Multiple sequence alignment - TraesCS2A01G515500

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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 TraesCS2A01G515500 chr2A 100.000 8535 0 0 1 8535 739702935 739694401 0.000000e+00 15762
1 TraesCS2A01G515500 chr2A 79.203 2635 498 42 2495 5103 776049013 776046403 0.000000e+00 1784
2 TraesCS2A01G515500 chr2A 79.111 2633 504 39 2495 5103 551474268 551471658 0.000000e+00 1773
3 TraesCS2A01G515500 chr2A 81.715 1761 296 20 180 1933 739437360 739435619 0.000000e+00 1445
4 TraesCS2A01G515500 chr2A 80.974 1519 259 24 421 1933 739451744 739450250 0.000000e+00 1177
5 TraesCS2A01G515500 chr2A 77.201 1579 333 24 5573 7137 139944549 139942984 0.000000e+00 896
6 TraesCS2A01G515500 chr2A 100.000 149 0 0 1944 2092 739695853 739695705 8.440000e-70 276
7 TraesCS2A01G515500 chr2A 100.000 149 0 0 7083 7231 739700992 739700844 8.440000e-70 276
8 TraesCS2A01G515500 chr2A 81.457 302 51 5 7239 7536 739435606 739435306 8.560000e-60 243
9 TraesCS2A01G515500 chr2A 92.063 126 4 3 8254 8377 740009340 740009461 1.140000e-38 172
10 TraesCS2A01G515500 chr2A 82.051 117 20 1 54 170 739437410 739437295 1.960000e-16 99
11 TraesCS2A01G515500 chr2D 98.809 5291 59 4 1944 7231 426938377 426933088 0.000000e+00 9419
12 TraesCS2A01G515500 chr2D 89.452 1953 184 15 1 1947 608186170 608184234 0.000000e+00 2446
13 TraesCS2A01G515500 chr2D 82.860 1762 275 22 181 1933 607972439 607970696 0.000000e+00 1555
14 TraesCS2A01G515500 chr2D 92.754 1035 60 10 7232 8254 608184241 608183210 0.000000e+00 1482
15 TraesCS2A01G515500 chr2D 81.659 1772 308 15 172 1933 607940925 607939161 0.000000e+00 1456
16 TraesCS2A01G515500 chr2D 80.054 1113 203 9 823 1933 607961932 607960837 0.000000e+00 808
17 TraesCS2A01G515500 chr2D 99.329 149 1 0 1944 2092 426933236 426933088 3.930000e-68 270
18 TraesCS2A01G515500 chr2D 98.684 152 1 1 7080 7231 426938380 426938230 1.410000e-67 268
19 TraesCS2A01G515500 chr2D 81.350 311 53 5 7230 7536 607970692 607970383 1.840000e-61 248
20 TraesCS2A01G515500 chr2D 80.707 311 55 4 7230 7536 607939157 607938848 3.980000e-58 237
21 TraesCS2A01G515500 chr2D 79.538 303 55 7 7239 7536 607960824 607960524 8.680000e-50 209
22 TraesCS2A01G515500 chr2D 90.551 127 6 2 8254 8377 608479933 608480056 6.860000e-36 163
23 TraesCS2A01G515500 chr2D 79.096 177 29 5 1 170 607964053 607963878 1.950000e-21 115
24 TraesCS2A01G515500 chr2D 90.123 81 7 1 92 171 607940931 607940851 4.210000e-18 104
25 TraesCS2A01G515500 chr7D 98.507 5293 77 2 1944 7234 92598227 92592935 0.000000e+00 9335
26 TraesCS2A01G515500 chr7D 78.702 709 138 11 2529 3231 20509108 20508407 2.170000e-125 460
27 TraesCS2A01G515500 chr7D 99.333 150 1 0 7082 7231 92598228 92598079 1.090000e-68 272
28 TraesCS2A01G515500 chr7D 98.667 150 2 0 1944 2093 92593086 92592937 5.080000e-67 267
29 TraesCS2A01G515500 chr6D 98.376 5294 81 5 1943 7234 6505056 6499766 0.000000e+00 9295
30 TraesCS2A01G515500 chr6D 99.329 149 1 0 7083 7231 6505055 6504907 3.930000e-68 270
31 TraesCS2A01G515500 chr6D 97.987 149 3 0 1944 2092 6499917 6499769 8.500000e-65 259
32 TraesCS2A01G515500 chr3A 97.146 5290 146 5 1944 7231 644828730 644823444 0.000000e+00 8927
33 TraesCS2A01G515500 chr3A 78.981 2631 512 35 2495 5103 703926178 703923567 0.000000e+00 1757
34 TraesCS2A01G515500 chr3A 91.018 334 14 3 2081 2398 10254864 10255197 3.660000e-118 436
35 TraesCS2A01G515500 chr3A 96.644 149 5 0 1944 2092 644823592 644823444 1.840000e-61 248
36 TraesCS2A01G515500 chr1B 94.502 3401 176 7 2335 5731 34514326 34517719 0.000000e+00 5234
37 TraesCS2A01G515500 chr1B 95.147 577 28 0 6249 6825 34593739 34594315 0.000000e+00 911
38 TraesCS2A01G515500 chr1B 93.861 505 21 5 5726 6221 34593239 34593742 0.000000e+00 752
39 TraesCS2A01G515500 chr1B 82.644 749 120 9 2496 3239 85249061 85249804 0.000000e+00 654
40 TraesCS2A01G515500 chr1B 94.486 399 22 0 6821 7219 34603815 34604213 4.380000e-172 616
41 TraesCS2A01G515500 chr2B 95.396 1694 71 5 1 1693 741390824 741389137 0.000000e+00 2689
