Multiple sequence alignment - TraesCS3B01G191300

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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 TraesCS3B01G191300 chr3B 100.000 4478 0 0 1 4478 204280878 204285355 0.000000e+00 8270
1 TraesCS3B01G191300 chr3B 90.090 111 6 5 3664 3772 805579296 805579403 6.040000e-29 139
2 TraesCS3B01G191300 chr3D 95.898 3681 125 14 1 3666 142475498 142479167 0.000000e+00 5938
3 TraesCS3B01G191300 chr3D 95.498 733 27 5 3748 4478 142479164 142479892 0.000000e+00 1166
4 TraesCS3B01G191300 chr3A 93.604 3627 153 31 72 3666 161445370 161448949 0.000000e+00 5339
5 TraesCS3B01G191300 chr3A 97.070 512 15 0 3748 4259 161448946 161449457 0.000000e+00 863
6 TraesCS3B01G191300 chr3A 92.444 225 10 4 4256 4478 161449536 161449755 9.350000e-82 315
7 TraesCS3B01G191300 chr3A 93.407 91 4 1 3660 3750 199541376 199541464 2.810000e-27 134
8 TraesCS3B01G191300 chr1B 93.458 107 4 2 3654 3759 633092362 633092466 6.000000e-34 156
9 TraesCS3B01G191300 chr7A 94.000 100 3 2 3654 3753 80994073 80994169 1.000000e-31 148
10 TraesCS3B01G191300 chr7A 88.983 118 8 4 3661 3775 374987570 374987685 1.680000e-29 141
11 TraesCS3B01G191300 chr7D 93.878 98 4 1 3661 3758 94261314 94261219 3.610000e-31 147
12 TraesCS3B01G191300 chr1D 93.878 98 4 1 3664 3761 340660123 340660028 3.610000e-31 147
13 TraesCS3B01G191300 chr1D 91.346 104 6 3 3662 3765 10389021 10389121 6.040000e-29 139
14 TraesCS3B01G191300 chr5D 89.381 113 6 4 3663 3775 49290751 49290857 2.170000e-28 137


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 TraesCS3B01G191300 chr3B 204280878 204285355 4477 False 8270.000000 8270 100.000000 1 4478 1 chr3B.!!$F1 4477
1 TraesCS3B01G191300 chr3D 142475498 142479892 4394 False 3552.000000 5938 95.698000 1 4478 2 chr3D.!!$F1 4477
2 TraesCS3B01G191300 chr3A 161445370 161449755 4385 False 2172.333333 5339 94.372667 72 4478 3 chr3A.!!$F2 4406

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
875 908 1.400846 CATCTGCTGTTCCAGACATGC 59.599 52.381 0.00 0.0 44.0 4.06 F
1051 1087 1.045911 GTCGGAGGAGGAGGCAGAAT 61.046 60.000 0.00 0.0 0.0 2.40 F
2035 2075 1.544724 CGGCTTCCAAGATTTTCCCA 58.455 50.000 0.00 0.0 0.0 4.37 F
