Multiple sequence alignment - TraesCS7A01G438600

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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 TraesCS7A01G438600 chr7A 100.000 5369 0 0 1 5369 632591845 632586477 0.000000e+00 9915.0
1 TraesCS7A01G438600 chr7A 96.656 2691 62 16 897 3578 633040352 633037681 0.000000e+00 4464.0
2 TraesCS7A01G438600 chr7A 96.954 2134 42 15 897 3024 632911612 632909496 0.000000e+00 3559.0
3 TraesCS7A01G438600 chr7A 96.887 2120 44 14 900 3013 632974062 632971959 0.000000e+00 3530.0
4 TraesCS7A01G438600 chr7A 93.904 1296 48 12 3701 4972 632908679 632907391 0.000000e+00 1927.0
5 TraesCS7A01G438600 chr7A 93.519 1296 53 12 3701 4972 633037673 633036385 0.000000e+00 1899.0
6 TraesCS7A01G438600 chr7A 93.257 1305 48 12 3701 4972 632971232 632969935 0.000000e+00 1888.0
7 TraesCS7A01G438600 chr7A 86.693 1022 102 21 2048 3045 631964009 631962998 0.000000e+00 1103.0
8 TraesCS7A01G438600 chr7A 87.591 959 90 16 2045 2984 630388346 630389294 0.000000e+00 1085.0
9 TraesCS7A01G438600 chr7A 95.300 617 26 2 1 614 632644098 632643482 0.000000e+00 976.0
10 TraesCS7A01G438600 chr7A 94.976 617 27 3 1 614 632601363 632600748 0.000000e+00 965.0
11 TraesCS7A01G438600 chr7A 94.976 617 28 2 1 614 632618587 632617971 0.000000e+00 965.0
12 TraesCS7A01G438600 chr7A 94.814 617 29 2 1 614 632635468 632634852 0.000000e+00 959.0
13 TraesCS7A01G438600 chr7A 94.814 617 28 3 1 614 632653196 632652581 0.000000e+00 959.0
14 TraesCS7A01G438600 chr7A 94.507 619 28 5 1 614 633047599 633046982 0.000000e+00 950.0
15 TraesCS7A01G438600 chr7A 94.184 619 31 3 1 614 632669981 632669363 0.000000e+00 939.0
16 TraesCS7A01G438600 chr7A 94.032 620 30 5 1 614 632978820 632978202 0.000000e+00 933.0
17 TraesCS7A01G438600 chr7A 94.013 618 32 4 1 614 632916324 632915708 0.000000e+00 931.0
18 TraesCS7A01G438600 chr7A 87.704 797 95 2 3739 4532 630390121 630390917 0.000000e+00 926.0
19 TraesCS7A01G438600 chr7A 97.588 539 9 2 3043 3578 632971777 632971240 0.000000e+00 920.0
20 TraesCS7A01G438600 chr7A 88.083 772 89 2 3745 4513 631961088 631960317 0.000000e+00 913.0
21 TraesCS7A01G438600 chr7A 91.793 658 33 11 4327 4972 632712321 632711673 0.000000e+00 896.0
22 TraesCS7A01G438600 chr7A 91.641 658 35 10 4327 4972 633096635 633095986 0.000000e+00 893.0
23 TraesCS7A01G438600 chr7A 97.107 484 11 1 3098 3578 632909170 632908687 0.000000e+00 813.0
24 TraesCS7A01G438600 chr7A 85.167 809 98 11 3757 4562 630035649 630036438 0.000000e+00 809.0
25 TraesCS7A01G438600 chr7A 91.335 427 9 2 4971 5369 632969897 632969471 4.700000e-155 558.0
26 TraesCS7A01G438600 chr7A 91.101 427 10 2 4971 5369 632907353 632906927 2.190000e-153 553.0
27 TraesCS7A01G438600 chr7A 91.101 427 10 2 4971 5369 633036347 633035921 2.190000e-153 553.0
28 TraesCS7A01G438600 chr7A 90.974 421 10 4 4971 5363 633095948 633095528 4.730000e-150 542.0
29 TraesCS7A01G438600 chr7A 85.361 526 63 7 2608 3127 630034536 630035053 2.850000e-147 532.0
30 TraesCS7A01G438600 chr7A 90.499 421 12 2 4971 5363 632711635 632711215 1.020000e-146 531.0
31 TraesCS7A01G438600 chr7A 92.330 339 23 2 3077 3415 630389605 630389940 3.760000e-131 479.0
32 TraesCS7A01G438600 chr7A 88.288 333 33 3 948 1280 630032736 630033062 1.400000e-105 394.0
33 TraesCS7A01G438600 chr7A 85.897 312 40 3 972 1280 631965186 631965496 4.010000e-86 329.0
34 TraesCS7A01G438600 chr7A 83.616 354 37 16 3219 3558 630035292 630035638 4.040000e-81 313.0
35 TraesCS7A01G438600 chr7A 80.053 376 65 5 1507 1875 630387922 630388294 2.460000e-68 270.0
36 TraesCS7A01G438600 chr7A 80.429 373 50 18 1592 1956 630033382 630033739 4.120000e-66 263.0
37 TraesCS7A01G438600 chr7A 93.023 172 12 0 640 811 632978205 632978034 8.930000e-63 252.0
38 TraesCS7A01G438600 chr7A 92.353 170 13 0 642 811 632915709 632915540 5.370000e-60 243.0
39 TraesCS7A01G438600 chr7A 91.729 133 11 0 640 772 632617974 632617842 9.180000e-43 185.0
40 TraesCS7A01G438600 chr7A 92.913 127 8 1 640 765 632643485 632643359 3.300000e-42 183.0
41 TraesCS7A01G438600 chr7A 92.913 127 8 1 640 765 632652584 632652458 3.300000e-42 183.0
42 TraesCS7A01G438600 chr7A 85.795 176 19 6 1334 1507 630033093 630033264 1.190000e-41 182.0
