Multiple sequence alignment - TraesCS3A01G094400

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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 TraesCS3A01G094400 chr3A 100.000 2237 0 0 1 2237 60435302 60433066 0.000000e+00 4132.0
1 TraesCS3A01G094400 chr3A 96.154 806 28 3 1433 2237 677734581 677733778 0.000000e+00 1314.0
2 TraesCS3A01G094400 chr3A 90.931 816 51 14 546 1360 677735373 677734580 0.000000e+00 1075.0
3 TraesCS3A01G094400 chr3A 94.810 501 26 0 1 501 88559557 88560057 0.000000e+00 782.0
4 TraesCS3A01G094400 chr3A 86.364 66 6 3 503 566 7077135 7077071 3.990000e-08 69.4
5 TraesCS3A01G094400 chr3A 85.965 57 3 4 506 559 465452347 465452293 3.100000e-04 56.5
6 TraesCS3A01G094400 chr6B 96.939 1699 40 4 548 2236 58802628 58800932 0.000000e+00 2839.0
7 TraesCS3A01G094400 chr6B 94.763 802 39 3 1436 2237 482652844 482652046 0.000000e+00 1245.0
8 TraesCS3A01G094400 chr6B 90.756 833 51 8 543 1360 482653667 482652846 0.000000e+00 1088.0
9 TraesCS3A01G094400 chr6B 94.545 55 3 0 492 546 372120155 372120209 3.960000e-13 86.1
10 TraesCS3A01G094400 chrUn 95.911 807 29 4 1433 2237 264885324 264884520 0.000000e+00 1304.0
11 TraesCS3A01G094400 chrUn 94.658 805 39 3 1436 2237 326713114 326712311 0.000000e+00 1245.0
12 TraesCS3A01G094400 chrUn 91.432 817 48 13 547 1360 264886120 264885323 0.000000e+00 1101.0
13 TraesCS3A01G094400 chr5B 95.149 804 36 2 1436 2237 476873594 476874396 0.000000e+00 1266.0
14 TraesCS3A01G094400 chr5B 92.874 828 40 7 547 1358 476872766 476873590 0.000000e+00 1184.0
15 TraesCS3A01G094400 chr7B 94.913 806 36 3 1436 2237 716756386 716755582 0.000000e+00 1256.0
16 TraesCS3A01G094400 chr7B 91.667 828 50 7 547 1358 716757214 716756390 0.000000e+00 1129.0
17 TraesCS3A01G094400 chr7B 88.771 472 53 0 1 472 603443980 603444451 1.490000e-161 579.0
18 TraesCS3A01G094400 chr7B 89.474 76 3 3 1359 1434 92560537 92560467 8.510000e-15 91.6
19 TraesCS3A01G094400 chr7B 94.545 55 3 0 492 546 200771746 200771692 3.960000e-13 86.1
20 TraesCS3A01G094400 chr7B 84.810 79 8 3 1358 1436 91784646 91784720 2.380000e-10 76.8
21 TraesCS3A01G094400 chr7A 94.907 805 37 3 1436 2237 28328248 28329051 0.000000e+00 1256.0
22 TraesCS3A01G094400 chr7A 92.831 823 46 8 546 1358 28327425 28328244 0.000000e+00 1181.0
23 TraesCS3A01G094400 chr7A 94.800 500 25 1 2 501 433430809 433431307 0.000000e+00 778.0
24 TraesCS3A01G094400 chr7A 90.586 563 35 2 2 546 514811454 514812016 0.000000e+00 730.0
