Multiple sequence alignment - TraesCS4B01G189300

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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 TraesCS4B01G189300 chr4B 100.000 4074 0 0 1 4074 411795566 411791493 0.000000e+00 7524.0
1 TraesCS4B01G189300 chr4B 80.586 546 79 14 167 690 371597696 371597156 2.950000e-106 396.0
2 TraesCS4B01G189300 chr4A 92.525 2194 110 15 1898 4072 139714783 139716941 0.000000e+00 3094.0
3 TraesCS4B01G189300 chr4A 93.443 1159 51 8 749 1882 139713558 139714716 0.000000e+00 1696.0
4 TraesCS4B01G189300 chr4A 90.620 661 50 6 1 650 139639837 139640496 0.000000e+00 867.0
5 TraesCS4B01G189300 chr4A 83.111 225 33 4 2 226 216476124 216476343 2.480000e-47 200.0
6 TraesCS4B01G189300 chr4D 97.002 1668 48 2 1898 3564 333876645 333874979 0.000000e+00 2802.0
7 TraesCS4B01G189300 chr4D 92.998 1471 80 11 317 1787 333878286 333876839 0.000000e+00 2124.0
8 TraesCS4B01G189300 chr4D 93.667 600 31 6 3479 4074 333874984 333874388 0.000000e+00 891.0
9 TraesCS4B01G189300 chr4D 81.536 547 77 11 169 694 299307117 299306574 2.910000e-116 429.0
10 TraesCS4B01G189300 chr4D 92.308 143 11 0 180 322 333882998 333882856 1.920000e-48 204.0
11 TraesCS4B01G189300 chr4D 96.471 85 3 0 1789 1873 333876811 333876727 1.530000e-29 141.0
12 TraesCS4B01G189300 chr4D 93.846 65 3 1 693 756 368404554 368404490 3.350000e-16 97.1
13 TraesCS4B01G189300 chr4D 100.000 33 0 0 693 725 368404924 368404892 1.220000e-05 62.1
14 TraesCS4B01G189300 chr2D 78.897 725 111 28 3 691 194821774 194821056 1.730000e-123 453.0
15 TraesCS4B01G189300 chr7B 80.399 551 80 19 167 695 143204549 143204005 1.060000e-105 394.0
16 TraesCS4B01G189300 chr5D 81.818 451 78 4 245 695 219876128 219875682 3.840000e-100 375.0
17 TraesCS4B01G189300 chr6B 79.783 554 79 16 167 696 201184955 201185499 4.970000e-99 372.0
18 TraesCS4B01G189300 chr5A 83.333 402 59 8 297 694 631078111 631078508 8.320000e-97 364.0
19 TraesCS4B01G189300 chr5A 84.071 226 27 6 2 226 677625929 677625712 4.130000e-50 209.0
20 TraesCS4B01G189300 chr5B 76.800 500 108 7 3578 4072 214857337 214856841 1.440000e-69 274.0
21 TraesCS4B01G189300 chrUn 76.000 500 111 8 3578 4072 115412840 115413335 2.430000e-62 250.0
22 TraesCS4B01G189300 chr1D 83.817 241 34 4 5 241 257035622 257035861 1.470000e-54 224.0
23 TraesCS4B01G189300 chr1A 77.616 344 68 7 3734 4072 329593275 329592936 2.480000e-47 200.0