43 TraesCS7A01G438600 chr7A 92.126 127 9 1 640 765 632669366 632669240 1.540000e-40 178.0
44 TraesCS7A01G438600 chr7A 92.126 127 9 1 640 765 633046985 633046859 1.540000e-40 178.0
45 TraesCS7A01G438600 chr7A 95.789 95 4 0 640 734 632600751 632600657 2.590000e-33 154.0
46 TraesCS7A01G438600 chr7A 93.548 93 5 1 811 903 632612753 632612662 2.610000e-28 137.0
47 TraesCS7A01G438600 chr7A 93.548 93 5 1 811 903 632664439 632664348 2.610000e-28 137.0
48 TraesCS7A01G438600 chr7A 93.548 93 5 1 811 903 632975382 632975291 2.610000e-28 137.0
49 TraesCS7A01G438600 chr7A 92.473 93 6 1 811 903 632629642 632629551 1.210000e-26 132.0
50 TraesCS7A01G438600 chr7A 92.473 93 6 1 811 903 632912918 632912827 1.210000e-26 132.0
51 TraesCS7A01G438600 chr7A 97.143 35 1 0 1261 1295 630033063 630033097 5.810000e-05 60.2
52 TraesCS7A01G438600 chr7B 94.711 2666 99 26 948 3578 592364549 592361891 0.000000e+00 4104.0
53 TraesCS7A01G438600 chr7B 93.818 1294 54 9 3701 4972 592361883 592360594 0.000000e+00 1923.0
54 TraesCS7A01G438600 chr7B 96.567 233 4 3 4971 5199 592360556 592360324 3.030000e-102 383.0
55 TraesCS7A01G438600 chr7B 98.726 157 2 0 5213 5369 592360276 592360120 4.090000e-71 279.0
56 TraesCS7A01G438600 chr7B 87.586 145 12 3 5211 5354 592417032 592416893 4.300000e-36 163.0
57 TraesCS7A01G438600 chr7D 91.667 1296 58 18 3701 4972 548805197 548803928 0.000000e+00 1749.0
58 TraesCS7A01G438600 chr7D 88.847 1336 109 24 2093 3404 548132996 548131677 0.000000e+00 1605.0
59 TraesCS7A01G438600 chr7D 96.228 928 23 6 2055 2975 548806668 548805746 0.000000e+00 1509.0
60 TraesCS7A01G438600 chr7D 92.913 1030 38 14 948 1946 548807694 548806669 0.000000e+00 1465.0
61 TraesCS7A01G438600 chr7D 96.269 536 13 1 3050 3578 548805740 548805205 0.000000e+00 872.0
62 TraesCS7A01G438600 chr7D 81.024 1133 141 28 2045 3127 546752677 546753785 0.000000e+00 833.0
63 TraesCS7A01G438600 chr7D 91.335 427 9 2 4971 5369 548803890 548803464 4.700000e-155 558.0
64 TraesCS7A01G438600 chr7D 84.174 436 47 16 3137 3558 546753961 546754388 2.330000e-108 403.0
65 TraesCS7A01G438600 chr7D 89.308 318 31 1 978 1295 546751694 546752008 3.900000e-106 396.0
66 TraesCS7A01G438600 chr7D 88.581 289 18 3 4272 4560 548129991 548129718 2.400000e-88 337.0
67 TraesCS7A01G438600 chr7D 91.192 193 16 1 3739 3930 548130199 548130007 1.480000e-65 261.0
68 TraesCS7A01G438600 chr7D 89.937 159 13 3 5211 5368 548811017 548810861 9.120000e-48 202.0
69 TraesCS7A01G438600 chr1A 84.568 324 38 8 4651 4972 500838142 500837829 1.450000e-80 311.0
70 TraesCS7A01G438600 chr1D 83.019 318 47 4 4640 4953 445557863 445558177 1.140000e-71 281.0
71 TraesCS7A01G438600 chr1D 96.774 124 4 0 3576 3699 1026739 1026862 1.960000e-49 207.0
72 TraesCS7A01G438600 chr2A 86.325 234 28 4 4641 4872 764900878 764901109 8.930000e-63 252.0
73 TraesCS7A01G438600 chr2A 93.478 138 9 0 3560 3697 753540299 753540436 7.050000e-49 206.0
74 TraesCS7A01G438600 chr4B 90.556 180 15 1 3560 3739 147367714 147367891 2.500000e-58 237.0
75 TraesCS7A01G438600 chr4A 98.333 120 2 0 3575 3694 732350160 732350279 1.520000e-50 211.0
76 TraesCS7A01G438600 chr2B 98.319 119 2 0 3578 3696 766070366 766070248 5.450000e-50 209.0
77 TraesCS7A01G438600 chr2B 87.037 54 7 0 659 712 89485634 89485687 1.610000e-05 62.1
78 TraesCS7A01G438600 chr3B 98.305 118 2 0 3577 3694 564169700 564169817 1.960000e-49 207.0
79 TraesCS7A01G438600 chr1B 92.754 138 10 0 3560 3697 558228129 558228266 3.280000e-47 200.0
80 TraesCS7A01G438600 chr5B 92.143 140 7 4 3574 3710 485568829 485568967 1.530000e-45 195.0
81 TraesCS7A01G438600 chr2D 93.130 131 8 1 3575 3705 489410190 489410061 1.970000e-44 191.0
82 TraesCS7A01G438600 chrUn 93.548 93 5 1 811 903 480578880 480578971 2.610000e-28 137.0


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 TraesCS7A01G438600 chr7A 632586477 632591845 5368 True 9915.000000 9915 100.000000 1 5369 1 chr7A.!!$R1 5368
1 TraesCS7A01G438600 chr7A 633035921 633040352 4431 True 2305.333333 4464 93.758667 897 5369 3 chr7A.!!$R15 4472
2 TraesCS7A01G438600 chr7A 632969471 632978820 9349 True 1174.000000 3530 94.238571 1 5369 7 chr7A.!!$R14 5368
3 TraesCS7A01G438600 chr7A 632906927 632916324 9397 True 1165.428571 3559 93.986429 1 5369 7 chr7A.!!$R13 5368
