Multiple sequence alignment - TraesCS5D01G250800

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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 TraesCS5D01G250800 chr5D 100.000 4270 0 0 1 4270 356912586 356908317 0.000000e+00 7886
1 TraesCS5D01G250800 chr5D 85.276 2119 171 65 1459 3533 356974159 356972138 0.000000e+00 2054
2 TraesCS5D01G250800 chr5D 93.906 722 42 1 1 720 389374246 389374967 0.000000e+00 1088
3 TraesCS5D01G250800 chr5D 91.929 731 39 9 719 1444 356978883 356978168 0.000000e+00 1005
4 TraesCS5D01G250800 chr5D 84.414 725 61 17 899 1588 357017216 357016509 0.000000e+00 665
5 TraesCS5D01G250800 chr5D 82.770 621 87 8 2899 3511 357015112 357014504 1.750000e-148 536
6 TraesCS5D01G250800 chr5D 89.082 403 33 5 3794 4185 356972122 356971720 1.380000e-134 490
7 TraesCS5D01G250800 chr5D 79.730 740 86 39 2161 2847 357015989 357015261 1.070000e-130 477
8 TraesCS5D01G250800 chr5D 88.854 323 34 2 1082 1403 356838822 356838501 3.090000e-106 396
9 TraesCS5D01G250800 chr5D 87.736 318 33 5 1785 2100 357016389 357016076 2.430000e-97 366
10 TraesCS5D01G250800 chr5D 87.121 132 9 4 714 842 357017340 357017214 4.450000e-30 143
11 TraesCS5D01G250800 chr5B 94.551 2826 130 16 719 3533 421698236 421695424 0.000000e+00 4344
12 TraesCS5D01G250800 chr5B 81.852 1620 205 47 1785 3337 421717377 421715780 0.000000e+00 1280
13 TraesCS5D01G250800 chr5B 83.724 725 68 20 899 1588 421718195 421717486 1.290000e-179 640
14 TraesCS5D01G250800 chr5B 82.890 526 73 14 1085 1601 421622110 421621593 1.400000e-124 457
15 TraesCS5D01G250800 chr5B 91.603 262 20 2 3532 3793 606309350 606309091 1.130000e-95 361
16 TraesCS5D01G250800 chr5B 81.602 462 58 9 3819 4270 421694710 421694266 1.460000e-94 357
17 TraesCS5D01G250800 chr5B 86.260 131 12 5 714 842 421718319 421718193 2.070000e-28 137
18 TraesCS5D01G250800 chr5A 89.014 2039 115 39 718 2715 458274343 458272373 0.000000e+00 2423
19 TraesCS5D01G250800 chr5A 86.243 1839 138 46 1751 3533 458226988 458225209 0.000000e+00 1888
20 TraesCS5D01G250800 chr5A 93.797 790 48 1 800 1588 458228106 458227317 0.000000e+00 1186
21 TraesCS5D01G250800 chr5A 93.892 704 32 5 2840 3533 458271494 458270792 0.000000e+00 1051
22 TraesCS5D01G250800 chr5A 83.315 911 95 17 714 1588 458279605 458278716 0.000000e+00 787
23 TraesCS5D01G250800 chr5A 89.344 488 38 11 3794 4270 458270777 458270293 6.110000e-168 601
24 TraesCS5D01G250800 chr5A 88.957 489 41 6 3793 4270 458225195 458224709 3.680000e-165 592
25 TraesCS5D01G250800 chr5A 84.355 620 77 10 2899 3511 458277336 458276730 1.320000e-164 590
26 TraesCS5D01G250800 chr5A 80.082 733 92 31 2161 2847 458278209 458277485 2.970000e-136 496
27 TraesCS5D01G250800 chr5A 87.385 325 37 3 1785 2107 458278607 458278285 1.880000e-98 370
28 TraesCS5D01G250800 chr5A 88.435 294 30 3 1782 2074 456069229 456069519 6.790000e-93 351
29 TraesCS5D01G250800 chr5A 88.316 291 32 2 1785 2074 458192497 458192208 8.790000e-92 348
30 TraesCS5D01G250800 chr5A 83.073 384 44 13 2906 3275 458191365 458190989 3.180000e-86 329
31 TraesCS5D01G250800 chr5A 83.871 341 36 8 2941 3263 458232982 458232643 1.490000e-79 307
32 TraesCS5D01G250800 chr5A 93.431 137 9 0 2705 2841 458271907 458271771 2.010000e-48 204
33 TraesCS5D01G250800 chr5A 100.000 89 0 0 714 802 458228489 458228401 9.500000e-37 165
34 TraesCS5D01G250800 chr4D 94.875 722 35 1 1 720 455275897 455276618 0.000000e+00 1127
35 TraesCS5D01G250800 chr7D 94.598 722 37 1 1 720 117521521 117520800 0.000000e+00 1116
36 TraesCS5D01G250800 chr7D 91.603 262 22 0 3532 3793 309508506 309508245 3.140000e-96 363
37 TraesCS5D01G250800 chr1D 94.460 722 38 1 1 720 319517599 319516878 0.000000e+00 1110
38 TraesCS5D01G250800 chr1D 93.906 722 41 2 1 720 279518999 279519719 0.000000e+00 1086
39 TraesCS5D01G250800 chr1D 92.337 261 18 2 3532 3792 489115793 489115535 1.880000e-98 370
40 TraesCS5D01G250800 chr6D 94.437 719 38 1 4 720 61576414 61577132 0.000000e+00 1105
41 TraesCS5D01G250800 chr6D 91.255 263 23 0 3532 3794 252738012 252738274 4.060000e-95 359
