Multiple sequence alignment - TraesCS2A01G291600

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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 TraesCS2A01G291600 chr2A 100.000 3260 0 0 1 3260 502335097 502338356 0.000000e+00 6021.0
1 TraesCS2A01G291600 chr2D 95.163 3060 85 20 1 3032 371700702 371703726 0.000000e+00 4772.0
2 TraesCS2A01G291600 chr2B 94.131 2164 82 10 680 2822 440826032 440828171 0.000000e+00 3251.0
3 TraesCS2A01G291600 chr2B 91.082 684 27 14 1 672 440825087 440825748 0.000000e+00 894.0
4 TraesCS2A01G291600 chr2B 100.000 34 0 0 2822 2855 440828193 440828226 2.720000e-06 63.9
5 TraesCS2A01G291600 chr1B 89.108 1166 94 8 1286 2448 248233450 248234585 0.000000e+00 1419.0
6 TraesCS2A01G291600 chr3A 88.937 1166 90 9 1286 2448 688139051 688140180 0.000000e+00 1402.0
7 TraesCS2A01G291600 chrUn 86.889 450 30 8 2004 2448 90338667 90339092 8.180000e-131 477.0
8 TraesCS2A01G291600 chrUn 86.889 450 30 8 2004 2448 290522892 290523317 8.180000e-131 477.0
9 TraesCS2A01G291600 chr7A 94.760 229 9 1 3032 3260 704338576 704338351 1.440000e-93 353.0
10 TraesCS2A01G291600 chr1A 85.634 355 22 7 2099 2448 9820055 9819725 2.410000e-91 346.0


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 TraesCS2A01G291600 chr2A 502335097 502338356 3259 False 6021.000000 6021 100.000 1 3260 1 chr2A.!!$F1 3259
1 TraesCS2A01G291600 chr2D 371700702 371703726 3024 False 4772.000000 4772 95.163 1 3032 1 chr2D.!!$F1 3031
2 TraesCS2A01G291600 chr2B 440825087 440828226 3139 False 1402.966667 3251 95.071 1 2855 3 chr2B.!!$F1 2854
3 TraesCS2A01G291600 chr1B 248233450 248234585 1135 False 1419.000000 1419 89.108 1286 2448 1 chr1B.!!$F1 1162
4 TraesCS2A01G291600 chr3A 688139051 688140180 1129 False 1402.000000 1402 88.937 1286 2448 1 chr3A.!!$F1 1162

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
922 1231 0.027586 CCCACGCGCTTATAACTTGC 59.972 55.0 5.73 0.0 0.0 4.01 F
2217 2559 0.257039 ATGCCCAGTCTGATCCCAAC 59.743 55.0 0.00 0.0 0.0 3.77 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2227 2569 0.247460 TCAGCGTTGGGATCAGACTG 59.753 55.0 0.0 0.0 0.0 3.51 R
3084 3452 0.030705 TAGCAATCTCCAGCCCCTCT 60.031 55.0 0.0 0.0 0.0 3.69 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
139 140 3.496331 ACCCAATCCAACTAAACACAGG 58.504 45.455 0.00 0.00 0.00 4.00
264 265 2.202797 CTCCGTGATCACCCTGCG 60.203 66.667 20.03 7.94 0.00 5.18
301 302 5.457148 CAGCAGCGAAATGTTACTAGACTAG 59.543 44.000 8.00 8.00 0.00 2.57
406 408 3.702048 CGGAAGGAGCCGTGGGAA 61.702 66.667 0.00 0.00 46.07 3.97
630 643 4.161976 CGCGCTCGTCTTCTCCGA 62.162 66.667 5.56 0.00 0.00 4.55
656 672 2.666190 CGCACTGTCACACCCAGG 60.666 66.667 0.00 0.00 34.16 4.45
675 691 4.452455 CCAGGTACACACACAAGAGAATTC 59.548 45.833 0.00 0.00 0.00 2.17
676 692 5.300752 CAGGTACACACACAAGAGAATTCT 58.699 41.667 7.95 7.95 34.29 2.40
677 693 5.178252 CAGGTACACACACAAGAGAATTCTG 59.822 44.000 14.00 1.81 32.79 3.02
678 694 4.083802 GGTACACACACAAGAGAATTCTGC 60.084 45.833 14.00 4.79 32.79 4.26
698 990 2.047179 GGGACTGCTGTTCCGTCC 60.047 66.667 5.14 0.00 45.02 4.79
796 1088 3.414700 CACAAGACCACGAGCGCC 61.415 66.667 2.29 0.00 0.00 6.53
920 1229 0.463116 CCCCCACGCGCTTATAACTT 60.463 55.000 5.73 0.00 0.00 2.66
921 1230 0.655733 CCCCACGCGCTTATAACTTG 59.344 55.000 5.73 0.00 0.00 3.16
922 1231 0.027586 CCCACGCGCTTATAACTTGC 59.972 55.000 5.73 0.00 0.00 4.01
923 1232 1.006832 CCACGCGCTTATAACTTGCT 58.993 50.000 5.73 0.00 0.00 3.91
991 1309 1.011684 CGAGTCGAGAGTAGCAGCG 60.012 63.158 6.73 0.00 0.00 5.18
1092 1410 1.595357 GGGCGCTAACACCAGTAGT 59.405 57.895 7.64 0.00 0.00 2.73
1330 1648 0.677098 CCAAGACGAGGACGAGGAGA 60.677 60.000 0.00 0.00 42.66 3.71
2136 2454 3.132139 CTCGCCGACCTCGAGGAA 61.132 66.667 37.69 13.64 46.82 3.36
2217 2559 0.257039 ATGCCCAGTCTGATCCCAAC 59.743 55.000 0.00 0.00 0.00 3.77
2218 2560 1.077429 GCCCAGTCTGATCCCAACC 60.077 63.158 0.00 0.00 0.00 3.77
2219 2561 1.566298 GCCCAGTCTGATCCCAACCT 61.566 60.000 0.00 0.00 0.00 3.50
2220 2562 0.543749 CCCAGTCTGATCCCAACCTC 59.456 60.000 0.00 0.00 0.00 3.85
2221 2563 1.279496 CCAGTCTGATCCCAACCTCA 58.721 55.000 0.00 0.00 0.00 3.86
2222 2564 1.630369 CCAGTCTGATCCCAACCTCAA 59.370 52.381 0.00 0.00 0.00 3.02
