAGAGTAAGGCCCTGTTC 59.618 52.174 0.00 0.00 0.00 3.18
86 87 3.011934 AGTCTAGAGAGTAAGGCCCTGTT 59.988 47.826 0.00 0.00 0.00 3.16
87 88 2.583566 AGTCTAGAGAGTAAGGCCCTGT 59.416 50.000 0.00 0.00 0.00 4.00
88 89 3.306472 AGTCTAGAGAGTAAGGCCCTG 57.694 52.381 0.00 0.00 0.00 4.45
89 90 4.340328 AAAGTCTAGAGAGTAAGGCCCT 57.660 45.455 0.00 0.00 0.00 5.19
90 91 5.421277 GAAAAAGTCTAGAGAGTAAGGCCC 58.579 45.833 0.00 0.00 0.00 5.80
91 92 5.188163 AGGAAAAAGTCTAGAGAGTAAGGCC 59.812 44.000 0.00 0.00 0.00 5.19
92 93 6.071278 TCAGGAAAAAGTCTAGAGAGTAAGGC 60.071 42.308 0.00 0.00 0.00 4.35
93 94 7.363443 CCTCAGGAAAAAGTCTAGAGAGTAAGG 60.363 44.444 0.00 0.00 32.31 2.69
94 95 7.394923 TCCTCAGGAAAAAGTCTAGAGAGTAAG 59.605 40.741 0.00 0.00 32.31 2.34
103 104 7.502060 AGATGATTCCTCAGGAAAAAGTCTA 57.498 36.000 11.13 0.00 45.41 2.59
247 248 0.541296 AAGCAAGCAGGCCATTCACT 60.541 50.000 5.01 0.00 0.00 3.41
373 542 6.262601 TCTTCTGTTTCGAATTTTGTTGTCC 58.737 36.000 0.00 0.00 0.00 4.02
496 670 1.786937 TTGGCACACCCTTTGATGTT 58.213 45.000 0.00 0.00 39.29 2.71
524 698 7.566879 AGAAGGTTATCTGTTCTCTATCACCAT 59.433 37.037 0.00 0.00 0.00 3.55
831 1233 9.589111 GAAAAGGACAAGACTTAAGGAGTATAG 57.411 37.037 7.53 0.00 39.19 1.31
834 1236 7.289317 TCAGAAAAGGACAAGACTTAAGGAGTA 59.711 37.037 7.53 0.00 39.19 2.59
835 1237 6.099845 TCAGAAAAGGACAAGACTTAAGGAGT 59.900 38.462 7.53 0.00 42.70 3.85
836 1238 6.425417 GTCAGAAAAGGACAAGACTTAAGGAG 59.575 42.308 7.53 0.00 35.36 3.69
837 1239 6.126883 TGTCAGAAAAGGACAAGACTTAAGGA 60.127 38.462 7.53 0.00 41.96 3.36
838 1240 6.055588 TGTCAGAAAAGGACAAGACTTAAGG 58.944 40.000 7.53 0.00 41.96 2.69
947 1369 1.346395 AGTCTGCCGATGTTTGTGGTA 59.654 47.619 0.00 0.00 0.00 3.25
1620 3073 7.665559 ACTGCATCTGTTTCCTTTCTGTTTATA 59.334 33.333 0.00 0.00 0.00 0.98
1621 3074 6.491403 ACTGCATCTGTTTCCTTTCTGTTTAT 59.509 34.615 0.00 0.00 0.00 1.40
1738 3199 5.582689 AATATGCTGCCTCTGTTTAAACC 57.417 39.130 15.59 0.54 0.00 3.27
1901 3450 4.095410 TGCATGTACTATTGCAACAAGC 57.905 40.909 0.00 4.89 45.30 4.01
2204 3774 6.973642 AGATTTATGAGTTTGGGATGGAAGA 58.026 36.000 0.00 0.00 0.00 2.87
2234 3804 0.936297 GCTGCAGCCAAGAAACAACG 60.936 55.000 28.76 0.00 34.31 4.10
2460 4030 3.900855 GCTCACTGCTCCACATGG 58.099 61.111 0.00 0.00 38.95 3.66
2483 4053 3.195396 TCAACAGCCTGCAAGAACTTTTT 59.805 39.130 0.00 0.00 34.07 1.94
2729 4300 4.293662 TGATGTACTGGCAATACCACAA 57.706 40.909 3.38 0.00 46.36 3.33
2838 7309 9.332502 TGTTCAATCAGTTTAAACTAACTAGCA 57.667 29.630 20.15 11.23 36.24 3.49