42 TraesCS5D01G250800 chr2D 94.437 719 38 1 4 720 394919557 394918839 0.000000e+00 1105
43 TraesCS5D01G250800 chr3D 93.906 722 41 3 1 720 378028689 378029409 0.000000e+00 1086
44 TraesCS5D01G250800 chr3D 91.985 262 21 0 3532 3793 586579195 586578934 6.750000e-98 368
45 TraesCS5D01G250800 chr2B 93.906 722 40 3 1 720 30646357 30645638 0.000000e+00 1086
46 TraesCS5D01G250800 chr3B 91.852 270 20 2 3532 3800 729383180 729383448 4.030000e-100 375
47 TraesCS5D01G250800 chr2A 92.366 262 20 0 3532 3793 339090566 339090827 1.450000e-99 374
48 TraesCS5D01G250800 chrUn 91.571 261 22 0 3532 3792 108799497 108799237 1.130000e-95 361
49 TraesCS5D01G250800 chr3A 89.855 276 27 1 3529 3804 36246032 36246306 1.890000e-93 353


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 TraesCS5D01G250800 chr5D 356908317 356912586 4269 True 7886.000000 7886 100.000000 1 4270 1 chr5D.!!$R2 4269
1 TraesCS5D01G250800 chr5D 356971720 356974159 2439 True 1272.000000 2054 87.179000 1459 4185 2 chr5D.!!$R4 2726
2 TraesCS5D01G250800 chr5D 389374246 389374967 721 False 1088.000000 1088 93.906000 1 720 1 chr5D.!!$F1 719
3 TraesCS5D01G250800 chr5D 356978168 356978883 715 True 1005.000000 1005 91.929000 719 1444 1 chr5D.!!$R3 725
4 TraesCS5D01G250800 chr5D 357014504 357017340 2836 True 437.400000 665 84.354200 714 3511 5 chr5D.!!$R5 2797
5 TraesCS5D01G250800 chr5B 421694266 421698236 3970 True 2350.500000 4344 88.076500 719 4270 2 chr5B.!!$R3 3551
6 TraesCS5D01G250800 chr5B 421715780 421718319 2539 True 685.666667 1280 83.945333 714 3337 3 chr5B.!!$R4 2623
7 TraesCS5D01G250800 chr5B 421621593 421622110 517 True 457.000000 457 82.890000 1085 1601 1 chr5B.!!$R1 516
8 TraesCS5D01G250800 chr5A 458224709 458228489 3780 True 957.750000 1888 92.249250 714 4270 4 chr5A.!!$R3 3556
9 TraesCS5D01G250800 chr5A 458270293 458279605 9312 True 815.250000 2423 87.602250 714 4270 8 chr5A.!!$R4 3556
10 TraesCS5D01G250800 chr5A 458190989 458192497 1508 True 338.500000 348 85.694500 1785 3275 2 chr5A.!!$R2 1490
11 TraesCS5D01G250800 chr4D 455275897 455276618 721 False 1127.000000 1127 94.875000 1 720 1 chr4D.!!$F1 719
12 TraesCS5D01G250800 chr7D 117520800 117521521 721 True 1116.000000 1116 94.598000 1 720 1 chr7D.!!$R1 719
13 TraesCS5D01G250800 chr1D 319516878 319517599 721 True 1110.000000 1110 94.460000 1 720 1 chr1D.!!$R1 719
14 TraesCS5D01G250800 chr1D 279518999 279519719 720 False 1086.000000 1086 93.906000 1 720 1 chr1D.!!$F1 719
15 TraesCS5D01G250800 chr6D 61576414 61577132 718 False 1105.000000 1105 94.437000 4 720 1 chr6D.!!$F1 716
16 TraesCS5D01G250800 chr2D 394918839 394919557 718 True 1105.000000 1105 94.437000 4 720 1 chr2D.!!$R1 716
17 TraesCS5D01G250800 chr3D 378028689 378029409 720 False 1086.000000 1086 93.906000 1 720 1 chr3D.!!$F1 719
18 TraesCS5D01G250800 chr2B 30645638 30646357 719 True 1086.000000 1086 93.906000 1 720 1 chr2B.!!$R1 719

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
852 6421 0.677731 ACATACAAGCGCACAGGCAT 60.678 50.0 11.47 0.0 41.24 4.4 F
1341 6942 0.100861 GCGCGCTCTTCTACTACCTT 59.899 55.0 26.67 0.0 0.00 3.5 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2519 8559 0.944311 ACGGTTAGCTGTTCAGCACG 60.944 55.000 23.69 21.59 37.25 5.34 R
3285 10264 1.202746 GGCCTCTCATGGATGGAGTTC 60.203 57.143 0.00 0.00 34.04 3.01 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
40 41 4.760715 GTCGCTACTCCTATCCAGTTGATA 59.239 45.833 0.00 0.00 34.76 2.15
97 100 1.904287 TCGCAGCCAAACCTAACATT 58.096 45.000 0.00 0.00 0.00 2.71
270 273 1.632948 CGGTCTAGCTGTCGTCGACA 61.633 60.000 25.51 25.51 40.50 4.35
411 414 1.071471 CACCACCTCACGCCTCTTT 59.929 57.895 0.00 0.00 0.00 2.52
510 513 1.762957 CTTAGGATTTCTCCCGGAGCA 59.237 52.381 9.87 0.00 43.21 4.26
626 629 0.892755 TTCACCGGCGACTATGTCTT 59.107 50.000 9.30 0.00 0.00 3.01
640 643 3.311110 TCTTCCCAACTCGCCGCT 61.311 61.111 0.00 0.00 0.00 5.52
802 6067 2.928757 CAAAGAAGCTGTGATCCTCTCG 59.071 50.000 0.00 0.00 0.00 4.04
804 6069 1.748493 AGAAGCTGTGATCCTCTCGAC 59.252 52.381 0.00 0.00 0.00 4.20