25 TraesCS3A01G094400 chr7A 92.657 463 34 0 13 475 477099599 477099137 0.000000e+00 667.0
26 TraesCS3A01G094400 chr5A 94.776 804 39 2 1436 2237 639733407 639732605 0.000000e+00 1249.0
27 TraesCS3A01G094400 chr5A 92.289 830 42 9 545 1358 639734234 639733411 0.000000e+00 1158.0
28 TraesCS3A01G094400 chr5A 95.609 501 22 0 1 501 620187263 620186763 0.000000e+00 804.0
29 TraesCS3A01G094400 chr5A 94.821 502 24 2 1 501 77945484 77944984 0.000000e+00 782.0
30 TraesCS3A01G094400 chr5A 92.736 413 30 0 60 472 131174175 131174587 4.110000e-167 597.0
31 TraesCS3A01G094400 chr1B 92.754 828 41 11 547 1358 373928997 373928173 0.000000e+00 1179.0
32 TraesCS3A01G094400 chr7D 95.344 494 23 0 8 501 477374279 477373786 0.000000e+00 785.0
33 TraesCS3A01G094400 chr7D 86.420 81 5 6 1359 1436 627316427 627316504 1.420000e-12 84.2
34 TraesCS3A01G094400 chr2A 94.653 505 26 1 1 504 710346080 710346584 0.000000e+00 782.0
35 TraesCS3A01G094400 chr2A 94.611 501 27 0 1 501 88432607 88432107 0.000000e+00 776.0
36 TraesCS3A01G094400 chr2A 91.463 82 3 2 1354 1435 215751280 215751203 2.350000e-20 110.0
37 TraesCS3A01G094400 chr4D 94.980 498 24 1 1 498 493026867 493027363 0.000000e+00 780.0
38 TraesCS3A01G094400 chr4A 94.622 502 26 1 1 501 570143765 570144266 0.000000e+00 776.0
39 TraesCS3A01G094400 chr4A 86.585 82 7 4 1358 1435 735552503 735552422 1.100000e-13 87.9
40 TraesCS3A01G094400 chr4A 94.545 55 3 0 492 546 540108070 540108124 3.960000e-13 86.1
41 TraesCS3A01G094400 chr4B 92.484 479 36 0 4 482 30814798 30815276 0.000000e+00 686.0
42 TraesCS3A01G094400 chr2D 88.095 84 5 5 1355 1435 134789814 134789733 6.580000e-16 95.3
43 TraesCS3A01G094400 chr2D 88.000 75 5 4 1365 1436 407254483 407254410 3.960000e-13 86.1
44 TraesCS3A01G094400 chr1A 91.045 67 5 1 1369 1435 24614695 24614630 3.060000e-14 89.8
45 TraesCS3A01G094400 chr1A 94.545 55 3 0 492 546 303034602 303034548 3.960000e-13 86.1


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 TraesCS3A01G094400 chr3A 60433066 60435302 2236 True 4132.0 4132 100.0000 1 2237 1 chr3A.!!$R2 2236
1 TraesCS3A01G094400 chr3A 677733778 677735373 1595 True 1194.5 1314 93.5425 546 2237 2 chr3A.!!$R4 1691
2 TraesCS3A01G094400 chr3A 88559557 88560057 500 False 782.0 782 94.8100 1 501 1 chr3A.!!$F1 500
3 TraesCS3A01G094400 chr6B 58800932 58802628 1696 True 2839.0 2839 96.9390 548 2236 1 chr6B.!!$R1 1688