3254 7759 3.204827 GCGGTGGCATACAGCTGG 61.205 66.667 19.93 0.73 45.46 4.85
3349 7854 2.111162 CGAGCCAGATTCGGAGACT 58.889 57.895 0.00 0.00 34.32 3.24
3743 8290 7.288621 AGTTCTCTTCCCATTTGTTTCTTCAAT 59.711 33.333 0.00 0.00 0.00 2.57
3833 8390 6.245408 TCTTGACCCTTGTATTTAGCATGTT 58.755 36.000 0.00 0.00 0.00 2.71
3941 8498 5.335426 CCATGAACATGTGTTTCTTCTGGAG 60.335 44.000 0.00 0.00 38.56 3.86
3990 8547 5.712446 TGCAGAGACAGAGTACTGACTATTT 59.288 40.000 0.00 0.00 45.62 1.40
3992 8549 4.849518 TGCAGAGACAGAGTACTGACTAT 58.150 43.478 0.00 0.00 45.62 2.12
4189 8757 6.988622 ATTAATCCGTCGATTTGGTAAACA 57.011 33.333 0.00 0.00 39.49 2.83
4373 8951 2.408704 CCAAGAAAGCACGAAGAGTACG 59.591 50.000 0.00 0.00 0.00 3.67
4479 9062 9.638300 CTTTATCATAACAACGCTGAAATAGAC 57.362 33.333 0.00 0.00 0.00 2.59
4525 9113 9.987272 TCATACATCACAATATAGAAAGTGAGG 57.013 33.333 0.00 0.00 45.23 3.86
4732 9342 1.978617 GAGGCAACCCCATGTGTGG 60.979 63.158 0.00 0.00 45.61 4.17
4785 9395 3.490348 CTGAACTTCCCTCCACATTTGT 58.510 45.455 0.00 0.00 0.00 2.83
4788 9398 1.707427 AGCTGAACTTCCCTCCACATT 59.293 47.619 0.00 0.00 0.00 2.71
4874 9484 4.440663 GCATTAATCTGGGAAACTTCTGCC 60.441 45.833 0.00 0.00 0.00 4.85
5119 9729 1.514678 GGTGCCTTCGTGCATGTCAA 61.515 55.000 5.68 0.00 44.30 3.18
5315 10009 1.476845 TACCGTCAAGCAGGGCTTCA 61.477 55.000 0.00 0.00 46.77 3.02
5393 10169 5.198965 CAGAATTTCTCCAACTCATCCCAT 58.801 41.667 0.00 0.00 0.00 4.00
5425 10201 2.276309 CTGGCCCTGTCCTTCCATCC 62.276 65.000 0.00 0.00 0.00 3.51
5579 10367 3.319198 TCTCCAGTGGCGGGTTCC 61.319 66.667 3.51 0.00 0.00 3.62
5632 10420 1.279527 GAACACGTTGTCGGCGATGA 61.280 55.000 14.79 1.21 41.85 2.92
5633 10421 1.129809 GAACACGTTGTCGGCGATG 59.870 57.895 14.79 9.64 41.85 3.84
5634 10422 1.006571 AGAACACGTTGTCGGCGAT 60.007 52.632 14.79 0.00 41.85 4.58
5695 10484 1.899437 CTTCTGGCGGCCCTAGAACA 61.899 60.000 17.97 0.00 30.40 3.18
5795 10612 2.398588 TGGGTTTAACCAATGCCACAA 58.601 42.857 16.58 0.00 41.02 3.33
5886 10787 4.995124 AGAACTGACACACATATACGGAC 58.005 43.478 0.00 0.00 0.00 4.79
5919 10822 8.421784 AGATAGAACTGACACACTTTACTCAAA 58.578 33.333 0.00 0.00 0.00 2.69
5920 10823 7.952671 AGATAGAACTGACACACTTTACTCAA 58.047 34.615 0.00 0.00 0.00 3.02
5921 10824 7.526142 AGATAGAACTGACACACTTTACTCA 57.474 36.000 0.00 0.00 0.00 3.41
5923 10826 7.363094 GGCTAGATAGAACTGACACACTTTACT 60.363 40.741 0.00 0.00 0.00 2.24
5925 10828 6.663953 AGGCTAGATAGAACTGACACACTTTA 59.336 38.462 0.00 0.00 0.00 1.85
5926 10829 5.482175 AGGCTAGATAGAACTGACACACTTT 59.518 40.000 0.00 0.00 0.00 2.66