813 6379 4.398358 TGTGATCCTCTCGACGTTTTAGAT 59.602 41.667 0.00 0.00 0.00 1.98
814 6380 5.587443 TGTGATCCTCTCGACGTTTTAGATA 59.413 40.000 0.00 0.00 0.00 1.98
815 6381 6.137415 GTGATCCTCTCGACGTTTTAGATAG 58.863 44.000 0.00 0.00 0.00 2.08
816 6382 5.821470 TGATCCTCTCGACGTTTTAGATAGT 59.179 40.000 0.00 0.00 0.00 2.12
852 6421 0.677731 ACATACAAGCGCACAGGCAT 60.678 50.000 11.47 0.00 41.24 4.40
902 6471 3.424433 CCCGAAATTTACACAGCGAAGAC 60.424 47.826 0.00 0.00 0.00 3.01
972 6548 6.705381 GCCTATAAAAACCATGCATGCAAATA 59.295 34.615 26.68 10.19 0.00 1.40
1041 6636 1.078567 CCTGCTTGTCCTCTGCCTC 60.079 63.158 0.00 0.00 0.00 4.70
1079 6680 2.276740 CAATGCCTCCCACTCCCC 59.723 66.667 0.00 0.00 0.00 4.81
1126 6727 4.399934 AGTTCATCTCGTCTAGGAAGAACC 59.600 45.833 9.68 0.00 34.24 3.62
1341 6942 0.100861 GCGCGCTCTTCTACTACCTT 59.899 55.000 26.67 0.00 0.00 3.50
1413 7018 6.951778 TCAACGGAGGTTAGATGATCCATATA 59.048 38.462 0.00 0.00 33.72 0.86
1610 7501 3.254060 CCATGTCTTCCTGTACTCGTTG 58.746 50.000 0.00 0.00 0.00 4.10
1656 7548 6.017109 CCTTATATCACTGGAAAATCAACCCG 60.017 42.308 0.00 0.00 0.00 5.28
1733 7626 2.930826 AGTGTGGGTGGAGTAAAGTG 57.069 50.000 0.00 0.00 0.00 3.16
1734 7627 2.124411 AGTGTGGGTGGAGTAAAGTGT 58.876 47.619 0.00 0.00 0.00 3.55
1735 7628 2.158813 AGTGTGGGTGGAGTAAAGTGTG 60.159 50.000 0.00 0.00 0.00 3.82
1736 7629 2.120312 TGTGGGTGGAGTAAAGTGTGA 58.880 47.619 0.00 0.00 0.00 3.58
1851 7759 2.775890 TCCTACTCGAACACGTCTTCT 58.224 47.619 2.04 0.00 0.00 2.85
2076 7984 5.448632 GGGCATCTTGGTACGTCAAATTAAG 60.449 44.000 0.00 0.00 0.00 1.85
2209 8192 3.373658 CCAACAGGAATATTAAGGGGGCA 60.374 47.826 0.00 0.00 0.00 5.36
2254 8237 1.948145 GTGATGTCGGACGAGGTCTAT 59.052 52.381 3.34 0.00 32.47 1.98
2334 8317 4.415150 CATGGGAGCTGCCGTGGT 62.415 66.667 32.85 11.51 37.63 4.16
2403 8386 0.108585 ATAGACGCGCCCAATGGAAT 59.891 50.000 5.73 0.00 0.00 3.01
2632 8680 1.051008 ATGATCCAGCGGTGCAGATA 58.949 50.000 9.63 0.00 0.00 1.98
2712 9255 4.094887 AGCTAATGCACACTAATTTCACCG 59.905 41.667 0.00 0.00 42.74 4.94
2715 9258 1.795872 TGCACACTAATTTCACCGACG 59.204 47.619 0.00 0.00 0.00 5.12
2716 9259 2.063266 GCACACTAATTTCACCGACGA 58.937 47.619 0.00 0.00 0.00 4.20
2752 9295 7.645402 CATGTGATTTGTACATGTATGCAGAT 58.355 34.615 9.18 4.17 46.37 2.90
3084 10058 6.187727 TCTTAGATCACCTTGAAACTGGTT 57.812 37.500 0.00 0.00 33.75 3.67
3285 10264 2.882761 CAGTGATTCATGGTGCCCATAG 59.117 50.000 6.42 2.99 43.15 2.23
3329 10309 4.574892 TGGTTATCGTCAAGCTTCATGAA 58.425 39.130 8.12 8.12 0.00 2.57
3367 10351 3.618594 CGTGGATGGAGTTGTCATAGTTG 59.381 47.826 0.00 0.00 0.00 3.16
3447 10437 5.686753 TCCAGTTACTTAATGTGTGGTTGT 58.313 37.500 0.00 0.00 31.33 3.32
3448 10438 5.761234 TCCAGTTACTTAATGTGTGGTTGTC 59.239 40.000 0.00 0.00 31.33 3.18
3474 10464 6.604795 CCTAGTGGACATGGATTTCTTTTGAT 59.395 38.462 0.00 0.00 34.57 2.57
3542 10535 2.537143 ACTGTTGATTACTCCCTCCGT 58.463 47.619 0.00 0.00 0.00 4.69
3544 10537 3.326880 ACTGTTGATTACTCCCTCCGTTT 59.673 43.478 0.00 0.00 0.00 3.60
3545 10538 3.933332 CTGTTGATTACTCCCTCCGTTTC 59.067 47.826 0.00 0.00 0.00 2.78
3546 10539 3.581332 TGTTGATTACTCCCTCCGTTTCT 59.419 43.478 0.00 0.00 0.00 2.52
3547 10540 4.041198 TGTTGATTACTCCCTCCGTTTCTT 59.959 41.667 0.00 0.00 0.00 2.52
3548 10541 4.903045 TGATTACTCCCTCCGTTTCTTT 57.097 40.909 0.00 0.00 0.00 2.52
3549 10542 5.237236 TGATTACTCCCTCCGTTTCTTTT 57.763 39.130 0.00 0.00 0.00 2.27
3550 10543 5.627135 TGATTACTCCCTCCGTTTCTTTTT 58.373 37.500 0.00 0.00 0.00 1.94
3551 10544 6.771573 TGATTACTCCCTCCGTTTCTTTTTA 58.228 36.000 0.00 0.00 0.00 1.52
3552 10545 6.652062 TGATTACTCCCTCCGTTTCTTTTTAC 59.348 38.462 0.00 0.00 0.00 2.01
3553 10546 4.701651 ACTCCCTCCGTTTCTTTTTACT 57.298 40.909 0.00 0.00 0.00 2.24
3554 10547 4.639334 ACTCCCTCCGTTTCTTTTTACTC 58.361 43.478 0.00 0.00 0.00 2.59
3555 10548 4.001652 CTCCCTCCGTTTCTTTTTACTCC 58.998 47.826 0.00 0.00 0.00 3.85
3556 10549 3.391955 TCCCTCCGTTTCTTTTTACTCCA 59.608 43.478 0.00 0.00 0.00 3.86
3557 10550 3.501062 CCCTCCGTTTCTTTTTACTCCAC 59.499 47.826 0.00 0.00 0.00 4.02
3558 10551 3.185797 CCTCCGTTTCTTTTTACTCCACG 59.814 47.826 0.00 0.00 0.00 4.94
