Multiple sequence alignment - TraesCS5B01G020800

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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 TraesCS5B01G020800 chr5B 100.000 2327 0 0 1 2327 20036735 20034409 0.000000e+00 4298.0
1 TraesCS5B01G020800 chr5B 88.407 1061 73 17 470 1490 20066306 20065256 0.000000e+00 1232.0
2 TraesCS5B01G020800 chr5B 87.112 1094 100 9 606 1664 20013371 20012284 0.000000e+00 1201.0
3 TraesCS5B01G020800 chr5B 86.154 1105 108 16 572 1636 20688646 20689745 0.000000e+00 1151.0
4 TraesCS5B01G020800 chr5B 86.180 1042 98 16 572 1572 20672436 20673472 0.000000e+00 1085.0
5 TraesCS5B01G020800 chr5B 83.663 808 80 22 1509 2269 20065041 20064239 0.000000e+00 713.0
6 TraesCS5B01G020800 chr5B 87.627 590 25 14 1706 2275 20067722 20067161 1.950000e-180 641.0
7 TraesCS5B01G020800 chr5B 85.864 382 33 8 1495 1856 20065226 20064846 1.010000e-103 387.0
8 TraesCS5B01G020800 chr5B 83.184 446 39 17 1729 2140 20689620 20690063 2.180000e-100 375.0
9 TraesCS5B01G020800 chr5B 85.637 369 30 6 1509 1856 20065155 20064789 1.310000e-97 366.0
10 TraesCS5B01G020800 chr5B 88.477 243 17 3 1509 1741 20064927 20064686 1.360000e-72 283.0
11 TraesCS5B01G020800 chr5B 84.365 307 17 8 1780 2060 20012234 20011933 2.950000e-69 272.0
12 TraesCS5B01G020800 chr5B 92.361 144 10 1 2133 2275 20690613 20690756 1.090000e-48 204.0
13 TraesCS5B01G020800 chr5B 86.667 150 10 4 1629 1768 20012433 20012284 8.610000e-35 158.0
14 TraesCS5B01G020800 chr5B 84.431 167 16 2 1673 1829 20012436 20012270 3.100000e-34 156.0
15 TraesCS5B01G020800 chr5B 90.278 72 6 1 37 108 20671912 20671982 2.460000e-15 93.5
16 TraesCS5B01G020800 chr5B 90.278 72 6 1 37 108 20688122 20688192 2.460000e-15 93.5
17 TraesCS5B01G020800 chr5B 93.617 47 2 1 60 106 20013792 20013747 4.150000e-08 69.4
18 TraesCS5B01G020800 chr5B 100.000 30 0 0 1 30 20671859 20671888 3.230000e-04 56.5
19 TraesCS5B01G020800 chr5B 100.000 30 0 0 1 30 20688069 20688098 3.230000e-04 56.5
20 TraesCS5B01G020800 chr5D 91.321 2339 102 28 1 2275 27681210 27683511 0.000000e+00 3101.0
21 TraesCS5B01G020800 chr5D 86.897 1244 112 12 572 1768 27691264 27692503 0.000000e+00 1347.0
22 TraesCS5B01G020800 chr5D 84.808 757 60 17 1566 2275 27692234 27692982 0.000000e+00 710.0
23 TraesCS5B01G020800 chr5D 88.934 244 17 2 1623 1856 27682729 27682972 2.260000e-75 292.0
24 TraesCS5B01G020800 chr5D 86.719 256 24 2 1500 1745 27692282 27692537 2.280000e-70 276.0
25 TraesCS5B01G020800 chr5D 84.646 254 19 4 1623 1856 27692234 27692487 3.870000e-58 235.0
26 TraesCS5B01G020800 chr5D 87.978 183 12 2 1670 1842 27692234 27692416 8.430000e-50 207.0
27 TraesCS5B01G020800 chr5D 90.000 140 14 0 1509 1648 27692405 27692544 5.110000e-42 182.0
28 TraesCS5B01G020800 chr5D 87.850 107 1 2 1 96 27690931 27691036 5.250000e-22 115.0
