Multiple sequence alignment - TraesCS5A01G487300

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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 TraesCS5A01G487300 chr5A 100.000 3827 0 0 1 3827 657536556 657540382 0.000000e+00 7068
1 TraesCS5A01G487300 chr5B 89.074 3670 269 65 1 3611 668460294 668463890 0.000000e+00 4434
2 TraesCS5A01G487300 chr5D 91.988 2434 151 13 667 3083 529525081 529527487 0.000000e+00 3374
3 TraesCS5A01G487300 chr5D 85.445 742 59 18 3093 3827 529532556 529533255 0.000000e+00 726
4 TraesCS5A01G487300 chr2A 80.075 1877 291 60 1055 2895 100538435 100540264 0.000000e+00 1317
5 TraesCS5A01G487300 chr2A 81.445 609 88 19 995 1586 100633162 100632562 3.460000e-130 475
6 TraesCS5A01G487300 chr2A 83.270 526 67 18 1070 1588 100656900 100656389 7.490000e-127 464
7 TraesCS5A01G487300 chr2D 79.624 1860 301 64 1070 2895 101365035 101363220 0.000000e+00 1264
8 TraesCS5A01G487300 chr2D 75.097 771 175 16 2018 2781 4110955 4110195 1.020000e-90 344
9 TraesCS5A01G487300 chr4A 85.802 817 114 1 2013 2829 714276988 714277802 0.000000e+00 865
10 TraesCS5A01G487300 chr2B 83.491 527 76 9 1070 1588 152570767 152570244 7.440000e-132 481
11 TraesCS5A01G487300 chr2B 82.218 523 68 20 1070 1588 152610597 152610096 9.820000e-116 427
12 TraesCS5A01G487300 chr2B 81.599 538 72 20 1055 1588 152472386 152472900 1.640000e-113 420
13 TraesCS5A01G487300 chr2B 81.884 138 21 4 1742 1877 152504111 152504246 3.120000e-21 113


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 TraesCS5A01G487300 chr5A 657536556 657540382 3826 False 7068 7068 100.000 1 3827 1 chr5A.!!$F1 3826
1 TraesCS5A01G487300 chr5B 668460294 668463890 3596 False 4434 4434 89.074 1 3611 1 chr5B.!!$F1 3610
2 TraesCS5A01G487300 chr5D 529525081 529527487 2406 False 3374 3374 91.988 667 3083 1 chr5D.!!$F1 2416
3 TraesCS5A01G487300 chr5D 529532556 529533255 699 False 726 726 85.445 3093 3827 1 chr5D.!!$F2 734
4 TraesCS5A01G487300 chr2A 100538435 100540264 1829 False 1317 1317 80.075 1055 2895 1 chr2A.!!$F1 1840
5 TraesCS5A01G487300 chr2A 100632562 100633162 600 True 475 475 81.445 995 1586 1 chr2A.!!$R1 591
6 TraesCS5A01G487300 chr2A 100656389 100656900 511 True 464 464 83.270 1070 1588 1 chr2A.!!$R2 518
7 TraesCS5A01G487300 chr2D 101363220 101365035 1815 True 1264 1264 79.624 1070 2895 1 chr2D.!!$R2 1825
8 TraesCS5A01G487300 chr2D 4110195 4110955 760 True 344 344 75.097 2018 2781 1 chr2D.!!$R1 763
9 TraesCS5A01G487300 chr4A 714276988 714277802 814 False 865 865 85.802 2013 2829 1 chr4A.!!$F1 816
10 TraesCS5A01G487300 chr2B 152570244 152570767 523 True 481 481 83.491 1070 1588 1 chr2B.!!$R1 518
11 TraesCS5A01G487300 chr2B 152610096 152610597 501 True 427 427 82.218 1070 1588 1 chr2B.!!$R2 518
12 TraesCS5A01G487300 chr2B 152472386 152472900 514 False 420 420 81.599 1055 1588 1 chr2B.!!$F1 533

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
283 284 0.033504 GGTCGTCAGAGGCAAAGACA 59.966 55.0 0.00 0.00 32.68 3.41 F
369 370 0.172803 ACATCGACGCCTTGAGGTAC 59.827 55.0 0.00 0.00 37.57 3.34 F
457 458 0.319900 ACGCAGTGCAAGACAGGTAG 60.320 55.0 16.83 0.00 42.51 3.18 F
458 459 0.319900 CGCAGTGCAAGACAGGTAGT 60.320 55.0 16.83 0.00 0.00 2.73 F
1330 1361 0.320683 TGCCATTCATCTATCCGCGG 60.321 55.0 22.12 22.12 0.00 6.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1333 1364 0.435008 CGCAGAGAGCACGTACAAAC 59.565 55.0 0.00 0.0 46.13 2.93 R
1608 1698 0.462581 TTGGCGCTGGAGCTAGAATG 60.463 55.0 7.64 0.0 39.32 2.67 R
1609 1699 0.462759 GTTGGCGCTGGAGCTAGAAT 60.463 55.0 7.64 0.0 39.32 2.40 R
1613 1707 0.611200 TTAAGTTGGCGCTGGAGCTA 59.389 50.0 7.64 0.0 39.32 3.32 R
3252 3432 0.250858 TTGCTCACATGAGGGGTGTG 60.251 55.0 10.81 0.0 46.36 3.82 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 43 5.255687 TCTGCCTGCATTTGATAAAGAGAA 58.744 37.500 0.00 0.00 0.00 2.87
48 49 7.373493 CCTGCATTTGATAAAGAGAACAAGTT 58.627 34.615 0.00 0.00 0.00 2.66
72 73 5.261040 TCATTCAGATCCCCTCTTTTGTT 57.739 39.130 0.00 0.00 29.16 2.83