2596 2636 0.464554 GGTTGCTGGCTACATCCTCC 60.465 60.000 9.05 0.0 0.0 4.30 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2073 2113 0.098905 CGAGACTCGCGGAGAAATCA 59.901 55.0 12.67 0.0 31.14 2.57 R
2567 2607 0.108138 GCCAGCAACCGAGACATAGT 60.108 55.0 0.00 0.0 0.00 2.12 R
3454 3494 0.035739 TTTGGGTAGGAAGTCCGCAC 59.964 55.0 0.00 0.0 42.08 5.34 R
3559 3603 1.522668 TTCACATGTGTAGCTGTGCC 58.477 50.0 24.63 0.0 41.96 5.01 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
67 68 5.069251 GCACTACTACCTTCTGACATACCAT 59.931 44.000 0.00 0.00 0.00 3.55
161 172 4.221262 AGCACCTTTTGATGTTATGCATGT 59.779 37.500 10.16 0.00 38.06 3.21
181 192 6.586344 CATGTTAGGAATCCTGTACTCATGT 58.414 40.000 12.96 0.00 34.61 3.21
197 208 8.724229 TGTACTCATGTCATTTTTCAGATCTTG 58.276 33.333 0.00 0.00 0.00 3.02
280 311 6.295292 GCATGTACTATGGACTGATGGTATGA 60.295 42.308 0.00 0.00 0.00 2.15
306 338 4.460263 ACTATGCAGTTGACCTGTTGAAA 58.540 39.130 0.00 0.00 43.55 2.69
438 470 7.446625 AGCTTTACTGTGAATGAAGAGAACAAT 59.553 33.333 0.00 0.00 0.00 2.71
654 686 3.282021 TGAGCTTTCCATGCATCTTACC 58.718 45.455 0.00 0.00 0.00 2.85
715 747 1.891919 TGGAACAAGGTCAGCGTGC 60.892 57.895 0.00 0.00 31.92 5.34
785 817 7.254185 CCATTACATATTGTGTTGAATTGCTGC 60.254 37.037 0.00 0.00 42.29 5.25
809 842 9.171877 TGCTACATTGTGTTGATGTTATATTGA 57.828 29.630 0.00 0.00 38.58 2.57
849 882 2.963432 TCGTTGAGATCCGGTAAAACC 58.037 47.619 0.00 0.00 34.05 3.27
851 884 3.055675 TCGTTGAGATCCGGTAAAACCAT 60.056 43.478 0.00 0.00 38.47 3.55
875 908 1.400846 CATCTGCTGTTCCAGACATGC 59.599 52.381 0.00 0.00 44.00 4.06
1051 1087 1.045911 GTCGGAGGAGGAGGCAGAAT 61.046 60.000 0.00 0.00 0.00 2.40
1173 1209 3.991051 CGGTCGGTGGCTGTGAGT 61.991 66.667 0.00 0.00 0.00 3.41
1366 1402 3.062466 TCGTCCTCCAGACCTGCG 61.062 66.667 0.00 0.00 43.08 5.18
1512 1548 1.895131 GGTGGTTTCACGACCTACCTA 59.105 52.381 1.09 0.00 42.77 3.08
1676 1715 2.143925 GGTGAAGTTTCCGACCAAGAG 58.856 52.381 0.00 0.00 0.00 2.85
1779 1819 4.327982 ACTGATGTATCCATCTGGTTCG 57.672 45.455 9.44 0.00 46.38 3.95
1809 1849 2.359900 GGAATCGTCAACAGCTTCCAT 58.640 47.619 0.00 0.00 36.28 3.41
2035 2075 1.544724 CGGCTTCCAAGATTTTCCCA 58.455 50.000 0.00 0.00 0.00 4.37
2073 2113 8.581253 AGGCATATAAGCAGAAGTTTTACTTT 57.419 30.769 1.93 0.00 35.77 2.66
2145 2185 1.826385 ACTTCTCCATGCTTTTCGGG 58.174 50.000 0.00 0.00 0.00 5.14