2223 2565 2.240667 CCAGTCTGATCCCAACCTCAAT 59.759 50.000 0.00 0.00 0.00 2.57
2224 2566 3.276857 CAGTCTGATCCCAACCTCAATG 58.723 50.000 0.00 0.00 0.00 2.82
2225 2567 2.019984 GTCTGATCCCAACCTCAATGC 58.980 52.381 0.00 0.00 0.00 3.56
2226 2568 1.064463 TCTGATCCCAACCTCAATGCC 60.064 52.381 0.00 0.00 0.00 4.40
2227 2569 0.033208 TGATCCCAACCTCAATGCCC 60.033 55.000 0.00 0.00 0.00 5.36
2228 2570 0.033208 GATCCCAACCTCAATGCCCA 60.033 55.000 0.00 0.00 0.00 5.36
2229 2571 0.032813 ATCCCAACCTCAATGCCCAG 60.033 55.000 0.00 0.00 0.00 4.45
2230 2572 1.077265 CCCAACCTCAATGCCCAGT 59.923 57.895 0.00 0.00 0.00 4.00
2231 2573 0.967380 CCCAACCTCAATGCCCAGTC 60.967 60.000 0.00 0.00 0.00 3.51
2232 2574 0.038744 CCAACCTCAATGCCCAGTCT 59.961 55.000 0.00 0.00 0.00 3.24
2233 2575 1.171308 CAACCTCAATGCCCAGTCTG 58.829 55.000 0.00 0.00 0.00 3.51
2234 2576 1.067295 AACCTCAATGCCCAGTCTGA 58.933 50.000 0.00 0.00 0.00 3.27
2235 2577 1.293062 ACCTCAATGCCCAGTCTGAT 58.707 50.000 0.00 0.00 0.00 2.90
2236 2578 1.211457 ACCTCAATGCCCAGTCTGATC 59.789 52.381 0.00 0.00 0.00 2.92
2237 2579 1.476471 CCTCAATGCCCAGTCTGATCC 60.476 57.143 0.00 0.00 0.00 3.36
2238 2580 0.548031 TCAATGCCCAGTCTGATCCC 59.452 55.000 0.00 0.00 0.00 3.85
2239 2581 0.256752 CAATGCCCAGTCTGATCCCA 59.743 55.000 0.00 0.00 0.00 4.37
2240 2582 1.002069 AATGCCCAGTCTGATCCCAA 58.998 50.000 0.00 0.00 0.00 4.12
2303 2645 6.470235 GTCAACAACAGTTCACAATTCAAGAG 59.530 38.462 0.00 0.00 0.00 2.85
2365 2710 7.141363 CCAAGTGAATTAATTATACTGCAGCC 58.859 38.462 15.27 0.00 0.00 4.85
2502 2847 3.876914 CACTCAGTGCCTGACTTTAACAA 59.123 43.478 0.00 0.00 35.39 2.83
2503 2848 3.877508 ACTCAGTGCCTGACTTTAACAAC 59.122 43.478 1.25 0.00 35.39 3.32
2687 3033 1.749063 GGGAAGTTCTATTTTGGCCCG 59.251 52.381 0.00 0.00 0.00 6.13
2916 3284 4.592485 ATTCTAACGAATCGCCTGAGAT 57.408 40.909 1.15 0.00 34.88 2.75
2924 3292 4.038042 ACGAATCGCCTGAGATCATTCTTA 59.962 41.667 1.15 0.00 30.30 2.10
3010 3378 8.352942 ACATGTATCCTGTTGTTTCTTTCTTTC 58.647 33.333 0.00 0.00 0.00 2.62
3036 3404 3.895232 GGCACACCTGATTCTAGAAGA 57.105 47.619 11.53 0.00 0.00 2.87
3037 3405 3.526534 GGCACACCTGATTCTAGAAGAC 58.473 50.000 11.53 8.21 0.00 3.01
3038 3406 3.196685 GGCACACCTGATTCTAGAAGACT 59.803 47.826 11.53 0.00 0.00 3.24
3039 3407 4.402793 GGCACACCTGATTCTAGAAGACTA 59.597 45.833 11.53 0.00 0.00 2.59
3040 3408 5.069781 GGCACACCTGATTCTAGAAGACTAT 59.930 44.000 11.53 0.00 0.00 2.12
3041 3409 6.265649 GGCACACCTGATTCTAGAAGACTATA 59.734 42.308 11.53 0.00 0.00 1.31
3042 3410 7.142680 GCACACCTGATTCTAGAAGACTATAC 58.857 42.308 11.53 0.00 0.00 1.47
3043 3411 7.356540 CACACCTGATTCTAGAAGACTATACG 58.643 42.308 11.53 0.00 0.00 3.06
3044 3412 6.016943 ACACCTGATTCTAGAAGACTATACGC 60.017 42.308 11.53 0.00 0.00 4.42
3045 3413 6.017026 CACCTGATTCTAGAAGACTATACGCA 60.017 42.308 11.53 0.00 0.00 5.24
3046 3414 6.717540 ACCTGATTCTAGAAGACTATACGCAT 59.282 38.462 11.53 0.00 0.00 4.73
3047 3415 7.026562 CCTGATTCTAGAAGACTATACGCATG 58.973 42.308 11.53 0.00 0.00 4.06
3048 3416 7.308891 CCTGATTCTAGAAGACTATACGCATGT 60.309 40.741 11.53 0.00 0.00 3.21
3049 3417 7.941919 TGATTCTAGAAGACTATACGCATGTT 58.058 34.615 11.53 0.00 0.00 2.71
3050 3418 7.862873 TGATTCTAGAAGACTATACGCATGTTG 59.137 37.037 11.53 0.00 0.00 3.33
3051 3419 5.520632 TCTAGAAGACTATACGCATGTTGC 58.479 41.667 0.00 0.00 40.69 4.17
3064 3432 4.963237 GCATGTTGCGAGATACTAGAAG 57.037 45.455 0.00 0.00 31.71 2.85
3065 3433 3.183373 GCATGTTGCGAGATACTAGAAGC 59.817 47.826 0.00 0.00 31.71 3.86
3066 3434 4.615949 CATGTTGCGAGATACTAGAAGCT 58.384 43.478 0.00 0.00 0.00 3.74
3067 3435 4.033990 TGTTGCGAGATACTAGAAGCTG 57.966 45.455 0.00 0.00 0.00 4.24
3068 3436 3.444034 TGTTGCGAGATACTAGAAGCTGT 59.556 43.478 0.00 0.00 0.00 4.40
3069 3437 3.972950 TGCGAGATACTAGAAGCTGTC 57.027 47.619 0.00 0.00 0.00 3.51
3070 3438 3.279434 TGCGAGATACTAGAAGCTGTCA 58.721 45.455 0.00 0.00 0.00 3.58
3071 3439 3.885901 TGCGAGATACTAGAAGCTGTCAT 59.114 43.478 0.00 0.00 0.00 3.06
3072 3440 4.225984 GCGAGATACTAGAAGCTGTCATG 58.774 47.826 0.00 0.00 0.00 3.07
3073 3441 4.261405 GCGAGATACTAGAAGCTGTCATGT 60.261 45.833 0.00 0.00 0.00 3.21
3074 3442 5.049336 GCGAGATACTAGAAGCTGTCATGTA 60.049 44.000 0.00 0.00 0.00 2.29
3075 3443 6.348950 GCGAGATACTAGAAGCTGTCATGTAT 60.349 42.308 0.00 1.02 32.86 2.29