29 TraesCS5B01G020800 chr5D 94.231 52 1 2 2278 2327 27683546 27683597 6.890000e-11 78.7
30 TraesCS5B01G020800 chr5D 97.368 38 1 0 2290 2327 27693031 27693068 5.370000e-07 65.8
31 TraesCS5B01G020800 chr5A 85.829 1122 110 14 572 1648 18950641 18951758 0.000000e+00 1146.0
32 TraesCS5B01G020800 chr5A 93.082 477 33 0 1115 1591 18920700 18921176 0.000000e+00 699.0
33 TraesCS5B01G020800 chr5A 82.650 634 67 23 1670 2275 18951618 18952236 2.650000e-144 521.0
34 TraesCS5B01G020800 chr5A 89.820 334 12 4 1774 2089 18921094 18921423 2.150000e-110 409.0
35 TraesCS5B01G020800 chr5A 94.652 187 8 2 2089 2275 18940377 18940561 2.930000e-74 289.0
36 TraesCS5B01G020800 chr5A 85.821 134 8 1 1623 1745 18951618 18951751 5.220000e-27 132.0
37 TraesCS5B01G020800 chr5A 93.333 60 4 0 37 96 18950327 18950386 3.180000e-14 89.8
38 TraesCS5B01G020800 chr5A 92.157 51 2 1 2278 2326 18952271 18952321 1.150000e-08 71.3
39 TraesCS5B01G020800 chr5A 100.000 32 0 0 115 146 18920663 18920694 2.500000e-05 60.2


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 TraesCS5B01G020800 chr5B 20034409 20036735 2326 True 4298.000000 4298 100.000000 1 2327 1 chr5B.!!$R1 2326
1 TraesCS5B01G020800 chr5B 20064239 20067722 3483 True 603.666667 1232 86.612500 470 2275 6 chr5B.!!$R3 1805
2 TraesCS5B01G020800 chr5B 20671859 20673472 1613 False 411.666667 1085 92.152667 1 1572 3 chr5B.!!$F1 1571
3 TraesCS5B01G020800 chr5B 20688069 20690756 2687 False 376.000000 1151 90.395400 1 2275 5 chr5B.!!$F2 2274
4 TraesCS5B01G020800 chr5B 20011933 20013792 1859 True 371.280000 1201 87.238400 60 2060 5 chr5B.!!$R2 2000
5 TraesCS5B01G020800 chr5D 27681210 27683597 2387 False 1157.233333 3101 91.495333 1 2327 3 chr5D.!!$F1 2326
6 TraesCS5B01G020800 chr5D 27690931 27693068 2137 False 392.225000 1347 88.283250 1 2327 8 chr5D.!!$F2 2326
7 TraesCS5B01G020800 chr5A 18950327 18952321 1994 False 392.020000 1146 87.958000 37 2326 5 chr5A.!!$F3 2289
8 TraesCS5B01G020800 chr5A 18920663 18921423 760 False 389.400000 699 94.300667 115 2089 3 chr5A.!!$F2 1974

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
965 2345 0.107508 CACATCCGGAGCTCCAACAT 60.108 55.0 31.67 16.82 35.14 2.71 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2288 4868 2.096335 GCAAATGCAATAAAAGGCTGGC 59.904 45.455 0.0 0.0 41.59 4.85 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
167 185 8.571336 GTGCTAGGATCATTGTGCTAAAATAAT 58.429 33.333 0.00 0.00 0.00 1.28
216 234 8.385898 TCTGAACCAAATACAGTAACGAAATT 57.614 30.769 0.00 0.00 33.93 1.82
277 295 4.473520 CCACCAGCGGCCCTACAG 62.474 72.222 0.00 0.00 0.00 2.74
396 414 3.819337 ACGAGTGCTGACTACTTACTGAA 59.181 43.478 0.00 0.00 30.16 3.02
397 415 4.459685 ACGAGTGCTGACTACTTACTGAAT 59.540 41.667 0.00 0.00 30.16 2.57