24 TraesCS4B01G189300 chr7D 82.667 225 34 3 2 226 525469434 525469215 1.160000e-45 195.0
25 TraesCS4B01G189300 chr7D 74.811 397 77 12 3602 3994 449541578 449541201 1.520000e-34 158.0
26 TraesCS4B01G189300 chr2A 81.858 226 38 3 4 226 721155794 721155569 1.930000e-43 187.0
27 TraesCS4B01G189300 chr2A 100.000 32 0 0 694 725 639039580 639039611 4.400000e-05 60.2
28 TraesCS4B01G189300 chr3A 82.192 219 34 4 1 215 639194236 639194019 2.500000e-42 183.0
29 TraesCS4B01G189300 chr3A 92.063 63 5 0 694 756 67258063 67258125 5.610000e-14 89.8
30 TraesCS4B01G189300 chr2B 81.532 222 40 1 4 225 671632566 671632346 9.000000e-42 182.0
31 TraesCS4B01G189300 chr3B 81.250 224 40 2 4 226 315749500 315749278 3.240000e-41 180.0
32 TraesCS4B01G189300 chr1B 76.093 343 71 7 3735 4072 356564854 356565190 7.000000e-38 169.0


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS4B01G189300 chr4B 411791493 411795566 4073 True 7524.0 7524 100.0000 1 4074 1 chr4B.!!$R2 4073
1 TraesCS4B01G189300 chr4B 371597156 371597696 540 True 396.0 396 80.5860 167 690 1 chr4B.!!$R1 523
2 TraesCS4B01G189300 chr4A 139713558 139716941 3383 False 2395.0 3094 92.9840 749 4072 2 chr4A.!!$F3 3323
3 TraesCS4B01G189300 chr4A 139639837 139640496 659 False 867.0 867 90.6200 1 650 1 chr4A.!!$F1 649
4 TraesCS4B01G189300 chr4D 333874388 333878286 3898 True 1489.5 2802 95.0345 317 4074 4 chr4D.!!$R3 3757
5 TraesCS4B01G189300 chr4D 299306574 299307117 543 True 429.0 429 81.5360 169 694 1 chr4D.!!$R1 525
6 TraesCS4B01G189300 chr2D 194821056 194821774 718 True 453.0 453 78.8970 3 691 1 chr2D.!!$R1 688
7 TraesCS4B01G189300 chr7B 143204005 143204549 544 True 394.0 394 80.3990 167 695 1 chr7B.!!$R1 528
8 TraesCS4B01G189300 chr6B 201184955 201185499 544 False 372.0 372 79.7830 167 696 1 chr6B.!!$F1 529

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
998 1041 0.179045 GCACTGTTCCACTGGTGAGT 60.179 55.0 1.93 0.0 32.12 3.41 F
1357 1416 0.249114 GTCTTCGATCCGGGCTTCTC 60.249 60.0 0.00 0.0 0.00 2.87 F
2344 2490 0.743701 ATGAGCTTCTGCCTTCTGCG 60.744 55.0 0.00 0.0 45.60 5.18 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2986 3133 0.744874 CAAGGAAGGCCATGCTGATG 59.255 55.0 5.01 0.0 36.29 3.07 R
3022 3169 1.234615 CCGAAACCGTGGCTGACAAT 61.235 55.0 0.00 0.0 0.00 2.71 R
3393 3543 1.613317 CCGGGAGTGTGCCATGTAGA 61.613 60.0 0.00 0.0 0.00 2.59 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