3076 3444 7.020602 CGAGATACTAGAAGCTGTCATGTATG 58.979 42.308 0.00 0.00 31.39 2.39
3077 3445 6.686630 AGATACTAGAAGCTGTCATGTATGC 58.313 40.000 0.00 0.00 31.39 3.14
3078 3446 6.493115 AGATACTAGAAGCTGTCATGTATGCT 59.507 38.462 0.00 0.00 37.37 3.79
3079 3447 5.350504 ACTAGAAGCTGTCATGTATGCTT 57.649 39.130 16.84 16.84 46.69 3.91
3080 3448 5.114780 ACTAGAAGCTGTCATGTATGCTTG 58.885 41.667 20.01 11.95 44.47 4.01
3081 3449 2.681848 AGAAGCTGTCATGTATGCTTGC 59.318 45.455 20.01 13.71 44.47 4.01
3082 3450 2.118313 AGCTGTCATGTATGCTTGCA 57.882 45.000 0.00 0.00 30.96 4.08
3083 3451 2.439409 AGCTGTCATGTATGCTTGCAA 58.561 42.857 0.00 0.00 30.96 4.08
3084 3452 2.821378 AGCTGTCATGTATGCTTGCAAA 59.179 40.909 0.00 0.00 30.96 3.68
3095 3463 3.260297 TTGCAAAGAGGGGCTGGA 58.740 55.556 0.00 0.00 0.00 3.86
3096 3464 1.075482 TTGCAAAGAGGGGCTGGAG 59.925 57.895 0.00 0.00 0.00 3.86
3097 3465 1.426251 TTGCAAAGAGGGGCTGGAGA 61.426 55.000 0.00 0.00 0.00 3.71
3098 3466 1.210204 TGCAAAGAGGGGCTGGAGAT 61.210 55.000 0.00 0.00 0.00 2.75
3099 3467 0.033699 GCAAAGAGGGGCTGGAGATT 60.034 55.000 0.00 0.00 0.00 2.40
3100 3468 1.760192 CAAAGAGGGGCTGGAGATTG 58.240 55.000 0.00 0.00 0.00 2.67
3101 3469 0.033699 AAAGAGGGGCTGGAGATTGC 60.034 55.000 0.00 0.00 0.00 3.56
3102 3470 0.918310 AAGAGGGGCTGGAGATTGCT 60.918 55.000 0.00 0.00 0.00 3.91
3103 3471 0.030705 AGAGGGGCTGGAGATTGCTA 60.031 55.000 0.00 0.00 0.00 3.49
3104 3472 1.063183 GAGGGGCTGGAGATTGCTAT 58.937 55.000 0.00 0.00 0.00 2.97
3105 3473 2.158097 AGAGGGGCTGGAGATTGCTATA 60.158 50.000 0.00 0.00 0.00 1.31
3106 3474 1.981495 AGGGGCTGGAGATTGCTATAC 59.019 52.381 0.00 0.00 0.00 1.47
3107 3475 1.699634 GGGGCTGGAGATTGCTATACA 59.300 52.381 0.00 0.00 0.00 2.29
3108 3476 2.289945 GGGGCTGGAGATTGCTATACAG 60.290 54.545 0.00 0.00 0.00 2.74
3109 3477 2.634940 GGGCTGGAGATTGCTATACAGA 59.365 50.000 9.85 0.00 0.00 3.41
3110 3478 3.071602 GGGCTGGAGATTGCTATACAGAA 59.928 47.826 9.85 0.00 0.00 3.02
3111 3479 4.444876 GGGCTGGAGATTGCTATACAGAAA 60.445 45.833 9.85 0.00 0.00 2.52
3112 3480 5.126067 GGCTGGAGATTGCTATACAGAAAA 58.874 41.667 9.85 0.00 0.00 2.29
3113 3481 5.238214 GGCTGGAGATTGCTATACAGAAAAG 59.762 44.000 9.85 0.00 0.00 2.27
3114 3482 5.819901 GCTGGAGATTGCTATACAGAAAAGT 59.180 40.000 9.85 0.00 0.00 2.66
3115 3483 6.986817 GCTGGAGATTGCTATACAGAAAAGTA 59.013 38.462 9.85 0.00 0.00 2.24
3116 3484 7.042389 GCTGGAGATTGCTATACAGAAAAGTAC 60.042 40.741 9.85 0.00 0.00 2.73
3117 3485 6.978659 TGGAGATTGCTATACAGAAAAGTACG 59.021 38.462 0.00 0.00 0.00 3.67
3118 3486 6.979238 GGAGATTGCTATACAGAAAAGTACGT 59.021 38.462 0.00 0.00 0.00 3.57
3119 3487 7.491696 GGAGATTGCTATACAGAAAAGTACGTT 59.508 37.037 0.00 0.00 0.00 3.99
3120 3488 8.186178 AGATTGCTATACAGAAAAGTACGTTG 57.814 34.615 0.00 0.00 0.00 4.10
3121 3489 5.773239 TGCTATACAGAAAAGTACGTTGC 57.227 39.130 0.00 0.00 0.00 4.17
3122 3490 4.628333 TGCTATACAGAAAAGTACGTTGCC 59.372 41.667 0.00 0.00 0.00 4.52
3123 3491 4.033702 GCTATACAGAAAAGTACGTTGCCC 59.966 45.833 0.00 0.00 0.00 5.36
3124 3492 2.335316 ACAGAAAAGTACGTTGCCCA 57.665 45.000 0.00 0.00 0.00 5.36
3125 3493 2.858745 ACAGAAAAGTACGTTGCCCAT 58.141 42.857 0.00 0.00 0.00 4.00
3126 3494 3.219281 ACAGAAAAGTACGTTGCCCATT 58.781 40.909 0.00 0.00 0.00 3.16
3127 3495 3.252458 ACAGAAAAGTACGTTGCCCATTC 59.748 43.478 0.00 0.00 0.00 2.67
3128 3496 3.252215 CAGAAAAGTACGTTGCCCATTCA 59.748 43.478 0.00 0.00 0.00 2.57
3129 3497 3.886505 AGAAAAGTACGTTGCCCATTCAA 59.113 39.130 0.00 0.00 0.00 2.69
3130 3498 3.915437 AAAGTACGTTGCCCATTCAAG 57.085 42.857 0.00 0.00 0.00 3.02
3131 3499 2.561478 AGTACGTTGCCCATTCAAGT 57.439 45.000 0.00 0.00 0.00 3.16
3132 3500 2.858745 AGTACGTTGCCCATTCAAGTT 58.141 42.857 0.00 0.00 0.00 2.66
3133 3501 2.552315 AGTACGTTGCCCATTCAAGTTG 59.448 45.455 0.00 0.00 0.00 3.16
3134 3502 1.686355 ACGTTGCCCATTCAAGTTGA 58.314 45.000 0.08 0.08 0.00 3.18
3135 3503 1.608590 ACGTTGCCCATTCAAGTTGAG 59.391 47.619 5.56 0.00 0.00 3.02
3136 3504 1.068333 CGTTGCCCATTCAAGTTGAGG 60.068 52.381 5.56 5.51 0.00 3.86
3137 3505 1.963515 GTTGCCCATTCAAGTTGAGGT 59.036 47.619 5.56 0.00 0.00 3.85
3138 3506 1.619654 TGCCCATTCAAGTTGAGGTG 58.380 50.000 5.56 9.12 0.00 4.00
3139 3507 1.144708 TGCCCATTCAAGTTGAGGTGA 59.855 47.619 17.24 0.49 0.00 4.02