5966 10877 2.128771 GCCTGGTGCTCCTTTATTCA 57.871 50.000 6.34 0.00 36.87 2.57
6023 11008 1.836802 ACCAAAGAAGCCTGGCAAAAA 59.163 42.857 22.65 0.00 36.03 1.94
6119 11288 8.948853 TTTTCTATGAATTCAAATCACACGAC 57.051 30.769 13.09 0.00 0.00 4.34
6199 11369 8.680001 GTTTGAAAACCTAGGAAAACAGAACTA 58.320 33.333 17.98 0.00 32.82 2.24
6336 11514 6.480763 TCCAAAAAGCCTAGTGTATCATTCA 58.519 36.000 0.00 0.00 0.00 2.57
6340 11518 6.480763 TGAATCCAAAAAGCCTAGTGTATCA 58.519 36.000 0.00 0.00 0.00 2.15
6464 11655 6.801575 AGTGCAAAGAAATCCTTACGAAAAA 58.198 32.000 0.00 0.00 34.00 1.94
6465 11656 6.262273 AGAGTGCAAAGAAATCCTTACGAAAA 59.738 34.615 0.00 0.00 34.00 2.29
6470 11661 9.346725 CAAAATAGAGTGCAAAGAAATCCTTAC 57.653 33.333 0.00 0.00 34.00 2.34
6518 11709 4.676546 GGGAAGAAATAGAAGCATTGTGC 58.323 43.478 0.00 0.00 45.46 4.57
6587 11778 9.444600 ACCACAAGTGTATTTATCTCGTTTAAT 57.555 29.630 0.00 0.00 0.00 1.40
6588 11779 8.836268 ACCACAAGTGTATTTATCTCGTTTAA 57.164 30.769 0.00 0.00 0.00 1.52
6589 11780 8.089597 TGACCACAAGTGTATTTATCTCGTTTA 58.910 33.333 0.00 0.00 0.00 2.01
6590 11781 6.932400 TGACCACAAGTGTATTTATCTCGTTT 59.068 34.615 0.00 0.00 0.00 3.60
6591 11782 6.367969 GTGACCACAAGTGTATTTATCTCGTT 59.632 38.462 0.00 0.00 0.00 3.85
6592 11783 5.867716 GTGACCACAAGTGTATTTATCTCGT 59.132 40.000 0.00 0.00 0.00 4.18
6593 11784 6.100004 AGTGACCACAAGTGTATTTATCTCG 58.900 40.000 2.78 0.00 0.00 4.04
6594 11785 8.997621 TTAGTGACCACAAGTGTATTTATCTC 57.002 34.615 2.78 0.00 0.00 2.75
6595 11786 9.436957 CTTTAGTGACCACAAGTGTATTTATCT 57.563 33.333 2.78 0.00 0.00 1.98
6596 11787 9.216117 ACTTTAGTGACCACAAGTGTATTTATC 57.784 33.333 2.78 0.00 29.76 1.75
6597 11788 9.569122 AACTTTAGTGACCACAAGTGTATTTAT 57.431 29.630 2.78 0.00 30.87 1.40
6598 11789 8.832521 CAACTTTAGTGACCACAAGTGTATTTA 58.167 33.333 2.78 0.00 30.87 1.40
6599 11790 7.554835 TCAACTTTAGTGACCACAAGTGTATTT 59.445 33.333 2.78 0.00 30.87 1.40
6600 11791 7.051623 TCAACTTTAGTGACCACAAGTGTATT 58.948 34.615 2.78 0.00 30.87 1.89
6601 11792 6.588204 TCAACTTTAGTGACCACAAGTGTAT 58.412 36.000 2.78 0.00 30.87 2.29
6602 11793 5.979993 TCAACTTTAGTGACCACAAGTGTA 58.020 37.500 2.78 0.00 30.87 2.90
6603 11794 4.839121 TCAACTTTAGTGACCACAAGTGT 58.161 39.130 2.78 0.00 30.87 3.55
6604 11795 4.273480 CCTCAACTTTAGTGACCACAAGTG 59.727 45.833 2.78 0.00 30.87 3.16
6605 11796 4.080526 ACCTCAACTTTAGTGACCACAAGT 60.081 41.667 2.78 2.05 31.45 3.16
6606 11797 4.451900 ACCTCAACTTTAGTGACCACAAG 58.548 43.478 2.78 1.45 0.00 3.16