113 116 4.754618 ACAAGCACACACGAGAATATTCAA 59.245 37.500 17.56 0.00 0.00 2.69
162 165 4.202050 GCGCCAGAAAAAGGTCATGATATT 60.202 41.667 0.00 0.00 0.00 1.28
163 166 5.276270 CGCCAGAAAAAGGTCATGATATTG 58.724 41.667 0.00 0.00 0.00 1.90
164 167 5.066375 CGCCAGAAAAAGGTCATGATATTGA 59.934 40.000 0.00 0.00 0.00 2.57
165 168 6.238842 CGCCAGAAAAAGGTCATGATATTGAT 60.239 38.462 0.00 0.00 0.00 2.57
236 250 9.032420 CGAGGAGTTAAAGGTAAGATTTGTATC 57.968 37.037 0.00 0.00 0.00 2.24
476 516 7.045725 ACATACTTTTCGTACTTGAATCACG 57.954 36.000 0.00 0.00 37.03 4.35
481 521 5.721876 TTTCGTACTTGAATCACGTGTTT 57.278 34.783 16.51 13.88 37.02 2.83
496 536 9.528018 AATCACGTGTTTTTATGATTGAAACTT 57.472 25.926 16.51 0.00 35.04 2.66
584 625 8.920665 CAAAATTCATTTACTTCCATACGCAAA 58.079 29.630 0.00 0.00 0.00 3.68
606 647 6.772360 AAAACCCCTTTACTCGTGTTTAAA 57.228 33.333 0.00 0.00 0.00 1.52
617 658 5.633927 ACTCGTGTTTAAACTTTTGTCACC 58.366 37.500 18.72 0.00 0.00 4.02
629 671 2.063015 TTGTCACCCTCGCAACCCAT 62.063 55.000 0.00 0.00 0.00 4.00
650 692 6.638063 CCCATTATAAGCAAATCATGAACGTG 59.362 38.462 0.00 0.00 0.00 4.49
663 705 0.592247 GAACGTGTTGCAACAGCCTG 60.592 55.000 31.81 22.29 40.05 4.85
665 707 2.028043 GTGTTGCAACAGCCTGCC 59.972 61.111 31.81 15.56 41.90 4.85
669 711 4.560743 TGCAACAGCCTGCCGTGA 62.561 61.111 0.00 0.00 41.90 4.35
670 712 3.286751 GCAACAGCCTGCCGTGAA 61.287 61.111 0.00 0.00 36.25 3.18
712 754 4.274214 CGGCACAACTCATATCAATCACAT 59.726 41.667 0.00 0.00 0.00 3.21
720 762 8.501580 CAACTCATATCAATCACATCATACCAC 58.498 37.037 0.00 0.00 0.00 4.16
729 771 6.959639 ATCACATCATACCACAATTAACCC 57.040 37.500 0.00 0.00 0.00 4.11
733 775 6.018262 CACATCATACCACAATTAACCCGTAG 60.018 42.308 0.00 0.00 0.00 3.51
773 815 0.762842 ACTACACTCCACCTGGCACA 60.763 55.000 0.00 0.00 34.44 4.57
777 819 0.957395 CACTCCACCTGGCACATGAC 60.957 60.000 0.00 0.00 38.20 3.06
778 820 1.376086 CTCCACCTGGCACATGACA 59.624 57.895 0.00 0.00 38.20 3.58
871 913 1.618837 TCAAGAGGTGAAGAGGTTCGG 59.381 52.381 0.00 0.00 35.17 4.30
998 1041 0.179045 GCACTGTTCCACTGGTGAGT 60.179 55.000 1.93 0.00 32.12 3.41
1350 1409 2.107141 GGCTGGTCTTCGATCCGG 59.893 66.667 0.00 0.00 0.00 5.14
1357 1416 0.249114 GTCTTCGATCCGGGCTTCTC 60.249 60.000 0.00 0.00 0.00 2.87
1377 1436 2.485426 TCAAGCTTCTTACATGTGCTGC 59.515 45.455 9.11 5.87 33.96 5.25
1378 1437 1.457346 AGCTTCTTACATGTGCTGCC 58.543 50.000 9.11 0.00 32.32 4.85
1389 1448 0.890542 TGTGCTGCCTTGTTGCTAGG 60.891 55.000 0.00 0.00 35.80 3.02