2270 2310 5.221803 ACAAGGTGAGTGATGACAGAATTCT 60.222 40.000 0.88 0.88 0.00 2.40
2292 2332 4.394729 TGTCTGAACTTTACCATGGTTCC 58.605 43.478 25.38 6.79 38.68 3.62
2318 2358 6.528321 ACTTGATCAGATGTTTCAGTCTTCA 58.472 36.000 0.00 0.00 0.00 3.02
2463 2503 2.535485 ATCGCCAGCAACGGAATCCA 62.535 55.000 0.00 0.00 0.00 3.41
2467 2507 1.675310 CAGCAACGGAATCCAGGCA 60.675 57.895 0.00 0.00 0.00 4.75
2567 2607 2.154798 CTGAACGAAGGACTGCCGGA 62.155 60.000 5.05 0.00 39.96 5.14
2596 2636 0.464554 GGTTGCTGGCTACATCCTCC 60.465 60.000 9.05 0.00 0.00 4.30
3033 3073 0.962489 CTGGATCGGTATTCTCGGCT 59.038 55.000 0.00 0.00 0.00 5.52
3098 3138 4.019321 TGAAGGAACCAAGATACTCCCAAG 60.019 45.833 0.00 0.00 0.00 3.61
3446 3486 7.473735 TGAAGTTCTTGTCTAGTCATCAGAT 57.526 36.000 4.17 0.00 0.00 2.90
3447 3487 7.318893 TGAAGTTCTTGTCTAGTCATCAGATG 58.681 38.462 3.71 3.71 0.00 2.90
3451 3491 6.462552 TCTTGTCTAGTCATCAGATGAAGG 57.537 41.667 15.02 8.16 41.69 3.46
3454 3494 6.951062 TGTCTAGTCATCAGATGAAGGTAG 57.049 41.667 15.02 14.69 41.69 3.18
3482 3526 4.490706 ACTTCCTACCCAAAGTGACTACT 58.509 43.478 0.00 0.00 39.32 2.57
3485 3529 3.508793 TCCTACCCAAAGTGACTACTTCG 59.491 47.826 0.00 0.00 46.14 3.79
3487 3531 1.414919 ACCCAAAGTGACTACTTCGCA 59.585 47.619 0.00 0.00 46.14 5.10
3494 3538 6.258727 CCAAAGTGACTACTTCGCAATGATAT 59.741 38.462 0.00 0.00 46.14 1.63
3499 3543 6.303496 GTGACTACTTCGCAATGATATAGACG 59.697 42.308 0.00 0.00 34.56 4.18
3606 3650 4.320023 TGAGTCGCATACTTGCCTTTTTA 58.680 39.130 0.00 0.00 46.57 1.52
3636 3680 9.944663 TGTGTAAATATTTTTCAAGTGTCTGTC 57.055 29.630 5.91 0.00 0.00 3.51
3655 3699 5.041951 TGTCGGAGCATTATTGAAACAAC 57.958 39.130 0.00 0.00 0.00 3.32
3656 3700 4.517075 TGTCGGAGCATTATTGAAACAACA 59.483 37.500 0.00 0.00 0.00 3.33
3660 3704 6.072230 TCGGAGCATTATTGAAACAACAATGA 60.072 34.615 16.22 1.41 40.15 2.57
3666 3710 9.357652 GCATTATTGAAACAACAATGATGTACT 57.642 29.630 16.22 0.00 46.37 2.73
3669 3713 5.957842 TGAAACAACAATGATGTACTCCC 57.042 39.130 0.00 0.00 39.40 4.30
3670 3714 5.630121 TGAAACAACAATGATGTACTCCCT 58.370 37.500 0.00 0.00 39.40 4.20
3671 3715 5.705441 TGAAACAACAATGATGTACTCCCTC 59.295 40.000 0.00 0.00 39.40 4.30
3672 3716 5.505181 AACAACAATGATGTACTCCCTCT 57.495 39.130 0.00 0.00 39.40 3.69