4 TraesCS7A01G438600 chr7A 631960317 631964009 3692 True 1008.000000 1103 87.388000 2048 4513 2 chr7A.!!$R6 2465
5 TraesCS7A01G438600 chr7A 632634852 632635468 616 True 959.000000 959 94.814000 1 614 1 chr7A.!!$R4 613
6 TraesCS7A01G438600 chr7A 633095528 633096635 1107 True 717.500000 893 91.307500 4327 5363 2 chr7A.!!$R17 1036
7 TraesCS7A01G438600 chr7A 632711215 632712321 1106 True 713.500000 896 91.146000 4327 5363 2 chr7A.!!$R12 1036
8 TraesCS7A01G438600 chr7A 630387922 630390917 2995 False 690.000000 1085 86.919500 1507 4532 4 chr7A.!!$F3 3025
9 TraesCS7A01G438600 chr7A 632643359 632644098 739 True 579.500000 976 94.106500 1 765 2 chr7A.!!$R9 764
10 TraesCS7A01G438600 chr7A 632617842 632618587 745 True 575.000000 965 93.352500 1 772 2 chr7A.!!$R8 771
11 TraesCS7A01G438600 chr7A 632652458 632653196 738 True 571.000000 959 93.863500 1 765 2 chr7A.!!$R10 764
12 TraesCS7A01G438600 chr7A 633046859 633047599 740 True 564.000000 950 93.316500 1 765 2 chr7A.!!$R16 764
13 TraesCS7A01G438600 chr7A 632600657 632601363 706 True 559.500000 965 95.382500 1 734 2 chr7A.!!$R7 733
14 TraesCS7A01G438600 chr7A 632669240 632669981 741 True 558.500000 939 93.155000 1 765 2 chr7A.!!$R11 764
15 TraesCS7A01G438600 chr7A 630032736 630036438 3702 False 364.742857 809 86.542714 948 4562 7 chr7A.!!$F2 3614
16 TraesCS7A01G438600 chr7B 592360120 592364549 4429 True 1672.250000 4104 95.955500 948 5369 4 chr7B.!!$R2 4421
17 TraesCS7A01G438600 chr7D 548803464 548811017 7553 True 1059.166667 1749 93.058167 948 5369 6 chr7D.!!$R2 4421
18 TraesCS7A01G438600 chr7D 548129718 548132996 3278 True 734.333333 1605 89.540000 2093 4560 3 chr7D.!!$R1 2467
19 TraesCS7A01G438600 chr7D 546751694 546754388 2694 False 544.000000 833 84.835333 978 3558 3 chr7D.!!$F1 2580

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
890 3554 1.412343 TCTGGGGTTTTCTGCAAAAGC 59.588 47.619 4.79 4.79 45.48 3.51 F
1658 5802 0.461548 AGCGATGCCGAAGAAGATGA 59.538 50.000 0.00 0.00 38.22 2.92 F
1659 5803 1.069823 AGCGATGCCGAAGAAGATGAT 59.930 47.619 0.00 0.00 38.22 2.45 F
2533 6724 1.072965 GGCCATGGAATCCTCTAGTGG 59.927 57.143 18.40 4.35 0.00 4.00 F
3593 9655 0.032813 AAATACTCCCTCCGTCCCGA 60.033 55.000 0.00 0.00 0.00 5.14 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2029 6182 0.108585 AACCAGTCATGTGGCGAACT 59.891 50.000 2.30 0.0 41.90 3.01 R
3042 7622 2.215942 AAGGCAGGTATTTGACACCC 57.784 50.000 0.00 0.0 36.67 4.61 R
3147 9185 3.714144 ACCATTCTGCTAGGTCTGTACT 58.286 45.455 0.00 0.0 0.00 2.73 R
3671 9733 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.0 44.66 2.12 R
4414 11868 0.681243 GGTCTTGGCCCATTCCTCAC 60.681 60.000 0.00 0.0 0.00 3.51 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 31 8.372521 GTTTCATATTCTGGCGTACAATTTTTG 58.627 33.333 0.00 0.00 0.00 2.44
32 34 7.753132 TCATATTCTGGCGTACAATTTTTGTTC 59.247 33.333 0.00 0.00 42.22 3.18
41 43 7.544217 GGCGTACAATTTTTGTTCCATAATTCT 59.456 33.333 0.00 0.00 42.22 2.40
49 51 4.031418 TGTTCCATAATTCTGCATTGCG 57.969 40.909 3.84 0.00 0.00 4.85
70 72 5.301551 TGCGGTAATCCTTGATATTTGCATT 59.698 36.000 0.00 0.00 0.00 3.56
108 110 6.538742 GCTATGTTGCTTTGTAGAGGATGTTA 59.461 38.462 0.00 0.00 0.00 2.41
391 400 9.869757 ATTTGGTTTTAAGCTTTCCATATACAC 57.130 29.630 3.20 0.00 0.00 2.90
616 627 7.811117 TGGTACAAAAGTAGCAAGTACAAAT 57.189 32.000 5.19 0.00 37.40 2.32
617 628 8.905660 TGGTACAAAAGTAGCAAGTACAAATA 57.094 30.769 5.19 0.00 37.40 1.40
619 630 9.983804 GGTACAAAAGTAGCAAGTACAAATATC 57.016 33.333 0.00 0.00 37.40 1.63
620 631 9.983804 GTACAAAAGTAGCAAGTACAAATATCC 57.016 33.333 0.00 0.00 36.11 2.59
622 633 9.297037 ACAAAAGTAGCAAGTACAAATATCCTT 57.703 29.630 0.00 0.00 33.55 3.36
623 634 9.559958 CAAAAGTAGCAAGTACAAATATCCTTG 57.440 33.333 0.00 0.00 37.84 3.61
624 635 9.515226 AAAAGTAGCAAGTACAAATATCCTTGA 57.485 29.630 0.00 0.00 37.14 3.02
626 637 7.048512 AGTAGCAAGTACAAATATCCTTGACC 58.951 38.462 0.00 0.00 37.14 4.02
629 640 6.151144 AGCAAGTACAAATATCCTTGACCAAC 59.849 38.462 0.00 0.00 37.14 3.77
632 643 7.448748 AGTACAAATATCCTTGACCAACAAC 57.551 36.000 0.00 0.00 34.56 3.32
634 645 6.084326 ACAAATATCCTTGACCAACAACAC 57.916 37.500 0.00 0.00 34.56 3.32