90 91 9.915629 TCTTTTGTTTGTTCTTAGTTGCTTAAA 57.084 25.926 0.00 0.00 0.00 1.52
108 109 6.158695 TGCTTAAAGGGAGAGTGATCCTTAAT 59.841 38.462 0.00 0.00 39.72 1.40
109 110 6.484977 GCTTAAAGGGAGAGTGATCCTTAATG 59.515 42.308 0.00 0.00 39.72 1.90
133 134 6.656270 TGTTGGCATATGATCATCTTACCATC 59.344 38.462 12.53 14.14 0.00 3.51
138 139 9.399797 GGCATATGATCATCTTACCATCATTAA 57.600 33.333 12.53 0.00 38.12 1.40
153 154 6.534793 ACCATCATTAATTTCAATTTCGCACC 59.465 34.615 0.00 0.00 0.00 5.01
157 158 5.837586 TTAATTTCAATTTCGCACCAAGC 57.162 34.783 0.00 0.00 40.87 4.01
172 173 3.245284 CACCAAGCGGTATATGTTCTTCG 59.755 47.826 0.00 0.00 46.94 3.79
179 180 5.234329 AGCGGTATATGTTCTTCGTTGAATG 59.766 40.000 0.00 0.00 0.00 2.67
182 183 7.095774 GCGGTATATGTTCTTCGTTGAATGTAT 60.096 37.037 0.00 0.00 0.00 2.29
269 270 3.626924 GAGGTGCAGGGTGGTCGT 61.627 66.667 0.00 0.00 0.00 4.34
275 276 2.973899 CAGGGTGGTCGTCAGAGG 59.026 66.667 0.00 0.00 0.00 3.69
283 284 0.033504 GGTCGTCAGAGGCAAAGACA 59.966 55.000 0.00 0.00 32.68 3.41
333 334 2.378445 TAGCTTTACACGCATGCTCA 57.622 45.000 17.13 0.00 35.47 4.26
344 345 2.674852 ACGCATGCTCATAACAGAAGTG 59.325 45.455 17.13 0.00 0.00 3.16
356 357 2.447443 ACAGAAGTGCCTCTACATCGA 58.553 47.619 0.00 0.00 0.00 3.59
366 367 0.738975 TCTACATCGACGCCTTGAGG 59.261 55.000 0.00 0.00 38.53 3.86
369 370 0.172803 ACATCGACGCCTTGAGGTAC 59.827 55.000 0.00 0.00 37.57 3.34
371 372 1.112113 ATCGACGCCTTGAGGTACAT 58.888 50.000 0.00 0.00 37.57 2.29
372 373 0.892755 TCGACGCCTTGAGGTACATT 59.107 50.000 0.00 0.00 37.57 2.71
376 377 3.666902 CGACGCCTTGAGGTACATTTTTG 60.667 47.826 0.00 0.00 37.57 2.44
381 382 5.390567 CGCCTTGAGGTACATTTTTGTACTC 60.391 44.000 14.04 10.57 42.95 2.59
386 387 5.245751 TGAGGTACATTTTTGTACTCCCGTA 59.754 40.000 14.04 0.00 42.95 4.02
392 393 9.650451 GTACATTTTTGTACTCCCGTAGCAACG 62.650 44.444 8.62 0.00 43.11 4.10
408 409 2.151202 CAACGGACAGGTATGTTTGCT 58.849 47.619 0.00 0.00 40.68 3.91
419 420 6.206048 ACAGGTATGTTTGCTGGTAAACTAAC 59.794 38.462 13.51 11.13 40.36 2.34
422 423 7.040686 AGGTATGTTTGCTGGTAAACTAACAAG 60.041 37.037 13.51 0.00 40.36 3.16
423 424 5.508200 TGTTTGCTGGTAAACTAACAAGG 57.492 39.130 13.51 0.00 40.36 3.61
427 428 5.298989 TGCTGGTAAACTAACAAGGAAGA 57.701 39.130 0.00 0.00 0.00 2.87
429 430 6.303839 TGCTGGTAAACTAACAAGGAAGATT 58.696 36.000 0.00 0.00 0.00 2.40
441 442 6.604735 ACAAGGAAGATTTGATATGTACGC 57.395 37.500 0.00 0.00 0.00 4.42
454 455 2.153913 GTACGCAGTGCAAGACAGG 58.846 57.895 16.83 0.00 45.73 4.00
455 456 0.600255 GTACGCAGTGCAAGACAGGT 60.600 55.000 16.83 5.36 45.73 4.00
456 457 0.963225 TACGCAGTGCAAGACAGGTA 59.037 50.000 16.83 4.32 45.73 3.08
457 458 0.319900 ACGCAGTGCAAGACAGGTAG 60.320 55.000 16.83 0.00 42.51 3.18
458 459 0.319900 CGCAGTGCAAGACAGGTAGT 60.320 55.000 16.83 0.00 0.00 2.73
459 460 4.790436 ACGCAGTGCAAGACAGGTAGTC 62.790 54.545 16.83 0.00 44.44 2.59
492 495 8.489489 AGTGGACATTGTATTTCTCTCATACAT 58.511 33.333 0.00 0.00 37.05 2.29
529 532 9.733556 ACAAGAAATTGAATACATACACTGGTA 57.266 29.630 0.00 0.00 0.00 3.25
534 537 8.856153 AATTGAATACATACACTGGTACACAA 57.144 30.769 0.00 0.00 30.94 3.33
535 538 8.856153 ATTGAATACATACACTGGTACACAAA 57.144 30.769 0.00 0.00 30.94 2.83
536 539 8.856153 TTGAATACATACACTGGTACACAAAT 57.144 30.769 0.00 0.00 30.94 2.32
537 540 9.945904 TTGAATACATACACTGGTACACAAATA 57.054 29.630 0.00 0.00 30.94 1.40
538 541 9.373603 TGAATACATACACTGGTACACAAATAC 57.626 33.333 0.00 0.00 30.94 1.89
539 542 9.373603 GAATACATACACTGGTACACAAATACA 57.626 33.333 0.00 0.00 30.94 2.29
540 543 8.712285 ATACATACACTGGTACACAAATACAC 57.288 34.615 0.00 0.00 30.94 2.90
563 566 9.435570 ACACAAAGGGTATATCTAGAAGTATGT 57.564 33.333 0.00 0.00 0.00 2.29
569 572 9.245481 AGGGTATATCTAGAAGTATGTACAAGC 57.755 37.037 0.00 0.00 0.00 4.01
570 573 8.182881 GGGTATATCTAGAAGTATGTACAAGCG 58.817 40.741 0.00 0.00 0.00 4.68
681 695 5.186942 GCATCATCATCTAATCCTGCTCAT 58.813 41.667 0.00 0.00 0.00 2.90