3140 3508 2.238521 GCCCATTCAAGTTGAGGTGAA 58.761 47.619 17.24 0.15 38.09 3.18
3141 3509 2.827921 GCCCATTCAAGTTGAGGTGAAT 59.172 45.455 17.24 2.35 43.59 2.57
3142 3510 3.259123 GCCCATTCAAGTTGAGGTGAATT 59.741 43.478 17.24 0.00 41.44 2.17
3143 3511 4.619160 GCCCATTCAAGTTGAGGTGAATTC 60.619 45.833 17.24 0.00 41.44 2.17
3144 3512 4.768968 CCCATTCAAGTTGAGGTGAATTCT 59.231 41.667 17.24 0.00 41.44 2.40
3145 3513 5.336213 CCCATTCAAGTTGAGGTGAATTCTG 60.336 44.000 17.24 0.00 41.44 3.02
3146 3514 4.836125 TTCAAGTTGAGGTGAATTCTGC 57.164 40.909 5.56 0.00 0.00 4.26
3147 3515 3.149196 TCAAGTTGAGGTGAATTCTGCC 58.851 45.455 7.05 9.03 0.00 4.85
3148 3516 2.886523 CAAGTTGAGGTGAATTCTGCCA 59.113 45.455 17.62 4.89 0.00 4.92
3149 3517 2.508526 AGTTGAGGTGAATTCTGCCAC 58.491 47.619 17.62 13.30 0.00 5.01
3150 3518 2.107204 AGTTGAGGTGAATTCTGCCACT 59.893 45.455 17.62 11.44 33.99 4.00
3151 3519 2.189594 TGAGGTGAATTCTGCCACTG 57.810 50.000 17.62 0.00 33.99 3.66
3152 3520 0.807496 GAGGTGAATTCTGCCACTGC 59.193 55.000 17.62 5.00 33.99 4.40
3153 3521 0.957395 AGGTGAATTCTGCCACTGCG 60.957 55.000 17.62 0.00 41.78 5.18
3154 3522 1.503542 GTGAATTCTGCCACTGCGG 59.496 57.895 7.05 0.00 45.75 5.69
3163 3531 3.041701 CCACTGCGGCAATGTTGT 58.958 55.556 10.77 0.00 0.00 3.32
3164 3532 1.363443 CCACTGCGGCAATGTTGTT 59.637 52.632 10.77 0.00 0.00 2.83
3165 3533 0.595588 CCACTGCGGCAATGTTGTTA 59.404 50.000 10.77 0.00 0.00 2.41
3166 3534 1.000827 CCACTGCGGCAATGTTGTTAA 60.001 47.619 10.77 0.00 0.00 2.01
3167 3535 2.544694 CCACTGCGGCAATGTTGTTAAA 60.545 45.455 10.77 0.00 0.00 1.52
3168 3536 3.119291 CACTGCGGCAATGTTGTTAAAA 58.881 40.909 3.44 0.00 0.00 1.52
3169 3537 3.553511 CACTGCGGCAATGTTGTTAAAAA 59.446 39.130 3.44 0.00 0.00 1.94
3170 3538 3.801594 ACTGCGGCAATGTTGTTAAAAAG 59.198 39.130 3.44 0.00 0.00 2.27
3171 3539 3.786635 TGCGGCAATGTTGTTAAAAAGT 58.213 36.364 0.00 0.00 0.00 2.66
3172 3540 3.553511 TGCGGCAATGTTGTTAAAAAGTG 59.446 39.130 0.00 0.00 0.00 3.16
3173 3541 3.799420 GCGGCAATGTTGTTAAAAAGTGA 59.201 39.130 0.00 0.00 0.00 3.41
3174 3542 4.268884 GCGGCAATGTTGTTAAAAAGTGAA 59.731 37.500 0.00 0.00 0.00 3.18
3175 3543 5.556194 GCGGCAATGTTGTTAAAAAGTGAAG 60.556 40.000 0.00 0.00 0.00 3.02
3176 3544 5.518487 CGGCAATGTTGTTAAAAAGTGAAGT 59.482 36.000 0.00 0.00 0.00 3.01
3177 3545 6.507771 CGGCAATGTTGTTAAAAAGTGAAGTG 60.508 38.462 0.00 0.00 0.00 3.16
3178 3546 6.238076 GGCAATGTTGTTAAAAAGTGAAGTGG 60.238 38.462 0.00 0.00 0.00 4.00
3179 3547 6.533367 GCAATGTTGTTAAAAAGTGAAGTGGA 59.467 34.615 0.00 0.00 0.00 4.02
3180 3548 7.224557 GCAATGTTGTTAAAAAGTGAAGTGGAT 59.775 33.333 0.00 0.00 0.00 3.41
3181 3549 8.542132 CAATGTTGTTAAAAAGTGAAGTGGATG 58.458 33.333 0.00 0.00 0.00 3.51
3182 3550 7.397892 TGTTGTTAAAAAGTGAAGTGGATGA 57.602 32.000 0.00 0.00 0.00 2.92
3183 3551 8.006298 TGTTGTTAAAAAGTGAAGTGGATGAT 57.994 30.769 0.00 0.00 0.00 2.45
3184 3552 9.126151 TGTTGTTAAAAAGTGAAGTGGATGATA 57.874 29.630 0.00 0.00 0.00 2.15
3185 3553 9.612620 GTTGTTAAAAAGTGAAGTGGATGATAG 57.387 33.333 0.00 0.00 0.00 2.08
3186 3554 9.567776 TTGTTAAAAAGTGAAGTGGATGATAGA 57.432 29.630 0.00 0.00 0.00 1.98
3187 3555 9.739276 TGTTAAAAAGTGAAGTGGATGATAGAT 57.261 29.630 0.00 0.00 0.00 1.98
3189 3557 9.958180 TTAAAAAGTGAAGTGGATGATAGATCA 57.042 29.630 0.00 0.00 41.70 2.92
3190 3558 8.868522 AAAAAGTGAAGTGGATGATAGATCAA 57.131 30.769 0.00 0.00 40.69 2.57
3191 3559 8.503458 AAAAGTGAAGTGGATGATAGATCAAG 57.497 34.615 0.00 0.00 40.69 3.02
3192 3560 6.172136 AGTGAAGTGGATGATAGATCAAGG 57.828 41.667 0.00 0.00 40.69 3.61
3193 3561 5.664908 AGTGAAGTGGATGATAGATCAAGGT 59.335 40.000 0.00 0.00 40.69 3.50
3194 3562 6.157645 AGTGAAGTGGATGATAGATCAAGGTT 59.842 38.462 0.00 0.00 40.69 3.50
3195 3563 6.481644 GTGAAGTGGATGATAGATCAAGGTTC 59.518 42.308 0.00 0.00 40.69 3.62
3196 3564 5.207110 AGTGGATGATAGATCAAGGTTCG 57.793 43.478 0.00 0.00 40.69 3.95
3197 3565 3.743396 GTGGATGATAGATCAAGGTTCGC 59.257 47.826 0.00 0.00 40.69 4.70
3198 3566 2.989840 GGATGATAGATCAAGGTTCGCG 59.010 50.000 0.00 0.00 40.69 5.87
3199 3567 3.553096 GGATGATAGATCAAGGTTCGCGT 60.553 47.826 5.77 0.00 40.69 6.01
3200 3568 3.520290 TGATAGATCAAGGTTCGCGTT 57.480 42.857 5.77 0.00 33.08 4.84
3201 3569 3.444916 TGATAGATCAAGGTTCGCGTTC 58.555 45.455 5.77 0.00 33.08 3.95