3673 3717 4.836825 ACAACAATGATGTACTCCCTCTG 58.163 43.478 0.00 0.00 39.40 3.35
3674 3718 4.287067 ACAACAATGATGTACTCCCTCTGT 59.713 41.667 0.00 0.00 39.40 3.41
3675 3719 5.483937 ACAACAATGATGTACTCCCTCTGTA 59.516 40.000 0.00 0.00 39.40 2.74
3676 3720 6.013725 ACAACAATGATGTACTCCCTCTGTAA 60.014 38.462 0.00 0.00 39.40 2.41
3677 3721 6.620877 ACAATGATGTACTCCCTCTGTAAA 57.379 37.500 0.00 0.00 38.24 2.01
3678 3722 6.407202 ACAATGATGTACTCCCTCTGTAAAC 58.593 40.000 0.00 0.00 38.24 2.01
3679 3723 6.213600 ACAATGATGTACTCCCTCTGTAAACT 59.786 38.462 0.00 0.00 38.24 2.66
3680 3724 7.399191 ACAATGATGTACTCCCTCTGTAAACTA 59.601 37.037 0.00 0.00 38.24 2.24
3681 3725 7.973048 ATGATGTACTCCCTCTGTAAACTAA 57.027 36.000 0.00 0.00 0.00 2.24
3682 3726 7.973048 TGATGTACTCCCTCTGTAAACTAAT 57.027 36.000 0.00 0.00 0.00 1.73
3683 3727 9.656323 ATGATGTACTCCCTCTGTAAACTAATA 57.344 33.333 0.00 0.00 0.00 0.98
3684 3728 9.656323 TGATGTACTCCCTCTGTAAACTAATAT 57.344 33.333 0.00 0.00 0.00 1.28
3690 3734 8.862085 ACTCCCTCTGTAAACTAATATAAGAGC 58.138 37.037 0.00 0.00 0.00 4.09
3691 3735 7.883217 TCCCTCTGTAAACTAATATAAGAGCG 58.117 38.462 0.00 0.00 0.00 5.03
3692 3736 7.504911 TCCCTCTGTAAACTAATATAAGAGCGT 59.495 37.037 0.00 0.00 0.00 5.07
3693 3737 8.142551 CCCTCTGTAAACTAATATAAGAGCGTT 58.857 37.037 0.00 0.00 0.00 4.84
3694 3738 9.530633 CCTCTGTAAACTAATATAAGAGCGTTT 57.469 33.333 0.00 0.00 0.00 3.60
3711 3755 9.654663 AAGAGCGTTTAGATCACTAAATTAGTT 57.345 29.630 2.41 0.00 46.01 2.24
3743 3787 8.571461 AAACGCTCTTATATTAGTTTACGGAG 57.429 34.615 0.00 0.00 31.14 4.63
3744 3788 6.675987 ACGCTCTTATATTAGTTTACGGAGG 58.324 40.000 0.00 0.00 0.00 4.30
3745 3789 6.091437 CGCTCTTATATTAGTTTACGGAGGG 58.909 44.000 0.00 0.00 0.00 4.30
3746 3790 6.072286 CGCTCTTATATTAGTTTACGGAGGGA 60.072 42.308 0.00 0.00 34.63 4.20
3747 3791 7.314393 GCTCTTATATTAGTTTACGGAGGGAG 58.686 42.308 0.00 0.00 0.00 4.30
3748 3792 7.039853 GCTCTTATATTAGTTTACGGAGGGAGT 60.040 40.741 0.00 0.00 0.00 3.85
3749 3793 9.512588 CTCTTATATTAGTTTACGGAGGGAGTA 57.487 37.037 0.00 0.00 0.00 2.59
3750 3794 9.289782 TCTTATATTAGTTTACGGAGGGAGTAC 57.710 37.037 0.00 0.00 0.00 2.73
3761 3805 4.960469 ACGGAGGGAGTACAAGATAAATGA 59.040 41.667 0.00 0.00 0.00 2.57