42 TraesCS2A01G515500 chr2B 81.869 1776 273 33 172 1933 741385126 741383386 0.000000e+00 1450
43 TraesCS2A01G515500 chr2B 81.268 1767 299 27 180 1933 741153611 741151864 0.000000e+00 1400
44 TraesCS2A01G515500 chr2B 80.341 1760 314 22 181 1933 741117397 741115663 0.000000e+00 1304
45 TraesCS2A01G515500 chr2B 86.414 1185 95 24 7232 8386 741388849 741387701 0.000000e+00 1236
46 TraesCS2A01G515500 chr2B 84.881 840 112 12 172 1007 741147746 741146918 0.000000e+00 833
47 TraesCS2A01G515500 chr2B 75.773 1552 343 31 5554 7087 134557290 134555754 0.000000e+00 752
48 TraesCS2A01G515500 chr2B 80.077 783 113 21 7230 7988 741383382 741382619 7.540000e-150 542
49 TraesCS2A01G515500 chr2B 91.892 296 20 4 1654 1947 741389135 741388842 2.220000e-110 411
50 TraesCS2A01G515500 chr2B 83.413 416 40 12 8131 8535 741382272 741381875 8.150000e-95 359
51 TraesCS2A01G515500 chr2B 81.410 312 51 6 7230 7536 741019883 741019574 1.840000e-61 248
52 TraesCS2A01G515500 chr2B 91.406 128 11 0 7239 7366 741151851 741151724 8.810000e-40 176
53 TraesCS2A01G515500 chr2B 91.129 124 10 1 8254 8377 741856500 741856622 5.300000e-37 167
54 TraesCS2A01G515500 chr2B 81.046 153 25 3 23 171 741385204 741385052 1.510000e-22 119
55 TraesCS2A01G515500 chr2B 84.615 117 17 1 54 170 741153661 741153546 1.950000e-21 115
56 TraesCS2A01G515500 chr2B 91.026 78 7 0 94 171 741021648 741021571 1.170000e-18 106
57 TraesCS2A01G515500 chr1A 79.754 2519 483 22 2533 5036 586914249 586916755 0.000000e+00 1801
58 TraesCS2A01G515500 chr7A 77.155 2587 536 46 2497 5056 679861572 679864130 0.000000e+00 1452
59 TraesCS2A01G515500 chr4A 76.971 1433 305 17 5668 7087 741360342 741361762 0.000000e+00 795
60 TraesCS2A01G515500 chr5A 75.580 1638 374 25 5464 7087 6722404 6724029 0.000000e+00 785
61 TraesCS2A01G515500 chr5A 75.580 1638 374 25 5464 7087 653381246 653382871 0.000000e+00 785
62 TraesCS2A01G515500 chrUn 82.330 764 125 9 2496 3254 3792397 3791639 0.000000e+00 654


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 TraesCS2A01G515500 chr2A 739694401 739702935 8534 True 15762.000000 15762 100.000000 1 8535 1 chr2A.!!$R4 8534
1 TraesCS2A01G515500 chr2A 776046403 776049013 2610 True 1784.000000 1784 79.203000 2495 5103 1 chr2A.!!$R7 2608
2 TraesCS2A01G515500 chr2A 551471658 551474268 2610 True 1773.000000 1773 79.111000 2495 5103 1 chr2A.!!$R2 2608
3 TraesCS2A01G515500 chr2A 739450250 739451744 1494 True 1177.000000 1177 80.974000 421 1933 1 chr2A.!!$R3 1512
4 TraesCS2A01G515500 chr2A 139942984 139944549 1565 True 896.000000 896 77.201000 5573 7137 1 chr2A.!!$R1 1564
5 TraesCS2A01G515500 chr2A 739435306 739437410 2104 True 595.666667 1445 81.741000 54 7536 3 chr2A.!!$R8 7482
6 TraesCS2A01G515500 chr2D 426933088 426938377 5289 True 9419.000000 9419 98.809000 1944 7231 1 chr2D.!!$R1 5287
7 TraesCS2A01G515500 chr2D 608183210 608186170 2960 True 1964.000000 2446 91.103000 1 8254 2 chr2D.!!$R7 8253
8 TraesCS2A01G515500 chr2D 607970383 607972439 2056 True 901.500000 1555 82.105000 181 7536 2 chr2D.!!$R6 7355
9 TraesCS2A01G515500 chr2D 607938848 607940931 2083 True 599.000000 1456 84.163000 92 7536 3 chr2D.!!$R4 7444
10 TraesCS2A01G515500 chr2D 607960524 607964053 3529 True 377.333333 808 79.562667 1 7536 3 chr2D.!!$R5 7535
11 TraesCS2A01G515500 chr7D 92592935 92598227 5292 True 9335.000000 9335 98.507000 1944 7234 1 chr7D.!!$R2 5290
12 TraesCS2A01G515500 chr7D 20508407 20509108 701 True 460.000000 460 78.702000 2529 3231 1 chr7D.!!$R1 702
13 TraesCS2A01G515500 chr6D 6499766 6505056 5290 True 9295.000000 9295 98.376000 1943 7234 1 chr6D.!!$R1 5291
14 TraesCS2A01G515500 chr3A 644823444 644828730 5286 True 8927.000000 8927 97.146000 1944 7231 1 chr3A.!!$R1 5287
15 TraesCS2A01G515500 chr3A 703923567 703926178 2611 True 1757.000000 1757 78.981000 2495 5103 1 chr3A.!!$R3 2608
16 TraesCS2A01G515500 chr1B 34514326 34517719 3393 False 5234.000000 5234 94.502000 2335 5731 1 chr1B.!!$F1 3396
17 TraesCS2A01G515500 chr1B 34593239 34594315 1076 False 831.500000 911 94.504000 5726 6825 2 chr1B.!!$F4 1099
18 TraesCS2A01G515500 chr1B 85249061 85249804 743 False 654.000000 654 82.644000 2496 3239 1 chr1B.!!$F3 743