3202 3570 2.288961 TAGATCAAGGTTCGCGTTCC 57.711 50.000 5.77 10.17 0.00 3.62
3203 3571 0.608640 AGATCAAGGTTCGCGTTCCT 59.391 50.000 16.29 16.29 35.34 3.36
3204 3572 1.000145 GATCAAGGTTCGCGTTCCTC 59.000 55.000 20.55 8.68 33.09 3.71
3205 3573 0.736325 ATCAAGGTTCGCGTTCCTCG 60.736 55.000 20.55 12.83 43.12 4.63
3206 3574 1.663702 CAAGGTTCGCGTTCCTCGT 60.664 57.895 20.55 7.69 42.13 4.18
3220 3588 4.780186 TCGTGCGCCGCGATGTTA 62.780 61.111 18.91 0.00 41.48 2.41
3221 3589 3.844355 CGTGCGCCGCGATGTTAA 61.844 61.111 18.91 0.00 39.94 2.01
3222 3590 2.021380 GTGCGCCGCGATGTTAAG 59.979 61.111 18.91 0.00 0.00 1.85
3223 3591 2.125872 TGCGCCGCGATGTTAAGA 60.126 55.556 18.91 0.00 0.00 2.10
3224 3592 1.738464 TGCGCCGCGATGTTAAGAA 60.738 52.632 18.91 0.00 0.00 2.52
3225 3593 1.012234 GCGCCGCGATGTTAAGAAG 60.012 57.895 18.91 0.00 0.00 2.85
3226 3594 1.693083 GCGCCGCGATGTTAAGAAGT 61.693 55.000 18.91 0.00 0.00 3.01
3227 3595 0.719465 CGCCGCGATGTTAAGAAGTT 59.281 50.000 8.23 0.00 0.00 2.66
3228 3596 1.921887 CGCCGCGATGTTAAGAAGTTA 59.078 47.619 8.23 0.00 0.00 2.24
3229 3597 2.284855 CGCCGCGATGTTAAGAAGTTAC 60.285 50.000 8.23 0.00 0.00 2.50
3230 3598 2.928116 GCCGCGATGTTAAGAAGTTACT 59.072 45.455 8.23 0.00 0.00 2.24
3231 3599 3.370061 GCCGCGATGTTAAGAAGTTACTT 59.630 43.478 8.23 0.00 0.00 2.24
3232 3600 4.563976 GCCGCGATGTTAAGAAGTTACTTA 59.436 41.667 8.23 0.00 0.00 2.24
3233 3601 5.276254 GCCGCGATGTTAAGAAGTTACTTAG 60.276 44.000 8.23 0.00 34.51 2.18
3234 3602 6.032094 CCGCGATGTTAAGAAGTTACTTAGA 58.968 40.000 8.23 0.00 34.51 2.10
3235 3603 6.529125 CCGCGATGTTAAGAAGTTACTTAGAA 59.471 38.462 8.23 0.00 34.51 2.10
3236 3604 7.253684 CCGCGATGTTAAGAAGTTACTTAGAAG 60.254 40.741 8.23 0.00 34.51 2.85
3237 3605 7.392556 GCGATGTTAAGAAGTTACTTAGAAGC 58.607 38.462 0.00 0.00 34.51 3.86
3238 3606 7.063074 GCGATGTTAAGAAGTTACTTAGAAGCA 59.937 37.037 0.00 0.00 34.51 3.91
3239 3607 8.922676 CGATGTTAAGAAGTTACTTAGAAGCAA 58.077 33.333 0.00 0.00 34.51 3.91
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
139 140 0.179179 GAATTGCGACTGCCTTCTGC 60.179 55.000 0.00 0.00 41.78 4.26
301 302 0.966920 TTCACCACGGACTCTCTTCC 59.033 55.000 0.00 0.00 0.00 3.46
630 643 0.247736 GTGACAGTGCGAGGGAGAAT 59.752 55.000 0.00 0.00 0.00 2.40
656 672 4.511454 TGCAGAATTCTCTTGTGTGTGTAC 59.489 41.667 4.57 0.00 0.00 2.90
675 691 2.281070 AACAGCAGTCCCGTGCAG 60.281 61.111 0.00 0.00 46.60 4.41
676 692 2.280797 GAACAGCAGTCCCGTGCA 60.281 61.111 0.00 0.00 46.60 4.57
677 693 3.050275 GGAACAGCAGTCCCGTGC 61.050 66.667 0.00 0.00 44.35 5.34
678 694 2.738521 CGGAACAGCAGTCCCGTG 60.739 66.667 0.00 0.00 37.40 4.94
759 1051 2.587194 GCATCGTGCGGCTCTCAT 60.587 61.111 0.00 0.00 31.71 2.90
796 1088 3.044809 CCGATATATCCAACGGCCG 57.955 57.895 26.86 26.86 38.98 6.13
920 1229 2.911484 CGAGGCAAGCAAGCAAGCA 61.911 57.895 10.15 0.00 36.85 3.91
921 1230 2.126580 CGAGGCAAGCAAGCAAGC 60.127 61.111 2.78 0.00 35.83 4.01
922 1231 0.031178 AAACGAGGCAAGCAAGCAAG 59.969 50.000 2.78 0.00 35.83 4.01
923 1232 0.030638 GAAACGAGGCAAGCAAGCAA 59.969 50.000 2.78 0.00 35.83 3.91
1092 1410 3.181290 CTCGTGCTCGCATTCGCA 61.181 61.111 2.69 0.00 38.40 5.10
1816 2134 2.253154 GGCCAACAACGCGGTAAC 59.747 61.111 12.47 0.00 0.00 2.50
1856 2174 4.341783 AGCAGCAGGAGCCACACC 62.342 66.667 0.00 0.00 43.56 4.16
1858 2176 2.821518 TTGAGCAGCAGGAGCCACA 61.822 57.895 0.00 0.00 43.56 4.17
2136 2454 4.564041 CTGCAAAGTAGAGACAGATGTGT 58.436 43.478 0.00 0.00 40.71 3.72
2217 2559 1.476471 GGATCAGACTGGGCATTGAGG 60.476 57.143 1.81 0.00 0.00 3.86
2218 2560 1.476471 GGGATCAGACTGGGCATTGAG 60.476 57.143 1.81 0.00 0.00 3.02
2219 2561 0.548031 GGGATCAGACTGGGCATTGA 59.452 55.000 1.81 0.00 0.00 2.57
2220 2562 0.256752 TGGGATCAGACTGGGCATTG 59.743 55.000 1.81 0.00 0.00 2.82
2221 2563 1.002069 TTGGGATCAGACTGGGCATT 58.998 50.000 1.81 0.00 0.00 3.56
2222 2564 0.257039 GTTGGGATCAGACTGGGCAT 59.743 55.000 1.81 0.00 0.00 4.40
2223 2565 1.685224 GTTGGGATCAGACTGGGCA 59.315 57.895 1.81 0.00 0.00 5.36
2224 2566 1.450312 CGTTGGGATCAGACTGGGC 60.450 63.158 1.81 0.00 0.00 5.36
2225 2567 1.450312 GCGTTGGGATCAGACTGGG 60.450 63.158 1.81 0.00 0.00 4.45
2226 2568 0.742281 CAGCGTTGGGATCAGACTGG 60.742 60.000 1.81 0.00 0.00 4.00
2227 2569 0.247460 TCAGCGTTGGGATCAGACTG 59.753 55.000 0.00 0.00 0.00 3.51