1398 1457 2.622436 CTTGTTGCTAGGTACCTGCTC 58.378 52.381 25.33 19.46 0.00 4.26
1431 1490 2.278923 GCCTTCGCCTACTCGCTC 60.279 66.667 0.00 0.00 0.00 5.03
1571 1633 7.337689 AGTTTGCAGCTGTTATCATCATTTCTA 59.662 33.333 16.64 0.00 0.00 2.10
1625 1687 5.416639 TGAATCTCTCAATTGGACCAATGTG 59.583 40.000 20.50 18.27 34.04 3.21
1647 1709 2.273776 GCTCAGGGAGGGGAAAGC 59.726 66.667 0.00 0.00 0.00 3.51
1787 1850 6.821616 AAAGGAGACATCAATCCACTAGAT 57.178 37.500 0.00 0.00 38.12 1.98
1800 1889 6.753913 ATCCACTAGATTCCAAATGAGCTA 57.246 37.500 0.00 0.00 0.00 3.32
1827 1916 5.615289 GCTCAATACACTGATACCCTGATT 58.385 41.667 0.00 0.00 0.00 2.57
1829 1918 6.686378 GCTCAATACACTGATACCCTGATTGA 60.686 42.308 0.00 0.00 32.67 2.57
1882 1977 3.148412 GGGGGCGTCTTTTAACTGTTAA 58.852 45.455 8.84 8.84 0.00 2.01
1885 1980 4.516321 GGGGCGTCTTTTAACTGTTAAAGA 59.484 41.667 21.02 17.70 36.56 2.52
1886 1981 5.182570 GGGGCGTCTTTTAACTGTTAAAGAT 59.817 40.000 21.02 0.00 36.56 2.40
1887 1982 6.294342 GGGGCGTCTTTTAACTGTTAAAGATT 60.294 38.462 21.02 0.00 36.56 2.40
1889 1984 6.581166 GGCGTCTTTTAACTGTTAAAGATTGG 59.419 38.462 21.02 13.68 36.56 3.16
1890 1985 6.087687 GCGTCTTTTAACTGTTAAAGATTGGC 59.912 38.462 21.02 17.81 36.56 4.52
1891 1986 7.136119 CGTCTTTTAACTGTTAAAGATTGGCA 58.864 34.615 21.02 8.03 36.56 4.92
1892 1987 7.646130 CGTCTTTTAACTGTTAAAGATTGGCAA 59.354 33.333 21.02 0.68 36.56 4.52
1893 1988 8.752254 GTCTTTTAACTGTTAAAGATTGGCAAC 58.248 33.333 21.02 10.78 36.56 4.17
1894 1989 7.923878 TCTTTTAACTGTTAAAGATTGGCAACC 59.076 33.333 21.02 0.00 36.56 3.77
1896 1991 3.571590 ACTGTTAAAGATTGGCAACCCA 58.428 40.909 0.00 0.00 40.06 4.51
1914 2060 5.993748 ACCCAACAAATTACAACCCATAG 57.006 39.130 0.00 0.00 0.00 2.23
2033 2179 2.905075 TCTCTGATAATGTTGTGGCGG 58.095 47.619 0.00 0.00 0.00 6.13
2049 2195 1.103398 GCGGTGGAATGGGGAGATTG 61.103 60.000 0.00 0.00 0.00 2.67
2107 2253 5.639506 GCTATTAGAAGTTGCTCTGTGTTCA 59.360 40.000 0.00 0.00 0.00 3.18
2129 2275 6.798482 TCAATGTATGTTCTCAATCATTGGC 58.202 36.000 18.16 0.00 42.06 4.52
2320 2466 7.368059 GTGCTGTTGCTACTTAATTAAGGTTT 58.632 34.615 25.25 10.31 40.48 3.27
2322 2468 8.079809 TGCTGTTGCTACTTAATTAAGGTTTTC 58.920 33.333 25.25 13.17 40.48 2.29
2344 2490 0.743701 ATGAGCTTCTGCCTTCTGCG 60.744 55.000 0.00 0.00 45.60 5.18
2580 2726 5.048782 TGCAGTCCATGAAATTCTTACACAC 60.049 40.000 0.00 0.00 0.00 3.82