687 701 4.040095 TCATCTAATCCTGCTCATCACTGG 59.960 45.833 0.00 0.00 0.00 4.00
688 702 2.702478 TCTAATCCTGCTCATCACTGGG 59.298 50.000 0.00 0.00 0.00 4.45
709 723 4.571176 GGGAAGAAAGGCTAGTTAATCACG 59.429 45.833 0.00 0.00 0.00 4.35
716 730 5.502153 AGGCTAGTTAATCACGTAGTCAG 57.498 43.478 0.00 0.00 41.61 3.51
833 847 2.002963 CTTGCGTGCACGAGATCGAC 62.003 60.000 41.19 22.07 43.02 4.20
858 872 3.302365 AATTTGGCTTCATTCACACGG 57.698 42.857 0.00 0.00 0.00 4.94
883 897 1.373497 CGGTCACTGTCAGCTCACC 60.373 63.158 0.00 2.72 0.00 4.02
1167 1194 2.103143 CTCGGCGAGATCAAGCGT 59.897 61.111 32.07 0.00 0.00 5.07
1221 1248 2.032071 GGTTCCCACGACCTGGTG 59.968 66.667 2.82 0.00 38.60 4.17
1257 1284 1.887854 CATATGCGCAAATGGATCCCA 59.112 47.619 17.11 0.00 38.19 4.37
1258 1285 1.317613 TATGCGCAAATGGATCCCAC 58.682 50.000 17.11 0.00 35.80 4.61
1286 1313 2.753966 CCAAACTCATCGGCCTGCG 61.754 63.158 0.00 0.00 0.00 5.18
1292 1319 3.190849 CATCGGCCTGCGTCTGTG 61.191 66.667 0.00 0.00 0.00 3.66
1315 1342 1.570024 TCCTTCCATGATTCCATGCCA 59.430 47.619 0.00 0.00 46.73 4.92
1316 1343 2.178325 TCCTTCCATGATTCCATGCCAT 59.822 45.455 0.00 0.00 46.73 4.40
1326 1357 5.258841 TGATTCCATGCCATTCATCTATCC 58.741 41.667 0.00 0.00 31.79 2.59
1327 1358 3.339253 TCCATGCCATTCATCTATCCG 57.661 47.619 0.00 0.00 31.79 4.18
1329 1360 1.395954 CATGCCATTCATCTATCCGCG 59.604 52.381 0.00 0.00 31.79 6.46
1330 1361 0.320683 TGCCATTCATCTATCCGCGG 60.321 55.000 22.12 22.12 0.00 6.46
1333 1364 1.079819 ATTCATCTATCCGCGGCCG 60.080 57.895 24.05 24.05 0.00 6.13
1334 1365 1.816863 ATTCATCTATCCGCGGCCGT 61.817 55.000 28.70 9.45 0.00 5.68
1335 1366 2.023414 TTCATCTATCCGCGGCCGTT 62.023 55.000 28.70 11.98 0.00 4.44
1336 1367 1.594293 CATCTATCCGCGGCCGTTT 60.594 57.895 28.70 11.60 0.00 3.60
1337 1368 1.594293 ATCTATCCGCGGCCGTTTG 60.594 57.895 28.70 16.81 0.00 2.93
1338 1369 2.306255 ATCTATCCGCGGCCGTTTGT 62.306 55.000 28.70 13.46 0.00 2.83
1339 1370 1.227031 CTATCCGCGGCCGTTTGTA 60.227 57.895 28.70 13.89 0.00 2.41
1340 1371 1.485032 CTATCCGCGGCCGTTTGTAC 61.485 60.000 28.70 7.66 0.00 2.90
1352 1430 0.435008 GTTTGTACGTGCTCTCTGCG 59.565 55.000 4.97 0.00 46.63 5.18
1613 1707 4.035684 CGATCGACGTGTGTTATCATTCT 58.964 43.478 10.26 0.00 37.22 2.40
1722 1862 0.955919 GAGTGGAAAGCGAAGGTGGG 60.956 60.000 0.00 0.00 39.47 4.61
1801 1941 0.965363 ATGTCATTTCCCACACGGCC 60.965 55.000 0.00 0.00 0.00 6.13
1919 2059 5.677567 GGGCATTTAGGTGCTTAACTACTA 58.322 41.667 0.00 0.00 44.45 1.82
1920 2060 5.526479 GGGCATTTAGGTGCTTAACTACTAC 59.474 44.000 0.00 0.00 44.45 2.73
1932 2074 8.010540 GTGCTTAACTACTACTTGCTTCTTTTC 58.989 37.037 0.00 0.00 0.00 2.29
1942 2084 5.359756 ACTTGCTTCTTTTCCCATTTTGTC 58.640 37.500 0.00 0.00 0.00 3.18
1943 2085 3.976169 TGCTTCTTTTCCCATTTTGTCG 58.024 40.909 0.00 0.00 0.00 4.35
2005 2165 4.175516 GACAACATGCATGTGTTTATGGG 58.824 43.478 31.98 15.69 40.17 4.00
2113 2273 1.140589 ATCAAGAGTCGGCTCGCAG 59.859 57.895 12.12 5.73 46.03 5.18
2114 2274 1.315981 ATCAAGAGTCGGCTCGCAGA 61.316 55.000 12.12 11.23 46.03 4.26
2193 2353 1.142748 GGAGGAGCACGGTCATGAG 59.857 63.158 0.00 0.00 0.00 2.90
2229 2389 2.873472 GGACGAGATCATAGACGAGTGT 59.127 50.000 0.00 0.00 0.00 3.55
2265 2425 0.881796 CTGGACACGACACTAGCTCA 59.118 55.000 0.00 0.00 0.00 4.26
2289 2449 3.517602 CATGCTTTCATGGACCATGTTG 58.482 45.455 29.44 21.26 44.84 3.33
2465 2625 3.160269 CCATTCAGAGAAAGGCAGGTTT 58.840 45.455 0.00 0.00 0.00 3.27
2527 2687 1.077501 CTGACCATCCCCATTGCGT 60.078 57.895 0.00 0.00 0.00 5.24
2589 2749 4.982241 TGAGTTCAATCCTCTCAGGTTT 57.018 40.909 0.00 0.00 36.53 3.27
2616 2776 1.228245 AGTGACACGGGCAGCAAAT 60.228 52.632 0.00 0.00 0.00 2.32
2645 2805 3.401033 TGCATTCTTGTCTTTCTCCGA 57.599 42.857 0.00 0.00 0.00 4.55
2781 2941 1.525941 TGGACGTGATCACACTACGA 58.474 50.000 24.93 7.71 43.99 3.43
2782 2942 2.089201 TGGACGTGATCACACTACGAT 58.911 47.619 24.93 2.63 43.99 3.73
2784 2944 2.096980 GGACGTGATCACACTACGATCA 59.903 50.000 24.93 0.00 45.36 2.92
2805 2965 3.328535 AAGTTTGGTCTTCCCATGGTT 57.671 42.857 11.73 0.00 44.74 3.67