2228 2570 0.534412 CTCAGCGTTGGGATCAGACT 59.466 55.000 0.00 0.00 0.00 3.24
2229 2571 0.247736 ACTCAGCGTTGGGATCAGAC 59.752 55.000 5.99 0.00 0.00 3.51
2230 2572 0.976641 AACTCAGCGTTGGGATCAGA 59.023 50.000 5.99 0.00 33.72 3.27
2231 2573 3.540211 AACTCAGCGTTGGGATCAG 57.460 52.632 5.99 0.00 33.72 2.90
2303 2645 6.577427 GTCACCGACATGAAAAATGAAACTAC 59.423 38.462 0.00 0.00 32.09 2.73
2338 2683 7.637631 TGCAGTATAATTAATTCACTTGGCA 57.362 32.000 16.16 16.16 0.00 4.92
2389 2734 3.376859 TGAATGCGTAATACCTTGCTTGG 59.623 43.478 0.00 0.00 0.00 3.61
2404 2749 4.731961 GTCAAGCAATAGACAATGAATGCG 59.268 41.667 0.00 0.00 38.74 4.73
2502 2847 7.333323 AGTAAAAATATGGCTACGTGTAAGGT 58.667 34.615 0.00 0.00 39.04 3.50
2503 2848 7.781548 AGTAAAAATATGGCTACGTGTAAGG 57.218 36.000 0.00 0.00 0.00 2.69
2544 2889 9.650539 CAGAATCATAGATTTACTATCCCACTG 57.349 37.037 0.00 0.00 39.50 3.66
2717 3063 7.122055 AGCAACCGTTCTAATTCCAAATCAATA 59.878 33.333 0.00 0.00 0.00 1.90
2796 3142 0.523072 AGTATTTTGTGGCAGCTGCG 59.477 50.000 31.19 0.00 43.26 5.18
2916 3284 9.672086 CGGTTAAAACAATCTTTGTAAGAATGA 57.328 29.630 10.55 0.00 44.59 2.57
2924 3292 8.635328 ACCTTTATCGGTTAAAACAATCTTTGT 58.365 29.630 0.00 0.00 38.92 2.83
3043 3411 3.183373 GCTTCTAGTATCTCGCAACATGC 59.817 47.826 0.00 0.00 40.69 4.06
3044 3412 4.443725 CAGCTTCTAGTATCTCGCAACATG 59.556 45.833 0.00 0.00 0.00 3.21
3045 3413 4.098654 ACAGCTTCTAGTATCTCGCAACAT 59.901 41.667 0.00 0.00 0.00 2.71
3046 3414 3.444034 ACAGCTTCTAGTATCTCGCAACA 59.556 43.478 0.00 0.00 0.00 3.33
3047 3415 4.035278 ACAGCTTCTAGTATCTCGCAAC 57.965 45.455 0.00 0.00 0.00 4.17
3048 3416 3.694566 TGACAGCTTCTAGTATCTCGCAA 59.305 43.478 0.00 0.00 0.00 4.85
3049 3417 3.279434 TGACAGCTTCTAGTATCTCGCA 58.721 45.455 0.00 0.00 0.00 5.10
3050 3418 3.972950 TGACAGCTTCTAGTATCTCGC 57.027 47.619 0.00 0.00 0.00 5.03
3051 3419 5.431420 ACATGACAGCTTCTAGTATCTCG 57.569 43.478 0.00 0.00 0.00 4.04
3052 3420 6.806249 GCATACATGACAGCTTCTAGTATCTC 59.194 42.308 0.00 0.00 0.00 2.75
3053 3421 6.493115 AGCATACATGACAGCTTCTAGTATCT 59.507 38.462 0.00 0.00 32.52 1.98
3054 3422 6.686630 AGCATACATGACAGCTTCTAGTATC 58.313 40.000 0.00 0.00 32.52 2.24
3055 3423 6.662865 AGCATACATGACAGCTTCTAGTAT 57.337 37.500 0.00 0.00 32.52 2.12
3056 3424 6.276091 CAAGCATACATGACAGCTTCTAGTA 58.724 40.000 16.29 0.00 44.77 1.82
3057 3425 5.114780 CAAGCATACATGACAGCTTCTAGT 58.885 41.667 16.29 0.00 44.77 2.57
3058 3426 4.025061 GCAAGCATACATGACAGCTTCTAG 60.025 45.833 16.29 9.68 44.77 2.43
3059 3427 3.873361 GCAAGCATACATGACAGCTTCTA 59.127 43.478 16.29 0.00 44.77 2.10
3060 3428 2.681848 GCAAGCATACATGACAGCTTCT 59.318 45.455 16.29 0.24 44.77 2.85
3061 3429 2.421073 TGCAAGCATACATGACAGCTTC 59.579 45.455 16.29 12.78 44.77 3.86
3063 3431 2.118313 TGCAAGCATACATGACAGCT 57.882 45.000 0.00 1.86 39.37 4.24
3064 3432 2.925578 TTGCAAGCATACATGACAGC 57.074 45.000 0.00 0.00 0.00 4.40
3065 3433 4.438336 CCTCTTTGCAAGCATACATGACAG 60.438 45.833 0.00 0.00 0.00 3.51
3066 3434 3.441222 CCTCTTTGCAAGCATACATGACA 59.559 43.478 0.00 0.00 0.00 3.58
3067 3435 3.181493 CCCTCTTTGCAAGCATACATGAC 60.181 47.826 0.00 0.00 0.00 3.06
3068 3436 3.018856 CCCTCTTTGCAAGCATACATGA 58.981 45.455 0.00 0.00 0.00 3.07
3069 3437 2.100252 CCCCTCTTTGCAAGCATACATG 59.900 50.000 0.00 0.00 0.00 3.21
3070 3438 2.381911 CCCCTCTTTGCAAGCATACAT 58.618 47.619 0.00 0.00 0.00 2.29
3071 3439 1.838112 CCCCTCTTTGCAAGCATACA 58.162 50.000 0.00 0.00 0.00 2.29
3072 3440 0.457443 GCCCCTCTTTGCAAGCATAC 59.543 55.000 0.00 0.00 0.00 2.39
3073 3441 0.332632 AGCCCCTCTTTGCAAGCATA 59.667 50.000 8.57 0.00 0.00 3.14
3074 3442 1.077985 AGCCCCTCTTTGCAAGCAT 59.922 52.632 8.57 0.00 0.00 3.79
3075 3443 1.904865 CAGCCCCTCTTTGCAAGCA 60.905 57.895 8.57 0.00 0.00 3.91
3076 3444 2.643232 CCAGCCCCTCTTTGCAAGC 61.643 63.158 0.00 0.00 0.00 4.01
3077 3445 0.964358 CTCCAGCCCCTCTTTGCAAG 60.964 60.000 0.00 0.00 0.00 4.01
3078 3446 1.075482 CTCCAGCCCCTCTTTGCAA 59.925 57.895 0.00 0.00 0.00 4.08
3079 3447 1.210204 ATCTCCAGCCCCTCTTTGCA 61.210 55.000 0.00 0.00 0.00 4.08
3080 3448 0.033699 AATCTCCAGCCCCTCTTTGC 60.034 55.000 0.00 0.00 0.00 3.68
3081 3449 1.760192 CAATCTCCAGCCCCTCTTTG 58.240 55.000 0.00 0.00 0.00 2.77
3082 3450 0.033699 GCAATCTCCAGCCCCTCTTT 60.034 55.000 0.00 0.00 0.00 2.52