399 417 5.966503 CGAGTGCTGACTACTTACTGAATAC 59.033 44.000 0.00 0.00 30.16 1.89
400 418 6.403309 CGAGTGCTGACTACTTACTGAATACA 60.403 42.308 0.00 0.00 30.16 2.29
402 420 7.667557 AGTGCTGACTACTTACTGAATACAAA 58.332 34.615 0.00 0.00 0.00 2.83
403 421 7.599245 AGTGCTGACTACTTACTGAATACAAAC 59.401 37.037 0.00 0.00 0.00 2.93
405 423 8.094548 TGCTGACTACTTACTGAATACAAACAT 58.905 33.333 0.00 0.00 0.00 2.71
406 424 8.596380 GCTGACTACTTACTGAATACAAACATC 58.404 37.037 0.00 0.00 0.00 3.06
407 425 8.997621 TGACTACTTACTGAATACAAACATCC 57.002 34.615 0.00 0.00 0.00 3.51
408 426 8.812972 TGACTACTTACTGAATACAAACATCCT 58.187 33.333 0.00 0.00 0.00 3.24
542 1706 8.721478 CGATGAAATTAATTTGGTCCGAGATAT 58.279 33.333 17.98 0.00 0.00 1.63
680 2041 5.163385 ACTGTAACCTGTAACTAGTTGTGCA 60.163 40.000 18.56 12.53 0.00 4.57
832 2212 1.292223 GCTCTTGTGGTCGTAGCCA 59.708 57.895 0.00 0.00 35.93 4.75
883 2263 0.818040 GACCGTGGAAACAACCTGCT 60.818 55.000 0.00 0.00 46.06 4.24
928 2308 5.164620 TCATGTCCTCTACAATTTCTGCA 57.835 39.130 0.00 0.00 42.70 4.41
931 2311 3.006430 TGTCCTCTACAATTTCTGCACGA 59.994 43.478 0.00 0.00 34.29 4.35
961 2341 1.841302 AAAGCACATCCGGAGCTCCA 61.841 55.000 31.67 14.64 37.70 3.86
965 2345 0.107508 CACATCCGGAGCTCCAACAT 60.108 55.000 31.67 16.82 35.14 2.71
970 2350 0.249073 CCGGAGCTCCAACATAGACG 60.249 60.000 31.67 14.16 35.14 4.18
1038 2418 2.824041 GGCGCCATCCACGACATT 60.824 61.111 24.80 0.00 38.80 2.71
1047 2427 2.743752 CCACGACATTGAGCGCCTG 61.744 63.158 2.29 0.00 0.00 4.85
1112 2492 1.832167 AATGCCAAGGGTTGCACGT 60.832 52.632 0.00 0.00 40.88 4.49
1279 2659 1.104630 GCAACGTAGCCTCTACTCCT 58.895 55.000 0.00 0.00 0.00 3.69
1350 2730 7.792364 ATGAATAGCATCATGGATCCAAATT 57.208 32.000 20.67 9.64 38.59 1.82
1370 2750 3.254093 TGTGGGAGAGTTTAGAGGTCA 57.746 47.619 0.00 0.00 0.00 4.02
1426 2808 6.995511 TTGTAAGGTACATGCAAGGAATAC 57.004 37.500 0.00 0.00 38.68 1.89
1464 2846 4.835615 AGTTGTGGGTTTAATTACATGCCA 59.164 37.500 0.00 0.00 0.00 4.92
1528 3221 4.036734 CGCATACCCTTTCAATGTGCTATT 59.963 41.667 0.00 0.00 0.00 1.73
1560 3253 5.701750 TGCTTGTAACGTAGCCAAAGAATTA 59.298 36.000 5.63 0.00 36.56 1.40
1593 3286 9.791801 ACCCTTTCAATGTGCTAAATTTATTTT 57.208 25.926 0.00 0.00 0.00 1.82
1595 3288 9.545611 CCTTTCAATGTGCTAAATTTATTTTGC 57.454 29.630 12.58 12.58 44.73 3.68
1599 3292 9.270640 TCAATGTGCTAAATTTATTTTGCTTGT 57.729 25.926 17.81 5.73 44.75 3.16
1603 3296 8.695284 TGTGCTAAATTTATTTTGCTTGTAACG 58.305 29.630 17.81 0.00 44.75 3.18
1604 3297 8.696175 GTGCTAAATTTATTTTGCTTGTAACGT 58.304 29.630 17.81 0.00 44.75 3.99
1605 3298 9.894783 TGCTAAATTTATTTTGCTTGTAACGTA 57.105 25.926 17.81 0.00 44.75 3.57
1608 3301 7.806149 AATTTATTTTGCTTGTAACGTAGCC 57.194 32.000 5.63 0.00 36.56 3.93
1609 3302 5.943706 TTATTTTGCTTGTAACGTAGCCA 57.056 34.783 5.63 0.00 36.56 4.75