636 647 6.097554 ACAAATATCCTTGACCAACAACACAA 59.902 34.615 0.00 0.00 34.56 3.33
640 651 6.723298 ATCCTTGACCAACAACACAAAATA 57.277 33.333 0.00 0.00 34.56 1.40
641 652 5.897050 TCCTTGACCAACAACACAAAATAC 58.103 37.500 0.00 0.00 34.56 1.89
642 653 5.419155 TCCTTGACCAACAACACAAAATACA 59.581 36.000 0.00 0.00 34.56 2.29
701 712 9.020731 ACGGGTTGATGATTAGTTTTTCTAATT 57.979 29.630 2.38 0.00 45.86 1.40
824 3488 8.458843 ACTATCATGGAATTTCCTAACAAAACG 58.541 33.333 16.25 0.67 37.46 3.60
837 3501 7.414436 TCCTAACAAAACGAAAATCTGACTTG 58.586 34.615 0.00 0.00 0.00 3.16
841 3505 8.702163 AACAAAACGAAAATCTGACTTGAAAT 57.298 26.923 0.00 0.00 0.00 2.17
846 3510 6.438763 ACGAAAATCTGACTTGAAATTGTCC 58.561 36.000 0.00 0.00 32.67 4.02
890 3554 1.412343 TCTGGGGTTTTCTGCAAAAGC 59.588 47.619 4.79 4.79 45.48 3.51
1405 5351 6.729100 TGGGGTCTTATAGTTAATCCGATGAT 59.271 38.462 0.00 0.00 0.00 2.45
1406 5352 7.236847 TGGGGTCTTATAGTTAATCCGATGATT 59.763 37.037 0.00 0.00 43.56 2.57
1657 5801 1.004185 CAAGCGATGCCGAAGAAGATG 60.004 52.381 0.00 0.00 38.22 2.90
1658 5802 0.461548 AGCGATGCCGAAGAAGATGA 59.538 50.000 0.00 0.00 38.22 2.92
1659 5803 1.069823 AGCGATGCCGAAGAAGATGAT 59.930 47.619 0.00 0.00 38.22 2.45
1730 5874 7.942341 TGGTTCTTTATACAGGAACACTCATTT 59.058 33.333 0.00 0.00 40.48 2.32
1760 5904 7.839680 AAAGGGATTATAATGTTGATGACCC 57.160 36.000 1.78 4.71 0.00 4.46
1864 6009 6.290605 TGTGTTCTCAGTTGAAATCATCTGA 58.709 36.000 18.35 18.35 45.31 3.27
2367 6542 4.767409 GGTTATGAAATAATCTGGGAGGGC 59.233 45.833 0.00 0.00 41.51 5.19
2533 6724 1.072965 GGCCATGGAATCCTCTAGTGG 59.927 57.143 18.40 4.35 0.00 4.00
2804 7225 5.748152 GGATACATTGCGCAATTATGTTGTT 59.252 36.000 32.13 16.41 34.55 2.83
3058 7638 2.882170 GGGGGTGTCAAATACCTGC 58.118 57.895 0.00 0.00 38.30 4.85
3147 9185 6.369890 GCACTCTCAAGTCTTGTGATTTATCA 59.630 38.462 15.74 0.00 33.28 2.15
3312 9357 5.678955 AGAATAGTTCGGGCTCTTAGTTT 57.321 39.130 0.00 0.00 34.02 2.66
3578 9640 3.844211 AGCACACCCTCTGTTCCTAAATA 59.156 43.478 0.00 0.00 0.00 1.40
3579 9641 3.939592 GCACACCCTCTGTTCCTAAATAC 59.060 47.826 0.00 0.00 0.00 1.89
3580 9642 4.323562 GCACACCCTCTGTTCCTAAATACT 60.324 45.833 0.00 0.00 0.00 2.12
3581 9643 5.420409 CACACCCTCTGTTCCTAAATACTC 58.580 45.833 0.00 0.00 0.00 2.59
3582 9644 4.470304 ACACCCTCTGTTCCTAAATACTCC 59.530 45.833 0.00 0.00 0.00 3.85
3583 9645 4.038633 ACCCTCTGTTCCTAAATACTCCC 58.961 47.826 0.00 0.00 0.00 4.30
3584 9646 4.265353 ACCCTCTGTTCCTAAATACTCCCT 60.265 45.833 0.00 0.00 0.00 4.20
3585 9647 4.345547 CCCTCTGTTCCTAAATACTCCCTC 59.654 50.000 0.00 0.00 0.00 4.30
3586 9648 4.345547 CCTCTGTTCCTAAATACTCCCTCC 59.654 50.000 0.00 0.00 0.00 4.30
3587 9649 3.958798 TCTGTTCCTAAATACTCCCTCCG 59.041 47.826 0.00 0.00 0.00 4.63
3588 9650 3.705072 CTGTTCCTAAATACTCCCTCCGT 59.295 47.826 0.00 0.00 0.00 4.69
3589 9651 3.703052 TGTTCCTAAATACTCCCTCCGTC 59.297 47.826 0.00 0.00 0.00 4.79
3590 9652 2.954792 TCCTAAATACTCCCTCCGTCC 58.045 52.381 0.00 0.00 0.00 4.79
3591 9653 1.969208 CCTAAATACTCCCTCCGTCCC 59.031 57.143 0.00 0.00 0.00 4.46
3592 9654 1.612463 CTAAATACTCCCTCCGTCCCG 59.388 57.143 0.00 0.00 0.00 5.14
3593 9655 0.032813 AAATACTCCCTCCGTCCCGA 60.033 55.000 0.00 0.00 0.00 5.14
3594 9656 0.032813 AATACTCCCTCCGTCCCGAA 60.033 55.000 0.00 0.00 0.00 4.30
3595 9657 0.032813 ATACTCCCTCCGTCCCGAAA 60.033 55.000 0.00 0.00 0.00 3.46
3596 9658 0.032813 TACTCCCTCCGTCCCGAAAT 60.033 55.000 0.00 0.00 0.00 2.17
3597 9659 0.032813 ACTCCCTCCGTCCCGAAATA 60.033 55.000 0.00 0.00 0.00 1.40
3598 9660 0.388294 CTCCCTCCGTCCCGAAATAC 59.612 60.000 0.00 0.00 0.00 1.89
3599 9661 0.032813 TCCCTCCGTCCCGAAATACT 60.033 55.000 0.00 0.00 0.00 2.12
3600 9662 0.828677 CCCTCCGTCCCGAAATACTT 59.171 55.000 0.00 0.00 0.00 2.24
3601 9663 1.472728 CCCTCCGTCCCGAAATACTTG 60.473 57.143 0.00 0.00 0.00 3.16
3602 9664 1.206371 CCTCCGTCCCGAAATACTTGT 59.794 52.381 0.00 0.00 0.00 3.16
3603 9665 2.537401 CTCCGTCCCGAAATACTTGTC 58.463 52.381 0.00 0.00 0.00 3.18
3604 9666 1.135315 TCCGTCCCGAAATACTTGTCG 60.135 52.381 0.00 0.00 37.01 4.35
3613 9675 5.143916 CGAAATACTTGTCGGAGAAATGG 57.856 43.478 0.00 0.00 39.69 3.16
3614 9676 4.868171 CGAAATACTTGTCGGAGAAATGGA 59.132 41.667 0.00 0.00 39.69 3.41
3615 9677 5.523916 CGAAATACTTGTCGGAGAAATGGAT 59.476 40.000 0.00 0.00 39.69 3.41