2927 3088 8.255206 AGATATATTTGTGTAACCGTTGTCAGA 58.745 33.333 0.00 0.00 34.36 3.27
2943 3104 3.149196 GTCAGATCTTGTTTGGGCTCAA 58.851 45.455 0.00 0.00 0.00 3.02
2946 3107 4.834496 TCAGATCTTGTTTGGGCTCAAAAT 59.166 37.500 14.67 3.14 43.56 1.82
2951 3112 0.613260 GTTTGGGCTCAAAATCCCCC 59.387 55.000 14.67 0.00 43.56 5.40
2952 3113 0.192064 TTTGGGCTCAAAATCCCCCA 59.808 50.000 9.93 0.00 45.45 4.96
2966 3127 6.950860 AAATCCCCCAACAAATTCAACTAT 57.049 33.333 0.00 0.00 0.00 2.12
2969 3130 7.839680 ATCCCCCAACAAATTCAACTATATC 57.160 36.000 0.00 0.00 0.00 1.63
2999 3160 6.115446 TGCTAGCTGACTAGTTGCAAATAAT 58.885 36.000 17.23 0.00 46.56 1.28
3015 3177 5.565695 CAAATAATTTCATGCAAGCAAGGC 58.434 37.500 0.00 0.00 0.00 4.35
3043 3205 3.246112 TCCCTCCAACCCACACGG 61.246 66.667 0.00 0.00 37.81 4.94
3060 3222 2.341176 GCAACTTGGGCTTGCTGG 59.659 61.111 2.28 0.00 40.79 4.85
3062 3224 3.297620 AACTTGGGCTTGCTGGCG 61.298 61.111 0.00 0.00 42.84 5.69
3074 3236 1.286880 GCTGGCGATGCAACACTTT 59.713 52.632 0.00 0.00 0.00 2.66
3150 3330 4.597507 AGAAACCCTAAGTCCATGAAGTCA 59.402 41.667 0.00 0.00 0.00 3.41
3151 3331 4.993705 AACCCTAAGTCCATGAAGTCAA 57.006 40.909 0.00 0.00 0.00 3.18
3190 3370 0.712380 ATCCCCTGGGCAAGAAACAT 59.288 50.000 7.39 0.00 34.68 2.71
3222 3402 1.154430 AAGAGGTTTACCCCAAGGCA 58.846 50.000 0.00 0.00 36.11 4.75
3247 3427 1.808411 TTTGATCTTCTGGACCGCAC 58.192 50.000 0.00 0.00 0.00 5.34
3248 3428 0.976641 TTGATCTTCTGGACCGCACT 59.023 50.000 0.00 0.00 0.00 4.40
3249 3429 0.532573 TGATCTTCTGGACCGCACTC 59.467 55.000 0.00 0.00 0.00 3.51
3250 3430 0.179097 GATCTTCTGGACCGCACTCC 60.179 60.000 0.00 0.00 0.00 3.85
3251 3431 0.904865 ATCTTCTGGACCGCACTCCA 60.905 55.000 0.00 0.00 38.05 3.86
3252 3432 1.374758 CTTCTGGACCGCACTCCAC 60.375 63.158 0.00 0.00 35.23 4.02
3253 3433 2.099652 CTTCTGGACCGCACTCCACA 62.100 60.000 0.00 0.00 35.23 4.17
3254 3434 2.357517 CTGGACCGCACTCCACAC 60.358 66.667 0.00 0.00 35.23 3.82
3255 3435 3.157949 TGGACCGCACTCCACACA 61.158 61.111 0.00 0.00 35.23 3.72
3256 3436 2.665185 GGACCGCACTCCACACAC 60.665 66.667 0.00 0.00 0.00 3.82
3310 3491 6.057627 GAAGTGATTCTTCCTATGCACATG 57.942 41.667 0.00 0.00 44.75 3.21
3311 3492 5.108187 AGTGATTCTTCCTATGCACATGT 57.892 39.130 0.00 0.00 0.00 3.21
3312 3493 5.503927 AGTGATTCTTCCTATGCACATGTT 58.496 37.500 0.00 0.00 0.00 2.71
3314 3495 4.571984 TGATTCTTCCTATGCACATGTTCG 59.428 41.667 0.00 0.00 0.00 3.95
3328 3509 0.249120 TGTTCGATCGCCATCCACTT 59.751 50.000 11.09 0.00 0.00 3.16
3329 3510 1.478916 TGTTCGATCGCCATCCACTTA 59.521 47.619 11.09 0.00 0.00 2.24
3337 3518 5.408299 CGATCGCCATCCACTTAATTCATTA 59.592 40.000 0.26 0.00 0.00 1.90
3338 3519 6.560253 ATCGCCATCCACTTAATTCATTAC 57.440 37.500 0.00 0.00 0.00 1.89
3348 3529 6.021596 CACTTAATTCATTACTTCGCCACAC 58.978 40.000 0.00 0.00 0.00 3.82
3376 3558 4.568760 TGTTTCTTCAAAAACAAATCCCGC 59.431 37.500 0.01 0.00 44.02 6.13
3379 3561 4.759782 TCTTCAAAAACAAATCCCGCAAA 58.240 34.783 0.00 0.00 0.00 3.68
3380 3562 4.568760 TCTTCAAAAACAAATCCCGCAAAC 59.431 37.500 0.00 0.00 0.00 2.93
3389 3571 1.545841 ATCCCGCAAACCCTCTTTTC 58.454 50.000 0.00 0.00 0.00 2.29
3395 3577 4.021456 CCCGCAAACCCTCTTTTCTTTTAT 60.021 41.667 0.00 0.00 0.00 1.40
3397 3579 5.989168 CCGCAAACCCTCTTTTCTTTTATTT 59.011 36.000 0.00 0.00 0.00 1.40
3398 3580 6.145534 CCGCAAACCCTCTTTTCTTTTATTTC 59.854 38.462 0.00 0.00 0.00 2.17
3419 3601 3.641906 TCGAACTCCTCTTTCTCCAAACT 59.358 43.478 0.00 0.00 0.00 2.66
3429 3611 3.343941 TTCTCCAAACTAATCCCCACG 57.656 47.619 0.00 0.00 0.00 4.94
3431 3613 3.112263 TCTCCAAACTAATCCCCACGAT 58.888 45.455 0.00 0.00 0.00 3.73
3440 3622 3.703001 AATCCCCACGATATGTCATCC 57.297 47.619 0.00 0.00 0.00 3.51
3441 3623 0.966179 TCCCCACGATATGTCATCCG 59.034 55.000 0.00 6.13 0.00 4.18
3442 3624 0.037326 CCCCACGATATGTCATCCGG 60.037 60.000 0.00 0.00 0.00 5.14
3443 3625 0.966179 CCCACGATATGTCATCCGGA 59.034 55.000 6.61 6.61 0.00 5.14
3444 3626 1.067565 CCCACGATATGTCATCCGGAG 60.068 57.143 11.34 2.05 0.00 4.63