3559 10552 3.795877 TCCGTTTCTTTTTACTCCACGT 58.204 40.909 0.00 0.00 0.00 4.49
3560 10553 4.942852 TCCGTTTCTTTTTACTCCACGTA 58.057 39.130 0.00 0.00 0.00 3.57
3561 10554 5.540911 TCCGTTTCTTTTTACTCCACGTAT 58.459 37.500 0.00 0.00 0.00 3.06
3562 10555 6.686630 TCCGTTTCTTTTTACTCCACGTATA 58.313 36.000 0.00 0.00 0.00 1.47
3563 10556 7.151308 TCCGTTTCTTTTTACTCCACGTATAA 58.849 34.615 0.00 0.00 0.00 0.98
3564 10557 7.655328 TCCGTTTCTTTTTACTCCACGTATAAA 59.345 33.333 0.00 0.00 31.29 1.40
3565 10558 8.281893 CCGTTTCTTTTTACTCCACGTATAAAA 58.718 33.333 0.00 0.00 31.60 1.52
3566 10559 9.815936 CGTTTCTTTTTACTCCACGTATAAAAT 57.184 29.630 0.00 0.00 31.60 1.82
3595 10588 9.897744 ATTCAAAGTCATAGTACACAATGTTTG 57.102 29.630 0.00 4.62 0.00 2.93
3596 10589 8.669946 TCAAAGTCATAGTACACAATGTTTGA 57.330 30.769 12.51 12.51 31.25 2.69
3597 10590 8.556194 TCAAAGTCATAGTACACAATGTTTGAC 58.444 33.333 12.51 0.00 29.92 3.18
3598 10591 7.435068 AAGTCATAGTACACAATGTTTGACC 57.565 36.000 0.00 0.00 34.27 4.02
3599 10592 6.530120 AGTCATAGTACACAATGTTTGACCA 58.470 36.000 0.00 0.00 34.27 4.02
3600 10593 6.995686 AGTCATAGTACACAATGTTTGACCAA 59.004 34.615 0.00 0.00 34.27 3.67
3601 10594 7.500892 AGTCATAGTACACAATGTTTGACCAAA 59.499 33.333 0.00 0.00 34.27 3.28
3602 10595 8.296713 GTCATAGTACACAATGTTTGACCAAAT 58.703 33.333 0.00 0.00 32.36 2.32
3603 10596 8.855110 TCATAGTACACAATGTTTGACCAAATT 58.145 29.630 0.00 0.00 32.36 1.82
3604 10597 9.474920 CATAGTACACAATGTTTGACCAAATTT 57.525 29.630 0.00 0.00 32.36 1.82
3669 10662 6.551736 AGTATGAAAATACGTTTGATGGTGC 58.448 36.000 0.00 0.00 32.52 5.01
3670 10663 4.837896 TGAAAATACGTTTGATGGTGCA 57.162 36.364 0.00 0.00 0.00 4.57
3671 10664 5.384063 TGAAAATACGTTTGATGGTGCAT 57.616 34.783 0.00 0.00 0.00 3.96
3672 10665 5.398169 TGAAAATACGTTTGATGGTGCATC 58.602 37.500 0.00 0.00 40.88 3.91
3673 10666 5.182950 TGAAAATACGTTTGATGGTGCATCT 59.817 36.000 0.00 0.00 41.06 2.90
3674 10667 4.621068 AATACGTTTGATGGTGCATCTG 57.379 40.909 0.00 0.00 41.06 2.90
3675 10668 2.183478 ACGTTTGATGGTGCATCTGA 57.817 45.000 0.00 0.00 41.06 3.27
3676 10669 2.715046 ACGTTTGATGGTGCATCTGAT 58.285 42.857 0.00 0.00 41.06 2.90
3677 10670 3.872696 ACGTTTGATGGTGCATCTGATA 58.127 40.909 0.00 0.00 41.06 2.15
3678 10671 4.260985 ACGTTTGATGGTGCATCTGATAA 58.739 39.130 0.00 0.00 41.06 1.75
3679 10672 4.883585 ACGTTTGATGGTGCATCTGATAAT 59.116 37.500 0.00 0.00 41.06 1.28
3680 10673 5.209977 CGTTTGATGGTGCATCTGATAATG 58.790 41.667 0.00 0.00 41.06 1.90
3681 10674 5.220912 CGTTTGATGGTGCATCTGATAATGT 60.221 40.000 0.00 0.00 41.06 2.71
3682 10675 6.567050 GTTTGATGGTGCATCTGATAATGTT 58.433 36.000 0.00 0.00 41.06 2.71
3683 10676 5.761165 TGATGGTGCATCTGATAATGTTG 57.239 39.130 0.00 0.00 41.06 3.33
3684 10677 5.438833 TGATGGTGCATCTGATAATGTTGA 58.561 37.500 0.00 0.00 41.06 3.18
3685 10678 6.066032 TGATGGTGCATCTGATAATGTTGAT 58.934 36.000 0.00 0.00 41.06 2.57
3686 10679 6.548251 TGATGGTGCATCTGATAATGTTGATT 59.452 34.615 0.00 0.00 41.06 2.57
3687 10680 6.778834 TGGTGCATCTGATAATGTTGATTT 57.221 33.333 0.00 0.00 0.00 2.17
3688 10681 6.798482 TGGTGCATCTGATAATGTTGATTTC 58.202 36.000 0.00 0.00 0.00 2.17
3689 10682 6.377712 TGGTGCATCTGATAATGTTGATTTCA 59.622 34.615 0.00 0.00 0.00 2.69
3690 10683 7.068962 TGGTGCATCTGATAATGTTGATTTCAT 59.931 33.333 0.00 0.00 0.00 2.57
3691 10684 7.594015 GGTGCATCTGATAATGTTGATTTCATC 59.406 37.037 0.00 0.00 0.00 2.92
3692 10685 8.350722 GTGCATCTGATAATGTTGATTTCATCT 58.649 33.333 0.00 0.00 0.00 2.90
3693 10686 8.909923 TGCATCTGATAATGTTGATTTCATCTT 58.090 29.630 0.00 0.00 0.00 2.40
3694 10687 9.181805 GCATCTGATAATGTTGATTTCATCTTG 57.818 33.333 0.00 0.00 0.00 3.02
3697 10690 9.452287 TCTGATAATGTTGATTTCATCTTGTGA 57.548 29.630 0.00 0.00 34.25 3.58
3703 10696 8.926715 ATGTTGATTTCATCTTGTGAATGATG 57.073 30.769 0.00 0.00 45.77 3.07
3704 10697 8.113173 TGTTGATTTCATCTTGTGAATGATGA 57.887 30.769 0.00 0.00 45.77 2.92
3705 10698 8.745590 TGTTGATTTCATCTTGTGAATGATGAT 58.254 29.630 6.51 0.00 45.77 2.45
3760 10753 6.544928 AAAGATTGACTTTGACCAAACCTT 57.455 33.333 0.00 0.00 45.66 3.50