19 TraesCS2A01G515500 chr2B 741115663 741117397 1734 True 1304.000000 1304 80.341000 181 1933 1 chr2B.!!$R2 1752
20 TraesCS2A01G515500 chr2B 741381875 741390824 8949 True 972.285714 2689 85.729571 1 8535 7 chr2B.!!$R5 8534
21 TraesCS2A01G515500 chr2B 134555754 134557290 1536 True 752.000000 752 75.773000 5554 7087 1 chr2B.!!$R1 1533
22 TraesCS2A01G515500 chr2B 741146918 741153661 6743 True 631.000000 1400 85.542500 54 7366 4 chr2B.!!$R4 7312
23 TraesCS2A01G515500 chr1A 586914249 586916755 2506 False 1801.000000 1801 79.754000 2533 5036 1 chr1A.!!$F1 2503
24 TraesCS2A01G515500 chr7A 679861572 679864130 2558 False 1452.000000 1452 77.155000 2497 5056 1 chr7A.!!$F1 2559
25 TraesCS2A01G515500 chr4A 741360342 741361762 1420 False 795.000000 795 76.971000 5668 7087 1 chr4A.!!$F1 1419
26 TraesCS2A01G515500 chr5A 6722404 6724029 1625 False 785.000000 785 75.580000 5464 7087 1 chr5A.!!$F1 1623
27 TraesCS2A01G515500 chr5A 653381246 653382871 1625 False 785.000000 785 75.580000 5464 7087 1 chr5A.!!$F2 1623
28 TraesCS2A01G515500 chrUn 3791639 3792397 758 True 654.000000 654 82.330000 2496 3254 1 chrUn.!!$R1 758

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
496 6106 0.114364 ATGGACACCCCCTTTCCAAC 59.886 55.000 0.00 0.0 42.71 3.77 F
1758 8769 0.317938 GCGTCGACCTATCTGCGAAT 60.318 55.000 10.58 0.0 35.66 3.34 F
2974 9988 1.065564 GCTGAGCCAAGGTGAGAGAAT 60.066 52.381 0.00 0.0 0.00 2.40 F
3634 10654 4.579340 GTCACATGCATCATCCTCTTCATT 59.421 41.667 0.00 0.0 0.00 2.57 F
4000 11023 5.694995 ACTTGGAACTGGAAAAGAGATTGA 58.305 37.500 0.00 0.0 0.00 2.57 F
4936 11960 4.202409 TGTGAGTATGGATGTGGTGTTTCA 60.202 41.667 0.00 0.0 0.00 2.69 F
5706 12731 4.037446 TGTTCACCATAAAGCAAACACCTC 59.963 41.667 0.00 0.0 0.00 3.85 F
7321 14356 0.749091 TTGGCTCATTCGGCATGGAG 60.749 55.000 0.00 0.0 39.34 3.86 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2419 9430 0.034670 GATTCAAGCCTCTGCACCCT 60.035 55.000 0.00 0.0 41.13 4.34 R
3274 10288 0.185901 ACCTCCTGCAGCCAAGAAAA 59.814 50.000 8.66 0.0 0.00 2.29 R
4000 11023 1.001746 CATCACGCATGCTCCCTATCT 59.998 52.381 17.13 0.0 0.00 1.98 R
4694 11718 2.750350 CCAAGCACCCGAGAAGGT 59.250 61.111 0.00 0.0 42.40 3.50 R
5019 12044 3.715648 ATCTCCCCCTGTCTCATAGTT 57.284 47.619 0.00 0.0 0.00 2.24 R
5876 12907 6.349280 GCAAGTCACCATGTAGAAAAGCATTA 60.349 38.462 0.00 0.0 0.00 1.90 R
7393 15682 0.036952 CACACACATCTTCCTCCGCT 60.037 55.000 0.00 0.0 0.00 5.52 R
8413 19454 0.249996 ACATGCAGCTTTGGGTTTGC 60.250 50.000 0.00 0.0 37.09 3.68 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
42 44 6.932356 ATAATGAGCATTCCCGCTTATATG 57.068 37.500 0.00 0.00 44.01 1.78
46 48 3.821033 GAGCATTCCCGCTTATATGGTTT 59.179 43.478 0.00 0.00 44.01 3.27
62 70 4.394439 TGGTTTAAAAAGGTTGCCACTC 57.606 40.909 0.00 0.00 0.00 3.51
72 80 5.966742 AAGGTTGCCACTCTTTCTAATTC 57.033 39.130 0.00 0.00 0.00 2.17
86 94 7.305474 TCTTTCTAATTCTTGCGTGATTTTCC 58.695 34.615 0.00 0.00 0.00 3.13
140 148 4.092968 CCTACGGCAGTTGTATTTGAGTTC 59.907 45.833 0.00 0.00 0.00 3.01
161 169 2.029110 CCAACCAATTCAGCGGAAACAT 60.029 45.455 2.68 0.00 36.43 2.71
162 170 3.554752 CCAACCAATTCAGCGGAAACATT 60.555 43.478 2.68 0.00 36.43 2.71
163 171 3.575965 ACCAATTCAGCGGAAACATTC 57.424 42.857 2.68 0.00 36.43 2.67
164 172 2.231235 ACCAATTCAGCGGAAACATTCC 59.769 45.455 2.68 0.00 46.62 3.01
277 360 6.406370 TCTCTACCACATATTGAACTGTTGG 58.594 40.000 0.00 0.00 0.00 3.77
459 6069 3.375299 CAGGCAATGCTAACCTAGTTGTC 59.625 47.826 4.82 0.00 30.84 3.18
460 6070 2.683362 GGCAATGCTAACCTAGTTGTCC 59.317 50.000 4.82 0.00 0.00 4.02
496 6106 0.114364 ATGGACACCCCCTTTCCAAC 59.886 55.000 0.00 0.00 42.71 3.77
614 6224 9.295825 TGATTTGTCCAATAATAACTTGTCAGT 57.704 29.630 0.00 0.00 33.11 3.41
711 6322 1.070134 TCGCTAGACCCAATATGGCAC 59.930 52.381 0.00 0.00 35.79 5.01
753 6364 6.655003 AGGTTATCAACTTACACATGAACCAG 59.345 38.462 0.00 0.00 30.01 4.00
773 6384 2.142761 TCACAGGACAGCTGCCAGT 61.143 57.895 23.46 19.70 0.00 4.00
785 7787 1.610522 GCTGCCAGTCAACATCAGTTT 59.389 47.619 0.00 0.00 35.28 2.66