1610 3303 4.839668 ATTTTGCTTGTAACGTAGCCAA 57.160 36.364 5.63 0.00 36.56 4.52
1611 3304 4.634184 TTTTGCTTGTAACGTAGCCAAA 57.366 36.364 5.63 4.66 36.56 3.28
1612 3305 4.839668 TTTGCTTGTAACGTAGCCAAAT 57.160 36.364 5.63 0.00 36.56 2.32
1613 3306 5.943706 TTTGCTTGTAACGTAGCCAAATA 57.056 34.783 5.63 0.00 36.56 1.40
1614 3307 6.503589 TTTGCTTGTAACGTAGCCAAATAT 57.496 33.333 5.63 0.00 36.56 1.28
1615 3308 6.503589 TTGCTTGTAACGTAGCCAAATATT 57.496 33.333 5.63 0.00 36.56 1.28
1616 3309 6.503589 TGCTTGTAACGTAGCCAAATATTT 57.496 33.333 5.63 0.00 36.56 1.40
1617 3310 7.612668 TGCTTGTAACGTAGCCAAATATTTA 57.387 32.000 5.63 0.00 36.56 1.40
1618 3311 8.215926 TGCTTGTAACGTAGCCAAATATTTAT 57.784 30.769 5.63 0.00 36.56 1.40
1619 3312 8.339714 TGCTTGTAACGTAGCCAAATATTTATC 58.660 33.333 5.63 0.00 36.56 1.75
1620 3313 8.557029 GCTTGTAACGTAGCCAAATATTTATCT 58.443 33.333 0.00 3.81 0.00 1.98
1674 3367 8.986477 TTTCTTGTAACGTAGTCTTTATACCC 57.014 34.615 0.00 0.00 45.00 3.69
1675 3368 7.701539 TCTTGTAACGTAGTCTTTATACCCA 57.298 36.000 0.00 0.00 45.00 4.51
1676 3369 8.297470 TCTTGTAACGTAGTCTTTATACCCAT 57.703 34.615 0.00 0.00 45.00 4.00
1677 3370 8.752187 TCTTGTAACGTAGTCTTTATACCCATT 58.248 33.333 0.00 0.00 45.00 3.16
1678 3371 8.931385 TTGTAACGTAGTCTTTATACCCATTC 57.069 34.615 0.00 0.00 45.00 2.67
1679 3372 8.065473 TGTAACGTAGTCTTTATACCCATTCA 57.935 34.615 0.00 0.00 45.00 2.57
1680 3373 8.530311 TGTAACGTAGTCTTTATACCCATTCAA 58.470 33.333 0.00 0.00 45.00 2.69
1681 3374 9.538508 GTAACGTAGTCTTTATACCCATTCAAT 57.461 33.333 0.00 0.00 45.00 2.57
1682 3375 8.433421 AACGTAGTCTTTATACCCATTCAATG 57.567 34.615 0.00 0.00 45.00 2.82
1683 3376 7.562135 ACGTAGTCTTTATACCCATTCAATGT 58.438 34.615 0.00 0.00 29.74 2.71
1684 3377 7.494625 ACGTAGTCTTTATACCCATTCAATGTG 59.505 37.037 0.00 0.00 29.74 3.21
1685 3378 6.699575 AGTCTTTATACCCATTCAATGTGC 57.300 37.500 0.00 0.00 0.00 4.57
1686 3379 6.426587 AGTCTTTATACCCATTCAATGTGCT 58.573 36.000 0.00 0.00 0.00 4.40
1687 3380 7.573710 AGTCTTTATACCCATTCAATGTGCTA 58.426 34.615 0.00 0.00 0.00 3.49
1688 3381 8.220559 AGTCTTTATACCCATTCAATGTGCTAT 58.779 33.333 0.00 0.00 0.00 2.97
1689 3382 9.502091 GTCTTTATACCCATTCAATGTGCTATA 57.498 33.333 0.00 0.00 0.00 1.31
1712 3405 1.846541 TTTTTGCTTGTAACGCAGCC 58.153 45.000 0.00 0.00 38.80 4.85
1713 3406 0.741326 TTTTGCTTGTAACGCAGCCA 59.259 45.000 0.00 0.00 38.80 4.75
1714 3407 0.741326 TTTGCTTGTAACGCAGCCAA 59.259 45.000 0.00 0.00 38.80 4.52
1715 3408 0.741326 TTGCTTGTAACGCAGCCAAA 59.259 45.000 0.00 0.00 38.80 3.28
1716 3409 0.310543 TGCTTGTAACGCAGCCAAAG 59.689 50.000 0.00 0.00 32.80 2.77
1717 3410 0.591170 GCTTGTAACGCAGCCAAAGA 59.409 50.000 0.00 0.00 0.00 2.52
1718 3411 1.001815 GCTTGTAACGCAGCCAAAGAA 60.002 47.619 0.00 0.00 0.00 2.52