4 TraesCS3A01G094400 chr6B 482652046 482653667 1621 True 1166.5 1245 92.7595 543 2237 2 chr6B.!!$R2 1694
5 TraesCS3A01G094400 chrUn 326712311 326713114 803 True 1245.0 1245 94.6580 1436 2237 1 chrUn.!!$R1 801
6 TraesCS3A01G094400 chrUn 264884520 264886120 1600 True 1202.5 1304 93.6715 547 2237 2 chrUn.!!$R2 1690
7 TraesCS3A01G094400 chr5B 476872766 476874396 1630 False 1225.0 1266 94.0115 547 2237 2 chr5B.!!$F1 1690
8 TraesCS3A01G094400 chr7B 716755582 716757214 1632 True 1192.5 1256 93.2900 547 2237 2 chr7B.!!$R3 1690
9 TraesCS3A01G094400 chr7A 28327425 28329051 1626 False 1218.5 1256 93.8690 546 2237 2 chr7A.!!$F3 1691
10 TraesCS3A01G094400 chr7A 514811454 514812016 562 False 730.0 730 90.5860 2 546 1 chr7A.!!$F2 544
11 TraesCS3A01G094400 chr5A 639732605 639734234 1629 True 1203.5 1249 93.5325 545 2237 2 chr5A.!!$R3 1692
12 TraesCS3A01G094400 chr5A 620186763 620187263 500 True 804.0 804 95.6090 1 501 1 chr5A.!!$R2 500
13 TraesCS3A01G094400 chr5A 77944984 77945484 500 True 782.0 782 94.8210 1 501 1 chr5A.!!$R1 500
14 TraesCS3A01G094400 chr1B 373928173 373928997 824 True 1179.0 1179 92.7540 547 1358 1 chr1B.!!$R1 811
15 TraesCS3A01G094400 chr2A 710346080 710346584 504 False 782.0 782 94.6530 1 504 1 chr2A.!!$F1 503
16 TraesCS3A01G094400 chr2A 88432107 88432607 500 True 776.0 776 94.6110 1 501 1 chr2A.!!$R1 500
17 TraesCS3A01G094400 chr4A 570143765 570144266 501 False 776.0 776 94.6220 1 501 1 chr4A.!!$F2 500

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
176 178 0.389391 ACGATCGAATCTCGGGCAAT 59.611 50.0 24.34 0.0 40.88 3.56 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1416 1540 0.17897 GCTACTCCCTCCGTCCCATA 60.179 60.0 0.0 0.0 0.0 2.74 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
22 23 2.096367 CGTGTATCGGTGAGGTATCTCG 60.096 54.545 0.00 0.00 38.11 4.04
33 34 1.152525 GTATCTCGGGGCCCTCTCA 60.153 63.158 24.38 3.83 0.00 3.27
76 77 5.047092 AGCCTTGCAAGCAATGTAACTAATT 60.047 36.000 21.43 0.00 35.20 1.40
176 178 0.389391 ACGATCGAATCTCGGGCAAT 59.611 50.000 24.34 0.00 40.88 3.56
240 242 5.263968 GGTTTGACCGATAGAGATCTTCA 57.736 43.478 0.00 0.00 39.76 3.02
536 556 3.698765 GTTACCGGAACCCCTCGA 58.301 61.111 9.46 0.00 31.20 4.04
573 593 4.584325 ACAACAAAACATGTCAGTAGGCAT 59.416 37.500 0.00 0.00 42.99 4.40
732 752 8.635328 TGTGTAAATAGGCAGAGACGATATTTA 58.365 33.333 0.00 0.00 30.78 1.40
874 900 0.823460 CAGCTCCTTGACTCCTCCTC 59.177 60.000 0.00 0.00 0.00 3.71