804 7806 5.463061 CAGTTTAATGTTTCCAAGGTTGCTG 59.537 40.000 0.00 0.00 0.00 4.41
805 7807 5.362430 AGTTTAATGTTTCCAAGGTTGCTGA 59.638 36.000 0.00 0.00 0.00 4.26
814 7816 2.426024 CCAAGGTTGCTGATTCTGGATG 59.574 50.000 0.00 0.00 0.00 3.51
860 7862 2.487762 ACATACCAACTTCATTGTGCGG 59.512 45.455 0.00 0.00 36.47 5.69
876 7878 0.652592 GCGGGATCAACTTCATGACG 59.347 55.000 0.00 0.00 30.82 4.35
949 7951 6.992123 TGTGTTCACTAATTATCCCATGCTAG 59.008 38.462 4.59 0.00 0.00 3.42
953 7955 6.997655 TCACTAATTATCCCATGCTAGTGAG 58.002 40.000 5.80 0.00 39.97 3.51
972 7974 6.064717 AGTGAGCTTAAAGGTCTGAAACAAT 58.935 36.000 0.00 0.00 42.83 2.71
993 7995 5.904362 ATAAGCTTGGTGGTCTGATTTTC 57.096 39.130 9.86 0.00 0.00 2.29
1022 8030 6.018180 GGAATGAATAACCTGTCCATTACGTC 60.018 42.308 0.00 0.00 0.00 4.34
1059 8067 3.734776 GGTAACAAATTCGAAGGGACG 57.265 47.619 3.35 0.00 0.00 4.79
1136 8144 6.349300 ACGAGTTATCTGGCAAACTTGATAT 58.651 36.000 19.73 0.82 38.77 1.63
1158 8166 9.606631 GATATGTCATTATGGAATAGGTCTTCC 57.393 37.037 0.00 0.00 44.23 3.46
1185 8193 2.097825 GTCCTGAATCTTGCTGGCAAT 58.902 47.619 8.49 0.00 35.20 3.56
1219 8227 5.278364 GGCAAAATTCATCCACAAATTTGCA 60.278 36.000 18.12 2.90 35.74 4.08
1224 8232 4.339872 TCATCCACAAATTTGCAGCTTT 57.660 36.364 18.12 0.00 0.00 3.51
1227 8235 3.988819 TCCACAAATTTGCAGCTTTACC 58.011 40.909 18.12 0.00 0.00 2.85
1272 8280 2.673368 GAGCAACAATCTTACAGGGTCG 59.327 50.000 0.00 0.00 0.00 4.79
1344 8352 7.558081 GGGAATTCCTTATCTAGCCATATTTCC 59.442 40.741 23.63 0.00 35.95 3.13
1423 8431 2.754186 GCAGGCAACCTCCATTGGATAT 60.754 50.000 5.70 0.00 37.17 1.63
1480 8488 3.119495 CGGAAATAAGTTTGAAGGGCAGG 60.119 47.826 0.00 0.00 0.00 4.85
1595 8603 3.295973 TCTTTTTCAAAGGTGACAGGGG 58.704 45.455 0.00 0.00 31.90 4.79
1612 8620 1.136891 GGGGCGATCAAATTTTCCAGG 59.863 52.381 0.00 0.00 0.00 4.45
1620 8628 7.227910 GGCGATCAAATTTTCCAGGTAGTATTA 59.772 37.037 0.00 0.00 0.00 0.98
1622 8630 9.931210 CGATCAAATTTTCCAGGTAGTATTAAC 57.069 33.333 0.00 0.00 0.00 2.01
1631 8639 7.100458 TCCAGGTAGTATTAACGAGTTTACC 57.900 40.000 0.00 5.94 0.00 2.85
1637 8645 7.851472 GGTAGTATTAACGAGTTTACCGTACTC 59.149 40.741 0.00 0.00 39.57 2.59
1638 8646 7.377766 AGTATTAACGAGTTTACCGTACTCA 57.622 36.000 0.00 0.00 41.64 3.41
1639 8647 7.244192 AGTATTAACGAGTTTACCGTACTCAC 58.756 38.462 0.00 0.00 41.64 3.51
1640 8648 5.689383 TTAACGAGTTTACCGTACTCACT 57.311 39.130 0.00 0.00 41.64 3.41
1642 8650 5.689383 AACGAGTTTACCGTACTCACTTA 57.311 39.130 0.00 0.00 41.64 2.24
1644 8652 5.693814 ACGAGTTTACCGTACTCACTTAAG 58.306 41.667 0.00 0.00 41.64 1.85
1645 8653 4.556523 CGAGTTTACCGTACTCACTTAAGC 59.443 45.833 1.29 0.00 41.64 3.09
1655 8663 6.040247 CGTACTCACTTAAGCCATATGACAA 58.960 40.000 3.65 0.00 0.00 3.18
1664 8672 7.667219 ACTTAAGCCATATGACAATCCTTATGG 59.333 37.037 3.65 7.43 42.57 2.74
1677 8688 4.657814 TCCTTATGGCTTGAGAGGTTTT 57.342 40.909 0.00 0.00 0.00 2.43
1741 8752 1.265635 TCTTTGTTTCAATGTCCGGCG 59.734 47.619 0.00 0.00 0.00 6.46
1758 8769 0.317938 GCGTCGACCTATCTGCGAAT 60.318 55.000 10.58 0.00 35.66 3.34
1786 8797 3.879321 GCATGGAGAAATTCCTTGGGAGT 60.879 47.826 10.07 0.00 46.31 3.85
1853 8864 1.784301 TTTGTTGGCCCGATCCCAGA 61.784 55.000 0.00 0.00 33.13 3.86
1878 8889 1.925285 TTGGCGGCATGGAGGAGATT 61.925 55.000 14.32 0.00 0.00 2.40
1934 8945 2.717639 CCAATACCTTGGCAGCTAGT 57.282 50.000 0.00 0.00 45.28 2.57
1999 9010 6.997239 ATAGAGGGACGAAAATGTAAAACC 57.003 37.500 0.00 0.00 0.00 3.27
2367 9378 3.414136 TTGCGTGTGGAGGTTGCCT 62.414 57.895 0.00 0.00 36.03 4.75
2419 9430 2.771639 CCGACGGCTAGCTAGTGCA 61.772 63.158 21.62 0.00 42.74 4.57
2421 9432 1.066587 GACGGCTAGCTAGTGCAGG 59.933 63.158 21.62 7.93 42.74 4.85
2440 9454 1.210478 GGGTGCAGAGGCTTGAATCTA 59.790 52.381 0.00 0.00 41.91 1.98
2493 9507 2.449464 CTGAAATCAGTGATGCCCCAA 58.551 47.619 6.34 0.00 39.09 4.12
2845 9859 2.481568 TGTCTTCTCAGATTGCAAAGCG 59.518 45.455 1.71 0.00 37.27 4.68
2910 9924 4.019411 TGAAAGGCACATATTCAGGAGTGA 60.019 41.667 0.00 0.00 33.99 3.41
2974 9988 1.065564 GCTGAGCCAAGGTGAGAGAAT 60.066 52.381 0.00 0.00 0.00 2.40
3591 10611 7.084486 GCGTCAATTCAAGAACCTAAATCTTT 58.916 34.615 0.00 0.00 34.99 2.52