3616 9678 6.700081 CGAAATACTTGTCGGAGAAATGGATA 59.300 38.462 0.00 0.00 39.69 2.59
3617 9679 7.223971 CGAAATACTTGTCGGAGAAATGGATAA 59.776 37.037 0.00 0.00 39.69 1.75
3618 9680 8.801882 AAATACTTGTCGGAGAAATGGATAAA 57.198 30.769 0.00 0.00 39.69 1.40
3619 9681 8.801882 AATACTTGTCGGAGAAATGGATAAAA 57.198 30.769 0.00 0.00 39.69 1.52
3620 9682 8.980481 ATACTTGTCGGAGAAATGGATAAAAT 57.020 30.769 0.00 0.00 39.69 1.82
3621 9683 7.703058 ACTTGTCGGAGAAATGGATAAAATT 57.297 32.000 0.00 0.00 39.69 1.82
3622 9684 8.801882 ACTTGTCGGAGAAATGGATAAAATTA 57.198 30.769 0.00 0.00 39.69 1.40
3623 9685 8.893727 ACTTGTCGGAGAAATGGATAAAATTAG 58.106 33.333 0.00 0.00 39.69 1.73
3624 9686 9.109393 CTTGTCGGAGAAATGGATAAAATTAGA 57.891 33.333 0.00 0.00 39.69 2.10
3625 9687 9.627123 TTGTCGGAGAAATGGATAAAATTAGAT 57.373 29.630 0.00 0.00 39.69 1.98
3626 9688 9.056005 TGTCGGAGAAATGGATAAAATTAGATG 57.944 33.333 0.00 0.00 39.69 2.90
3627 9689 9.057089 GTCGGAGAAATGGATAAAATTAGATGT 57.943 33.333 0.00 0.00 39.69 3.06
3664 9726 9.838339 AAAATACGTCTAGATTCATCCATTTCT 57.162 29.630 0.00 0.00 0.00 2.52
3665 9727 9.482627 AAATACGTCTAGATTCATCCATTTCTC 57.517 33.333 0.00 0.00 0.00 2.87
3666 9728 5.848406 ACGTCTAGATTCATCCATTTCTCC 58.152 41.667 0.00 0.00 0.00 3.71
3667 9729 4.920340 CGTCTAGATTCATCCATTTCTCCG 59.080 45.833 0.00 0.00 0.00 4.63
3668 9730 5.278512 CGTCTAGATTCATCCATTTCTCCGA 60.279 44.000 0.00 0.00 0.00 4.55
3669 9731 5.923684 GTCTAGATTCATCCATTTCTCCGAC 59.076 44.000 0.00 0.00 0.00 4.79
3670 9732 4.760530 AGATTCATCCATTTCTCCGACA 57.239 40.909 0.00 0.00 0.00 4.35
3671 9733 5.102953 AGATTCATCCATTTCTCCGACAA 57.897 39.130 0.00 0.00 0.00 3.18
3672 9734 5.121811 AGATTCATCCATTTCTCCGACAAG 58.878 41.667 0.00 0.00 0.00 3.16
3673 9735 3.981071 TCATCCATTTCTCCGACAAGT 57.019 42.857 0.00 0.00 0.00 3.16
3674 9736 5.414789 TTCATCCATTTCTCCGACAAGTA 57.585 39.130 0.00 0.00 0.00 2.24
3675 9737 5.614324 TCATCCATTTCTCCGACAAGTAT 57.386 39.130 0.00 0.00 0.00 2.12
3676 9738 5.989477 TCATCCATTTCTCCGACAAGTATT 58.011 37.500 0.00 0.00 0.00 1.89
3677 9739 6.414732 TCATCCATTTCTCCGACAAGTATTT 58.585 36.000 0.00 0.00 0.00 1.40
3678 9740 6.538742 TCATCCATTTCTCCGACAAGTATTTC 59.461 38.462 0.00 0.00 0.00 2.17
3679 9741 5.183228 TCCATTTCTCCGACAAGTATTTCC 58.817 41.667 0.00 0.00 0.00 3.13
3680 9742 4.034048 CCATTTCTCCGACAAGTATTTCCG 59.966 45.833 0.00 0.00 0.00 4.30
3681 9743 2.953466 TCTCCGACAAGTATTTCCGG 57.047 50.000 0.00 0.00 41.36 5.14
3682 9744 2.449464 TCTCCGACAAGTATTTCCGGA 58.551 47.619 0.00 0.00 45.74 5.14
3683 9745 2.165030 TCTCCGACAAGTATTTCCGGAC 59.835 50.000 1.83 0.00 43.47 4.79
3684 9746 1.135315 TCCGACAAGTATTTCCGGACG 60.135 52.381 1.83 0.00 43.47 4.79
3685 9747 1.274596 CGACAAGTATTTCCGGACGG 58.725 55.000 1.83 3.96 0.00 4.79
3686 9748 1.135315 CGACAAGTATTTCCGGACGGA 60.135 52.381 1.83 9.76 43.52 4.69
3687 9749 2.537401 GACAAGTATTTCCGGACGGAG 58.463 52.381 13.64 3.15 46.06 4.63
3688 9750 1.206371 ACAAGTATTTCCGGACGGAGG 59.794 52.381 13.64 0.00 46.06 4.30
3689 9751 0.828677 AAGTATTTCCGGACGGAGGG 59.171 55.000 13.64 0.00 46.06 4.30
3690 9752 0.032813 AGTATTTCCGGACGGAGGGA 60.033 55.000 13.64 4.95 46.06 4.20
3691 9753 0.388294 GTATTTCCGGACGGAGGGAG 59.612 60.000 13.64 0.00 46.06 4.30
3692 9754 0.032813 TATTTCCGGACGGAGGGAGT 60.033 55.000 13.64 0.00 46.06 3.85
3693 9755 0.032813 ATTTCCGGACGGAGGGAGTA 60.033 55.000 13.64 0.00 46.06 2.59
3697 9759 1.426598 TCCGGACGGAGGGAGTATAAT 59.573 52.381 9.76 0.00 39.76 1.28
3699 9761 3.074390 TCCGGACGGAGGGAGTATAATAA 59.926 47.826 9.76 0.00 39.76 1.40
4070 11515 5.219633 GGCGAATATTGAAGTTGTTGTGTT 58.780 37.500 0.00 0.00 0.00 3.32
4095 11540 2.625737 GTGCAGAGCAGCTTTGATCTA 58.374 47.619 17.08 0.00 40.08 1.98
4118 11572 2.350007 GCTTGCGTTGTTTTATCGGTGA 60.350 45.455 0.00 0.00 0.00 4.02
4414 11868 7.734538 ATAAAGTTTGTCGAAAAGTTGTGTG 57.265 32.000 11.38 0.00 0.00 3.82
4457 11911 4.082733 CGGTCAACAGTCTAGAGTGAATCA 60.083 45.833 30.10 10.84 35.75 2.57
4470 11924 4.106197 GAGTGAATCATACGTGGACACTC 58.894 47.826 18.27 18.27 39.77 3.51
4564 12021 2.830651 TTGGGGTACACTGGTTTTGT 57.169 45.000 0.00 0.00 0.00 2.83
4566 12023 2.657143 TGGGGTACACTGGTTTTGTTC 58.343 47.619 0.00 0.00 0.00 3.18