3761 10754 7.654022 AAAGATTGACTTTGACCAAACCTTA 57.346 32.000 0.00 0.00 45.66 2.69
3762 10755 7.839680 AAGATTGACTTTGACCAAACCTTAT 57.160 32.000 0.00 0.00 34.94 1.73
3763 10756 8.934023 AAGATTGACTTTGACCAAACCTTATA 57.066 30.769 0.00 0.00 34.94 0.98
3764 10757 8.336801 AGATTGACTTTGACCAAACCTTATAC 57.663 34.615 0.00 0.00 0.00 1.47
3765 10758 6.548441 TTGACTTTGACCAAACCTTATACG 57.452 37.500 0.00 0.00 0.00 3.06
3766 10759 4.453136 TGACTTTGACCAAACCTTATACGC 59.547 41.667 0.00 0.00 0.00 4.42
3767 10760 4.391155 ACTTTGACCAAACCTTATACGCA 58.609 39.130 0.00 0.00 0.00 5.24
3768 10761 4.454504 ACTTTGACCAAACCTTATACGCAG 59.545 41.667 0.00 0.00 0.00 5.18
3769 10762 3.965379 TGACCAAACCTTATACGCAGA 57.035 42.857 0.00 0.00 0.00 4.26
3770 10763 3.592059 TGACCAAACCTTATACGCAGAC 58.408 45.455 0.00 0.00 0.00 3.51
3771 10764 3.259876 TGACCAAACCTTATACGCAGACT 59.740 43.478 0.00 0.00 0.00 3.24
3772 10765 4.463539 TGACCAAACCTTATACGCAGACTA 59.536 41.667 0.00 0.00 0.00 2.59
3773 10766 5.047164 TGACCAAACCTTATACGCAGACTAA 60.047 40.000 0.00 0.00 0.00 2.24
3774 10767 5.797051 ACCAAACCTTATACGCAGACTAAA 58.203 37.500 0.00 0.00 0.00 1.85
3775 10768 6.232692 ACCAAACCTTATACGCAGACTAAAA 58.767 36.000 0.00 0.00 0.00 1.52
3776 10769 6.711645 ACCAAACCTTATACGCAGACTAAAAA 59.288 34.615 0.00 0.00 0.00 1.94
3777 10770 7.094933 ACCAAACCTTATACGCAGACTAAAAAG 60.095 37.037 0.00 0.00 0.00 2.27
3778 10771 7.118680 CCAAACCTTATACGCAGACTAAAAAGA 59.881 37.037 0.00 0.00 0.00 2.52
3779 10772 8.500773 CAAACCTTATACGCAGACTAAAAAGAA 58.499 33.333 0.00 0.00 0.00 2.52
3780 10773 8.611654 AACCTTATACGCAGACTAAAAAGAAA 57.388 30.769 0.00 0.00 0.00 2.52
3781 10774 8.026341 ACCTTATACGCAGACTAAAAAGAAAC 57.974 34.615 0.00 0.00 0.00 2.78
3782 10775 7.148689 ACCTTATACGCAGACTAAAAAGAAACG 60.149 37.037 0.00 0.00 0.00 3.60
3783 10776 7.062605 CCTTATACGCAGACTAAAAAGAAACGA 59.937 37.037 0.00 0.00 0.00 3.85
3784 10777 6.774354 ATACGCAGACTAAAAAGAAACGAA 57.226 33.333 0.00 0.00 0.00 3.85
3785 10778 5.079397 ACGCAGACTAAAAAGAAACGAAG 57.921 39.130 0.00 0.00 0.00 3.79
3786 10779 4.025145 ACGCAGACTAAAAAGAAACGAAGG 60.025 41.667 0.00 0.00 0.00 3.46
3787 10780 4.610680 CGCAGACTAAAAAGAAACGAAGGG 60.611 45.833 0.00 0.00 0.00 3.95
3788 10781 4.514066 GCAGACTAAAAAGAAACGAAGGGA 59.486 41.667 0.00 0.00 0.00 4.20
3789 10782 5.334182 GCAGACTAAAAAGAAACGAAGGGAG 60.334 44.000 0.00 0.00 0.00 4.30
3790 10783 5.758784 CAGACTAAAAAGAAACGAAGGGAGT 59.241 40.000 0.00 0.00 0.00 3.85
3791 10784 6.927381 CAGACTAAAAAGAAACGAAGGGAGTA 59.073 38.462 0.00 0.00 0.00 2.59
3808 11471 5.845065 AGGGAGTATCAAATAAGTAGGGGAC 59.155 44.000 0.00 0.00 36.25 4.46
3809 11472 5.279356 GGGAGTATCAAATAAGTAGGGGACG 60.279 48.000 0.00 0.00 36.25 4.79
3909 11576 2.671177 CGCTCCTTGAACCTGCACG 61.671 63.158 0.00 0.00 0.00 5.34
3914 11581 1.230635 CCTTGAACCTGCACGACCAG 61.231 60.000 0.00 0.00 0.00 4.00
3946 11613 4.006989 CCCTTGTCAATCGTAACATCCAA 58.993 43.478 0.00 0.00 0.00 3.53
4038 11705 1.667236 CATGCAATCCAAGGACGCTA 58.333 50.000 12.10 2.07 0.00 4.26
4054 11722 2.621998 ACGCTAAGCCGACACATATAGT 59.378 45.455 0.00 0.00 0.00 2.12
4092 11760 0.767375 ACACACTGGAGCCAAGATGT 59.233 50.000 0.00 0.00 0.00 3.06
4107 11775 3.287312 AGATGTTTGCACACCAAATCG 57.713 42.857 0.00 0.00 44.61 3.34
4122 11801 0.535335 AATCGCACGGTCTACATGGT 59.465 50.000 0.00 0.00 0.00 3.55
4133 11812 3.880490 GGTCTACATGGTCACAACAACAA 59.120 43.478 0.00 0.00 0.00 2.83
4155 11834 0.468226 CTATGCCCGACCTTAGCCAA 59.532 55.000 0.00 0.00 0.00 4.52
4166 11845 5.232463 CGACCTTAGCCAAAACTAGTTGTA 58.768 41.667 9.34 0.00 0.00 2.41
4173 11852 5.617252 AGCCAAAACTAGTTGTAGCAACTA 58.383 37.500 17.04 17.40 0.00 2.24
4223 11902 0.461135 CTTTTTGCAGCCACACAGGT 59.539 50.000 0.00 0.00 40.61 4.00
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
40 41 3.181402 ACCCAGACTATCAGCATCCCTAT 60.181 47.826 0.00 0.00 0.00 2.57
74 75 1.130561 GTTAGGTTTGGCTGCGATGTC 59.869 52.381 0.00 0.00 0.00 3.06
76 77 1.164411 TGTTAGGTTTGGCTGCGATG 58.836 50.000 0.00 0.00 0.00 3.84
196 199 3.150903 ATTGGTGGCAGGTGGCTGT 62.151 57.895 5.03 0.00 44.01 4.40
270 273 4.295119 GTCTGGCGTCGTGGTGGT 62.295 66.667 0.00 0.00 0.00 4.16