3596 10616 9.185192 CAATTCAAGAACCTAAATCTTTGTGTC 57.815 33.333 0.00 0.00 34.99 3.67
3634 10654 4.579340 GTCACATGCATCATCCTCTTCATT 59.421 41.667 0.00 0.00 0.00 2.57
4000 11023 5.694995 ACTTGGAACTGGAAAAGAGATTGA 58.305 37.500 0.00 0.00 0.00 2.57
4153 11176 5.826643 TGCTATTTTGGGTCAGATTTACCT 58.173 37.500 0.00 0.00 37.18 3.08
4694 11718 8.159447 ACTGCAGCTTATTTGATGAATAGGATA 58.841 33.333 15.27 0.00 30.92 2.59
4936 11960 4.202409 TGTGAGTATGGATGTGGTGTTTCA 60.202 41.667 0.00 0.00 0.00 2.69
5019 12044 6.544928 TTACTGATGACCTCTTAGATGCAA 57.455 37.500 0.00 0.00 0.00 4.08
5706 12731 4.037446 TGTTCACCATAAAGCAAACACCTC 59.963 41.667 0.00 0.00 0.00 3.85
5832 12863 9.607333 TGAATACTATTAGAACCCTGATCTCAT 57.393 33.333 0.00 0.00 0.00 2.90
5876 12907 9.258629 TGGAATCTTTTTCAGATGGATGTTAAT 57.741 29.630 0.00 0.00 41.93 1.40
6700 13733 4.567747 GGAAATTTGGTTAGCTGGAGGAGA 60.568 45.833 0.00 0.00 0.00 3.71
7138 14173 6.997239 ATAGAGGGACGAAAATGTAAAACC 57.003 37.500 0.00 0.00 0.00 3.27
7321 14356 0.749091 TTGGCTCATTCGGCATGGAG 60.749 55.000 0.00 0.00 39.34 3.86
7357 14392 3.813166 ACACCAACCTTCACAAGATTACG 59.187 43.478 0.00 0.00 0.00 3.18
7381 15670 1.589716 GGAACATGTGCACTCCCAGC 61.590 60.000 19.41 3.15 0.00 4.85
7387 15676 1.219393 GTGCACTCCCAGCCTAGAC 59.781 63.158 10.32 0.00 0.00 2.59
7391 15680 2.368594 CTCCCAGCCTAGACCCCA 59.631 66.667 0.00 0.00 0.00 4.96
7393 15682 0.191064 CTCCCAGCCTAGACCCCATA 59.809 60.000 0.00 0.00 0.00 2.74
7409 15698 1.414181 CCATAGCGGAGGAAGATGTGT 59.586 52.381 0.00 0.00 36.56 3.72
7419 15708 4.564406 GGAGGAAGATGTGTGTGAGATGTT 60.564 45.833 0.00 0.00 0.00 2.71
7537 15826 5.061064 GTCTGTAATGTTCAAGCTGTAGTCG 59.939 44.000 0.00 0.00 0.00 4.18
7542 15832 1.272769 GTTCAAGCTGTAGTCGGTCCT 59.727 52.381 0.00 0.00 0.00 3.85
7543 15833 0.888619 TCAAGCTGTAGTCGGTCCTG 59.111 55.000 0.00 0.00 0.00 3.86
7555 15845 1.621814 TCGGTCCTGAGGAAAAATCGT 59.378 47.619 0.96 0.00 31.38 3.73
7562 15852 5.120363 GTCCTGAGGAAAAATCGTTAGTCAC 59.880 44.000 0.96 0.00 31.38 3.67
7564 15854 5.468746 CCTGAGGAAAAATCGTTAGTCACAA 59.531 40.000 0.00 0.00 0.00 3.33
7618 15940 3.763897 ACTTCCCGAAATTTCATTCTGGG 59.236 43.478 17.99 17.74 40.96 4.45
7624 15946 5.221048 CCCGAAATTTCATTCTGGGTATGTC 60.221 44.000 17.99 0.00 37.86 3.06
7748 16078 7.658261 TGGAGTATGTATCATAGTGTACTTGC 58.342 38.462 0.00 0.00 0.00 4.01
7767 16097 5.479375 ACTTGCTTAGTACAGGTTAGCACTA 59.521 40.000 0.00 0.00 41.15 2.74
7778 16108 6.970191 ACAGGTTAGCACTAGGGAAAATTAT 58.030 36.000 0.00 0.00 0.00 1.28
7857 16187 3.813166 ACGCATGCCCTTTACATATACAC 59.187 43.478 13.15 0.00 0.00 2.90
7867 16197 6.545666 CCCTTTACATATACACCAAATGCTGA 59.454 38.462 0.00 0.00 0.00 4.26
7914 16252 4.288626 TGCAGGGAATTATATAGGGTGGTC 59.711 45.833 0.00 0.00 0.00 4.02
7978 16349 0.823356 TTGTGCTGAAACCCCTCTGC 60.823 55.000 0.00 0.00 39.86 4.26
8124 17984 1.750193 ATGTTCATTACGTGCCCCAG 58.250 50.000 0.00 0.00 0.00 4.45
8177 18987 4.039730 ACATGTGTGCTATCTCCTATGACC 59.960 45.833 0.00 0.00 0.00 4.02
8297 19332 5.752036 TCATAATAGAAGGCCATGGAGAG 57.248 43.478 18.40 0.00 0.00 3.20
8316 19351 2.049248 GTTGCATTGCACACCGGG 60.049 61.111 11.66 0.00 38.71 5.73
8345 19380 6.206180 TCTGGTATCCTGAGATCAGATGTA 57.794 41.667 11.44 0.00 46.59 2.29
8347 19382 6.491745 TCTGGTATCCTGAGATCAGATGTAAC 59.508 42.308 11.44 4.75 46.59 2.50
8357 19398 5.503927 AGATCAGATGTAACCTGCACAAAT 58.496 37.500 0.00 0.00 0.00 2.32
8407 19448 8.000709 TGGATTCTGAATATAGCAATTGTCCTT 58.999 33.333 7.40 0.00 0.00 3.36
8411 19452 7.112122 TCTGAATATAGCAATTGTCCTTGTGT 58.888 34.615 7.40 0.00 0.00 3.72
8413 19454 7.537715 TGAATATAGCAATTGTCCTTGTGTTG 58.462 34.615 7.40 0.00 0.00 3.33
8414 19455 2.514205 AGCAATTGTCCTTGTGTTGC 57.486 45.000 7.40 0.00 43.97 4.17
8415 19456 1.755959 AGCAATTGTCCTTGTGTTGCA 59.244 42.857 7.40 0.00 45.54 4.08
8416 19457 2.168106 AGCAATTGTCCTTGTGTTGCAA 59.832 40.909 7.40 0.00 45.54 4.08
8435 19476 1.256812 AACCCAAAGCTGCATGTACC 58.743 50.000 1.02 0.00 0.00 3.34
8447 19488 4.264253 CTGCATGTACCCAATTGAGAGAA 58.736 43.478 7.12 0.00 0.00 2.87