4567 12024 2.025226 TGGGGTACACTGGTTTTGTTCA 60.025 45.455 0.00 0.00 0.00 3.18
4570 12027 3.314357 GGGTACACTGGTTTTGTTCACTC 59.686 47.826 0.00 0.00 0.00 3.51
4571 12028 3.942748 GGTACACTGGTTTTGTTCACTCA 59.057 43.478 0.00 0.00 0.00 3.41
4572 12029 4.035208 GGTACACTGGTTTTGTTCACTCAG 59.965 45.833 0.00 0.00 0.00 3.35
4573 12030 3.686016 ACACTGGTTTTGTTCACTCAGT 58.314 40.909 0.00 0.00 36.09 3.41
4576 12033 5.123344 ACACTGGTTTTGTTCACTCAGTAAC 59.877 40.000 0.00 0.00 34.24 2.50
4577 12034 5.354234 CACTGGTTTTGTTCACTCAGTAACT 59.646 40.000 0.00 0.00 34.24 2.24
4580 12049 6.177610 TGGTTTTGTTCACTCAGTAACTTCT 58.822 36.000 0.00 0.00 0.00 2.85
4701 12170 5.596845 TCACAAAACTGGGAAAATAACTGC 58.403 37.500 0.00 0.00 0.00 4.40
4712 12181 4.576463 GGAAAATAACTGCGATCATGAGGT 59.424 41.667 0.09 0.00 0.00 3.85
4724 12193 1.496857 TCATGAGGTTGTCCCAACCAA 59.503 47.619 23.87 14.17 42.69 3.67
4731 12200 2.482839 GGTTGTCCCAACCAAACATGTG 60.483 50.000 18.75 0.00 40.03 3.21
4871 12340 4.202441 ACAATCAGACCATGAATACCAGC 58.798 43.478 0.00 0.00 42.53 4.85
5000 12510 8.198109 ACTAGCGTACATGATCAAGTAATTTCT 58.802 33.333 12.12 9.22 0.00 2.52
5165 12677 2.293399 CCTAAAACAGGGCACAAGTGTC 59.707 50.000 1.79 0.00 41.26 3.67
5336 12882 1.151668 GATCAGTGGTGCAGTGACAC 58.848 55.000 0.00 0.00 44.99 3.67
5355 12901 4.806330 ACACTAGTCTGTAATGTGTTCGG 58.194 43.478 0.00 0.00 38.51 4.30
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
29 31 3.181487 ACCGCAATGCAGAATTATGGAAC 60.181 43.478 5.91 0.00 0.00 3.62
32 34 4.566545 TTACCGCAATGCAGAATTATGG 57.433 40.909 5.91 0.00 0.00 2.74
41 43 2.121291 TCAAGGATTACCGCAATGCA 57.879 45.000 5.91 0.00 37.43 3.96
70 72 4.646040 AGCAACATAGCTTGGCAAATATGA 59.354 37.500 26.54 4.79 43.70 2.15
131 133 5.659440 TTGGCTTTCAAGGTTAATCATCC 57.341 39.130 0.00 0.00 0.00 3.51
263 267 9.221775 GCTTCACCGTATTTTAGAACAATAATG 57.778 33.333 0.00 0.00 0.00 1.90
264 268 8.952278 TGCTTCACCGTATTTTAGAACAATAAT 58.048 29.630 0.00 0.00 0.00 1.28
418 427 8.993121 ACATGCAATTTTATCTACTAAGATCGG 58.007 33.333 0.00 0.00 41.71 4.18
587 598 9.339850 TGTACTTGCTACTTTTGTACCAAATAA 57.660 29.630 0.00 0.00 32.15 1.40
593 604 9.983804 GATATTTGTACTTGCTACTTTTGTACC 57.016 33.333 0.00 0.00 34.37 3.34
614 625 6.723298 TTTGTGTTGTTGGTCAAGGATATT 57.277 33.333 0.00 0.00 36.66 1.28
616 627 6.723298 ATTTTGTGTTGTTGGTCAAGGATA 57.277 33.333 0.00 0.00 36.66 2.59
617 628 5.612725 ATTTTGTGTTGTTGGTCAAGGAT 57.387 34.783 0.00 0.00 36.66 3.24
619 630 5.655488 TGTATTTTGTGTTGTTGGTCAAGG 58.345 37.500 0.00 0.00 36.66 3.61
620 631 6.253298 CACTGTATTTTGTGTTGTTGGTCAAG 59.747 38.462 0.00 0.00 36.66 3.02
622 633 5.416013 TCACTGTATTTTGTGTTGTTGGTCA 59.584 36.000 0.00 0.00 35.82 4.02
623 634 5.741982 GTCACTGTATTTTGTGTTGTTGGTC 59.258 40.000 0.00 0.00 35.82 4.02
624 635 5.184096 TGTCACTGTATTTTGTGTTGTTGGT 59.816 36.000 0.00 0.00 35.82 3.67
626 637 6.584184 TGTTGTCACTGTATTTTGTGTTGTTG 59.416 34.615 0.00 0.00 35.82 3.33
629 640 7.444245 GTTTGTTGTCACTGTATTTTGTGTTG 58.556 34.615 0.00 0.00 35.82 3.33
632 643 5.797934 ACGTTTGTTGTCACTGTATTTTGTG 59.202 36.000 0.00 0.00 35.68 3.33
634 645 6.745450 AGAACGTTTGTTGTCACTGTATTTTG 59.255 34.615 0.46 0.00 38.78 2.44
636 647 6.431198 AGAACGTTTGTTGTCACTGTATTT 57.569 33.333 0.46 0.00 38.78 1.40
640 651 3.308866 GCTAGAACGTTTGTTGTCACTGT 59.691 43.478 0.46 0.00 38.78 3.55
641 652 3.303132 GGCTAGAACGTTTGTTGTCACTG 60.303 47.826 0.46 0.00 38.78 3.66
642 653 2.870411 GGCTAGAACGTTTGTTGTCACT 59.130 45.455 0.46 0.00 38.78 3.41
734 745 9.566432 TTAAAAGTATCCGTACCTTTTAAACCA 57.434 29.630 17.27 3.49 34.70 3.67
761 772 5.574891 TGCGGTACATATCAAATGCTTTT 57.425 34.783 0.00 0.00 0.00 2.27
765 776 4.488126 ACATGCGGTACATATCAAATGC 57.512 40.909 0.00 0.00 36.64 3.56
780 791 3.848272 AGTTGGGTTAATCAACATGCG 57.152 42.857 19.68 0.00 44.84 4.73
824 3488 7.380602 CACAGGACAATTTCAAGTCAGATTTTC 59.619 37.037 0.00 0.00 36.50 2.29
837 3501 4.871933 AATCAACCCACAGGACAATTTC 57.128 40.909 0.00 0.00 36.73 2.17
841 3505 4.649267 TGATAATCAACCCACAGGACAA 57.351 40.909 0.00 0.00 36.73 3.18
946 4841 1.609783 GGTGTGGAGAATGGGGAGG 59.390 63.158 0.00 0.00 0.00 4.30
1405 5351 7.836479 TTCTTTTTCGGTTCCCCTTTTATAA 57.164 32.000 0.00 0.00 0.00 0.98
1406 5352 8.308207 CAATTCTTTTTCGGTTCCCCTTTTATA 58.692 33.333 0.00 0.00 0.00 0.98