3445 3627 1.613925 CCACGATATGTCATCCGGAGT 59.386 52.381 11.34 0.00 0.00 3.85
3457 3639 3.134081 TCATCCGGAGTATCTTTGGTTCC 59.866 47.826 11.34 0.00 33.73 3.62
3494 3676 6.815641 CACTGATCTTGCTACTTACACTCAAT 59.184 38.462 0.00 0.00 0.00 2.57
3548 3731 6.147437 ACCTTAAACCAATCAATACCCAGA 57.853 37.500 0.00 0.00 0.00 3.86
3555 3740 4.085733 CCAATCAATACCCAGACACCAAA 58.914 43.478 0.00 0.00 0.00 3.28
3606 3791 2.252012 ATCCCCCTAGTCCGCTCCAA 62.252 60.000 0.00 0.00 0.00 3.53
3620 3805 1.738030 GCTCCAACATGCAAGATTGGC 60.738 52.381 17.82 7.45 42.28 4.52
3633 3818 0.399833 GATTGGCTGGGAGGAGGATC 59.600 60.000 0.00 0.00 0.00 3.36
3643 3828 2.178106 GGGAGGAGGATCAGGAGAAGTA 59.822 54.545 0.00 0.00 36.25 2.24
3644 3829 3.374318 GGGAGGAGGATCAGGAGAAGTAA 60.374 52.174 0.00 0.00 36.25 2.24
3654 3839 6.709846 GGATCAGGAGAAGTAATGGATCAAAG 59.290 42.308 0.00 0.00 33.20 2.77
3666 3851 9.988815 AGTAATGGATCAAAGTCACTATGATAC 57.011 33.333 0.00 0.00 35.40 2.24
3668 3853 5.289595 TGGATCAAAGTCACTATGATACGC 58.710 41.667 0.00 0.00 37.24 4.42
3709 3895 6.421377 TTGTATGAAGTTTGTGATCGATGG 57.579 37.500 0.54 0.00 0.00 3.51
3724 3910 1.603236 GATGGCCGCAACCCATGAAA 61.603 55.000 0.00 0.00 42.94 2.69
3727 3913 1.365633 GCCGCAACCCATGAAACAA 59.634 52.632 0.00 0.00 0.00 2.83
3767 3953 1.460743 ACATGTGTCGTGCAGAAATCG 59.539 47.619 0.00 0.00 0.00 3.34
3768 3954 1.726248 CATGTGTCGTGCAGAAATCGA 59.274 47.619 0.00 0.00 0.00 3.59
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
20 21 5.106038 TGTTCTCTTTATCAAATGCAGGCAG 60.106 40.000 0.00 0.00 0.00 4.85
21 22 4.766373 TGTTCTCTTTATCAAATGCAGGCA 59.234 37.500 0.00 0.00 0.00 4.75
42 43 5.669447 AGAGGGGATCTGAATGATAACTTGT 59.331 40.000 0.00 0.00 36.69 3.16
48 49 6.581388 ACAAAAGAGGGGATCTGAATGATA 57.419 37.500 0.00 0.00 38.67 2.15
51 52 5.244626 ACAAACAAAAGAGGGGATCTGAATG 59.755 40.000 0.00 0.00 38.67 2.67
72 73 6.597562 TCTCCCTTTAAGCAACTAAGAACAA 58.402 36.000 0.00 0.00 0.00 2.83
90 91 4.164988 CCAACATTAAGGATCACTCTCCCT 59.835 45.833 0.00 0.00 35.79 4.20
108 109 5.939447 TGGTAAGATGATCATATGCCAACA 58.061 37.500 21.17 9.78 0.00 3.33
109 110 6.656270 TGATGGTAAGATGATCATATGCCAAC 59.344 38.462 24.78 22.75 30.51 3.77
133 134 6.242829 GCTTGGTGCGAAATTGAAATTAATG 58.757 36.000 0.00 0.00 0.00 1.90
153 154 4.565166 TCAACGAAGAACATATACCGCTTG 59.435 41.667 0.00 0.00 0.00 4.01
157 158 6.583912 ACATTCAACGAAGAACATATACCG 57.416 37.500 0.00 0.00 0.00 4.02
158 159 9.864034 CAATACATTCAACGAAGAACATATACC 57.136 33.333 0.00 0.00 0.00 2.73
179 180 8.280497 CCACACAGTTAGTCAAAAGTACAATAC 58.720 37.037 0.00 0.00 0.00 1.89
182 183 6.314400 GTCCACACAGTTAGTCAAAAGTACAA 59.686 38.462 0.00 0.00 0.00 2.41
269 270 0.976641 ATCGGTGTCTTTGCCTCTGA 59.023 50.000 0.00 0.00 0.00 3.27
275 276 1.129437 GAGAAGCATCGGTGTCTTTGC 59.871 52.381 0.00 0.00 35.34 3.68
304 305 7.253321 GCATGCGTGTAAAGCTAATTCTTTTAC 60.253 37.037 0.00 10.27 43.59 2.01
305 306 6.745450 GCATGCGTGTAAAGCTAATTCTTTTA 59.255 34.615 0.00 0.00 43.59 1.52
306 307 5.572896 GCATGCGTGTAAAGCTAATTCTTTT 59.427 36.000 0.00 0.00 43.59 2.27
316 317 3.181511 TGTTATGAGCATGCGTGTAAAGC 60.182 43.478 13.01 0.15 43.47 3.51
324 325 2.538333 GCACTTCTGTTATGAGCATGCG 60.538 50.000 13.01 0.00 0.00 4.73
333 334 4.645136 TCGATGTAGAGGCACTTCTGTTAT 59.355 41.667 0.00 0.00 41.55 1.89
356 357 3.219281 ACAAAAATGTACCTCAAGGCGT 58.781 40.909 0.00 0.00 39.32 5.68
366 367 4.931002 TGCTACGGGAGTACAAAAATGTAC 59.069 41.667 10.37 10.37 46.17 2.90
369 370 4.668177 CGTTGCTACGGGAGTACAAAAATG 60.668 45.833 13.04 0.00 46.17 2.32
371 372 2.801679 CGTTGCTACGGGAGTACAAAAA 59.198 45.455 13.04 0.00 46.17 1.94
372 373 2.406130 CGTTGCTACGGGAGTACAAAA 58.594 47.619 13.04 0.00 46.17 2.44
386 387 2.151202 CAAACATACCTGTCCGTTGCT 58.849 47.619 0.00 0.00 33.36 3.91
392 393 2.200373 ACCAGCAAACATACCTGTCC 57.800 50.000 0.00 0.00 33.36 4.02
393 394 4.760204 AGTTTACCAGCAAACATACCTGTC 59.240 41.667 1.99 0.00 40.22 3.51
396 397 6.300703 TGTTAGTTTACCAGCAAACATACCT 58.699 36.000 1.99 0.00 40.22 3.08