8449 19490 4.458989 TGCATGTACCCAATTGAGAGAAAC 59.541 41.667 7.12 0.00 0.00 2.78
8451 19492 5.126061 GCATGTACCCAATTGAGAGAAACAT 59.874 40.000 7.12 5.22 0.00 2.71
8452 19493 6.318648 GCATGTACCCAATTGAGAGAAACATA 59.681 38.462 7.12 0.00 0.00 2.29
8453 19494 7.467811 GCATGTACCCAATTGAGAGAAACATAG 60.468 40.741 7.12 4.88 0.00 2.23
8470 19513 6.524101 AACATAGTTGGCGTAAATTCCAAT 57.476 33.333 0.14 0.00 43.43 3.16
8477 19520 5.749596 TGGCGTAAATTCCAATGTATCAG 57.250 39.130 0.00 0.00 0.00 2.90
8481 19524 5.220854 GCGTAAATTCCAATGTATCAGCACT 60.221 40.000 0.00 0.00 0.00 4.40
8504 19547 4.631377 TCATGAGATGTTTAGAGCGGTTTG 59.369 41.667 0.00 0.00 0.00 2.93
8528 19571 2.659897 CGCCGAGGCTACATGCTC 60.660 66.667 12.70 0.00 42.39 4.26
8532 19575 0.108186 CCGAGGCTACATGCTCAACA 60.108 55.000 0.00 0.00 42.39 3.33
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
12 13 4.278419 GCGGGAATGCTCATTATTTACCTT 59.722 41.667 0.00 0.00 0.00 3.50
42 44 4.665833 AGAGTGGCAACCTTTTTAAACC 57.334 40.909 0.00 0.00 0.00 3.27
46 48 7.833285 ATTAGAAAGAGTGGCAACCTTTTTA 57.167 32.000 14.08 10.99 31.20 1.52
62 70 7.308435 AGGAAAATCACGCAAGAATTAGAAAG 58.692 34.615 0.00 0.00 43.62 2.62
72 80 4.262976 GCGAATAAAGGAAAATCACGCAAG 59.737 41.667 0.00 0.00 42.39 4.01
86 94 7.253883 GGAGATTTTCAAATGCTGCGAATAAAG 60.254 37.037 0.00 0.00 0.00 1.85
140 148 1.339610 TGTTTCCGCTGAATTGGTTGG 59.660 47.619 0.00 0.00 0.00 3.77
161 169 7.818930 GGAGATTTTGAAATGCTAATGTTGGAA 59.181 33.333 0.00 0.00 0.00 3.53
162 170 7.039152 TGGAGATTTTGAAATGCTAATGTTGGA 60.039 33.333 0.00 0.00 0.00 3.53
163 171 7.098477 TGGAGATTTTGAAATGCTAATGTTGG 58.902 34.615 0.00 0.00 0.00 3.77
164 172 8.030692 TCTGGAGATTTTGAAATGCTAATGTTG 58.969 33.333 0.00 0.00 0.00 3.33
165 173 8.125978 TCTGGAGATTTTGAAATGCTAATGTT 57.874 30.769 0.00 0.00 0.00 2.71
166 174 7.707624 TCTGGAGATTTTGAAATGCTAATGT 57.292 32.000 0.00 0.00 0.00 2.71
167 175 7.490402 GGTTCTGGAGATTTTGAAATGCTAATG 59.510 37.037 0.00 0.00 0.00 1.90
168 176 7.398332 AGGTTCTGGAGATTTTGAAATGCTAAT 59.602 33.333 0.00 0.00 0.00 1.73
169 177 6.721208 AGGTTCTGGAGATTTTGAAATGCTAA 59.279 34.615 0.00 0.00 0.00 3.09
170 178 6.151648 CAGGTTCTGGAGATTTTGAAATGCTA 59.848 38.462 0.00 0.00 0.00 3.49
178 186 2.417933 CTCGCAGGTTCTGGAGATTTTG 59.582 50.000 7.27 0.00 33.66 2.44
277 360 5.005586 CGCTGAAGAAGTTTGATGAGAGATC 59.994 44.000 0.00 0.00 0.00 2.75
459 6069 4.989277 TCCATCCAGGAATATTGACATGG 58.011 43.478 0.00 0.00 45.65 3.66
496 6106 4.999950 ACCAGAGAGCAATAACTGTTTCAG 59.000 41.667 0.00 0.00 37.52 3.02
562 6172 2.668457 CCTCTAAATGACGCTGTGTGTC 59.332 50.000 0.00 4.52 42.60 3.67
614 6224 2.166829 ACAACCAATTCGGCATGCTAA 58.833 42.857 18.92 12.80 39.03 3.09
711 6322 1.421646 ACCTGGAGAAAAGACTGGGTG 59.578 52.381 0.00 0.00 0.00 4.61
717 6328 7.660208 TGTAAGTTGATAACCTGGAGAAAAGAC 59.340 37.037 0.00 0.00 0.00 3.01
753 6364 2.359230 GGCAGCTGTCCTGTGACC 60.359 66.667 16.64 0.84 43.71 4.02
773 6384 7.069331 ACCTTGGAAACATTAAACTGATGTTGA 59.931 33.333 3.53 0.00 44.55 3.18
785 7787 5.774690 AGAATCAGCAACCTTGGAAACATTA 59.225 36.000 0.00 0.00 42.32 1.90
804 7806 8.779354 AGTTGTTACTAGAAACATCCAGAATC 57.221 34.615 0.00 0.00 39.04 2.52
805 7807 9.220767 GAAGTTGTTACTAGAAACATCCAGAAT 57.779 33.333 0.00 0.00 39.04 2.40
814 7816 6.038936 TGCCCAAAGAAGTTGTTACTAGAAAC 59.961 38.462 0.00 0.00 35.23 2.78
860 7862 6.035112 GTCTAAAGACGTCATGAAGTTGATCC 59.965 42.308 19.50 2.77 35.12 3.36
949 7951 5.751243 TTGTTTCAGACCTTTAAGCTCAC 57.249 39.130 0.00 0.00 0.00 3.51
953 7955 6.914259 AGCTTATTGTTTCAGACCTTTAAGC 58.086 36.000 0.00 0.00 38.22 3.09
965 7967 4.518970 TCAGACCACCAAGCTTATTGTTTC 59.481 41.667 0.00 0.00 0.00 2.78
972 7974 3.751175 CGAAAATCAGACCACCAAGCTTA 59.249 43.478 0.00 0.00 0.00 3.09
993 7995 2.943033 GGACAGGTTATTCATTCCACCG 59.057 50.000 0.00 0.00 34.19 4.94
1022 8030 3.760693 CCATCCAGGTACAGTTCCG 57.239 57.895 0.00 0.00 0.00 4.30
1059 8067 0.459237 CTGACAGATCACGAGGCACC 60.459 60.000 0.00 0.00 0.00 5.01
1091 8099 5.048434 TCGTTGTCATGCAAATCAATAACCA 60.048 36.000 0.00 0.00 39.03 3.67
1095 8103 5.878332 ACTCGTTGTCATGCAAATCAATA 57.122 34.783 0.00 0.00 39.03 1.90