917 944 2.421314 CATCTATGGCGCACCGGA 59.579 61.111 9.46 1.87 39.70 5.14
920 947 0.826256 ATCTATGGCGCACCGGACTA 60.826 55.000 9.46 0.00 39.70 2.59
937 964 0.390860 CTAGTTCCTCATCCAGCCCG 59.609 60.000 0.00 0.00 0.00 6.13
1253 1294 3.485877 CCGTGAACAAATAGCAAGCTAGC 60.486 47.826 6.62 6.62 31.45 3.42
1285 1326 8.041323 CACAGGTAATTTCCTAAGAAAGCTCTA 58.959 37.037 2.94 0.00 44.96 2.43
1360 1484 6.913873 TTGGACTGAAAAACTGTGTACTAC 57.086 37.500 0.00 0.00 0.00 2.73
1361 1485 6.229936 TGGACTGAAAAACTGTGTACTACT 57.770 37.500 0.00 0.00 0.00 2.57
1362 1486 7.350744 TGGACTGAAAAACTGTGTACTACTA 57.649 36.000 0.00 0.00 0.00 1.82
1363 1487 7.784037 TGGACTGAAAAACTGTGTACTACTAA 58.216 34.615 0.00 0.00 0.00 2.24
1364 1488 7.707893 TGGACTGAAAAACTGTGTACTACTAAC 59.292 37.037 0.00 0.00 0.00 2.34
1365 1489 7.924947 GGACTGAAAAACTGTGTACTACTAACT 59.075 37.037 0.00 0.00 0.00 2.24
1366 1490 8.868635 ACTGAAAAACTGTGTACTACTAACTC 57.131 34.615 0.00 0.00 0.00 3.01
1367 1491 8.693625 ACTGAAAAACTGTGTACTACTAACTCT 58.306 33.333 0.00 0.00 0.00 3.24
1368 1492 8.867112 TGAAAAACTGTGTACTACTAACTCTG 57.133 34.615 0.00 0.00 0.00 3.35
1369 1493 8.472413 TGAAAAACTGTGTACTACTAACTCTGT 58.528 33.333 0.00 0.00 0.00 3.41
1370 1494 8.868635 AAAAACTGTGTACTACTAACTCTGTC 57.131 34.615 0.00 0.00 0.00 3.51
1371 1495 6.572167 AACTGTGTACTACTAACTCTGTCC 57.428 41.667 0.00 0.00 0.00 4.02
1372 1496 5.008980 ACTGTGTACTACTAACTCTGTCCC 58.991 45.833 0.00 0.00 0.00 4.46
1373 1497 4.989277 TGTGTACTACTAACTCTGTCCCA 58.011 43.478 0.00 0.00 0.00 4.37
1374 1498 5.577100 TGTGTACTACTAACTCTGTCCCAT 58.423 41.667 0.00 0.00 0.00 4.00
1375 1499 6.724351 TGTGTACTACTAACTCTGTCCCATA 58.276 40.000 0.00 0.00 0.00 2.74
1376 1500 7.177184 TGTGTACTACTAACTCTGTCCCATAA 58.823 38.462 0.00 0.00 0.00 1.90
1377 1501 7.837689 TGTGTACTACTAACTCTGTCCCATAAT 59.162 37.037 0.00 0.00 0.00 1.28
1378 1502 8.136165 GTGTACTACTAACTCTGTCCCATAATG 58.864 40.741 0.00 0.00 0.00 1.90
1379 1503 7.837689 TGTACTACTAACTCTGTCCCATAATGT 59.162 37.037 0.00 0.00 0.00 2.71
1380 1504 9.347240 GTACTACTAACTCTGTCCCATAATGTA 57.653 37.037 0.00 0.00 0.00 2.29
1381 1505 8.834004 ACTACTAACTCTGTCCCATAATGTAA 57.166 34.615 0.00 0.00 0.00 2.41
1382 1506 8.915036 ACTACTAACTCTGTCCCATAATGTAAG 58.085 37.037 0.00 0.00 0.00 2.34
1383 1507 7.973048 ACTAACTCTGTCCCATAATGTAAGA 57.027 36.000 0.00 0.00 0.00 2.10
1384 1508 7.783042 ACTAACTCTGTCCCATAATGTAAGAC 58.217 38.462 0.00 0.00 0.00 3.01