398 399 7.040961 TCCTTGTTAGTTTACCAGCAAACATAC 60.041 37.037 1.99 0.61 40.22 2.39
399 400 6.999272 TCCTTGTTAGTTTACCAGCAAACATA 59.001 34.615 1.99 0.00 40.22 2.29
408 409 8.934023 ATCAAATCTTCCTTGTTAGTTTACCA 57.066 30.769 0.00 0.00 0.00 3.25
419 420 6.258727 ACTGCGTACATATCAAATCTTCCTTG 59.741 38.462 0.00 0.00 0.00 3.61
422 423 5.559035 GCACTGCGTACATATCAAATCTTCC 60.559 44.000 0.00 0.00 0.00 3.46
423 424 5.006649 TGCACTGCGTACATATCAAATCTTC 59.993 40.000 0.00 0.00 0.00 2.87
427 428 4.875536 TCTTGCACTGCGTACATATCAAAT 59.124 37.500 0.00 0.00 0.00 2.32
429 430 3.616821 GTCTTGCACTGCGTACATATCAA 59.383 43.478 0.00 0.00 0.00 2.57
435 436 0.599991 CCTGTCTTGCACTGCGTACA 60.600 55.000 0.00 0.14 0.00 2.90
436 437 0.600255 ACCTGTCTTGCACTGCGTAC 60.600 55.000 0.00 0.00 0.00 3.67
438 439 0.319900 CTACCTGTCTTGCACTGCGT 60.320 55.000 0.00 0.00 0.00 5.24
441 442 1.344438 TGGACTACCTGTCTTGCACTG 59.656 52.381 0.00 0.00 44.74 3.66
461 462 6.715280 AGAGAAATACAATGTCCACTGATGT 58.285 36.000 0.00 0.00 0.00 3.06
462 463 6.820152 TGAGAGAAATACAATGTCCACTGATG 59.180 38.462 0.00 0.00 0.00 3.07
463 464 6.950842 TGAGAGAAATACAATGTCCACTGAT 58.049 36.000 0.00 0.00 0.00 2.90
464 465 6.358974 TGAGAGAAATACAATGTCCACTGA 57.641 37.500 0.00 0.00 0.00 3.41
465 466 7.765819 TGTATGAGAGAAATACAATGTCCACTG 59.234 37.037 0.00 0.00 37.52 3.66
509 512 8.856153 TTGTGTACCAGTGTATGTATTCAATT 57.144 30.769 0.00 0.00 0.00 2.32
522 525 5.278266 CCCTTTGTGTATTTGTGTACCAGTG 60.278 44.000 0.00 0.00 0.00 3.66
525 528 4.794334 ACCCTTTGTGTATTTGTGTACCA 58.206 39.130 0.00 0.00 0.00 3.25
526 529 8.741603 ATATACCCTTTGTGTATTTGTGTACC 57.258 34.615 0.00 0.00 27.74 3.34
527 530 9.609346 AGATATACCCTTTGTGTATTTGTGTAC 57.391 33.333 0.00 0.00 32.06 2.90
529 532 9.832445 CTAGATATACCCTTTGTGTATTTGTGT 57.168 33.333 0.00 0.00 32.06 3.72
537 540 9.435570 ACATACTTCTAGATATACCCTTTGTGT 57.564 33.333 0.00 0.00 0.00 3.72
613 624 5.668558 AGTCCAACATGTCGAAAGTAAAC 57.331 39.130 0.00 0.00 0.00 2.01
659 673 6.314152 GTGATGAGCAGGATTAGATGATGATG 59.686 42.308 0.00 0.00 0.00 3.07
661 675 5.543020 AGTGATGAGCAGGATTAGATGATGA 59.457 40.000 0.00 0.00 0.00 2.92
681 695 2.621070 ACTAGCCTTTCTTCCCAGTGA 58.379 47.619 0.00 0.00 0.00 3.41
687 701 5.176592 ACGTGATTAACTAGCCTTTCTTCC 58.823 41.667 0.00 0.00 0.00 3.46
688 702 7.034397 ACTACGTGATTAACTAGCCTTTCTTC 58.966 38.462 0.00 0.00 0.00 2.87
709 723 2.202623 CGTGCCTCCGCTGACTAC 60.203 66.667 0.00 0.00 35.36 2.73
833 847 4.150451 GTGTGAATGAAGCCAAATTTTCCG 59.850 41.667 0.00 0.00 0.00 4.30
858 872 1.726853 CTGACAGTGACCGGGAAATC 58.273 55.000 6.32 0.00 0.00 2.17
873 887 0.106708 TTGGACAGTGGTGAGCTGAC 59.893 55.000 0.00 0.00 37.40 3.51
883 897 1.155042 GCTTCTGCTCTTGGACAGTG 58.845 55.000 0.00 0.00 35.37 3.66
1239 1266 1.133823 AGTGGGATCCATTTGCGCATA 60.134 47.619 12.75 7.07 35.28 3.14
1257 1284 1.416243 TGAGTTTGGTACCGTGGAGT 58.584 50.000 7.57 0.00 0.00 3.85
1258 1285 2.618053 GATGAGTTTGGTACCGTGGAG 58.382 52.381 7.57 0.00 0.00 3.86
1286 1313 4.578105 GGAATCATGGAAGGAATCACAGAC 59.422 45.833 0.00 0.00 25.68 3.51
1315 1342 1.079819 CGGCCGCGGATAGATGAAT 60.080 57.895 33.48 0.00 0.00 2.57
1316 1343 2.023414 AACGGCCGCGGATAGATGAA 62.023 55.000 33.48 0.00 0.00 2.57
1333 1364 0.435008 CGCAGAGAGCACGTACAAAC 59.565 55.000 0.00 0.00 46.13 2.93
1334 1365 1.282248 GCGCAGAGAGCACGTACAAA 61.282 55.000 0.30 0.00 46.13 2.83
1335 1366 1.733041 GCGCAGAGAGCACGTACAA 60.733 57.895 0.30 0.00 46.13 2.41
1336 1367 2.126463 GCGCAGAGAGCACGTACA 60.126 61.111 0.30 0.00 46.13 2.90
1337 1368 2.155194 CAGCGCAGAGAGCACGTAC 61.155 63.158 11.47 0.00 46.13 3.67
1338 1369 2.179267 CAGCGCAGAGAGCACGTA 59.821 61.111 11.47 0.00 46.13 3.57
1605 1695 1.273606 GGCGCTGGAGCTAGAATGATA 59.726 52.381 7.64 0.00 39.32 2.15
1608 1698 0.462581 TTGGCGCTGGAGCTAGAATG 60.463 55.000 7.64 0.00 39.32 2.67
1609 1699 0.462759 GTTGGCGCTGGAGCTAGAAT 60.463 55.000 7.64 0.00 39.32 2.40
1613 1707 0.611200 TTAAGTTGGCGCTGGAGCTA 59.389 50.000 7.64 0.00 39.32 3.32