3083 3451 0.918310 AGCAATCTCCAGCCCCTCTT 60.918 55.000 0.00 0.00 0.00 2.85
3084 3452 0.030705 TAGCAATCTCCAGCCCCTCT 60.031 55.000 0.00 0.00 0.00 3.69
3085 3453 1.063183 ATAGCAATCTCCAGCCCCTC 58.937 55.000 0.00 0.00 0.00 4.30
3086 3454 1.981495 GTATAGCAATCTCCAGCCCCT 59.019 52.381 0.00 0.00 0.00 4.79
3087 3455 1.699634 TGTATAGCAATCTCCAGCCCC 59.300 52.381 0.00 0.00 0.00 5.80
3088 3456 2.634940 TCTGTATAGCAATCTCCAGCCC 59.365 50.000 0.00 0.00 0.00 5.19
3089 3457 4.342862 TTCTGTATAGCAATCTCCAGCC 57.657 45.455 0.00 0.00 0.00 4.85
3090 3458 5.819901 ACTTTTCTGTATAGCAATCTCCAGC 59.180 40.000 0.00 0.00 0.00 4.85
3091 3459 7.168302 CGTACTTTTCTGTATAGCAATCTCCAG 59.832 40.741 0.00 0.00 0.00 3.86
3092 3460 6.978659 CGTACTTTTCTGTATAGCAATCTCCA 59.021 38.462 0.00 0.00 0.00 3.86
3093 3461 6.979238 ACGTACTTTTCTGTATAGCAATCTCC 59.021 38.462 0.00 0.00 0.00 3.71
3094 3462 7.988904 ACGTACTTTTCTGTATAGCAATCTC 57.011 36.000 0.00 0.00 0.00 2.75
3095 3463 7.201530 GCAACGTACTTTTCTGTATAGCAATCT 60.202 37.037 0.00 0.00 0.00 2.40
3096 3464 6.900299 GCAACGTACTTTTCTGTATAGCAATC 59.100 38.462 0.00 0.00 0.00 2.67
3097 3465 6.183360 GGCAACGTACTTTTCTGTATAGCAAT 60.183 38.462 0.00 0.00 0.00 3.56
3098 3466 5.121142 GGCAACGTACTTTTCTGTATAGCAA 59.879 40.000 0.00 0.00 0.00 3.91
3099 3467 4.628333 GGCAACGTACTTTTCTGTATAGCA 59.372 41.667 0.00 0.00 0.00 3.49
3100 3468 4.033702 GGGCAACGTACTTTTCTGTATAGC 59.966 45.833 0.00 0.00 37.60 2.97
3101 3469 5.172934 TGGGCAACGTACTTTTCTGTATAG 58.827 41.667 0.00 0.00 37.60 1.31
3102 3470 5.149973 TGGGCAACGTACTTTTCTGTATA 57.850 39.130 0.00 0.00 37.60 1.47
3103 3471 4.010667 TGGGCAACGTACTTTTCTGTAT 57.989 40.909 0.00 0.00 37.60 2.29
3104 3472 3.472283 TGGGCAACGTACTTTTCTGTA 57.528 42.857 0.00 0.00 37.60 2.74
3105 3473 2.335316 TGGGCAACGTACTTTTCTGT 57.665 45.000 0.00 0.00 37.60 3.41
3106 3474 3.252215 TGAATGGGCAACGTACTTTTCTG 59.748 43.478 0.00 0.00 37.60 3.02
3107 3475 3.482436 TGAATGGGCAACGTACTTTTCT 58.518 40.909 0.00 0.00 37.60 2.52
3108 3476 3.907894 TGAATGGGCAACGTACTTTTC 57.092 42.857 0.00 0.00 37.60 2.29
3109 3477 3.634910 ACTTGAATGGGCAACGTACTTTT 59.365 39.130 0.00 0.00 37.60 2.27
3110 3478 3.219281 ACTTGAATGGGCAACGTACTTT 58.781 40.909 0.00 0.00 37.60 2.66
3111 3479 2.858745 ACTTGAATGGGCAACGTACTT 58.141 42.857 0.00 0.00 37.60 2.24
3112 3480 2.552315 CAACTTGAATGGGCAACGTACT 59.448 45.455 0.00 0.00 37.60 2.73
3113 3481 2.550606 TCAACTTGAATGGGCAACGTAC 59.449 45.455 0.00 0.00 37.60 3.67
3114 3482 2.811431 CTCAACTTGAATGGGCAACGTA 59.189 45.455 0.00 0.00 37.60 3.57
3115 3483 1.608590 CTCAACTTGAATGGGCAACGT 59.391 47.619 0.00 0.00 37.60 3.99
3116 3484 1.068333 CCTCAACTTGAATGGGCAACG 60.068 52.381 0.00 0.00 37.60 4.10
3117 3485 1.963515 ACCTCAACTTGAATGGGCAAC 59.036 47.619 2.91 0.00 0.00 4.17
3118 3486 1.962807 CACCTCAACTTGAATGGGCAA 59.037 47.619 2.91 0.00 0.00 4.52
3119 3487 1.144708 TCACCTCAACTTGAATGGGCA 59.855 47.619 2.91 0.00 0.00 5.36
3120 3488 1.909700 TCACCTCAACTTGAATGGGC 58.090 50.000 2.91 0.00 0.00 5.36
3121 3489 4.768968 AGAATTCACCTCAACTTGAATGGG 59.231 41.667 8.44 0.00 40.77 4.00
3122 3490 5.706916 CAGAATTCACCTCAACTTGAATGG 58.293 41.667 8.44 0.00 40.77 3.16
3123 3491 5.159209 GCAGAATTCACCTCAACTTGAATG 58.841 41.667 8.44 0.00 40.77 2.67
3124 3492 4.219288 GGCAGAATTCACCTCAACTTGAAT 59.781 41.667 8.44 0.00 42.95 2.57
3125 3493 3.569701 GGCAGAATTCACCTCAACTTGAA 59.430 43.478 8.44 0.00 36.21 2.69
3126 3494 3.149196 GGCAGAATTCACCTCAACTTGA 58.851 45.455 8.44 0.00 0.00 3.02
3127 3495 2.886523 TGGCAGAATTCACCTCAACTTG 59.113 45.455 16.03 1.11 0.00 3.16
3128 3496 2.887152 GTGGCAGAATTCACCTCAACTT 59.113 45.455 16.03 0.00 0.00 2.66
3129 3497 2.107204 AGTGGCAGAATTCACCTCAACT 59.893 45.455 16.03 9.89 34.67 3.16
3130 3498 2.227388 CAGTGGCAGAATTCACCTCAAC 59.773 50.000 16.03 8.17 34.67 3.18
3131 3499 2.507484 CAGTGGCAGAATTCACCTCAA 58.493 47.619 16.03 0.00 34.67 3.02
3132 3500 1.883638 GCAGTGGCAGAATTCACCTCA 60.884 52.381 16.03 3.62 40.72 3.86
3133 3501 0.807496 GCAGTGGCAGAATTCACCTC 59.193 55.000 16.03 13.04 40.72 3.85
3134 3502 0.957395 CGCAGTGGCAGAATTCACCT 60.957 55.000 16.03 0.00 41.24 4.00
3135 3503 1.503542 CGCAGTGGCAGAATTCACC 59.496 57.895 8.44 9.30 41.24 4.02