1385 1509 5.263968 ACTCTGTCCCATAATGTAAGACG 57.736 43.478 0.00 0.00 0.00 4.18
1386 1510 4.710375 ACTCTGTCCCATAATGTAAGACGT 59.290 41.667 0.00 0.00 0.00 4.34
1387 1511 5.187186 ACTCTGTCCCATAATGTAAGACGTT 59.813 40.000 0.00 0.00 0.00 3.99
1388 1512 6.045072 TCTGTCCCATAATGTAAGACGTTT 57.955 37.500 0.00 0.00 0.00 3.60
1389 1513 6.469410 TCTGTCCCATAATGTAAGACGTTTT 58.531 36.000 0.00 0.00 0.00 2.43
1390 1514 6.938030 TCTGTCCCATAATGTAAGACGTTTTT 59.062 34.615 0.00 0.00 0.00 1.94
1391 1515 6.904498 TGTCCCATAATGTAAGACGTTTTTG 58.096 36.000 0.00 0.00 0.00 2.44
1392 1516 5.798434 GTCCCATAATGTAAGACGTTTTTGC 59.202 40.000 0.00 0.00 0.00 3.68
1393 1517 5.473846 TCCCATAATGTAAGACGTTTTTGCA 59.526 36.000 0.00 1.87 0.00 4.08
1394 1518 5.799936 CCCATAATGTAAGACGTTTTTGCAG 59.200 40.000 0.00 0.00 0.00 4.41
1395 1519 6.348950 CCCATAATGTAAGACGTTTTTGCAGA 60.349 38.462 0.00 0.00 0.00 4.26
1396 1520 7.081349 CCATAATGTAAGACGTTTTTGCAGAA 58.919 34.615 0.00 0.00 0.00 3.02
1397 1521 7.060633 CCATAATGTAAGACGTTTTTGCAGAAC 59.939 37.037 0.00 5.27 0.00 3.01
1398 1522 5.751243 ATGTAAGACGTTTTTGCAGAACT 57.249 34.783 11.67 0.00 0.00 3.01
1399 1523 5.151632 TGTAAGACGTTTTTGCAGAACTC 57.848 39.130 11.67 8.78 0.00 3.01
1400 1524 3.692791 AAGACGTTTTTGCAGAACTCC 57.307 42.857 11.67 5.11 0.00 3.85
1401 1525 2.639065 AGACGTTTTTGCAGAACTCCA 58.361 42.857 11.67 0.00 0.00 3.86
1402 1526 3.013921 AGACGTTTTTGCAGAACTCCAA 58.986 40.909 11.67 0.00 0.00 3.53
1403 1527 3.442273 AGACGTTTTTGCAGAACTCCAAA 59.558 39.130 11.67 0.00 0.00 3.28
1404 1528 4.082463 AGACGTTTTTGCAGAACTCCAAAA 60.082 37.500 11.67 0.29 38.67 2.44
1405 1529 4.561105 ACGTTTTTGCAGAACTCCAAAAA 58.439 34.783 10.95 10.95 44.18 1.94
1408 1532 3.859411 TTTGCAGAACTCCAAAAACGT 57.141 38.095 0.00 0.00 0.00 3.99
1409 1533 3.414549 TTGCAGAACTCCAAAAACGTC 57.585 42.857 0.00 0.00 0.00 4.34
1410 1534 2.639065 TGCAGAACTCCAAAAACGTCT 58.361 42.857 0.00 0.00 0.00 4.18
1411 1535 3.013921 TGCAGAACTCCAAAAACGTCTT 58.986 40.909 0.00 0.00 0.00 3.01
1412 1536 4.193090 TGCAGAACTCCAAAAACGTCTTA 58.807 39.130 0.00 0.00 0.00 2.10
1413 1537 4.819630 TGCAGAACTCCAAAAACGTCTTAT 59.180 37.500 0.00 0.00 0.00 1.73
1414 1538 5.992829 TGCAGAACTCCAAAAACGTCTTATA 59.007 36.000 0.00 0.00 0.00 0.98
1415 1539 6.653320 TGCAGAACTCCAAAAACGTCTTATAT 59.347 34.615 0.00 0.00 0.00 0.86
1416 1540 7.174253 TGCAGAACTCCAAAAACGTCTTATATT 59.826 33.333 0.00 0.00 0.00 1.28