3766 3810 7.659390 GGAGGGAGTACAAGATAAATGAGATTG 59.341 40.741 0.00 0.00 0.00 2.67
3767 3811 6.995091 AGGGAGTACAAGATAAATGAGATTGC 59.005 38.462 0.00 0.00 0.00 3.56
3768 3812 6.205658 GGGAGTACAAGATAAATGAGATTGCC 59.794 42.308 0.00 0.00 0.00 4.52
3778 3822 7.778853 AGATAAATGAGATTGCCAAGTGAAGAT 59.221 33.333 0.00 0.00 0.00 2.40
3791 3835 7.178983 TGCCAAGTGAAGATTAAAAGGATCAAT 59.821 33.333 0.00 0.00 0.00 2.57
3878 3923 3.321497 TGCTGACAAACCAAACAAACAC 58.679 40.909 0.00 0.00 0.00 3.32
3893 3938 7.118390 CCAAACAAACACATACAAAAGGTCAAA 59.882 33.333 0.00 0.00 0.00 2.69
3941 3986 2.320681 ACTTCTACACCCCTAGCACA 57.679 50.000 0.00 0.00 0.00 4.57
3992 4037 3.954258 GGTTAATGAAGATGAAGGTGGGG 59.046 47.826 0.00 0.00 0.00 4.96
4259 4304 6.238648 ACTTTTCCAGGGTGTTTCATAGTAG 58.761 40.000 0.00 0.00 0.00 2.57
4308 4435 9.739276 AAAACCAGTTTCTCTATGATATGAACA 57.261 29.630 0.00 0.00 31.45 3.18
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
11 12 5.819379 GGATGCTTTTCTCTGTCATGTATGA 59.181 40.000 0.00 0.00 0.00 2.15
19 20 7.875041 TGCTATATTAGGATGCTTTTCTCTGTC 59.125 37.037 0.00 0.00 0.00 3.51
161 172 7.437713 AATGACATGAGTACAGGATTCCTAA 57.562 36.000 4.51 0.00 29.64 2.69
197 208 7.094805 TGACCATGAGCAACTAAAAAGATGTAC 60.095 37.037 0.00 0.00 0.00 2.90
438 470 3.818387 CTCGTACTCTACTTGCGACAAA 58.182 45.455 0.00 0.00 0.00 2.83
654 686 1.672881 GCCAAGAGGAATCACAATCCG 59.327 52.381 0.00 0.00 42.03 4.18
785 817 9.636965 CGTCAATATAACATCAACACAATGTAG 57.363 33.333 0.00 0.00 36.35 2.74
809 842 3.247648 CGAAAATTCTGTTCTGGACACGT 59.752 43.478 0.00 0.00 33.82 4.49
875 908 3.308866 AGCGTTGCTTTTTATAGCCGTAG 59.691 43.478 0.00 0.00 40.49 3.51
1035 1071 2.021208 GCAAATTCTGCCTCCTCCTCC 61.021 57.143 2.35 0.00 46.13 4.30
1036 1072 1.387539 GCAAATTCTGCCTCCTCCTC 58.612 55.000 2.35 0.00 46.13 3.71
1037 1073 3.584947 GCAAATTCTGCCTCCTCCT 57.415 52.632 2.35 0.00 46.13 3.69
1167 1203 4.624364 CCCAGCACCGCACTCACA 62.624 66.667 0.00 0.00 0.00 3.58
1366 1402 0.980231 AGGGTGGAGCAGGAGATGAC 60.980 60.000 0.00 0.00 0.00 3.06
1430 1466 3.361977 GGAAATGGCCGTGTGCGT 61.362 61.111 0.00 0.00 42.61 5.24
1432 1468 2.258286 GTGGAAATGGCCGTGTGC 59.742 61.111 0.00 0.00 40.16 4.57
1434 1470 1.603455 CTGGTGGAAATGGCCGTGT 60.603 57.895 0.00 0.00 0.00 4.49
1512 1548 2.792599 GTCTCGGTCATCGCGAGT 59.207 61.111 16.66 0.00 39.05 4.18