3136 3504 1.503542 CCGCAGTGGCAGAATTCAC 59.496 57.895 8.44 0.00 41.24 3.18
3137 3505 3.985877 CCGCAGTGGCAGAATTCA 58.014 55.556 8.44 0.00 41.24 2.57
3146 3514 0.595588 TAACAACATTGCCGCAGTGG 59.404 50.000 18.89 3.43 42.50 4.00
3147 3515 2.414058 TTAACAACATTGCCGCAGTG 57.586 45.000 13.87 13.87 0.00 3.66
3148 3516 3.444703 TTTTAACAACATTGCCGCAGT 57.555 38.095 0.00 0.00 0.00 4.40
3149 3517 3.801594 ACTTTTTAACAACATTGCCGCAG 59.198 39.130 0.00 0.00 0.00 5.18
3150 3518 3.553511 CACTTTTTAACAACATTGCCGCA 59.446 39.130 0.00 0.00 0.00 5.69
3151 3519 3.799420 TCACTTTTTAACAACATTGCCGC 59.201 39.130 0.00 0.00 0.00 6.53
3152 3520 5.518487 ACTTCACTTTTTAACAACATTGCCG 59.482 36.000 0.00 0.00 0.00 5.69
3153 3521 6.238076 CCACTTCACTTTTTAACAACATTGCC 60.238 38.462 0.00 0.00 0.00 4.52
3154 3522 6.533367 TCCACTTCACTTTTTAACAACATTGC 59.467 34.615 0.00 0.00 0.00 3.56
3155 3523 8.542132 CATCCACTTCACTTTTTAACAACATTG 58.458 33.333 0.00 0.00 0.00 2.82
3156 3524 8.474025 TCATCCACTTCACTTTTTAACAACATT 58.526 29.630 0.00 0.00 0.00 2.71
3157 3525 8.006298 TCATCCACTTCACTTTTTAACAACAT 57.994 30.769 0.00 0.00 0.00 2.71
3158 3526 7.397892 TCATCCACTTCACTTTTTAACAACA 57.602 32.000 0.00 0.00 0.00 3.33
3159 3527 9.612620 CTATCATCCACTTCACTTTTTAACAAC 57.387 33.333 0.00 0.00 0.00 3.32
3160 3528 9.567776 TCTATCATCCACTTCACTTTTTAACAA 57.432 29.630 0.00 0.00 0.00 2.83
3161 3529 9.739276 ATCTATCATCCACTTCACTTTTTAACA 57.261 29.630 0.00 0.00 0.00 2.41
3163 3531 9.958180 TGATCTATCATCCACTTCACTTTTTAA 57.042 29.630 0.00 0.00 0.00 1.52
3164 3532 9.958180 TTGATCTATCATCCACTTCACTTTTTA 57.042 29.630 0.00 0.00 36.56 1.52
3165 3533 8.868522 TTGATCTATCATCCACTTCACTTTTT 57.131 30.769 0.00 0.00 36.56 1.94
3166 3534 7.555554 CCTTGATCTATCATCCACTTCACTTTT 59.444 37.037 0.00 0.00 36.56 2.27
3167 3535 7.052873 CCTTGATCTATCATCCACTTCACTTT 58.947 38.462 0.00 0.00 36.56 2.66
3168 3536 6.157645 ACCTTGATCTATCATCCACTTCACTT 59.842 38.462 0.00 0.00 36.56 3.16
3169 3537 5.664908 ACCTTGATCTATCATCCACTTCACT 59.335 40.000 0.00 0.00 36.56 3.41
3170 3538 5.923204 ACCTTGATCTATCATCCACTTCAC 58.077 41.667 0.00 0.00 36.56 3.18
3171 3539 6.566079 AACCTTGATCTATCATCCACTTCA 57.434 37.500 0.00 0.00 36.56 3.02
3172 3540 5.694006 CGAACCTTGATCTATCATCCACTTC 59.306 44.000 0.00 0.00 36.56 3.01
3173 3541 5.605534 CGAACCTTGATCTATCATCCACTT 58.394 41.667 0.00 0.00 36.56 3.16
3174 3542 4.502259 GCGAACCTTGATCTATCATCCACT 60.502 45.833 0.00 0.00 36.56 4.00
3175 3543 3.743396 GCGAACCTTGATCTATCATCCAC 59.257 47.826 0.00 0.00 36.56 4.02
3176 3544 3.552890 CGCGAACCTTGATCTATCATCCA 60.553 47.826 0.00 0.00 36.56 3.41
3177 3545 2.989840 CGCGAACCTTGATCTATCATCC 59.010 50.000 0.00 0.00 36.56 3.51
3178 3546 3.643763 ACGCGAACCTTGATCTATCATC 58.356 45.455 15.93 0.00 36.56 2.92
3179 3547 3.735237 ACGCGAACCTTGATCTATCAT 57.265 42.857 15.93 0.00 36.56 2.45
3180 3548 3.444916 GAACGCGAACCTTGATCTATCA 58.555 45.455 15.93 0.00 34.44 2.15
3181 3549 2.795470 GGAACGCGAACCTTGATCTATC 59.205 50.000 15.93 0.00 0.00 2.08
3182 3550 2.431057 AGGAACGCGAACCTTGATCTAT 59.569 45.455 15.93 0.00 31.95 1.98
3183 3551 1.822990 AGGAACGCGAACCTTGATCTA 59.177 47.619 15.93 0.00 31.95 1.98
3184 3552 0.608640 AGGAACGCGAACCTTGATCT 59.391 50.000 15.93 0.00 31.95 2.75
3185 3553 1.000145 GAGGAACGCGAACCTTGATC 59.000 55.000 23.69 11.85 36.57 2.92
3186 3554 3.139029 GAGGAACGCGAACCTTGAT 57.861 52.632 23.69 7.63 36.57 2.57
3187 3555 4.667420 GAGGAACGCGAACCTTGA 57.333 55.556 23.69 0.00 36.57 3.02
3205 3573 1.962092 TTCTTAACATCGCGGCGCAC 61.962 55.000 32.61 3.11 0.00 5.34
3206 3574 1.692148 CTTCTTAACATCGCGGCGCA 61.692 55.000 32.61 19.09 0.00 6.09
3207 3575 1.012234 CTTCTTAACATCGCGGCGC 60.012 57.895 24.21 24.21 0.00 6.53
3208 3576 0.719465 AACTTCTTAACATCGCGGCG 59.281 50.000 17.70 17.70 0.00 6.46
3209 3577 2.928116 AGTAACTTCTTAACATCGCGGC 59.072 45.455 6.13 0.00 0.00 6.53
3210 3578 6.032094 TCTAAGTAACTTCTTAACATCGCGG 58.968 40.000 6.13 0.00 30.88 6.46
3211 3579 7.502177 TTCTAAGTAACTTCTTAACATCGCG 57.498 36.000 0.00 0.00 30.88 5.87
3212 3580 7.063074 TGCTTCTAAGTAACTTCTTAACATCGC 59.937 37.037 0.00 0.00 30.88 4.58
3213 3581 8.462143 TGCTTCTAAGTAACTTCTTAACATCG 57.538 34.615 0.00 0.00 30.88 3.84


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

AutoCloner maintained by Alex Coulton.