1719 3412 2.351738 GCTTGTAACGCAGCCAAAGAAT 60.352 45.455 0.00 0.00 0.00 2.40
1720 3413 3.857010 GCTTGTAACGCAGCCAAAGAATT 60.857 43.478 0.00 0.00 0.00 2.17
1721 3414 4.298332 CTTGTAACGCAGCCAAAGAATTT 58.702 39.130 0.00 0.00 40.26 1.82
1722 3415 4.314740 TGTAACGCAGCCAAAGAATTTT 57.685 36.364 0.00 0.00 35.03 1.82
1723 3416 4.295051 TGTAACGCAGCCAAAGAATTTTC 58.705 39.130 0.00 0.00 35.03 2.29
1724 3417 3.733443 AACGCAGCCAAAGAATTTTCT 57.267 38.095 0.00 0.00 35.03 2.52
1726 3419 4.846779 ACGCAGCCAAAGAATTTTCTTA 57.153 36.364 6.01 0.00 46.22 2.10
1727 3420 5.391312 ACGCAGCCAAAGAATTTTCTTAT 57.609 34.783 6.01 0.00 46.22 1.73
1728 3421 6.509418 ACGCAGCCAAAGAATTTTCTTATA 57.491 33.333 6.01 0.00 46.22 0.98
1729 3422 6.322491 ACGCAGCCAAAGAATTTTCTTATAC 58.678 36.000 6.01 0.00 46.22 1.47
1730 3423 5.743872 CGCAGCCAAAGAATTTTCTTATACC 59.256 40.000 6.01 0.00 46.22 2.73
1731 3424 6.042777 GCAGCCAAAGAATTTTCTTATACCC 58.957 40.000 6.01 0.00 46.22 3.69
1732 3425 6.127338 GCAGCCAAAGAATTTTCTTATACCCT 60.127 38.462 6.01 0.00 46.22 4.34
1733 3426 7.579531 GCAGCCAAAGAATTTTCTTATACCCTT 60.580 37.037 6.01 0.00 46.22 3.95
1734 3427 8.314021 CAGCCAAAGAATTTTCTTATACCCTTT 58.686 33.333 6.01 0.00 46.22 3.11
1735 3428 8.531982 AGCCAAAGAATTTTCTTATACCCTTTC 58.468 33.333 6.01 0.00 46.22 2.62
1736 3429 8.311109 GCCAAAGAATTTTCTTATACCCTTTCA 58.689 33.333 6.01 0.00 46.22 2.69
1742 3435 9.087424 GAATTTTCTTATACCCTTTCAATGTGC 57.913 33.333 0.00 0.00 0.00 4.57
1743 3436 7.775053 TTTTCTTATACCCTTTCAATGTGCT 57.225 32.000 0.00 0.00 0.00 4.40
1744 3437 8.871629 TTTTCTTATACCCTTTCAATGTGCTA 57.128 30.769 0.00 0.00 0.00 3.49
1745 3438 9.474313 TTTTCTTATACCCTTTCAATGTGCTAT 57.526 29.630 0.00 0.00 0.00 2.97
1769 3462 8.944212 ATATTTTGTTTGCTTGTAACGTAGTC 57.056 30.769 0.00 0.00 45.00 2.59
1771 3464 6.425577 TTTGTTTGCTTGTAACGTAGTCTT 57.574 33.333 0.00 0.00 45.00 3.01
1822 3517 3.064207 TGCTTGTAACGTAGCCAAAGAG 58.936 45.455 5.63 0.00 36.56 2.85
1848 3543 8.665685 GTTGTCTTATACCCTTTCAATGTACTG 58.334 37.037 0.00 0.00 0.00 2.74
2275 4823 1.331214 CCTTTGTGTGGGCACTCATT 58.669 50.000 0.00 0.00 45.44 2.57
2276 4824 1.688197 CCTTTGTGTGGGCACTCATTT 59.312 47.619 0.00 0.00 45.44 2.32
2288 4868 1.086696 ACTCATTTTCCATGGACGCG 58.913 50.000 15.91 3.53 0.00 6.01
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
96 114 1.593209 CCCATGGATTGCATTGCGC 60.593 57.895 15.22 0.00 42.89 6.09
97 115 1.031235 TACCCATGGATTGCATTGCG 58.969 50.000 15.22 0.00 0.00 4.85
99 117 2.023673 ACGTACCCATGGATTGCATTG 58.976 47.619 15.22 0.00 0.00 2.82
188 206 6.751157 TCGTTACTGTATTTGGTTCAGAGAA 58.249 36.000 0.00 0.00 33.93 2.87
193 211 7.380065 GCAAATTTCGTTACTGTATTTGGTTCA 59.620 33.333 11.35 0.00 36.93 3.18
349 367 1.508667 ATGGAGTTGGGTCATGGCCA 61.509 55.000 20.13 8.56 0.00 5.36
402 420 9.751542 CGAATAGATTTCTTACAAGTAGGATGT 57.248 33.333 0.00 0.00 34.81 3.06