1657 5801 4.487714 TTCCCAGGTCAAGTACATCATC 57.512 45.455 0.00 0.00 0.00 2.92
1658 5802 5.192522 AGAATTCCCAGGTCAAGTACATCAT 59.807 40.000 0.65 0.00 0.00 2.45
1659 5803 4.536090 AGAATTCCCAGGTCAAGTACATCA 59.464 41.667 0.65 0.00 0.00 3.07
1730 5874 8.694540 CATCAACATTATAATCCCTTTTCCACA 58.305 33.333 0.00 0.00 0.00 4.17
2023 6176 0.671472 TCATGTGGCGAACTGAGCTG 60.671 55.000 0.00 0.00 34.52 4.24
2026 6179 1.073964 CAGTCATGTGGCGAACTGAG 58.926 55.000 4.39 0.00 41.26 3.35
2029 6182 0.108585 AACCAGTCATGTGGCGAACT 59.891 50.000 2.30 0.00 41.90 3.01
2336 6509 7.955750 CCCAGATTATTTCATAACCCCCTAAAT 59.044 37.037 0.00 0.00 0.00 1.40
2367 6542 3.751175 TCAGCAAGTAAAGGTCCATTTCG 59.249 43.478 0.00 0.00 0.00 3.46
2533 6724 3.838550 CGTCATACAAAAAGTAAGCGTGC 59.161 43.478 0.00 0.00 36.05 5.34
3042 7622 2.215942 AAGGCAGGTATTTGACACCC 57.784 50.000 0.00 0.00 36.67 4.61
3043 7623 4.270008 ACATAAGGCAGGTATTTGACACC 58.730 43.478 0.00 0.00 36.22 4.16
3044 7624 4.941263 TGACATAAGGCAGGTATTTGACAC 59.059 41.667 0.00 0.00 0.00 3.67
3045 7625 5.172687 TGACATAAGGCAGGTATTTGACA 57.827 39.130 0.00 0.00 0.00 3.58
3147 9185 3.714144 ACCATTCTGCTAGGTCTGTACT 58.286 45.455 0.00 0.00 0.00 2.73
3312 9357 4.882842 TCATGCTGGTGTGTTAAGTAGA 57.117 40.909 0.00 0.00 0.00 2.59
3532 9591 8.485976 CTTCTCTAAGCTGTTTTACTAGCAAT 57.514 34.615 0.00 0.00 42.29 3.56
3558 9620 5.420409 GAGTATTTAGGAACAGAGGGTGTG 58.580 45.833 0.00 0.00 40.26 3.82
3591 9653 4.868171 TCCATTTCTCCGACAAGTATTTCG 59.132 41.667 0.00 0.00 34.93 3.46
3592 9654 6.927294 ATCCATTTCTCCGACAAGTATTTC 57.073 37.500 0.00 0.00 0.00 2.17
3593 9655 8.801882 TTTATCCATTTCTCCGACAAGTATTT 57.198 30.769 0.00 0.00 0.00 1.40
3594 9656 8.801882 TTTTATCCATTTCTCCGACAAGTATT 57.198 30.769 0.00 0.00 0.00 1.89
3595 9657 8.980481 ATTTTATCCATTTCTCCGACAAGTAT 57.020 30.769 0.00 0.00 0.00 2.12
3596 9658 8.801882 AATTTTATCCATTTCTCCGACAAGTA 57.198 30.769 0.00 0.00 0.00 2.24
3597 9659 7.703058 AATTTTATCCATTTCTCCGACAAGT 57.297 32.000 0.00 0.00 0.00 3.16
3598 9660 9.109393 TCTAATTTTATCCATTTCTCCGACAAG 57.891 33.333 0.00 0.00 0.00 3.16
3599 9661 9.627123 ATCTAATTTTATCCATTTCTCCGACAA 57.373 29.630 0.00 0.00 0.00 3.18
3600 9662 9.056005 CATCTAATTTTATCCATTTCTCCGACA 57.944 33.333 0.00 0.00 0.00 4.35
3601 9663 9.057089 ACATCTAATTTTATCCATTTCTCCGAC 57.943 33.333 0.00 0.00 0.00 4.79
3638 9700 9.838339 AGAAATGGATGAATCTAGACGTATTTT 57.162 29.630 0.00 0.00 0.00 1.82
3639 9701 9.482627 GAGAAATGGATGAATCTAGACGTATTT 57.517 33.333 0.00 0.00 0.00 1.40
3640 9702 8.091449 GGAGAAATGGATGAATCTAGACGTATT 58.909 37.037 0.00 0.00 0.00 1.89
3641 9703 7.575909 CGGAGAAATGGATGAATCTAGACGTAT 60.576 40.741 0.00 0.00 0.00 3.06
3642 9704 6.294010 CGGAGAAATGGATGAATCTAGACGTA 60.294 42.308 0.00 0.00 0.00 3.57
3643 9705 5.508153 CGGAGAAATGGATGAATCTAGACGT 60.508 44.000 0.00 0.00 0.00 4.34
3644 9706 4.920340 CGGAGAAATGGATGAATCTAGACG 59.080 45.833 0.00 0.00 0.00 4.18
3645 9707 5.923684 GTCGGAGAAATGGATGAATCTAGAC 59.076 44.000 0.00 0.00 39.69 2.59
3646 9708 5.598417 TGTCGGAGAAATGGATGAATCTAGA 59.402 40.000 0.00 0.00 39.69 2.43
3647 9709 5.847304 TGTCGGAGAAATGGATGAATCTAG 58.153 41.667 0.00 0.00 39.69 2.43
3648 9710 5.869649 TGTCGGAGAAATGGATGAATCTA 57.130 39.130 0.00 0.00 39.69 1.98
3649 9711 4.760530 TGTCGGAGAAATGGATGAATCT 57.239 40.909 0.00 0.00 39.69 2.40
3650 9712 4.878397 ACTTGTCGGAGAAATGGATGAATC 59.122 41.667 0.00 0.00 39.69 2.52
3651 9713 4.848357 ACTTGTCGGAGAAATGGATGAAT 58.152 39.130 0.00 0.00 39.69 2.57
3652 9714 4.286297 ACTTGTCGGAGAAATGGATGAA 57.714 40.909 0.00 0.00 39.69 2.57
3653 9715 3.981071 ACTTGTCGGAGAAATGGATGA 57.019 42.857 0.00 0.00 39.69 2.92
3654 9716 6.238484 GGAAATACTTGTCGGAGAAATGGATG 60.238 42.308 0.00 0.00 39.69 3.51
3655 9717 5.823045 GGAAATACTTGTCGGAGAAATGGAT 59.177 40.000 0.00 0.00 39.69 3.41
3656 9718 5.183228 GGAAATACTTGTCGGAGAAATGGA 58.817 41.667 0.00 0.00 39.69 3.41
3657 9719 4.034048 CGGAAATACTTGTCGGAGAAATGG 59.966 45.833 0.00 0.00 39.69 3.16
3658 9720 4.034048 CCGGAAATACTTGTCGGAGAAATG 59.966 45.833 0.00 0.00 42.94 2.32
3659 9721 4.081309 TCCGGAAATACTTGTCGGAGAAAT 60.081 41.667 0.00 0.00 43.84 2.17
3660 9722 3.258872 TCCGGAAATACTTGTCGGAGAAA 59.741 43.478 0.00 0.00 43.84 2.52