6607 11798 4.080807 TGACCTCAACTTTAGTGACCACAA 60.081 41.667 2.78 0.00 0.00 3.33
6608 11799 3.452990 TGACCTCAACTTTAGTGACCACA 59.547 43.478 2.78 0.00 0.00 4.17
6609 11800 4.067972 TGACCTCAACTTTAGTGACCAC 57.932 45.455 0.00 0.00 0.00 4.16
6610 11801 4.764050 TTGACCTCAACTTTAGTGACCA 57.236 40.909 0.00 0.00 0.00 4.02
6611 11802 5.355910 TGTTTTGACCTCAACTTTAGTGACC 59.644 40.000 0.00 0.00 35.28 4.02
6612 11803 6.128117 TGTGTTTTGACCTCAACTTTAGTGAC 60.128 38.462 0.00 0.00 35.28 3.67
6613 11804 5.941058 TGTGTTTTGACCTCAACTTTAGTGA 59.059 36.000 0.00 0.00 35.28 3.41
6614 11805 6.189677 TGTGTTTTGACCTCAACTTTAGTG 57.810 37.500 0.00 0.00 35.28 2.74
6615 11806 6.827586 TTGTGTTTTGACCTCAACTTTAGT 57.172 33.333 0.00 0.00 35.28 2.24
6616 11807 7.586300 CGTATTGTGTTTTGACCTCAACTTTAG 59.414 37.037 0.00 0.00 35.28 1.85
6617 11808 7.411274 CGTATTGTGTTTTGACCTCAACTTTA 58.589 34.615 0.00 0.00 35.28 1.85
6618 11809 6.262601 CGTATTGTGTTTTGACCTCAACTTT 58.737 36.000 0.00 0.00 35.28 2.66
6619 11810 5.220970 CCGTATTGTGTTTTGACCTCAACTT 60.221 40.000 0.00 0.00 35.28 2.66
6620 11811 4.274950 CCGTATTGTGTTTTGACCTCAACT 59.725 41.667 0.00 0.00 35.28 3.16
6621 11812 4.035909 ACCGTATTGTGTTTTGACCTCAAC 59.964 41.667 0.00 0.00 35.28 3.18
6622 11813 4.200874 ACCGTATTGTGTTTTGACCTCAA 58.799 39.130 0.00 0.00 0.00 3.02
6623 11814 3.810941 GACCGTATTGTGTTTTGACCTCA 59.189 43.478 0.00 0.00 0.00 3.86
6624 11815 3.810941 TGACCGTATTGTGTTTTGACCTC 59.189 43.478 0.00 0.00 0.00 3.85
6625 11816 3.811083 TGACCGTATTGTGTTTTGACCT 58.189 40.909 0.00 0.00 0.00 3.85
6626 11817 4.555348 TTGACCGTATTGTGTTTTGACC 57.445 40.909 0.00 0.00 0.00 4.02
6627 11818 5.753744 TCATTGACCGTATTGTGTTTTGAC 58.246 37.500 0.00 0.00 0.00 3.18
6628 11819 6.038825 AGTTCATTGACCGTATTGTGTTTTGA 59.961 34.615 0.00 0.00 0.00 2.69
6629 11820 6.205784 AGTTCATTGACCGTATTGTGTTTTG 58.794 36.000 0.00 0.00 0.00 2.44
6630 11821 6.385649 AGTTCATTGACCGTATTGTGTTTT 57.614 33.333 0.00 0.00 0.00 2.43
6631 11822 6.038825 TGAAGTTCATTGACCGTATTGTGTTT 59.961 34.615 0.08 0.00 0.00 2.83
6632 11823 5.529430 TGAAGTTCATTGACCGTATTGTGTT 59.471 36.000 0.08 0.00 0.00 3.32
6633 11824 5.060506 TGAAGTTCATTGACCGTATTGTGT 58.939 37.500 0.08 0.00 0.00 3.72
6634 11825 5.605564 TGAAGTTCATTGACCGTATTGTG 57.394 39.130 0.08 0.00 0.00 3.33
6635 11826 6.627395 TTTGAAGTTCATTGACCGTATTGT 57.373 33.333 6.36 0.00 0.00 2.71
6636 11827 9.061610 GTATTTTGAAGTTCATTGACCGTATTG 57.938 33.333 6.36 0.00 0.00 1.90
6637 11828 7.960738 CGTATTTTGAAGTTCATTGACCGTATT 59.039 33.333 6.36 0.00 0.00 1.89