1417 1541 8.662141 GCAGAACTCCAAAAACGTCTTATATTA 58.338 33.333 0.00 0.00 0.00 0.98
1420 1544 9.931210 GAACTCCAAAAACGTCTTATATTATGG 57.069 33.333 0.00 0.00 0.00 2.74
1421 1545 8.446599 ACTCCAAAAACGTCTTATATTATGGG 57.553 34.615 0.00 0.00 0.00 4.00
1422 1546 8.269317 ACTCCAAAAACGTCTTATATTATGGGA 58.731 33.333 0.00 0.00 0.00 4.37
1423 1547 8.441312 TCCAAAAACGTCTTATATTATGGGAC 57.559 34.615 0.00 0.00 0.00 4.46
1428 1552 4.995124 CGTCTTATATTATGGGACGGAGG 58.005 47.826 17.59 0.00 43.69 4.30
1429 1553 4.142227 CGTCTTATATTATGGGACGGAGGG 60.142 50.000 17.59 0.46 43.69 4.30
1430 1554 5.021458 GTCTTATATTATGGGACGGAGGGA 58.979 45.833 0.00 0.00 0.00 4.20
1431 1555 5.127356 GTCTTATATTATGGGACGGAGGGAG 59.873 48.000 0.00 0.00 0.00 4.30
1432 1556 3.562108 ATATTATGGGACGGAGGGAGT 57.438 47.619 0.00 0.00 0.00 3.85
1433 1557 4.687262 ATATTATGGGACGGAGGGAGTA 57.313 45.455 0.00 0.00 0.00 2.59
1694 1820 7.594015 TCAATCGAGAAAGTAACTCTGTTGTAC 59.406 37.037 0.00 0.00 33.06 2.90
1695 1821 5.766222 TCGAGAAAGTAACTCTGTTGTACC 58.234 41.667 0.00 0.00 32.87 3.34
2189 2322 7.051623 TGCATACTAGTTAAACCTACCAATGG 58.948 38.462 0.00 0.00 0.00 3.16
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 2.122989 GGGCCCCGAGATACCTCA 60.123 66.667 12.23 0.00 39.39 3.86
22 23 1.149401 GCATTACTGAGAGGGCCCC 59.851 63.158 21.43 10.60 0.00 5.80
33 34 6.179906 AGGCTTATAGTGATGTGCATTACT 57.820 37.500 12.95 12.95 40.24 2.24
76 77 8.278408 CGTAATGCTACATCTCGTAACTAACTA 58.722 37.037 0.00 0.00 0.00 2.24
88 89 3.380637 ACTCGTTCCGTAATGCTACATCT 59.619 43.478 0.00 0.00 0.00 2.90
147 149 4.634000 GAGATTCGATCGTCAGTATCTCG 58.366 47.826 15.94 0.00 31.74 4.04
176 178 5.423704 TCCCTTTGTCATCGGTATGTTAA 57.576 39.130 0.00 0.00 34.50 2.01
379 381 9.233649 ACCTTCGGTATATCAAAACACATAAAA 57.766 29.630 0.00 0.00 32.11 1.52
395 397 3.450096 GGACTCCAAACTACCTTCGGTAT 59.550 47.826 0.00 0.00 37.56 2.73
917 944 1.501582 GGGCTGGATGAGGAACTAGT 58.498 55.000 0.00 0.00 41.55 2.57
920 947 2.370445 CCGGGCTGGATGAGGAACT 61.370 63.158 6.48 0.00 41.83 3.01
1207 1244 4.767255 CTGGGTGGCAGAGTCCGC 62.767 72.222 0.00 0.00 35.93 5.54
1253 1294 3.721087 AGGAAATTACCTGTGTCCCAG 57.279 47.619 0.00 0.00 39.01 4.45
1285 1326 0.469892 CAGAACAAAAGGGGGCAGGT 60.470 55.000 0.00 0.00 0.00 4.00
1368 1492 5.798434 GCAAAAACGTCTTACATTATGGGAC 59.202 40.000 0.00 1.75 0.00 4.46
1369 1493 5.473846 TGCAAAAACGTCTTACATTATGGGA 59.526 36.000 0.00 0.00 0.00 4.37
1370 1494 5.704888 TGCAAAAACGTCTTACATTATGGG 58.295 37.500 0.00 0.00 0.00 4.00