3661 9723 2.827322 TCCGGAAATACTTGTCGGAGAA 59.173 45.455 0.00 0.00 43.84 2.87
3662 9724 2.449464 TCCGGAAATACTTGTCGGAGA 58.551 47.619 0.00 0.00 43.84 3.71
3663 9725 2.953466 TCCGGAAATACTTGTCGGAG 57.047 50.000 0.00 0.00 43.84 4.63
3664 9726 1.135315 CGTCCGGAAATACTTGTCGGA 60.135 52.381 5.23 0.00 46.06 4.55
3665 9727 1.274596 CGTCCGGAAATACTTGTCGG 58.725 55.000 5.23 0.00 41.80 4.79
3666 9728 1.135315 TCCGTCCGGAAATACTTGTCG 60.135 52.381 5.23 1.25 42.05 4.35
3667 9729 2.537401 CTCCGTCCGGAAATACTTGTC 58.463 52.381 5.23 0.00 44.66 3.18
3668 9730 1.206371 CCTCCGTCCGGAAATACTTGT 59.794 52.381 5.23 0.00 44.66 3.16
3669 9731 1.472728 CCCTCCGTCCGGAAATACTTG 60.473 57.143 5.23 0.00 44.66 3.16
3670 9732 0.828677 CCCTCCGTCCGGAAATACTT 59.171 55.000 5.23 0.00 44.66 2.24
3671 9733 0.032813 TCCCTCCGTCCGGAAATACT 60.033 55.000 5.23 0.00 44.66 2.12
3672 9734 0.388294 CTCCCTCCGTCCGGAAATAC 59.612 60.000 5.23 0.00 44.66 1.89
3673 9735 0.032813 ACTCCCTCCGTCCGGAAATA 60.033 55.000 5.23 0.00 44.66 1.40
3674 9736 0.032813 TACTCCCTCCGTCCGGAAAT 60.033 55.000 5.23 0.00 44.66 2.17
3675 9737 0.032813 ATACTCCCTCCGTCCGGAAA 60.033 55.000 5.23 0.00 44.66 3.13
3676 9738 0.846015 TATACTCCCTCCGTCCGGAA 59.154 55.000 5.23 0.00 44.66 4.30
3677 9739 0.846015 TTATACTCCCTCCGTCCGGA 59.154 55.000 0.00 0.00 42.90 5.14
3678 9740 1.920610 ATTATACTCCCTCCGTCCGG 58.079 55.000 0.00 0.00 0.00 5.14
3679 9741 4.077822 ACTTATTATACTCCCTCCGTCCG 58.922 47.826 0.00 0.00 0.00 4.79
3680 9742 4.831710 ACACTTATTATACTCCCTCCGTCC 59.168 45.833 0.00 0.00 0.00 4.79
3681 9743 6.402456 AACACTTATTATACTCCCTCCGTC 57.598 41.667 0.00 0.00 0.00 4.79
3682 9744 6.803366 AAACACTTATTATACTCCCTCCGT 57.197 37.500 0.00 0.00 0.00 4.69
3683 9745 6.482308 CCAAAACACTTATTATACTCCCTCCG 59.518 42.308 0.00 0.00 0.00 4.63
3684 9746 7.344134 ACCAAAACACTTATTATACTCCCTCC 58.656 38.462 0.00 0.00 0.00 4.30
3685 9747 9.543783 CTACCAAAACACTTATTATACTCCCTC 57.456 37.037 0.00 0.00 0.00 4.30
3686 9748 9.054580 ACTACCAAAACACTTATTATACTCCCT 57.945 33.333 0.00 0.00 0.00 4.20
3687 9749 9.676861 AACTACCAAAACACTTATTATACTCCC 57.323 33.333 0.00 0.00 0.00 4.30
3699 9761 9.097257 CAATTCAAATTGAACTACCAAAACACT 57.903 29.630 10.91 0.00 46.72 3.55
4070 11515 0.979665 AAAGCTGCTCTGCACCTCTA 59.020 50.000 1.00 0.00 33.79 2.43
4095 11540 2.227865 ACCGATAAAACAACGCAAGCAT 59.772 40.909 0.00 0.00 45.62 3.79
4414 11868 0.681243 GGTCTTGGCCCATTCCTCAC 60.681 60.000 0.00 0.00 0.00 3.51
4457 11911 3.321111 ACAGTTCAAGAGTGTCCACGTAT 59.679 43.478 0.00 0.00 37.34 3.06
4470 11924 8.842358 TGTAAAGATACCCTAAACAGTTCAAG 57.158 34.615 0.00 0.00 0.00 3.02
4514 11971 7.973048 AGGATTGTCAGGTAATAGTACTGAA 57.027 36.000 5.39 0.00 0.00 3.02
4515 11972 7.230913 GCTAGGATTGTCAGGTAATAGTACTGA 59.769 40.741 5.39 0.12 0.00 3.41
4516 11973 7.371936 GCTAGGATTGTCAGGTAATAGTACTG 58.628 42.308 5.39 0.00 0.00 2.74
4564 12021 6.040504 TGCTCTTACAGAAGTTACTGAGTGAA 59.959 38.462 0.00 0.00 40.63 3.18
4566 12023 5.773575 TGCTCTTACAGAAGTTACTGAGTG 58.226 41.667 0.00 0.00 40.63 3.51
4567 12024 6.435904 AGATGCTCTTACAGAAGTTACTGAGT 59.564 38.462 0.00 0.00 40.63 3.41
4570 12027 6.625362 TGAGATGCTCTTACAGAAGTTACTG 58.375 40.000 0.00 0.00 42.78 2.74
4571 12028 6.435904 ACTGAGATGCTCTTACAGAAGTTACT 59.564 38.462 0.00 0.00 34.03 2.24
4572 12029 6.626302 ACTGAGATGCTCTTACAGAAGTTAC 58.374 40.000 0.00 0.00 34.03 2.50
4573 12030 6.403746 CGACTGAGATGCTCTTACAGAAGTTA 60.404 42.308 0.00 0.00 34.03 2.24
4576 12033 4.142491 ACGACTGAGATGCTCTTACAGAAG 60.142 45.833 0.00 0.00 33.53 2.85
4577 12034 3.759086 ACGACTGAGATGCTCTTACAGAA 59.241 43.478 0.00 0.00 33.53 3.02
4580 12049 4.521130 AAACGACTGAGATGCTCTTACA 57.479 40.909 0.00 0.00 0.00 2.41
4731 12200 8.178313 GCTTTCTGATTCTTTAGATTGTGGTAC 58.822 37.037 0.00 0.00 0.00 3.34
4871 12340 1.596603 TGATATCAACATGGGCTGCG 58.403 50.000 1.98 0.00 0.00 5.18
5000 12510 3.070159 GGCTGTATGCATGGACTCTTCTA 59.930 47.826 10.16 0.00 45.15 2.10
5163 12675 5.107607 CGCAGTCATACCCAAAATATACGAC 60.108 44.000 0.00 0.00 0.00 4.34
5165 12677 4.151689 CCGCAGTCATACCCAAAATATACG 59.848 45.833 0.00 0.00 0.00 3.06
5336 12882 3.845178 TGCCGAACACATTACAGACTAG 58.155 45.455 0.00 0.00 0.00 2.57


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

AutoCloner maintained by Alex Coulton.