510 513 2.159819 ATCGTCAACCTGCTCGTGCT 62.160 55.000 11.19 0.00 40.48 4.40
556 559 0.318445 GGCGGCGTCTATGTCGTTAT 60.318 55.000 9.37 0.00 39.62 1.89
640 643 2.770447 TGGATCCCACTATTAGCACCA 58.230 47.619 9.90 0.00 0.00 4.17
690 693 1.975327 CTGCCTTCTCCACCGAAGA 59.025 57.895 2.34 0.00 42.29 2.87
802 6067 7.647907 TCTTGTTTCCACTATCTAAAACGTC 57.352 36.000 0.00 0.00 35.00 4.34
804 6069 7.857569 TGTTCTTGTTTCCACTATCTAAAACG 58.142 34.615 0.00 0.00 35.00 3.60
813 6379 8.151596 TGTATGTGTATGTTCTTGTTTCCACTA 58.848 33.333 0.00 0.00 0.00 2.74
814 6380 6.995686 TGTATGTGTATGTTCTTGTTTCCACT 59.004 34.615 0.00 0.00 0.00 4.00
815 6381 7.197071 TGTATGTGTATGTTCTTGTTTCCAC 57.803 36.000 0.00 0.00 0.00 4.02
816 6382 7.521423 GCTTGTATGTGTATGTTCTTGTTTCCA 60.521 37.037 0.00 0.00 0.00 3.53
935 6505 5.336134 GGTTTTTATAGGCGCAGGAAGAAAA 60.336 40.000 10.83 6.24 0.00 2.29
936 6506 4.157105 GGTTTTTATAGGCGCAGGAAGAAA 59.843 41.667 10.83 0.05 0.00 2.52
972 6548 6.372104 TGGTGAGTCTGAGATGAGAGATATT 58.628 40.000 0.00 0.00 0.00 1.28
1079 6680 4.154347 GCTGAGCCTCCTGGGACG 62.154 72.222 0.00 0.00 37.23 4.79
1197 6798 2.686235 CTCTGGTCAGAAAGAGTGCTG 58.314 52.381 2.13 0.00 36.94 4.41
1204 6805 2.235650 TCATGGAGCTCTGGTCAGAAAG 59.764 50.000 14.64 0.00 36.94 2.62
1206 6807 1.942776 TCATGGAGCTCTGGTCAGAA 58.057 50.000 14.64 0.00 36.94 3.02
1413 7018 9.725019 TTCTACAAGACATGTTCAGTTATCAAT 57.275 29.630 0.00 0.00 43.63 2.57
1610 7501 2.417586 GCAGGGCAAATTCAAAGATTGC 59.582 45.455 1.29 1.29 46.60 3.56
1656 7548 1.229177 AAACTTCCATGTGGCCCCC 60.229 57.895 0.00 0.00 34.44 5.40
1733 7626 8.509690 TGAATTTGATCATTTCTCAGTTCTCAC 58.490 33.333 15.84 0.00 0.00 3.51
1734 7627 8.625786 TGAATTTGATCATTTCTCAGTTCTCA 57.374 30.769 15.84 0.00 0.00 3.27
1735 7628 8.944029 TCTGAATTTGATCATTTCTCAGTTCTC 58.056 33.333 17.35 0.00 32.52 2.87
1736 7629 8.859236 TCTGAATTTGATCATTTCTCAGTTCT 57.141 30.769 17.35 0.00 32.52 3.01
1851 7759 3.214696 TCTCCGCTGAGATCATAGTCA 57.785 47.619 3.40 0.00 42.73 3.41
2113 8024 6.698359 TTGTTTTCAACAGAAGAAAAACCG 57.302 33.333 3.02 0.00 43.98 4.44
2209 8192 2.633481 GTGGGTCCAGAAGTAGTCAACT 59.367 50.000 0.00 0.00 41.49 3.16
2254 8237 2.754552 GCAGTTCTTGGTGATATTGGCA 59.245 45.455 0.00 0.00 0.00 4.92
2334 8317 1.132453 CGATGTAGCCAGAGTCGAACA 59.868 52.381 0.00 0.00 34.46 3.18
2403 8386 3.227273 TAGCCAGCGGGGTAATACA 57.773 52.632 12.62 0.00 44.90 2.29
2519 8559 0.944311 ACGGTTAGCTGTTCAGCACG 60.944 55.000 23.69 21.59 37.25 5.34
2715 9258 8.817100 TGTACAAATCACATGAGATACGAATTC 58.183 33.333 6.04 0.00 0.00 2.17
2716 9259 8.716646 TGTACAAATCACATGAGATACGAATT 57.283 30.769 6.04 0.00 0.00 2.17
2752 9295 2.027192 GCCCATCTGTCCAGTTCAAGTA 60.027 50.000 0.00 0.00 0.00 2.24
3084 10058 2.622942 GCAACCATCCTTGTGAGAAACA 59.377 45.455 0.00 0.00 36.85 2.83
3285 10264 1.202746 GGCCTCTCATGGATGGAGTTC 60.203 57.143 0.00 0.00 34.04 3.01
3329 10309 2.366266 TCCACGTTGTAGGTAGCACTTT 59.634 45.455 0.00 0.00 0.00 2.66
3367 10351 7.517259 GCAAACAAATGTTCCAAGAGATTGAAC 60.517 37.037 0.00 0.00 37.25 3.18
3420 10405 6.103997 ACCACACATTAAGTAACTGGATACG 58.896 40.000 0.00 0.00 42.51 3.06
3436 10421 1.351017 CCACTAGGGACAACCACACAT 59.649 52.381 0.00 0.00 43.89 3.21
3447 10437 3.736094 AGAAATCCATGTCCACTAGGGA 58.264 45.455 0.00 0.00 45.89 4.20
3448 10438 4.510167 AAGAAATCCATGTCCACTAGGG 57.490 45.455 0.00 0.00 34.83 3.53
3512 10505 8.643324 AGGGAGTAATCAACAGTAGACATAATC 58.357 37.037 0.00 0.00 0.00 1.75
3524 10517 3.581332 AGAAACGGAGGGAGTAATCAACA 59.419 43.478 0.00 0.00 0.00 3.33
3533 10526 4.001652 GGAGTAAAAAGAAACGGAGGGAG 58.998 47.826 0.00 0.00 0.00 4.30
3535 10528 3.501062 GTGGAGTAAAAAGAAACGGAGGG 59.499 47.826 0.00 0.00 0.00 4.30
3569 10562 9.897744 CAAACATTGTGTACTATGACTTTGAAT 57.102 29.630 12.21 0.00 32.47 2.57
3570 10563 9.114952 TCAAACATTGTGTACTATGACTTTGAA 57.885 29.630 15.59 6.64 34.58 2.69
3571 10564 8.556194 GTCAAACATTGTGTACTATGACTTTGA 58.444 33.333 12.21 13.71 34.82 2.69
3572 10565 7.803189 GGTCAAACATTGTGTACTATGACTTTG 59.197 37.037 12.21 12.14 33.88 2.77