1602 1638 2.654877 GTGACGAGGCCGAGGAAA 59.345 61.111 0.00 0.00 39.50 3.13
1668 1707 2.568623 AATGGTGGTGACTCTTGGTC 57.431 50.000 0.00 0.00 44.70 4.02
1676 1715 2.795329 AGACATGGAAATGGTGGTGAC 58.205 47.619 0.00 0.00 0.00 3.67
2035 2075 5.182001 GCTTATATGCCTTCAATCCGAACAT 59.818 40.000 0.00 0.00 0.00 2.71
2073 2113 0.098905 CGAGACTCGCGGAGAAATCA 59.901 55.000 12.67 0.00 31.14 2.57
2145 2185 6.268847 ACAGGATGAAGGAGGTAATGATAGAC 59.731 42.308 0.00 0.00 39.69 2.59
2270 2310 4.104102 AGGAACCATGGTAAAGTTCAGACA 59.896 41.667 20.12 0.00 41.32 3.41
2292 2332 7.816513 TGAAGACTGAAACATCTGATCAAGTAG 59.183 37.037 0.00 0.00 0.00 2.57
2318 2358 1.603802 CAAACATGGTCAGCGAAGTGT 59.396 47.619 0.00 0.00 0.00 3.55
2463 2503 1.065418 GCTGGTATGTTGGTACTGCCT 60.065 52.381 0.00 0.00 38.35 4.75
2467 2507 1.563924 TCGGCTGGTATGTTGGTACT 58.436 50.000 0.00 0.00 0.00 2.73
2520 2560 1.248101 TGTTCCTCCGACGCTCATCA 61.248 55.000 0.00 0.00 0.00 3.07
2532 2572 5.230942 TCGTTCAGAAAGATCTTGTTCCTC 58.769 41.667 9.17 2.19 32.03 3.71
2567 2607 0.108138 GCCAGCAACCGAGACATAGT 60.108 55.000 0.00 0.00 0.00 2.12
2596 2636 3.921767 TTGCTGAGACGGCTGCGAG 62.922 63.158 0.00 0.00 36.58 5.03
3009 3049 2.608261 CGAGAATACCGATCCAGCTTCC 60.608 54.545 0.00 0.00 0.00 3.46
3033 3073 3.012119 TATGCGGTGGCCAAGGGA 61.012 61.111 7.24 3.38 38.85 4.20
3145 3185 2.478989 CTGCTGACAGGCAATCCAG 58.521 57.895 4.26 0.00 41.94 3.86
3320 3360 2.839486 TGCTACTACAACTGCAAGCT 57.161 45.000 4.55 0.00 37.60 3.74
3385 3425 6.528072 GGCTCGATTTGGAAAATTGAAAGTAG 59.472 38.462 4.62 0.00 0.00 2.57
3446 3486 0.606604 GGAAGTCCGCACTACCTTCA 59.393 55.000 0.00 0.00 36.00 3.02
3447 3487 0.896226 AGGAAGTCCGCACTACCTTC 59.104 55.000 0.00 0.00 42.08 3.46
3451 3491 0.459078 GGGTAGGAAGTCCGCACTAC 59.541 60.000 0.00 0.00 42.08 2.73
3454 3494 0.035739 TTTGGGTAGGAAGTCCGCAC 59.964 55.000 0.00 0.00 42.08 5.34
3482 3526 6.204108 TCAGTACTCGTCTATATCATTGCGAA 59.796 38.462 0.00 0.00 0.00 4.70
3485 3529 6.669278 TGTCAGTACTCGTCTATATCATTGC 58.331 40.000 0.00 0.00 0.00 3.56
3487 3531 8.678593 TTCTGTCAGTACTCGTCTATATCATT 57.321 34.615 0.00 0.00 0.00 2.57
3494 3538 5.183331 AGCAATTTCTGTCAGTACTCGTCTA 59.817 40.000 0.00 0.00 0.00 2.59
3499 3543 5.931441 ACAAGCAATTTCTGTCAGTACTC 57.069 39.130 0.00 0.00 0.00 2.59