403 421 9.967346 TCGAATAGATTTCTTACAAGTAGGATG 57.033 33.333 0.00 0.00 0.00 3.51
406 424 9.119329 CGATCGAATAGATTTCTTACAAGTAGG 57.881 37.037 10.26 0.00 40.26 3.18
407 425 9.880064 TCGATCGAATAGATTTCTTACAAGTAG 57.120 33.333 16.99 0.00 40.26 2.57
408 426 9.880064 CTCGATCGAATAGATTTCTTACAAGTA 57.120 33.333 19.92 0.00 40.26 2.24
411 429 7.937649 TCCTCGATCGAATAGATTTCTTACAA 58.062 34.615 19.92 0.00 40.26 2.41
412 430 7.506328 TCCTCGATCGAATAGATTTCTTACA 57.494 36.000 19.92 0.00 40.26 2.41
416 434 5.465935 GCTTCCTCGATCGAATAGATTTCT 58.534 41.667 19.92 0.00 40.26 2.52
832 2212 0.461339 AACAACACGAGAGCAACGGT 60.461 50.000 0.00 0.00 34.93 4.83
883 2263 4.451150 CTTGTCAGCCGCCGCCTA 62.451 66.667 0.00 0.00 34.57 3.93
894 2274 1.911357 AGGACATGAGCATCCTTGTCA 59.089 47.619 0.00 0.00 43.09 3.58
928 2308 0.387929 TGCTTTCTCAACTCCGTCGT 59.612 50.000 0.00 0.00 0.00 4.34
931 2311 2.417719 GATGTGCTTTCTCAACTCCGT 58.582 47.619 0.00 0.00 0.00 4.69
961 2341 1.152963 GGCCCCATGCGTCTATGTT 60.153 57.895 0.00 0.00 42.61 2.71
965 2345 3.479203 CCAGGCCCCATGCGTCTA 61.479 66.667 0.00 0.00 42.61 2.59
1108 2488 1.718361 CGCGAACTTCATGTTGACGTG 60.718 52.381 0.00 0.00 39.30 4.49
1112 2492 2.852901 GCAAACGCGAACTTCATGTTGA 60.853 45.455 15.93 0.00 39.30 3.18
1248 2628 0.530744 TACGTTGCTTGAGAGGCGAT 59.469 50.000 0.00 0.00 0.00 4.58
1279 2659 2.125461 CAGACGATCGCTATCTGCAA 57.875 50.000 16.60 0.00 43.06 4.08
1350 2730 3.165875 CTGACCTCTAAACTCTCCCACA 58.834 50.000 0.00 0.00 0.00 4.17
1370 2750 7.773149 AGTAGTAATCGCTACAAGTTTGATCT 58.227 34.615 0.00 0.00 42.68 2.75
1426 2808 6.279882 ACCCACAACTAATGAAAACATGTTG 58.720 36.000 12.82 0.00 40.11 3.33
1464 2846 8.622157 CATCAAGATGCATTGAGAACTCTATTT 58.378 33.333 0.00 0.00 42.20 1.40
1528 3221 6.736123 TGGCTACGTTACAAGCAAAATAAAA 58.264 32.000 10.05 0.00 40.61 1.52
1560 3253 9.646522 ATTTAGCACATTGAAAGGGTATAAGAT 57.353 29.630 0.00 0.00 0.00 2.40
1584 3277 7.371936 TGGCTACGTTACAAGCAAAATAAATT 58.628 30.769 10.05 0.00 40.61 1.82
1591 3284 4.839668 ATTTGGCTACGTTACAAGCAAA 57.160 36.364 10.05 2.20 40.61 3.68
1592 3285 6.503589 AATATTTGGCTACGTTACAAGCAA 57.496 33.333 10.05 0.00 40.61 3.91
1593 3286 6.503589 AAATATTTGGCTACGTTACAAGCA 57.496 33.333 10.05 0.00 40.61 3.91
1594 3287 8.557029 AGATAAATATTTGGCTACGTTACAAGC 58.443 33.333 11.05 0.00 38.03 4.01
1648 3341 9.423061 GGGTATAAAGACTACGTTACAAGAAAA 57.577 33.333 0.00 0.00 0.00 2.29
1649 3342 8.584157 TGGGTATAAAGACTACGTTACAAGAAA 58.416 33.333 0.00 0.00 0.00 2.52
1650 3343 8.121305 TGGGTATAAAGACTACGTTACAAGAA 57.879 34.615 0.00 0.00 0.00 2.52
1651 3344 7.701539 TGGGTATAAAGACTACGTTACAAGA 57.298 36.000 0.00 0.00 0.00 3.02
1652 3345 8.937634 AATGGGTATAAAGACTACGTTACAAG 57.062 34.615 0.00 0.00 0.00 3.16