6638 11829 7.461107 CGTATTTTGAAGTTCATTGACCGTAT 58.539 34.615 6.36 0.00 0.00 3.06
6639 11830 6.619018 GCGTATTTTGAAGTTCATTGACCGTA 60.619 38.462 6.36 0.00 0.00 4.02
6640 11831 5.685841 CGTATTTTGAAGTTCATTGACCGT 58.314 37.500 6.36 0.00 0.00 4.83
6641 11832 4.553429 GCGTATTTTGAAGTTCATTGACCG 59.447 41.667 6.36 8.16 0.00 4.79
6642 11833 5.699839 AGCGTATTTTGAAGTTCATTGACC 58.300 37.500 6.36 0.00 0.00 4.02
6643 11834 8.722342 TTAAGCGTATTTTGAAGTTCATTGAC 57.278 30.769 6.36 2.47 0.00 3.18
6646 11837 9.485591 CGTATTAAGCGTATTTTGAAGTTCATT 57.514 29.630 6.36 0.00 0.00 2.57
6647 11838 8.120465 CCGTATTAAGCGTATTTTGAAGTTCAT 58.880 33.333 6.36 0.00 0.00 2.57
6648 11839 7.118101 ACCGTATTAAGCGTATTTTGAAGTTCA 59.882 33.333 0.08 0.08 0.00 3.18
6649 11840 7.458677 ACCGTATTAAGCGTATTTTGAAGTTC 58.541 34.615 0.00 0.00 0.00 3.01
6650 11841 7.368480 ACCGTATTAAGCGTATTTTGAAGTT 57.632 32.000 2.35 0.00 0.00 2.66
6651 11842 6.973229 ACCGTATTAAGCGTATTTTGAAGT 57.027 33.333 2.35 0.00 0.00 3.01
6652 11843 9.925268 AATAACCGTATTAAGCGTATTTTGAAG 57.075 29.630 2.35 0.00 0.00 3.02
6653 11844 9.705471 CAATAACCGTATTAAGCGTATTTTGAA 57.295 29.630 2.35 0.00 0.00 2.69
6654 11845 9.096160 TCAATAACCGTATTAAGCGTATTTTGA 57.904 29.630 2.35 0.00 0.00 2.69
6655 11846 9.705471 TTCAATAACCGTATTAAGCGTATTTTG 57.295 29.630 2.35 0.00 0.00 2.44
6659 11850 8.853345 CGTATTCAATAACCGTATTAAGCGTAT 58.147 33.333 2.35 0.00 0.00 3.06
6660 11851 8.073167 TCGTATTCAATAACCGTATTAAGCGTA 58.927 33.333 2.35 0.00 0.00 4.42
6661 11852 6.917477 TCGTATTCAATAACCGTATTAAGCGT 59.083 34.615 2.35 0.00 0.00 5.07
6662 11853 7.113965 ACTCGTATTCAATAACCGTATTAAGCG 59.886 37.037 0.00 0.00 0.00 4.68
6663 11854 8.290663 ACTCGTATTCAATAACCGTATTAAGC 57.709 34.615 0.00 0.00 0.00 3.09
6665 11856 9.585099 ACAACTCGTATTCAATAACCGTATTAA 57.415 29.630 0.00 0.00 0.00 1.40
6666 11857 9.022915 CACAACTCGTATTCAATAACCGTATTA 57.977 33.333 0.00 0.00 0.00 0.98
6667 11858 7.760794 TCACAACTCGTATTCAATAACCGTATT 59.239 33.333 0.00 0.00 0.00 1.89
6668 11859 7.259882 TCACAACTCGTATTCAATAACCGTAT 58.740 34.615 0.00 0.00 0.00 3.06
6669 11860 6.619744 TCACAACTCGTATTCAATAACCGTA 58.380 36.000 0.00 0.00 0.00 4.02
6670 11861 5.472148 TCACAACTCGTATTCAATAACCGT 58.528 37.500 0.00 0.00 0.00 4.83
6671 11862 6.254804 TCATCACAACTCGTATTCAATAACCG 59.745 38.462 0.00 0.00 0.00 4.44
6672 11863 7.534085 TCATCACAACTCGTATTCAATAACC 57.466 36.000 0.00 0.00 0.00 2.85


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

AutoCloner maintained by Alex Coulton.