1371 1495 6.607689 TCTGCAAAAACGTCTTACATTATGG 58.392 36.000 0.00 0.00 0.00 2.74
1372 1496 7.803189 AGTTCTGCAAAAACGTCTTACATTATG 59.197 33.333 6.10 0.00 0.00 1.90
1373 1497 7.871853 AGTTCTGCAAAAACGTCTTACATTAT 58.128 30.769 6.10 0.00 0.00 1.28
1374 1498 7.254227 AGTTCTGCAAAAACGTCTTACATTA 57.746 32.000 6.10 0.00 0.00 1.90
1375 1499 6.131544 AGTTCTGCAAAAACGTCTTACATT 57.868 33.333 6.10 0.00 0.00 2.71
1376 1500 5.277828 GGAGTTCTGCAAAAACGTCTTACAT 60.278 40.000 6.10 0.00 0.00 2.29
1377 1501 4.034742 GGAGTTCTGCAAAAACGTCTTACA 59.965 41.667 6.10 0.00 0.00 2.41
1378 1502 4.034742 TGGAGTTCTGCAAAAACGTCTTAC 59.965 41.667 6.10 0.00 0.00 2.34
1379 1503 4.193090 TGGAGTTCTGCAAAAACGTCTTA 58.807 39.130 6.10 0.00 0.00 2.10
1380 1504 3.013921 TGGAGTTCTGCAAAAACGTCTT 58.986 40.909 6.10 0.00 0.00 3.01
1381 1505 2.639065 TGGAGTTCTGCAAAAACGTCT 58.361 42.857 6.10 0.00 0.00 4.18
1382 1506 3.414549 TTGGAGTTCTGCAAAAACGTC 57.585 42.857 4.39 4.98 0.00 4.34
1383 1507 3.859411 TTTGGAGTTCTGCAAAAACGT 57.141 38.095 15.02 0.00 0.00 3.99
1384 1508 4.881319 GTTTTTGGAGTTCTGCAAAAACG 58.119 39.130 34.98 0.00 43.09 3.60
1385 1509 4.387559 ACGTTTTTGGAGTTCTGCAAAAAC 59.612 37.500 36.41 36.41 45.95 2.43
1386 1510 4.561105 ACGTTTTTGGAGTTCTGCAAAAA 58.439 34.783 27.81 27.81 35.14 1.94
1387 1511 4.082463 AGACGTTTTTGGAGTTCTGCAAAA 60.082 37.500 21.74 21.74 0.00 2.44
1388 1512 3.442273 AGACGTTTTTGGAGTTCTGCAAA 59.558 39.130 13.76 13.76 0.00 3.68
1389 1513 3.013921 AGACGTTTTTGGAGTTCTGCAA 58.986 40.909 2.79 2.79 0.00 4.08
1390 1514 2.639065 AGACGTTTTTGGAGTTCTGCA 58.361 42.857 0.00 0.00 0.00 4.41
1391 1515 3.692791 AAGACGTTTTTGGAGTTCTGC 57.307 42.857 0.00 0.00 0.00 4.26
1394 1518 9.931210 CCATAATATAAGACGTTTTTGGAGTTC 57.069 33.333 0.00 0.00 0.00 3.01
1395 1519 8.899771 CCCATAATATAAGACGTTTTTGGAGTT 58.100 33.333 6.56 0.00 0.00 3.01
1396 1520 8.269317 TCCCATAATATAAGACGTTTTTGGAGT 58.731 33.333 6.56 0.00 0.00 3.85
1397 1521 8.557029 GTCCCATAATATAAGACGTTTTTGGAG 58.443 37.037 6.56 0.00 0.00 3.86
1398 1522 7.225145 CGTCCCATAATATAAGACGTTTTTGGA 59.775 37.037 13.04 0.00 43.89 3.53
1399 1523 7.349711 CGTCCCATAATATAAGACGTTTTTGG 58.650 38.462 13.04 0.00 43.89 3.28
1400 1524 7.225145 TCCGTCCCATAATATAAGACGTTTTTG 59.775 37.037 17.31 7.05 46.62 2.44
1401 1525 7.274447 TCCGTCCCATAATATAAGACGTTTTT 58.726 34.615 17.31 0.00 46.62 1.94
1402 1526 6.819284 TCCGTCCCATAATATAAGACGTTTT 58.181 36.000 17.31 0.00 46.62 2.43