1653 3346 8.530311 TGAATGGGTATAAAGACTACGTTACAA 58.470 33.333 0.00 0.00 0.00 2.41
1654 3347 8.065473 TGAATGGGTATAAAGACTACGTTACA 57.935 34.615 0.00 0.00 0.00 2.41
1655 3348 8.931385 TTGAATGGGTATAAAGACTACGTTAC 57.069 34.615 0.00 0.00 0.00 2.50
1656 3349 9.537192 CATTGAATGGGTATAAAGACTACGTTA 57.463 33.333 0.00 0.00 0.00 3.18
1657 3350 8.044908 ACATTGAATGGGTATAAAGACTACGTT 58.955 33.333 10.27 0.00 33.60 3.99
1658 3351 7.494625 CACATTGAATGGGTATAAAGACTACGT 59.505 37.037 10.27 0.00 33.60 3.57
1659 3352 7.518370 GCACATTGAATGGGTATAAAGACTACG 60.518 40.741 9.43 0.00 35.65 3.51
1660 3353 7.499232 AGCACATTGAATGGGTATAAAGACTAC 59.501 37.037 9.43 0.00 35.65 2.73
1661 3354 7.573710 AGCACATTGAATGGGTATAAAGACTA 58.426 34.615 9.43 0.00 35.65 2.59
1662 3355 6.426587 AGCACATTGAATGGGTATAAAGACT 58.573 36.000 9.43 0.00 35.65 3.24
1663 3356 6.699575 AGCACATTGAATGGGTATAAAGAC 57.300 37.500 9.43 0.00 35.65 3.01
1693 3386 1.135139 TGGCTGCGTTACAAGCAAAAA 59.865 42.857 8.88 0.00 44.67 1.94
1694 3387 0.741326 TGGCTGCGTTACAAGCAAAA 59.259 45.000 8.88 0.00 44.67 2.44
1695 3388 0.741326 TTGGCTGCGTTACAAGCAAA 59.259 45.000 8.88 1.78 44.67 3.68
1696 3389 0.741326 TTTGGCTGCGTTACAAGCAA 59.259 45.000 8.88 0.00 44.67 3.91
1697 3390 0.310543 CTTTGGCTGCGTTACAAGCA 59.689 50.000 8.88 0.00 42.99 3.91
1698 3391 0.591170 TCTTTGGCTGCGTTACAAGC 59.409 50.000 0.00 0.00 0.00 4.01
1699 3392 3.559238 ATTCTTTGGCTGCGTTACAAG 57.441 42.857 0.00 0.00 0.00 3.16
1700 3393 4.314740 AAATTCTTTGGCTGCGTTACAA 57.685 36.364 0.00 0.00 0.00 2.41
1701 3394 4.037446 AGAAAATTCTTTGGCTGCGTTACA 59.963 37.500 0.00 0.00 32.55 2.41
1702 3395 4.546570 AGAAAATTCTTTGGCTGCGTTAC 58.453 39.130 0.00 0.00 32.55 2.50
1703 3396 4.846779 AGAAAATTCTTTGGCTGCGTTA 57.153 36.364 0.00 0.00 32.55 3.18
1704 3397 3.733443 AGAAAATTCTTTGGCTGCGTT 57.267 38.095 0.00 0.00 32.55 4.84
1705 3398 3.733443 AAGAAAATTCTTTGGCTGCGT 57.267 38.095 2.59 0.00 44.70 5.24
1706 3399 5.743872 GGTATAAGAAAATTCTTTGGCTGCG 59.256 40.000 13.18 0.00 44.70 5.18
1707 3400 6.042777 GGGTATAAGAAAATTCTTTGGCTGC 58.957 40.000 13.18 0.00 44.70 5.25
1708 3401 7.410120 AGGGTATAAGAAAATTCTTTGGCTG 57.590 36.000 13.18 0.00 44.70 4.85
1709 3402 8.435931 AAAGGGTATAAGAAAATTCTTTGGCT 57.564 30.769 13.18 0.94 44.70 4.75
1710 3403 8.311109 TGAAAGGGTATAAGAAAATTCTTTGGC 58.689 33.333 13.18 4.76 44.70 4.52
1716 3409 9.087424 GCACATTGAAAGGGTATAAGAAAATTC 57.913 33.333 0.00 0.00 0.00 2.17
1717 3410 8.815912 AGCACATTGAAAGGGTATAAGAAAATT 58.184 29.630 0.00 0.00 0.00 1.82
1718 3411 8.366359 AGCACATTGAAAGGGTATAAGAAAAT 57.634 30.769 0.00 0.00 0.00 1.82
1719 3412 7.775053 AGCACATTGAAAGGGTATAAGAAAA 57.225 32.000 0.00 0.00 0.00 2.29
1726 3419 9.200817 ACAAAATATAGCACATTGAAAGGGTAT 57.799 29.630 0.00 0.00 0.00 2.73
1727 3420 8.588290 ACAAAATATAGCACATTGAAAGGGTA 57.412 30.769 0.00 0.00 0.00 3.69