1151 8159 3.771577 TCAGGACTTTCAAGGAAGACC 57.228 47.619 1.92 1.92 40.34 3.85
1158 8166 4.082895 CCAGCAAGATTCAGGACTTTCAAG 60.083 45.833 0.00 0.00 0.00 3.02
1185 8193 7.341512 TGTGGATGAATTTTGCCAGTTATATGA 59.658 33.333 0.00 0.00 0.00 2.15
1219 8227 7.280356 TCTAAAAGTTCAAGTCTGGTAAAGCT 58.720 34.615 0.00 0.00 0.00 3.74
1272 8280 0.245539 TGCAGCTACAGTTCGGTACC 59.754 55.000 0.16 0.16 0.00 3.34
1344 8352 8.428063 AGACTTGATATGTTGAAGAAGGGATAG 58.572 37.037 0.00 0.00 0.00 2.08
1480 8488 3.689649 AGTTCACACAAGTTTGGAGTGAC 59.310 43.478 16.63 13.17 42.67 3.67
1595 8603 4.965119 ACTACCTGGAAAATTTGATCGC 57.035 40.909 0.00 0.00 0.00 4.58
1612 8620 8.388103 TGAGTACGGTAAACTCGTTAATACTAC 58.612 37.037 6.58 0.00 45.19 2.73
1620 8628 4.574599 AAGTGAGTACGGTAAACTCGTT 57.425 40.909 6.58 1.28 45.19 3.85
1622 8630 4.556523 GCTTAAGTGAGTACGGTAAACTCG 59.443 45.833 4.02 0.00 45.19 4.18
1631 8639 5.588240 TGTCATATGGCTTAAGTGAGTACG 58.412 41.667 9.09 0.00 0.00 3.67
1637 8645 6.949352 AAGGATTGTCATATGGCTTAAGTG 57.051 37.500 9.09 0.00 0.00 3.16
1638 8646 7.667219 CCATAAGGATTGTCATATGGCTTAAGT 59.333 37.037 9.09 0.00 38.63 2.24
1639 8647 8.048534 CCATAAGGATTGTCATATGGCTTAAG 57.951 38.462 9.09 0.00 38.63 1.85
1655 8663 4.870021 AAACCTCTCAAGCCATAAGGAT 57.130 40.909 0.00 0.00 36.89 3.24
1664 8672 6.092396 GGTAGTAAAGCTAAAACCTCTCAAGC 59.908 42.308 0.00 0.00 0.00 4.01
1677 8688 8.097791 ACATATTCCCTTTGGTAGTAAAGCTA 57.902 34.615 0.00 0.00 36.55 3.32
1741 8752 2.917971 GCATATTCGCAGATAGGTCGAC 59.082 50.000 7.13 7.13 35.04 4.20
1786 8797 7.231317 GGATTTGATATGGCTCATGTTTCCTAA 59.769 37.037 0.00 0.00 0.00 2.69
1853 8864 2.361610 CCATGCCGCCAAAGGTCT 60.362 61.111 0.00 0.00 0.00 3.85
1878 8889 1.768275 TGTGAGAGGTCCAAGCTTTCA 59.232 47.619 0.00 0.00 34.97 2.69
1933 8944 2.415512 GTCCTCTCAACAATAACCGCAC 59.584 50.000 0.00 0.00 0.00 5.34
1934 8945 2.614481 GGTCCTCTCAACAATAACCGCA 60.614 50.000 0.00 0.00 0.00 5.69
1936 8947 3.611766 AGGTCCTCTCAACAATAACCG 57.388 47.619 0.00 0.00 0.00 4.44
1937 8948 5.678955 AGTAGGTCCTCTCAACAATAACC 57.321 43.478 0.00 0.00 0.00 2.85
1938 8949 7.122353 TCACTAGTAGGTCCTCTCAACAATAAC 59.878 40.741 0.00 0.00 0.00 1.89
1939 8950 7.122353 GTCACTAGTAGGTCCTCTCAACAATAA 59.878 40.741 0.00 0.00 0.00 1.40
1940 8951 6.602406 GTCACTAGTAGGTCCTCTCAACAATA 59.398 42.308 0.00 0.00 0.00 1.90
1941 8952 5.419471 GTCACTAGTAGGTCCTCTCAACAAT 59.581 44.000 0.00 0.00 0.00 2.71
1999 9010 5.048224 CACGGGAGTAGTATATACAAGGTGG 60.048 48.000 15.18 1.79 44.67 4.61
2139 9150 2.280524 CGAACCCACTCAACGCCA 60.281 61.111 0.00 0.00 0.00 5.69
2225 9236 1.301244 CACTGCACTGAGTCGCCTT 60.301 57.895 4.94 0.00 0.00 4.35
2266 9277 4.021925 AGCACCTCCTTCACCGCC 62.022 66.667 0.00 0.00 0.00 6.13
2367 9378 1.837439 CCTAATCACACCACCAGCCTA 59.163 52.381 0.00 0.00 0.00 3.93
2419 9430 0.034670 GATTCAAGCCTCTGCACCCT 60.035 55.000 0.00 0.00 41.13 4.34
2421 9432 2.698855 TAGATTCAAGCCTCTGCACC 57.301 50.000 0.00 0.00 41.13 5.01
2440 9454 0.179045 ACGCTGCACTTCCACTTCTT 60.179 50.000 0.00 0.00 0.00 2.52
2493 9507 1.339097 AGCTCACCGGAAGTAACTGT 58.661 50.000 9.46 0.00 0.00 3.55
2845 9859 4.268359 AGCATCTTTGATTCTCTCAACCC 58.732 43.478 0.00 0.00 43.54 4.11
2910 9924 6.519679 TTTGCATGCTAACATCTCATTTCT 57.480 33.333 20.33 0.00 32.87 2.52
2974 9988 5.483937 AGTTCAGACACATATTCCACCACTA 59.516 40.000 0.00 0.00 0.00 2.74
3219 10233 0.678048 CCTGCTGCCTCCAACCTTAC 60.678 60.000 0.00 0.00 0.00 2.34
3274 10288 0.185901 ACCTCCTGCAGCCAAGAAAA 59.814 50.000 8.66 0.00 0.00 2.29
3358 10372 1.530013 GCAGCCTGCCACAAGATGTT 61.530 55.000 5.06 0.00 37.42 2.71
3591 10611 1.112916 TCCTGAGGCTGTTCGACACA 61.113 55.000 0.00 0.00 0.00 3.72
3596 10616 0.389166 GTGACTCCTGAGGCTGTTCG 60.389 60.000 1.04 0.00 37.35 3.95
4000 11023 1.001746 CATCACGCATGCTCCCTATCT 59.998 52.381 17.13 0.00 0.00 1.98
4694 11718 2.750350 CCAAGCACCCGAGAAGGT 59.250 61.111 0.00 0.00 42.40 3.50
5019 12044 3.715648 ATCTCCCCCTGTCTCATAGTT 57.284 47.619 0.00 0.00 0.00 2.24
5706 12731 7.120432 GGCTTTATATCTCTCTATTTTGCCCTG 59.880 40.741 0.00 0.00 0.00 4.45
5832 12863 7.217200 AGATTCCACTTATAATTCGCTGCTAA 58.783 34.615 0.00 0.00 0.00 3.09