1403 1527 6.409524 TCCGTCCCATAATATAAGACGTTT 57.590 37.500 17.31 0.00 46.62 3.60
1404 1528 5.047519 CCTCCGTCCCATAATATAAGACGTT 60.048 44.000 17.31 0.00 46.62 3.99
1405 1529 4.461781 CCTCCGTCCCATAATATAAGACGT 59.538 45.833 17.31 0.00 46.62 4.34
1407 1531 5.021458 TCCCTCCGTCCCATAATATAAGAC 58.979 45.833 0.00 0.00 0.00 3.01
1408 1532 5.222484 ACTCCCTCCGTCCCATAATATAAGA 60.222 44.000 0.00 0.00 0.00 2.10
1409 1533 5.024118 ACTCCCTCCGTCCCATAATATAAG 58.976 45.833 0.00 0.00 0.00 1.73
1410 1534 5.019657 ACTCCCTCCGTCCCATAATATAA 57.980 43.478 0.00 0.00 0.00 0.98
1411 1535 4.687262 ACTCCCTCCGTCCCATAATATA 57.313 45.455 0.00 0.00 0.00 0.86
1412 1536 3.562108 ACTCCCTCCGTCCCATAATAT 57.438 47.619 0.00 0.00 0.00 1.28
1413 1537 3.816842 GCTACTCCCTCCGTCCCATAATA 60.817 52.174 0.00 0.00 0.00 0.98
1414 1538 2.890814 CTACTCCCTCCGTCCCATAAT 58.109 52.381 0.00 0.00 0.00 1.28
1415 1539 1.756690 GCTACTCCCTCCGTCCCATAA 60.757 57.143 0.00 0.00 0.00 1.90
1416 1540 0.178970 GCTACTCCCTCCGTCCCATA 60.179 60.000 0.00 0.00 0.00 2.74
1417 1541 1.457831 GCTACTCCCTCCGTCCCAT 60.458 63.158 0.00 0.00 0.00 4.00
1418 1542 2.043248 GCTACTCCCTCCGTCCCA 60.043 66.667 0.00 0.00 0.00 4.37
1419 1543 2.615227 TACGCTACTCCCTCCGTCCC 62.615 65.000 0.00 0.00 35.36 4.46
1420 1544 0.536915 ATACGCTACTCCCTCCGTCC 60.537 60.000 0.00 0.00 35.36 4.79
1421 1545 2.175878 TATACGCTACTCCCTCCGTC 57.824 55.000 0.00 0.00 35.36 4.79
1422 1546 2.434428 CATATACGCTACTCCCTCCGT 58.566 52.381 0.00 0.00 37.68 4.69
1423 1547 1.132643 GCATATACGCTACTCCCTCCG 59.867 57.143 0.00 0.00 0.00 4.63
1424 1548 2.168496 TGCATATACGCTACTCCCTCC 58.832 52.381 0.00 0.00 0.00 4.30
1425 1549 3.367498 CCTTGCATATACGCTACTCCCTC 60.367 52.174 0.00 0.00 0.00 4.30
1426 1550 2.563179 CCTTGCATATACGCTACTCCCT 59.437 50.000 0.00 0.00 0.00 4.20
1427 1551 2.353803 CCCTTGCATATACGCTACTCCC 60.354 54.545 0.00 0.00 0.00 4.30
1428 1552 2.561419 TCCCTTGCATATACGCTACTCC 59.439 50.000 0.00 0.00 0.00 3.85
1429 1553 3.256136 AGTCCCTTGCATATACGCTACTC 59.744 47.826 0.00 0.00 0.00 2.59
1430 1554 3.005897 CAGTCCCTTGCATATACGCTACT 59.994 47.826 0.00 0.00 0.00 2.57
1431 1555 3.243771 ACAGTCCCTTGCATATACGCTAC 60.244 47.826 0.00 0.00 0.00 3.58
1432 1556 2.963101 ACAGTCCCTTGCATATACGCTA 59.037 45.455 0.00 0.00 0.00 4.26
1433 1557 1.762957 ACAGTCCCTTGCATATACGCT 59.237 47.619 0.00 0.00 0.00 5.07


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

AutoCloner maintained by Alex Coulton.