1728 3421 7.480760 ACAAAATATAGCACATTGAAAGGGT 57.519 32.000 0.00 0.00 0.00 4.34
1729 3422 8.658609 CAAACAAAATATAGCACATTGAAAGGG 58.341 33.333 0.00 0.00 0.00 3.95
1730 3423 8.170553 GCAAACAAAATATAGCACATTGAAAGG 58.829 33.333 0.00 0.00 0.00 3.11
1731 3424 8.928733 AGCAAACAAAATATAGCACATTGAAAG 58.071 29.630 0.00 0.00 0.00 2.62
1732 3425 8.830201 AGCAAACAAAATATAGCACATTGAAA 57.170 26.923 0.00 0.00 0.00 2.69
1733 3426 8.710551 CAAGCAAACAAAATATAGCACATTGAA 58.289 29.630 0.00 0.00 0.00 2.69
1734 3427 7.871973 ACAAGCAAACAAAATATAGCACATTGA 59.128 29.630 0.00 0.00 0.00 2.57
1735 3428 8.020861 ACAAGCAAACAAAATATAGCACATTG 57.979 30.769 0.00 0.00 0.00 2.82
1736 3429 9.703892 TTACAAGCAAACAAAATATAGCACATT 57.296 25.926 0.00 0.00 0.00 2.71
1737 3430 9.139174 GTTACAAGCAAACAAAATATAGCACAT 57.861 29.630 0.00 0.00 0.00 3.21
1738 3431 7.324856 CGTTACAAGCAAACAAAATATAGCACA 59.675 33.333 0.00 0.00 0.00 4.57
1739 3432 7.325097 ACGTTACAAGCAAACAAAATATAGCAC 59.675 33.333 0.00 0.00 0.00 4.40
1740 3433 7.364200 ACGTTACAAGCAAACAAAATATAGCA 58.636 30.769 0.00 0.00 0.00 3.49
1741 3434 7.790861 ACGTTACAAGCAAACAAAATATAGC 57.209 32.000 0.00 0.00 0.00 2.97
1744 3437 8.780249 AGACTACGTTACAAGCAAACAAAATAT 58.220 29.630 0.00 0.00 0.00 1.28
1745 3438 8.145316 AGACTACGTTACAAGCAAACAAAATA 57.855 30.769 0.00 0.00 0.00 1.40
1746 3439 7.023197 AGACTACGTTACAAGCAAACAAAAT 57.977 32.000 0.00 0.00 0.00 1.82
1747 3440 6.425577 AGACTACGTTACAAGCAAACAAAA 57.574 33.333 0.00 0.00 0.00 2.44
1748 3441 6.425577 AAGACTACGTTACAAGCAAACAAA 57.574 33.333 0.00 0.00 0.00 2.83
1749 3442 6.425577 AAAGACTACGTTACAAGCAAACAA 57.574 33.333 0.00 0.00 0.00 2.83
1750 3443 7.718272 ATAAAGACTACGTTACAAGCAAACA 57.282 32.000 0.00 0.00 0.00 2.83
1751 3444 8.164790 GGTATAAAGACTACGTTACAAGCAAAC 58.835 37.037 0.00 0.00 0.00 2.93
1795 3490 5.539582 TGGCTACGTTACAAGCAAAATAG 57.460 39.130 10.05 0.00 40.61 1.73
1822 3517 8.665685 CAGTACATTGAAAGGGTATAAGACAAC 58.334 37.037 0.00 0.00 0.00 3.32
1905 3882 4.951715 TGCCATTATGTTGAGAGAGCAATT 59.048 37.500 0.00 0.00 0.00 2.32
1906 3883 4.337555 GTGCCATTATGTTGAGAGAGCAAT 59.662 41.667 0.00 0.00 0.00 3.56
1907 3884 3.691118 GTGCCATTATGTTGAGAGAGCAA 59.309 43.478 0.00 0.00 0.00 3.91
1908 3885 3.054875 AGTGCCATTATGTTGAGAGAGCA 60.055 43.478 0.00 0.00 0.00 4.26
2111 4098 7.936950 TTATCATGAAAAATGAAACGTTGCA 57.063 28.000 12.34 12.34 0.00 4.08
2112 4099 9.810231 ATTTTATCATGAAAAATGAAACGTTGC 57.190 25.926 19.12 0.00 35.69 4.17
2194 4741 9.988815 GCTCAATCTCAAGAATAACCTAATCTA 57.011 33.333 0.00 0.00 0.00 1.98
2275 4823 2.745884 CTGGCGCGTCCATGGAAA 60.746 61.111 18.20 0.00 45.50 3.13
2288 4868 2.096335 GCAAATGCAATAAAAGGCTGGC 59.904 45.455 0.00 0.00 41.59 4.85


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

AutoCloner maintained by Alex Coulton.