3547 3591 4.941263 TGTAGCTGTGCCCTAAATAACTTG 59.059 41.667 0.00 0.00 0.00 3.16
3559 3603 1.522668 TTCACATGTGTAGCTGTGCC 58.477 50.000 24.63 0.00 41.96 5.01
3606 3650 7.951591 ACACTTGAAAAATATTTACACAGGCT 58.048 30.769 0.01 0.00 0.00 4.58
3626 3670 3.895232 ATAATGCTCCGACAGACACTT 57.105 42.857 0.00 0.00 0.00 3.16
3636 3680 6.092092 TCATTGTTGTTTCAATAATGCTCCG 58.908 36.000 19.51 4.52 36.44 4.63
3655 3699 6.644347 AGTTTACAGAGGGAGTACATCATTG 58.356 40.000 0.00 0.00 0.00 2.82
3656 3700 6.875972 AGTTTACAGAGGGAGTACATCATT 57.124 37.500 0.00 0.00 0.00 2.57
3666 3710 7.504911 ACGCTCTTATATTAGTTTACAGAGGGA 59.495 37.037 14.96 0.00 40.49 4.20
3667 3711 7.659186 ACGCTCTTATATTAGTTTACAGAGGG 58.341 38.462 8.36 8.36 42.53 4.30
3668 3712 9.530633 AAACGCTCTTATATTAGTTTACAGAGG 57.469 33.333 0.00 0.00 31.14 3.69
3685 3729 9.654663 AACTAATTTAGTGATCTAAACGCTCTT 57.345 29.630 9.78 0.00 45.19 2.85
3717 3761 9.669353 CTCCGTAAACTAATATAAGAGCGTTTA 57.331 33.333 0.00 0.00 0.00 2.01
3718 3762 7.650903 CCTCCGTAAACTAATATAAGAGCGTTT 59.349 37.037 0.00 0.00 0.00 3.60
3719 3763 7.144000 CCTCCGTAAACTAATATAAGAGCGTT 58.856 38.462 0.00 0.00 0.00 4.84
3720 3764 6.294397 CCCTCCGTAAACTAATATAAGAGCGT 60.294 42.308 0.00 0.00 0.00 5.07
3721 3765 6.072286 TCCCTCCGTAAACTAATATAAGAGCG 60.072 42.308 0.00 0.00 0.00 5.03
3722 3766 7.039853 ACTCCCTCCGTAAACTAATATAAGAGC 60.040 40.741 0.00 0.00 0.00 4.09
3723 3767 8.406730 ACTCCCTCCGTAAACTAATATAAGAG 57.593 38.462 0.00 0.00 0.00 2.85
3724 3768 9.289782 GTACTCCCTCCGTAAACTAATATAAGA 57.710 37.037 0.00 0.00 0.00 2.10
3725 3769 9.071276 TGTACTCCCTCCGTAAACTAATATAAG 57.929 37.037 0.00 0.00 0.00 1.73
3726 3770 8.995027 TGTACTCCCTCCGTAAACTAATATAA 57.005 34.615 0.00 0.00 0.00 0.98
3727 3771 8.995027 TTGTACTCCCTCCGTAAACTAATATA 57.005 34.615 0.00 0.00 0.00 0.86
3728 3772 7.781693 TCTTGTACTCCCTCCGTAAACTAATAT 59.218 37.037 0.00 0.00 0.00 1.28
3729 3773 7.118723 TCTTGTACTCCCTCCGTAAACTAATA 58.881 38.462 0.00 0.00 0.00 0.98
3730 3774 5.954150 TCTTGTACTCCCTCCGTAAACTAAT 59.046 40.000 0.00 0.00 0.00 1.73
3731 3775 5.324409 TCTTGTACTCCCTCCGTAAACTAA 58.676 41.667 0.00 0.00 0.00 2.24
3732 3776 4.922206 TCTTGTACTCCCTCCGTAAACTA 58.078 43.478 0.00 0.00 0.00 2.24