1801 1941 2.548057 CTCTCTGTAGCTAGCTCCGAAG 59.452 54.545 23.26 14.78 0.00 3.79
1919 2059 5.357742 ACAAAATGGGAAAAGAAGCAAGT 57.642 34.783 0.00 0.00 0.00 3.16
1920 2060 4.445385 CGACAAAATGGGAAAAGAAGCAAG 59.555 41.667 0.00 0.00 0.00 4.01
1932 2074 1.339610 TGAACCAAGCGACAAAATGGG 59.660 47.619 0.00 0.00 37.26 4.00
1972 2117 6.693978 CACATGCATGTTGTCAAATATACAGG 59.306 38.462 29.48 8.78 39.39 4.00
1986 2132 5.663456 GAATCCCATAAACACATGCATGTT 58.337 37.500 29.48 17.86 44.76 2.71
1987 2133 4.202040 CGAATCCCATAAACACATGCATGT 60.202 41.667 26.61 26.61 42.84 3.21
2005 2165 5.167121 CAGGTACCTGATGATCATCGAATC 58.833 45.833 34.54 16.44 46.30 2.52
2113 2273 0.618458 TAGCCCATGGTGTCCTTGTC 59.382 55.000 11.73 0.00 0.00 3.18
2114 2274 1.064463 CATAGCCCATGGTGTCCTTGT 60.064 52.381 11.73 0.00 0.00 3.16
2229 2389 3.056749 GTCCAGCGAAGAAGAAGGTCTTA 60.057 47.826 0.00 0.00 36.73 2.10
2289 2449 2.221169 TCTGGATGTGTGCTCAACAAC 58.779 47.619 0.00 0.00 41.57 3.32
2431 2591 2.897326 TCTGAATGGTCGACAAAGGAGA 59.103 45.455 18.91 9.57 0.00 3.71
2465 2625 1.899437 GCCACCGACCTCAAGATCCA 61.899 60.000 0.00 0.00 0.00 3.41
2523 2683 1.154169 GTCACGGTGTATCGACGCA 60.154 57.895 8.17 0.00 37.85 5.24
2527 2687 1.471287 CTCCTTGTCACGGTGTATCGA 59.529 52.381 8.17 0.00 0.00 3.59
2589 2749 0.531090 CCCGTGTCACTCCGTTTTCA 60.531 55.000 0.65 0.00 0.00 2.69
2616 2776 7.114754 AGAAAGACAAGAATGCATTAGGATGA 58.885 34.615 12.97 0.00 35.16 2.92
2645 2805 2.786512 AATGCACGACCTTGGCCCAT 62.787 55.000 0.00 0.00 0.00 4.00
2805 2965 5.456042 CCTCTACATCTCTAGGCTCTTGAGA 60.456 48.000 14.86 14.86 43.73 3.27
2861 3022 9.886132 AACTATACCCTAGACAAACAAATACAG 57.114 33.333 0.00 0.00 0.00 2.74
2899 3060 9.872721 TGACAACGGTTACACAAATATATCTAA 57.127 29.630 0.00 0.00 0.00 2.10
2907 3068 5.305585 AGATCTGACAACGGTTACACAAAT 58.694 37.500 0.00 0.00 0.00 2.32
2924 3085 4.589216 TTTTGAGCCCAAACAAGATCTG 57.411 40.909 0.00 0.00 41.54 2.90
2927 3088 3.261643 GGGATTTTGAGCCCAAACAAGAT 59.738 43.478 0.00 0.00 44.07 2.40
2943 3104 6.950860 ATAGTTGAATTTGTTGGGGGATTT 57.049 33.333 0.00 0.00 0.00 2.17
2946 3107 5.825679 CGATATAGTTGAATTTGTTGGGGGA 59.174 40.000 0.00 0.00 0.00 4.81
2951 3112 8.736742 GCAACATCGATATAGTTGAATTTGTTG 58.263 33.333 23.76 18.35 43.93 3.33
2952 3113 8.677300 AGCAACATCGATATAGTTGAATTTGTT 58.323 29.630 23.76 8.40 43.93 2.83
2966 3127 4.822350 ACTAGTCAGCTAGCAACATCGATA 59.178 41.667 18.83 2.35 46.56 2.92
2969 3130 3.428746 ACTAGTCAGCTAGCAACATCG 57.571 47.619 18.83 9.14 46.56 3.84
2999 3160 2.616634 TTTGCCTTGCTTGCATGAAA 57.383 40.000 3.33 0.00 38.76 2.69
3012 3174 1.340697 GGAGGGACGGTAAATTTGCCT 60.341 52.381 21.12 5.32 32.98 4.75
3015 3177 2.490509 GGTTGGAGGGACGGTAAATTTG 59.509 50.000 0.00 0.00 0.00 2.32
3094 3274 6.128282 CGGACAAAGCACATATTAAGTTGACT 60.128 38.462 0.00 0.00 0.00 3.41
3099 3279 5.938125 AGTTCGGACAAAGCACATATTAAGT 59.062 36.000 0.00 0.00 0.00 2.24
3150 3330 6.437477 GGGATTGGTTGAAGATTTTAGAGGTT 59.563 38.462 0.00 0.00 0.00 3.50
3151 3331 5.952347 GGGATTGGTTGAAGATTTTAGAGGT 59.048 40.000 0.00 0.00 0.00 3.85
3190 3370 7.286775 GGGGTAAACCTCTTTTATATCATGCAA 59.713 37.037 0.00 0.00 40.03 4.08
3196 3376 6.264744 GCCTTGGGGTAAACCTCTTTTATATC 59.735 42.308 0.00 0.00 37.41 1.63
3200 3380 3.140519 TGCCTTGGGGTAAACCTCTTTTA 59.859 43.478 0.00 0.00 37.41 1.52
3212 3392 1.155155 AAATTCCGTGCCTTGGGGT 59.845 52.632 0.00 0.00 34.45 4.95
3222 3402 3.610911 GGTCCAGAAGATCAAATTCCGT 58.389 45.455 0.00 0.00 0.00 4.69
3247 3427 0.321919 CACATGAGGGGTGTGTGGAG 60.322 60.000 0.00 0.00 41.48 3.86
3248 3428 0.766288 TCACATGAGGGGTGTGTGGA 60.766 55.000 0.00 0.00 45.45 4.02
3249 3429 0.321919 CTCACATGAGGGGTGTGTGG 60.322 60.000 0.00 0.00 45.45 4.17
3250 3430 0.957395 GCTCACATGAGGGGTGTGTG 60.957 60.000 10.81 5.30 45.45 3.82
3251 3431 1.376466 GCTCACATGAGGGGTGTGT 59.624 57.895 10.81 0.00 45.45 3.72
3252 3432 0.250858 TTGCTCACATGAGGGGTGTG 60.251 55.000 10.81 0.00 46.36 3.82
3253 3433 0.478072 TTTGCTCACATGAGGGGTGT 59.522 50.000 10.81 0.00 42.29 4.16