2600 2746 2.684881 ACGCATGCTTAAGGAAATCAGG 59.315 45.455 17.13 0.00 0.00 3.86
2642 2788 9.419297 GTTTTCCATGTTAACCCTTAGATTTTC 57.581 33.333 2.48 0.00 0.00 2.29
2687 2833 9.396022 CTGTTGTGGTTATATTTTATCTCAGGT 57.604 33.333 0.00 0.00 0.00 4.00
2710 2856 0.955178 TGTTTTGTGCCATGGTACCG 59.045 50.000 27.61 0.00 0.00 4.02
2805 2951 4.504097 GCCTGTCAATTGTTGTGTTTCTTC 59.496 41.667 5.13 0.00 0.00 2.87
2814 2961 5.776519 TGTTGTGTTTCTTCAAAACATGC 57.223 34.783 6.62 2.28 39.63 4.06
2832 2979 8.674263 AAACATGCCAGTCAAAATTTCATAAA 57.326 26.923 0.00 0.00 0.00 1.40
2873 3020 5.122396 CCTGCTAATAGAAACTGGTGAACAC 59.878 44.000 0.00 0.00 0.00 3.32
2885 3032 1.463444 GGTGAACACATTCGCAGGTAC 59.537 52.381 7.25 0.00 45.54 3.34
2971 3118 4.214971 GCTGTGATCAACAACTTCACTGAT 59.785 41.667 0.00 0.00 39.99 2.90
3022 3169 2.650196 GCATTTGTTGCCCTCGCA 59.350 55.556 0.00 0.00 46.15 5.10
3157 3304 1.734655 ATGTGTGGTGTCCCTCTTCT 58.265 50.000 0.00 0.00 0.00 2.85
3168 3315 1.066858 TCCCTCTTCTGCACGAATGTC 60.067 52.381 0.00 0.00 0.00 3.06
3548 3698 3.595190 TGCCATCTCAGCCTAGTACTA 57.405 47.619 1.89 1.89 0.00 1.82
3549 3699 3.223435 TGCCATCTCAGCCTAGTACTAC 58.777 50.000 0.00 0.00 0.00 2.73
3590 3819 2.827642 GCACTGCCATCTCAGCCC 60.828 66.667 0.00 0.00 37.59 5.19
3612 3842 1.265905 GTACTTGTTGTGGGAAAGGCG 59.734 52.381 0.00 0.00 0.00 5.52
3689 3928 7.829211 GGATATATGCTCTTATGGCCAGTTTTA 59.171 37.037 13.05 0.00 0.00 1.52
3699 3938 7.396055 TCTTATGGCCAGTTTTATTACTGCTTT 59.604 33.333 13.05 0.00 43.31 3.51
3811 4054 2.212869 TGCGTACGGGTATGATTGAC 57.787 50.000 18.39 0.00 0.00 3.18
3813 4056 1.534595 GCGTACGGGTATGATTGACGT 60.535 52.381 18.39 0.00 41.10 4.34
3815 4058 2.223317 CGTACGGGTATGATTGACGTGA 60.223 50.000 7.57 0.00 38.34 4.35
3958 4204 9.905713 AGGACGGTATGCAATCATATTATTAAT 57.094 29.630 0.00 0.00 37.49 1.40
3971 4217 9.793259 ATCATATTATTAATTCGGTCAACCTGT 57.207 29.630 0.00 0.00 0.00 4.00
4007 4253 0.248289 GGAGGATGGAAAACGGTCGA 59.752 55.000 0.00 0.00 0.00 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
78 80 4.155826 GTGTGTGCTTGTTGGCATTATCTA 59.844 41.667 0.00 0.00 44.34 1.98
85 87 1.713937 CTCGTGTGTGCTTGTTGGCA 61.714 55.000 0.00 0.00 40.15 4.92
96 99 4.000988 GTGGGTTGAATATTCTCGTGTGT 58.999 43.478 16.24 0.00 0.00 3.72
113 116 1.301954 GGGGAACAATAGCGTGGGT 59.698 57.895 0.00 0.00 0.00 4.51
162 165 5.390461 CGAAAAAGGCTACAAACGATCATCA 60.390 40.000 0.00 0.00 0.00 3.07
163 166 5.022021 CGAAAAAGGCTACAAACGATCATC 58.978 41.667 0.00 0.00 0.00 2.92