5876 12907 6.349280 GCAAGTCACCATGTAGAAAAGCATTA 60.349 38.462 0.00 0.00 0.00 1.90
7078 14113 3.818295 AGTAGGTCCTCTCAACACTCT 57.182 47.619 0.00 0.00 0.00 3.24
7138 14173 5.048224 CACGGGAGTAGTATATACAAGGTGG 60.048 48.000 15.18 1.79 44.67 4.61
7357 14392 1.589716 GAGTGCACATGTTCCCCTGC 61.590 60.000 21.04 0.00 0.00 4.85
7381 15670 0.900647 CCTCCGCTATGGGGTCTAGG 60.901 65.000 0.73 0.00 35.90 3.02
7387 15676 0.322975 CATCTTCCTCCGCTATGGGG 59.677 60.000 0.00 0.00 38.76 4.96
7391 15680 2.111384 ACACACATCTTCCTCCGCTAT 58.889 47.619 0.00 0.00 0.00 2.97
7393 15682 0.036952 CACACACATCTTCCTCCGCT 60.037 55.000 0.00 0.00 0.00 5.52
7409 15698 1.492599 TGGGTCACCAAACATCTCACA 59.507 47.619 0.00 0.00 45.87 3.58
7512 15801 4.923871 ACTACAGCTTGAACATTACAGACG 59.076 41.667 0.00 0.00 0.00 4.18
7537 15826 4.576879 ACTAACGATTTTTCCTCAGGACC 58.423 43.478 0.00 0.00 0.00 4.46
7542 15832 6.928979 TTTGTGACTAACGATTTTTCCTCA 57.071 33.333 0.00 0.00 0.00 3.86
7543 15833 7.360361 ACATTTGTGACTAACGATTTTTCCTC 58.640 34.615 0.00 0.00 0.00 3.71
7589 15911 3.572255 TGAAATTTCGGGAAGTTCTTGGG 59.428 43.478 13.34 0.00 41.59 4.12
7748 16078 5.198965 TCCCTAGTGCTAACCTGTACTAAG 58.801 45.833 0.00 0.00 35.39 2.18
7767 16097 4.814771 CGCTCTTTACCGATAATTTTCCCT 59.185 41.667 0.00 0.00 0.00 4.20
7778 16108 0.389426 GCAAGGACGCTCTTTACCGA 60.389 55.000 0.00 0.00 0.00 4.69
7815 16145 3.361053 CGTGTTAACTAGCAGACAGTTCG 59.639 47.826 7.22 0.00 37.42 3.95
7857 16187 2.232941 AGCATGAACCTTCAGCATTTGG 59.767 45.455 0.00 0.00 41.08 3.28
8115 17975 0.605319 TGCTAGTTTTCTGGGGCACG 60.605 55.000 0.00 0.00 0.00 5.34
8160 18967 5.471456 CCAAAATGGTCATAGGAGATAGCAC 59.529 44.000 0.00 0.00 31.35 4.40
8167 18977 3.633986 GGCTTCCAAAATGGTCATAGGAG 59.366 47.826 0.00 0.00 39.03 3.69
8297 19332 1.661197 CCGGTGTGCAATGCAACAC 60.661 57.895 23.09 23.09 41.47 3.32
8316 19351 5.734720 TGATCTCAGGATACCAGAAAACAC 58.265 41.667 0.00 0.00 31.46 3.32
8318 19353 6.227298 TCTGATCTCAGGATACCAGAAAAC 57.773 41.667 7.33 0.00 43.91 2.43
8345 19380 1.494960 ACCCACAATTTGTGCAGGTT 58.505 45.000 21.55 8.40 46.51 3.50
8347 19382 1.688197 AGAACCCACAATTTGTGCAGG 59.312 47.619 21.55 19.59 46.51 4.85
8390 19431 6.071447 TGCAACACAAGGACAATTGCTATATT 60.071 34.615 5.05 0.00 44.69 1.28
8402 19443 0.820871 TGGGTTTGCAACACAAGGAC 59.179 50.000 0.00 0.00 42.95 3.85
8407 19448 0.901124 AGCTTTGGGTTTGCAACACA 59.099 45.000 0.00 0.00 44.53 3.72
8411 19452 1.903294 TGCAGCTTTGGGTTTGCAA 59.097 47.368 0.00 0.00 42.96 4.08
8413 19454 0.249996 ACATGCAGCTTTGGGTTTGC 60.250 50.000 0.00 0.00 37.09 3.68
8414 19455 2.610232 GGTACATGCAGCTTTGGGTTTG 60.610 50.000 0.00 0.00 0.00 2.93
8415 19456 1.618343 GGTACATGCAGCTTTGGGTTT 59.382 47.619 0.00 0.00 0.00 3.27
8416 19457 1.256812 GGTACATGCAGCTTTGGGTT 58.743 50.000 0.00 0.00 0.00 4.11
8418 19459 0.611618 TGGGTACATGCAGCTTTGGG 60.612 55.000 0.00 0.00 0.00 4.12
8419 19460 1.255882 TTGGGTACATGCAGCTTTGG 58.744 50.000 0.00 0.00 0.00 3.28
8420 19461 3.056678 TCAATTGGGTACATGCAGCTTTG 60.057 43.478 5.42 0.00 0.00 2.77
8421 19462 3.164268 TCAATTGGGTACATGCAGCTTT 58.836 40.909 5.42 0.00 0.00 3.51
8422 19463 2.756760 CTCAATTGGGTACATGCAGCTT 59.243 45.455 5.42 0.00 0.00 3.74
8427 19468 4.458989 TGTTTCTCTCAATTGGGTACATGC 59.541 41.667 4.96 0.00 0.00 4.06
8435 19476 5.644644 GCCAACTATGTTTCTCTCAATTGG 58.355 41.667 5.42 0.00 37.67 3.16
8447 19488 5.968528 TTGGAATTTACGCCAACTATGTT 57.031 34.783 0.00 0.00 39.14 2.71
8449 19490 5.890334 ACATTGGAATTTACGCCAACTATG 58.110 37.500 0.00 0.00 46.06 2.23
8451 19492 6.824196 TGATACATTGGAATTTACGCCAACTA 59.176 34.615 0.00 0.00 46.06 2.24
8452 19493 5.650266 TGATACATTGGAATTTACGCCAACT 59.350 36.000 0.00 0.00 46.06 3.16
8453 19494 5.885881 TGATACATTGGAATTTACGCCAAC 58.114 37.500 0.00 0.00 46.06 3.77
8470 19513 5.349061 AACATCTCATGAGTGCTGATACA 57.651 39.130 21.92 0.00 0.00 2.29
8477 19520 3.244814 CGCTCTAAACATCTCATGAGTGC 59.755 47.826 21.92 6.92 0.00 4.40
8481 19524 4.471904 AACCGCTCTAAACATCTCATGA 57.528 40.909 0.00 0.00 0.00 3.07


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

AutoCloner maintained by Alex Coulton.