3254 3434 1.171308 CTTTGCTCACATGAGGGGTG 58.829 55.000 10.81 0.00 42.29 4.61
3255 3435 1.067295 TCTTTGCTCACATGAGGGGT 58.933 50.000 10.81 0.00 42.29 4.95
3256 3436 2.089980 CTTCTTTGCTCACATGAGGGG 58.910 52.381 10.81 0.00 42.29 4.79
3308 3489 0.465705 AGTGGATGGCGATCGAACAT 59.534 50.000 21.57 21.15 0.00 2.71
3310 3491 2.218953 TAAGTGGATGGCGATCGAAC 57.781 50.000 21.57 11.41 0.00 3.95
3311 3492 2.971660 TTAAGTGGATGGCGATCGAA 57.028 45.000 21.57 6.31 0.00 3.71
3312 3493 3.181470 TGAATTAAGTGGATGGCGATCGA 60.181 43.478 21.57 0.00 0.00 3.59
3314 3495 5.695851 AATGAATTAAGTGGATGGCGATC 57.304 39.130 0.00 0.00 0.00 3.69
3328 3509 4.839121 AGGTGTGGCGAAGTAATGAATTA 58.161 39.130 0.00 0.00 0.00 1.40
3329 3510 3.686016 AGGTGTGGCGAAGTAATGAATT 58.314 40.909 0.00 0.00 0.00 2.17
3337 3518 1.470051 AACAAAAGGTGTGGCGAAGT 58.530 45.000 0.00 0.00 40.60 3.01
3338 3519 2.099098 AGAAACAAAAGGTGTGGCGAAG 59.901 45.455 0.00 0.00 40.60 3.79
3374 3556 6.129194 CGAAATAAAAGAAAAGAGGGTTTGCG 60.129 38.462 0.00 0.00 0.00 4.85
3375 3557 6.921307 TCGAAATAAAAGAAAAGAGGGTTTGC 59.079 34.615 0.00 0.00 0.00 3.68
3376 3558 8.752254 GTTCGAAATAAAAGAAAAGAGGGTTTG 58.248 33.333 0.00 0.00 0.00 2.93
3379 3561 7.040617 GGAGTTCGAAATAAAAGAAAAGAGGGT 60.041 37.037 0.00 0.00 0.00 4.34
3380 3562 7.175119 AGGAGTTCGAAATAAAAGAAAAGAGGG 59.825 37.037 0.00 0.00 0.00 4.30
3389 3571 7.387948 TGGAGAAAGAGGAGTTCGAAATAAAAG 59.612 37.037 0.00 0.00 0.00 2.27
3395 3577 4.682778 TTGGAGAAAGAGGAGTTCGAAA 57.317 40.909 0.00 0.00 0.00 3.46
3397 3579 3.641906 AGTTTGGAGAAAGAGGAGTTCGA 59.358 43.478 0.00 0.00 0.00 3.71
3398 3580 3.996480 AGTTTGGAGAAAGAGGAGTTCG 58.004 45.455 0.00 0.00 0.00 3.95
3419 3601 3.194755 CGGATGACATATCGTGGGGATTA 59.805 47.826 0.00 0.00 36.55 1.75
3429 3611 6.102663 CCAAAGATACTCCGGATGACATATC 58.897 44.000 3.57 8.01 0.00 1.63
3431 3613 4.899457 ACCAAAGATACTCCGGATGACATA 59.101 41.667 3.57 0.00 0.00 2.29
3441 3623 2.693267 AGCGGAACCAAAGATACTCC 57.307 50.000 0.00 0.00 0.00 3.85
3442 3624 3.492829 CCCTAGCGGAACCAAAGATACTC 60.493 52.174 0.00 0.00 0.00 2.59
3443 3625 2.434702 CCCTAGCGGAACCAAAGATACT 59.565 50.000 0.00 0.00 0.00 2.12
3444 3626 2.835027 CCCTAGCGGAACCAAAGATAC 58.165 52.381 0.00 0.00 0.00 2.24
3445 3627 1.140252 GCCCTAGCGGAACCAAAGATA 59.860 52.381 1.75 0.00 0.00 1.98
3457 3639 2.093537 GATCAGTGGAGGCCCTAGCG 62.094 65.000 0.00 0.00 41.24 4.26
3507 3690 2.725227 AGGTTTTAGGGTTCAATGGGGA 59.275 45.455 0.00 0.00 0.00 4.81
3548 3731 1.176527 CCTTGGCGATGATTTGGTGT 58.823 50.000 0.00 0.00 0.00 4.16
3555 3740 2.194056 CCTGGCCTTGGCGATGAT 59.806 61.111 3.32 0.00 0.00 2.45
3593 3778 0.108186 TGCATGTTGGAGCGGACTAG 60.108 55.000 0.00 0.00 0.00 2.57
3606 3791 0.040058 TCCCAGCCAATCTTGCATGT 59.960 50.000 0.00 0.00 0.00 3.21
3620 3805 0.560193 TCTCCTGATCCTCCTCCCAG 59.440 60.000 0.00 0.00 0.00 4.45
3633 3818 6.314896 GTGACTTTGATCCATTACTTCTCCTG 59.685 42.308 0.00 0.00 0.00 3.86
3643 3828 6.425114 GCGTATCATAGTGACTTTGATCCATT 59.575 38.462 19.34 2.25 34.83 3.16
3644 3829 5.928839 GCGTATCATAGTGACTTTGATCCAT 59.071 40.000 19.34 2.58 34.83 3.41
3654 3839 3.123804 CCAAGTGGCGTATCATAGTGAC 58.876 50.000 0.00 0.00 0.00 3.67
3668 3853 1.731093 AAAAACGGACGCCAAGTGG 59.269 52.632 0.00 0.00 38.53 4.00
3691 3877 2.083774 GGCCATCGATCACAAACTTCA 58.916 47.619 0.00 0.00 0.00 3.02
3696 3882 0.957888 TTGCGGCCATCGATCACAAA 60.958 50.000 2.24 0.00 42.43 2.83
3709 3895 0.249657 TTTGTTTCATGGGTTGCGGC 60.250 50.000 0.00 0.00 0.00 6.53
3724 3910 4.961438 AAAAGCCATCCATCACTTTTGT 57.039 36.364 0.00 0.00 40.00 2.83
3727 3913 6.014327 ACATGTTAAAAGCCATCCATCACTTT 60.014 34.615 0.00 0.00 33.92 2.66
3788 3974 5.397553 TGAGTCCACCATATCCACTACTA 57.602 43.478 0.00 0.00 0.00 1.82
3791 3977 4.620723 ACTTGAGTCCACCATATCCACTA 58.379 43.478 0.00 0.00 0.00 2.74
3800 3986 2.381752 TCTCTGACTTGAGTCCACCA 57.618 50.000 8.56 0.00 44.15 4.17


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

AutoCloner maintained by Alex Coulton.