164 167 4.693566 TCGAAAAAGGCTACAAACGATCAT 59.306 37.500 0.00 0.00 0.00 2.45
165 168 4.059511 TCGAAAAAGGCTACAAACGATCA 58.940 39.130 0.00 0.00 0.00 2.92
236 250 4.654262 TGGTGGGCTTAGAGTTATAAGAGG 59.346 45.833 0.00 0.00 35.19 3.69
243 278 3.517612 AGAGTTGGTGGGCTTAGAGTTA 58.482 45.455 0.00 0.00 0.00 2.24
251 286 1.073897 GAGCAAGAGTTGGTGGGCT 59.926 57.895 0.00 0.00 42.23 5.19
254 289 1.625818 AGGTAGAGCAAGAGTTGGTGG 59.374 52.381 0.00 0.00 42.23 4.61
561 602 8.921670 GTTTTTGCGTATGGAAGTAAATGAATT 58.078 29.630 0.00 0.00 0.00 2.17
564 605 6.383415 GGTTTTTGCGTATGGAAGTAAATGA 58.617 36.000 0.00 0.00 0.00 2.57
584 625 5.887598 AGTTTAAACACGAGTAAAGGGGTTT 59.112 36.000 20.06 0.00 33.53 3.27
606 647 1.021968 GTTGCGAGGGTGACAAAAGT 58.978 50.000 0.00 0.00 0.00 2.66
617 658 2.571212 TGCTTATAATGGGTTGCGAGG 58.429 47.619 0.00 0.00 0.00 4.63
629 671 6.526325 GCAACACGTTCATGATTTGCTTATAA 59.474 34.615 14.42 0.00 37.08 0.98
650 692 3.595758 ACGGCAGGCTGTTGCAAC 61.596 61.111 22.83 22.83 45.86 4.17
663 705 2.730928 CACATGTGGAAATTTTCACGGC 59.269 45.455 21.85 2.26 36.74 5.68
665 707 3.182173 GCACACATGTGGAAATTTTCACG 59.818 43.478 28.64 12.66 45.72 4.35
669 711 2.134346 GCGCACACATGTGGAAATTTT 58.866 42.857 28.64 3.84 45.72 1.82
670 712 1.782044 GCGCACACATGTGGAAATTT 58.218 45.000 28.64 4.62 45.72 1.82
712 754 4.715792 TCCTACGGGTTAATTGTGGTATGA 59.284 41.667 0.00 0.00 0.00 2.15
720 762 7.868906 TTCCTTTTATCCTACGGGTTAATTG 57.131 36.000 0.00 0.00 29.87 2.32
729 771 9.032420 GTTTGAGTAGATTCCTTTTATCCTACG 57.968 37.037 0.00 0.00 0.00 3.51
733 775 9.886132 TGTAGTTTGAGTAGATTCCTTTTATCC 57.114 33.333 0.00 0.00 0.00 2.59
747 789 3.576982 CCAGGTGGAGTGTAGTTTGAGTA 59.423 47.826 0.00 0.00 37.39 2.59
748 790 2.368875 CCAGGTGGAGTGTAGTTTGAGT 59.631 50.000 0.00 0.00 37.39 3.41
749 791 2.872038 GCCAGGTGGAGTGTAGTTTGAG 60.872 54.545 0.00 0.00 37.39 3.02
773 815 2.293399 GAGGTTTCGGTGCTTTTGTCAT 59.707 45.455 0.00 0.00 0.00 3.06
777 819 1.676006 AGTGAGGTTTCGGTGCTTTTG 59.324 47.619 0.00 0.00 0.00 2.44
778 820 1.676006 CAGTGAGGTTTCGGTGCTTTT 59.324 47.619 0.00 0.00 0.00 2.27
871 913 3.547513 AGGACCGGGATTAGCCGC 61.548 66.667 6.32 0.00 37.63 6.53
998 1041 2.186644 CCGTGACCATCGCCATCA 59.813 61.111 0.00 0.00 0.00 3.07
1047 1090 2.359107 TCGGCTTCTGGCTGCTTG 60.359 61.111 0.00 0.00 46.32 4.01
1357 1416 2.415090 GGCAGCACATGTAAGAAGCTTG 60.415 50.000 2.10 3.43 32.35 4.01