3733 3777 3.771216 TCTTGTACTCCCTCCGTAAACT 58.229 45.455 0.00 0.00 0.00 2.66
3734 3778 4.732672 ATCTTGTACTCCCTCCGTAAAC 57.267 45.455 0.00 0.00 0.00 2.01
3735 3779 6.855763 TTTATCTTGTACTCCCTCCGTAAA 57.144 37.500 0.00 0.00 0.00 2.01
3736 3780 6.608405 TCATTTATCTTGTACTCCCTCCGTAA 59.392 38.462 0.00 0.00 0.00 3.18
3737 3781 6.131264 TCATTTATCTTGTACTCCCTCCGTA 58.869 40.000 0.00 0.00 0.00 4.02
3738 3782 4.960469 TCATTTATCTTGTACTCCCTCCGT 59.040 41.667 0.00 0.00 0.00 4.69
3739 3783 5.302059 TCTCATTTATCTTGTACTCCCTCCG 59.698 44.000 0.00 0.00 0.00 4.63
3740 3784 6.732896 TCTCATTTATCTTGTACTCCCTCC 57.267 41.667 0.00 0.00 0.00 4.30
3741 3785 7.172361 GCAATCTCATTTATCTTGTACTCCCTC 59.828 40.741 0.00 0.00 0.00 4.30
3742 3786 6.995091 GCAATCTCATTTATCTTGTACTCCCT 59.005 38.462 0.00 0.00 0.00 4.20
3743 3787 6.205658 GGCAATCTCATTTATCTTGTACTCCC 59.794 42.308 0.00 0.00 0.00 4.30
3744 3788 6.767902 TGGCAATCTCATTTATCTTGTACTCC 59.232 38.462 0.00 0.00 0.00 3.85
3745 3789 7.792374 TGGCAATCTCATTTATCTTGTACTC 57.208 36.000 0.00 0.00 0.00 2.59
3746 3790 7.831193 ACTTGGCAATCTCATTTATCTTGTACT 59.169 33.333 0.00 0.00 0.00 2.73
3747 3791 7.912250 CACTTGGCAATCTCATTTATCTTGTAC 59.088 37.037 0.00 0.00 0.00 2.90
3748 3792 7.828717 TCACTTGGCAATCTCATTTATCTTGTA 59.171 33.333 0.00 0.00 0.00 2.41
3749 3793 6.660521 TCACTTGGCAATCTCATTTATCTTGT 59.339 34.615 0.00 0.00 0.00 3.16
3750 3794 7.092137 TCACTTGGCAATCTCATTTATCTTG 57.908 36.000 0.00 0.00 0.00 3.02
3761 3805 6.721208 TCCTTTTAATCTTCACTTGGCAATCT 59.279 34.615 0.00 0.00 0.00 2.40
3766 3810 6.515272 TGATCCTTTTAATCTTCACTTGGC 57.485 37.500 0.00 0.00 0.00 4.52
3893 3938 4.881273 TCGCTGGCAAAATGAATACTATGT 59.119 37.500 0.00 0.00 0.00 2.29
3941 3986 9.857656 AATCATTATGGTTATGTGATGAGAACT 57.142 29.630 0.00 0.00 30.52 3.01
4283 4410 9.739276 TTGTTCATATCATAGAGAAACTGGTTT 57.261 29.630 0.00 0.00 35.14 3.27
4284 4411 9.739276 TTTGTTCATATCATAGAGAAACTGGTT 57.261 29.630 0.00 0.00 0.00 3.67
4285 4412 9.739276 TTTTGTTCATATCATAGAGAAACTGGT 57.261 29.630 0.00 0.00 0.00 4.00
4403 4531 2.987149 CACCTAGTGTACTGTTTGAGCG 59.013 50.000 0.00 0.00 0.00 5.03
4444 4572 3.558418 GGACAACTCGCTGAAACTTTGTA 59.442 43.478 0.00 0.00 0.00 2.41


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

AutoCloner maintained by Alex Coulton.