3573 10566 7.500892 TGGTCAAACATTGTGTACTATGACTTT 59.499 33.333 12.21 2.58 33.88 2.66
3574 10567 6.995686 TGGTCAAACATTGTGTACTATGACTT 59.004 34.615 12.21 4.02 33.88 3.01
3575 10568 6.530120 TGGTCAAACATTGTGTACTATGACT 58.470 36.000 12.21 0.00 33.88 3.41
3576 10569 6.795098 TGGTCAAACATTGTGTACTATGAC 57.205 37.500 12.21 0.00 33.25 3.06
3577 10570 7.809546 TTTGGTCAAACATTGTGTACTATGA 57.190 32.000 12.21 0.00 34.13 2.15
3578 10571 9.474920 AAATTTGGTCAAACATTGTGTACTATG 57.525 29.630 5.17 5.17 35.67 2.23
3643 10636 8.342634 GCACCATCAAACGTATTTTCATACTAT 58.657 33.333 0.00 0.00 34.10 2.12
3644 10637 7.334671 TGCACCATCAAACGTATTTTCATACTA 59.665 33.333 0.00 0.00 34.10 1.82
3645 10638 6.150307 TGCACCATCAAACGTATTTTCATACT 59.850 34.615 0.00 0.00 34.10 2.12
3646 10639 6.318628 TGCACCATCAAACGTATTTTCATAC 58.681 36.000 0.00 0.00 33.05 2.39
3647 10640 6.502136 TGCACCATCAAACGTATTTTCATA 57.498 33.333 0.00 0.00 0.00 2.15
3648 10641 5.384063 TGCACCATCAAACGTATTTTCAT 57.616 34.783 0.00 0.00 0.00 2.57
3649 10642 4.837896 TGCACCATCAAACGTATTTTCA 57.162 36.364 0.00 0.00 0.00 2.69
3650 10643 5.512788 CAGATGCACCATCAAACGTATTTTC 59.487 40.000 7.83 0.00 42.72 2.29
3651 10644 5.182950 TCAGATGCACCATCAAACGTATTTT 59.817 36.000 7.83 0.00 42.72 1.82
3652 10645 4.699735 TCAGATGCACCATCAAACGTATTT 59.300 37.500 7.83 0.00 42.72 1.40
3653 10646 4.260985 TCAGATGCACCATCAAACGTATT 58.739 39.130 7.83 0.00 42.72 1.89
3654 10647 3.872696 TCAGATGCACCATCAAACGTAT 58.127 40.909 7.83 0.00 42.72 3.06
3655 10648 3.326836 TCAGATGCACCATCAAACGTA 57.673 42.857 7.83 0.00 42.72 3.57
3656 10649 2.183478 TCAGATGCACCATCAAACGT 57.817 45.000 7.83 0.00 42.72 3.99
3657 10650 4.880886 TTATCAGATGCACCATCAAACG 57.119 40.909 7.83 0.00 42.72 3.60
3658 10651 6.140303 ACATTATCAGATGCACCATCAAAC 57.860 37.500 7.83 0.00 42.72 2.93
3659 10652 6.377712 TCAACATTATCAGATGCACCATCAAA 59.622 34.615 7.83 0.00 42.72 2.69
3660 10653 5.887035 TCAACATTATCAGATGCACCATCAA 59.113 36.000 7.83 0.00 42.72 2.57
3661 10654 5.438833 TCAACATTATCAGATGCACCATCA 58.561 37.500 7.83 0.00 42.72 3.07
3662 10655 6.570672 ATCAACATTATCAGATGCACCATC 57.429 37.500 0.00 0.00 40.80 3.51
3663 10656 6.971726 AATCAACATTATCAGATGCACCAT 57.028 33.333 0.00 0.00 0.00 3.55
3664 10657 6.377712 TGAAATCAACATTATCAGATGCACCA 59.622 34.615 0.00 0.00 0.00 4.17
3665 10658 6.798482 TGAAATCAACATTATCAGATGCACC 58.202 36.000 0.00 0.00 0.00 5.01
3666 10659 8.503486 GATGAAATCAACATTATCAGATGCAC 57.497 34.615 0.00 0.00 44.70 4.57
3737 10730 6.544928 AAGGTTTGGTCAAAGTCAATCTTT 57.455 33.333 0.00 0.00 45.96 2.52
3738 10731 7.839680 ATAAGGTTTGGTCAAAGTCAATCTT 57.160 32.000 0.00 0.00 38.10 2.40
3739 10732 7.119262 CGTATAAGGTTTGGTCAAAGTCAATCT 59.881 37.037 0.00 0.00 0.00 2.40
3740 10733 7.241376 CGTATAAGGTTTGGTCAAAGTCAATC 58.759 38.462 0.00 0.00 0.00 2.67
3741 10734 6.349033 GCGTATAAGGTTTGGTCAAAGTCAAT 60.349 38.462 0.00 0.00 0.00 2.57
3742 10735 5.049267 GCGTATAAGGTTTGGTCAAAGTCAA 60.049 40.000 0.00 0.00 0.00 3.18
3743 10736 4.453136 GCGTATAAGGTTTGGTCAAAGTCA 59.547 41.667 0.00 0.00 0.00 3.41
3744 10737 4.453136 TGCGTATAAGGTTTGGTCAAAGTC 59.547 41.667 0.00 0.00 0.00 3.01
3745 10738 4.391155 TGCGTATAAGGTTTGGTCAAAGT 58.609 39.130 0.00 0.00 0.00 2.66
3746 10739 4.693566 TCTGCGTATAAGGTTTGGTCAAAG 59.306 41.667 0.00 0.00 0.00 2.77
3747 10740 4.453136 GTCTGCGTATAAGGTTTGGTCAAA 59.547 41.667 0.00 0.00 0.00 2.69
3748 10741 3.998341 GTCTGCGTATAAGGTTTGGTCAA 59.002 43.478 0.00 0.00 0.00 3.18
3749 10742 3.259876 AGTCTGCGTATAAGGTTTGGTCA 59.740 43.478 0.00 0.00 0.00 4.02
3750 10743 3.858247 AGTCTGCGTATAAGGTTTGGTC 58.142 45.455 0.00 0.00 0.00 4.02
3751 10744 3.975168 AGTCTGCGTATAAGGTTTGGT 57.025 42.857 0.00 0.00 0.00 3.67
3752 10745 6.730960 TTTTAGTCTGCGTATAAGGTTTGG 57.269 37.500 0.00 0.00 0.00 3.28
3753 10746 8.025243 TCTTTTTAGTCTGCGTATAAGGTTTG 57.975 34.615 0.00 0.00 0.00 2.93
3754 10747 8.611654 TTCTTTTTAGTCTGCGTATAAGGTTT 57.388 30.769 0.00 0.00 0.00 3.27
3755 10748 8.501580 GTTTCTTTTTAGTCTGCGTATAAGGTT 58.498 33.333 0.00 0.00 0.00 3.50
3756 10749 7.148689 CGTTTCTTTTTAGTCTGCGTATAAGGT 60.149 37.037 0.00 0.00 0.00 3.50