1362 1421 2.862541 ACAAGGCAGCACATGTAAGAA 58.137 42.857 0.00 0.00 0.00 2.52
1371 1430 0.890996 ACCTAGCAACAAGGCAGCAC 60.891 55.000 0.00 0.00 37.67 4.40
1377 1436 1.279271 AGCAGGTACCTAGCAACAAGG 59.721 52.381 27.34 11.13 40.20 3.61
1378 1437 2.622436 GAGCAGGTACCTAGCAACAAG 58.378 52.381 27.34 11.73 0.00 3.16
1389 1448 3.025176 GCGATCGCGAGCAGGTAC 61.025 66.667 26.12 3.88 40.82 3.34
1571 1633 9.376075 CACATGAACTCTTATCAGATAACAAGT 57.624 33.333 0.00 3.72 0.00 3.16
1625 1687 4.106925 CCCCTCCCTGAGCAGCAC 62.107 72.222 0.00 0.00 0.00 4.40
1731 1794 2.321719 GGAATCTCTACTCCCCTGTCC 58.678 57.143 0.00 0.00 0.00 4.02
1800 1889 3.458189 GGTATCAGTGTATTGAGCGCTT 58.542 45.455 13.26 0.00 0.00 4.68
1827 1916 6.257849 GCCAATCGAAGAACAATACAGTATCA 59.742 38.462 0.00 0.00 43.58 2.15
1829 1918 6.349300 AGCCAATCGAAGAACAATACAGTAT 58.651 36.000 0.00 0.00 43.58 2.12
1882 1977 4.436113 AATTTGTTGGGTTGCCAATCTT 57.564 36.364 0.00 0.00 32.08 2.40
1885 1980 4.696479 TGTAATTTGTTGGGTTGCCAAT 57.304 36.364 0.00 0.00 32.08 3.16
1886 1981 4.192317 GTTGTAATTTGTTGGGTTGCCAA 58.808 39.130 0.00 0.00 0.00 4.52
1887 1982 3.432326 GGTTGTAATTTGTTGGGTTGCCA 60.432 43.478 0.00 0.00 0.00 4.92
1889 1984 3.135225 GGGTTGTAATTTGTTGGGTTGC 58.865 45.455 0.00 0.00 0.00 4.17
1890 1985 4.408182 TGGGTTGTAATTTGTTGGGTTG 57.592 40.909 0.00 0.00 0.00 3.77
1891 1986 5.279758 GCTATGGGTTGTAATTTGTTGGGTT 60.280 40.000 0.00 0.00 0.00 4.11
1892 1987 4.221924 GCTATGGGTTGTAATTTGTTGGGT 59.778 41.667 0.00 0.00 0.00 4.51
1893 1988 4.676723 CGCTATGGGTTGTAATTTGTTGGG 60.677 45.833 0.00 0.00 0.00 4.12
1894 1989 4.420168 CGCTATGGGTTGTAATTTGTTGG 58.580 43.478 0.00 0.00 0.00 3.77
1896 1991 3.119280 GGCGCTATGGGTTGTAATTTGTT 60.119 43.478 7.64 0.00 0.00 2.83
1914 2060 1.600413 CCACAAAGAAACAAGAGGCGC 60.600 52.381 0.00 0.00 0.00 6.53
1966 2112 7.633789 ACAGATTGAACTATTGGACCACTATT 58.366 34.615 0.00 0.00 0.00 1.73
1970 2116 6.260936 CCATACAGATTGAACTATTGGACCAC 59.739 42.308 0.00 0.00 0.00 4.16
2033 2179 1.566231 ACTCCAATCTCCCCATTCCAC 59.434 52.381 0.00 0.00 0.00 4.02
2049 2195 1.716028 AACCACTCCCCAACCACTCC 61.716 60.000 0.00 0.00 0.00 3.85
2100 2246 7.742556 TGATTGAGAACATACATTGAACACA 57.257 32.000 0.00 0.00 0.00 3.72
2107 2253 7.262772 CAAGCCAATGATTGAGAACATACATT 58.737 34.615 6.76 0.00 40.30 2.71
2129 2275 3.686726 ACTATTCCAAAGCTCGAAGCAAG 59.313 43.478 9.09 0.00 45.56 4.01
2320 2466 4.511527 CAGAAGGCAGAAGCTCATAAGAA 58.488 43.478 0.00 0.00 41.70 2.52
2322 2468 2.613133 GCAGAAGGCAGAAGCTCATAAG 59.387 50.000 0.00 0.00 43.97 1.73
2529 2675 7.872993 GCATTCTGACTAGCCACATTATTAGTA 59.127 37.037 0.00 0.00 0.00 1.82
2580 2726 2.684881 ACCTGATTTCCTTAAGCATGCG 59.315 45.455 13.01 0.00 30.59 4.73
2600 2746 4.938226 TGGAAAACATGTTTGGTCCAAAAC 59.062 37.500 29.88 12.96 36.85 2.43
2635 2781 6.263168 CAGTTTAGCCATTATCCGGAAAATCT 59.737 38.462 9.01 3.86 0.00 2.40
2642 2788 2.549754 CAGCAGTTTAGCCATTATCCGG 59.450 50.000 0.00 0.00 34.23 5.14
2710 2856 9.410556 ACTATTTTGTAATCTTGCATTCAACAC 57.589 29.630 0.00 0.00 0.00 3.32
2805 2951 6.360844 TGAAATTTTGACTGGCATGTTTTG 57.639 33.333 0.00 0.00 0.00 2.44
2832 2979 2.027837 GCAGGGGCAACAAATTTCATCT 60.028 45.455 0.00 0.00 40.72 2.90
2873 3020 1.787155 GTATGCGAGTACCTGCGAATG 59.213 52.381 4.78 0.00 0.00 2.67
2986 3133 0.744874 CAAGGAAGGCCATGCTGATG 59.255 55.000 5.01 0.00 36.29 3.07
3022 3169 1.234615 CCGAAACCGTGGCTGACAAT 61.235 55.000 0.00 0.00 0.00 2.71
3269 3419 3.007940 TCGGAGTCACAATGGAAGAACAT 59.992 43.478 0.00 0.00 0.00 2.71
3347 3497 6.043243 TCAGAGTTAAAGTTTGATCCTCAGGT 59.957 38.462 0.00 0.00 0.00 4.00
3393 3543 1.613317 CCGGGAGTGTGCCATGTAGA 61.613 60.000 0.00 0.00 0.00 2.59
3548 3698 2.351706 TTTACGCCTTTCCCACAAGT 57.648 45.000 0.00 0.00 0.00 3.16
3549 3699 3.574614 CAATTTACGCCTTTCCCACAAG 58.425 45.455 0.00 0.00 0.00 3.16
3590 3819 2.293399 GCCTTTCCCACAACAAGTACTG 59.707 50.000 0.00 0.00 0.00 2.74
3612 3842 3.253188 TGTCTCCTTGTGCAGCAATTTAC 59.747 43.478 0.00 0.00 36.36 2.01
3669 3908 7.013655 CAGTAATAAAACTGGCCATAAGAGCAT 59.986 37.037 5.51 0.00 42.63 3.79
3689 3928 6.963322 AGACCTTTGGAGATAAAGCAGTAAT 58.037 36.000 0.00 0.00 36.55 1.89
3699 3938 6.215431 TCTTTTCATGGAGACCTTTGGAGATA 59.785 38.462 0.00 0.00 0.00 1.98
3798 4041 4.238761 AGTATCACGTCAATCATACCCG 57.761 45.455 0.00 0.00 0.00 5.28
3811 4054 5.460419 GCCTTTGTCATCTCTTAGTATCACG 59.540 44.000 0.00 0.00 0.00 4.35
3813 4056 6.381133 TCTGCCTTTGTCATCTCTTAGTATCA 59.619 38.462 0.00 0.00 0.00 2.15
3815 4058 6.798427 TCTGCCTTTGTCATCTCTTAGTAT 57.202 37.500 0.00 0.00 0.00 2.12
3971 4217 4.826616 TCCTCCATGGTATCAATCACCTA 58.173 43.478 12.58 0.00 36.96 3.08
3998 4244 2.248835 CCAGCCGTTTCGACCGTTT 61.249 57.895 3.33 0.00 0.00 3.60
4028 4274 9.058174 TCAAGCAAAATGAAAACAATCATCAAT 57.942 25.926 0.00 0.00 39.08 2.57


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

AutoCloner maintained by Alex Coulton.