3757 10750 7.062605 TCGTTTCTTTTTAGTCTGCGTATAAGG 59.937 37.037 0.00 0.00 0.00 2.69
3758 10751 7.946043 TCGTTTCTTTTTAGTCTGCGTATAAG 58.054 34.615 0.00 0.00 0.00 1.73
3759 10752 7.872163 TCGTTTCTTTTTAGTCTGCGTATAA 57.128 32.000 0.00 0.00 0.00 0.98
3760 10753 7.062605 CCTTCGTTTCTTTTTAGTCTGCGTATA 59.937 37.037 0.00 0.00 0.00 1.47
3761 10754 6.128634 CCTTCGTTTCTTTTTAGTCTGCGTAT 60.129 38.462 0.00 0.00 0.00 3.06
3762 10755 5.176223 CCTTCGTTTCTTTTTAGTCTGCGTA 59.824 40.000 0.00 0.00 0.00 4.42
3763 10756 4.025145 CCTTCGTTTCTTTTTAGTCTGCGT 60.025 41.667 0.00 0.00 0.00 5.24
3764 10757 4.455124 CCTTCGTTTCTTTTTAGTCTGCG 58.545 43.478 0.00 0.00 0.00 5.18
3765 10758 4.514066 TCCCTTCGTTTCTTTTTAGTCTGC 59.486 41.667 0.00 0.00 0.00 4.26
3766 10759 5.758784 ACTCCCTTCGTTTCTTTTTAGTCTG 59.241 40.000 0.00 0.00 0.00 3.51
3767 10760 5.926663 ACTCCCTTCGTTTCTTTTTAGTCT 58.073 37.500 0.00 0.00 0.00 3.24
3768 10761 7.601508 TGATACTCCCTTCGTTTCTTTTTAGTC 59.398 37.037 0.00 0.00 0.00 2.59
3769 10762 7.447594 TGATACTCCCTTCGTTTCTTTTTAGT 58.552 34.615 0.00 0.00 0.00 2.24
3770 10763 7.900782 TGATACTCCCTTCGTTTCTTTTTAG 57.099 36.000 0.00 0.00 0.00 1.85
3771 10764 8.680039 TTTGATACTCCCTTCGTTTCTTTTTA 57.320 30.769 0.00 0.00 0.00 1.52
3772 10765 7.576861 TTTGATACTCCCTTCGTTTCTTTTT 57.423 32.000 0.00 0.00 0.00 1.94
3773 10766 7.761038 ATTTGATACTCCCTTCGTTTCTTTT 57.239 32.000 0.00 0.00 0.00 2.27
3774 10767 8.857694 TTATTTGATACTCCCTTCGTTTCTTT 57.142 30.769 0.00 0.00 0.00 2.52
3775 10768 8.101419 ACTTATTTGATACTCCCTTCGTTTCTT 58.899 33.333 0.00 0.00 0.00 2.52
3776 10769 7.621796 ACTTATTTGATACTCCCTTCGTTTCT 58.378 34.615 0.00 0.00 0.00 2.52
3777 10770 7.845066 ACTTATTTGATACTCCCTTCGTTTC 57.155 36.000 0.00 0.00 0.00 2.78
3778 10771 7.985752 CCTACTTATTTGATACTCCCTTCGTTT 59.014 37.037 0.00 0.00 0.00 3.60
3779 10772 7.418712 CCCTACTTATTTGATACTCCCTTCGTT 60.419 40.741 0.00 0.00 0.00 3.85
3780 10773 6.041751 CCCTACTTATTTGATACTCCCTTCGT 59.958 42.308 0.00 0.00 0.00 3.85
3781 10774 6.456501 CCCTACTTATTTGATACTCCCTTCG 58.543 44.000 0.00 0.00 0.00 3.79
3782 10775 6.557633 TCCCCTACTTATTTGATACTCCCTTC 59.442 42.308 0.00 0.00 0.00 3.46
3783 10776 6.329460 GTCCCCTACTTATTTGATACTCCCTT 59.671 42.308 0.00 0.00 0.00 3.95
3784 10777 5.845065 GTCCCCTACTTATTTGATACTCCCT 59.155 44.000 0.00 0.00 0.00 4.20
3785 10778 5.279356 CGTCCCCTACTTATTTGATACTCCC 60.279 48.000 0.00 0.00 0.00 4.30
3786 10779 5.279356 CCGTCCCCTACTTATTTGATACTCC 60.279 48.000 0.00 0.00 0.00 3.85
3787 10780 5.279356 CCCGTCCCCTACTTATTTGATACTC 60.279 48.000 0.00 0.00 0.00 2.59
3788 10781 4.591924 CCCGTCCCCTACTTATTTGATACT 59.408 45.833 0.00 0.00 0.00 2.12
3789 10782 4.590222 TCCCGTCCCCTACTTATTTGATAC 59.410 45.833 0.00 0.00 0.00 2.24
3790 10783 4.818447 TCCCGTCCCCTACTTATTTGATA 58.182 43.478 0.00 0.00 0.00 2.15
3791 10784 3.660959 TCCCGTCCCCTACTTATTTGAT 58.339 45.455 0.00 0.00 0.00 2.57
3809 11472 2.823758 GGCCTGCTGAGGGTATCCC 61.824 68.421 0.00 0.00 45.90 3.85
3832 11499 8.193438 CACTGATGAGATGTCTTATGTACTCAA 58.807 37.037 0.00 0.00 37.79 3.02
3833 11500 7.201857 CCACTGATGAGATGTCTTATGTACTCA 60.202 40.741 0.00 0.00 38.44 3.41
3909 11576 4.192317 GACAAGGGATGTGTATTCTGGTC 58.808 47.826 0.00 0.00 44.12 4.02
3914 11581 4.876107 ACGATTGACAAGGGATGTGTATTC 59.124 41.667 0.00 0.00 44.12 1.75
3946 11613 3.933332 CGAGCGATCCCTTAAAGTTTCTT 59.067 43.478 0.00 0.00 0.00 2.52
4038 11705 5.023533 ACATTGACTATATGTGTCGGCTT 57.976 39.130 0.00 0.00 35.03 4.35
4075 11743 2.233271 CAAACATCTTGGCTCCAGTGT 58.767 47.619 0.00 0.00 0.00 3.55
4092 11760 0.593518 CGTGCGATTTGGTGTGCAAA 60.594 50.000 0.00 0.00 39.34 3.68
4107 11775 0.037697 TGTGACCATGTAGACCGTGC 60.038 55.000 0.00 0.00 0.00 5.34
4122 11801 2.625790 GGGCATAGGTTTGTTGTTGTGA 59.374 45.455 0.00 0.00 0.00 3.58
4133 11812 0.468648 GCTAAGGTCGGGCATAGGTT 59.531 55.000 0.00 0.00 0.00 3.50
4166 11845 5.532779 TCTGATATGTCTCGATGTAGTTGCT 59.467 40.000 0.00 0.00 0.00 3.91
4173 11852 7.048629 ACAATCTTCTGATATGTCTCGATGT 57.951 36.000 0.00 0.00 31.70 3.06


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

AutoCloner maintained by Alex Coulton.