Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A15 F58 I0 R3 247 66.2 2815674 94.9% 2672074 126.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 3,723,130 A→T 100% intergenic (‑244/‑57) U712_19190 ← / → U712_19195 PTS system sucrose‑specific EIIBC component/putative transporter ywcJ

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068813,723,1300AT100.0% 177.0 / NA 53intergenic (‑244/‑57)U712_19190/U712_19195PTS system sucrose‑specific EIIBC component/putative transporter ywcJ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (20/33);  total (20/33)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

CCAGTCACAATCCCGCTTATTCAGATTGAGAATACGCTTTCATCATAAATTATGATAGCGTTTTCGTCAACT‑G‑TTTTTTAGTTAAATAGTTTGATAAAACTTTTAGACAAAAATTCGTAAAAACTATTTGTGAAAAACTTCACAATATCGTGCTATACTATGCTCAACCATCAAAGAAAGCAGGAAAAAACAATGGAAACTCAAGCATTGCAAAAAGTTGAACAGTACGCTTTGAACAAACTAAACATATTTGTTTCTAGCAAAAT  >  CP006881/3722995‑3723260
                                                                                                                                         |                                                                                                                                  
ccAGTCACAATCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATAc                                                                                                                                  >  8:346511/1‑139 (MQ=255)
  aGTCACAATCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACtt                                                                                                                                <  8:173727/139‑1 (MQ=255)
         aTCCCGGTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  2:281898/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  5:125086/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  6:204333/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  6:260248/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  6:330166/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  7:225398/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  1:45528/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  1:41592/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  1:200780/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  4:280792/139‑1 (MQ=255)
         aTCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGCTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  4:160924/139‑1 (MQ=255)
         aTCCCGCATATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGGTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  2:299087/139‑1 (MQ=255)
          tCCCGCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAatat                                                                                                                        >  4:286221/1‑139 (MQ=255)
              gCTTCTTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTg                                                                                                                    <  8:15162/139‑1 (MQ=255)
              gCTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTg                                                                                                                    <  5:324904/139‑1 (MQ=255)
               cTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         >  1:127228/1‑133 (MQ=255)
               cTTATTCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  2:127228/133‑1 (MQ=255)
                   ttCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCtata                                                                                                               <  7:283363/139‑1 (MQ=255)
                   ttCAGATTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCtat                                                                                                                <  2:26213/138‑1 (MQ=255)
                        aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         <  6:256589/124‑1 (MQ=255)
                        aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAata                                                                                                                         >  5:256589/1‑124 (MQ=255)
                        aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTg                                                                                                                    >  4:71537/1‑129 (MQ=255)
                        aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTg                                                                                                                    <  3:71537/129‑1 (MQ=255)
                        aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATg                                                                                                          >  6:295696/1‑139 (MQ=255)
                        aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGGAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATg                                                                                                          >  4:210646/1‑139 (MQ=255)
                        aTTAAGAATACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAAATAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGATATACTAt                                                                                                           >  4:201843/1‑138 (MQ=255)
                        aTTAAGAATACGCTTTCATCATAAATCATGATAGAGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATg                                                                                                          >  5:20519/1‑139 (MQ=255)
                                tACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCa                                                                                                  >  7:194624/1‑139 (MQ=255)
                                tACGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCa                                                                                                  <  5:296013/139‑1 (MQ=255)
                                  cGCTTTCATCATAAATCATGATAGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCAt                                                                                                 >  4:303282/1‑138 (MQ=255)
                                                        aGCGTTTTCGTCAACTAT‑TTTTTTAGTTAAATAGTTTGATATAACATTTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAATCAGGAAAATACAAt                                                                          >  1:12090/1‑139 (MQ=255)
                                                                 gTCAACT‑ATTTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAACGCAGGAAAAGACAATGGAAACTc                                                                  >  8:42298/1‑138 (MQ=255)
                                                                 gTCAACT‑ATTTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTc                                                                  >  8:44770/1‑138 (MQ=255)
                                                                 gTCAACT‑ATTTTTTTAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCa                                                                 <  2:314410/139‑1 (MQ=255)
                                                                            tttttAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACa                                                        <  5:295696/138‑1 (MQ=255)
                                                                            tttttAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACa                                                        <  3:201843/138‑1 (MQ=255)
                                                                            tttttAGTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACa                                                        <  7:346511/138‑1 (MQ=255)
                                                                            tttttAGTTAAATAGCTTGATATAACATGGAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAAAGGAAACTCAAGCATTACa                                                        <  6:313563/138‑1 (MQ=255)
                                                                                  gTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATTCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGtt                                                 <  1:81094/139‑1 (MQ=255)
                                                                                  gTTAAATAGTTTGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATTAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGtt                                                 <  3:210646/139‑1 (MQ=255)
                                                                                             tGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACaaa                                                      <  6:21628/123‑1 (MQ=255)
                                                                                             tGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACaaa                                                      >  5:21628/1‑123 (MQ=255)
                                                                                             tGATATAACATGTAGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGc                                      >  6:59157/1‑139 (MQ=255)
                                                                                                          aGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAAca                          >  3:113525/1‑137 (MQ=255)
                                                                                                          aGACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGATGAACAGTATGCTTTGAAAAAAca                          >  1:219477/1‑137 (MQ=255)
                                                                                                           gACAAAAATTCGTAAAAATTAATTGTGAAATACTTCACAATATCGT‑CTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAACaaaa                       <  3:286221/139‑1 (MQ=255)
                                                                                                                aaaTTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGATAAAACAAAACata                   >  8:11255/1‑139 (MQ=255)
                                                                                                                aaaTTCGTAAAAATTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAACAAAACata                   >  8:87450/1‑139 (MQ=255)
                                                                                                                        aaaaaTTAATTGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAACAAAACATAttcgctt            <  2:219477/138‑6 (MQ=255)
                                                                                                                                 ttGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAACAAAACATATTCGCTTCAAGCAAAAt  <  3:303282/139‑1 (MQ=255)
                                                                                                                                 ttGTGAAATACTTCACAATATCGTGCTATACTATGCTCAATCATGAAAGAAAGCAGGAAAAGACAATGGAAACTCAAGCATTACAAAAGGTTGAACAGTATGCTTTGAAAAAACAAAACATATTCGCTTCAAGCAAAAt  <  4:113525/139‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                  
CCAGTCACAATCCCGCTTATTCAGATTGAGAATACGCTTTCATCATAAATTATGATAGCGTTTTCGTCAACT‑G‑TTTTTTAGTTAAATAGTTTGATAAAACTTTTAGACAAAAATTCGTAAAAACTATTTGTGAAAAACTTCACAATATCGTGCTATACTATGCTCAACCATCAAAGAAAGCAGGAAAAAACAATGGAAACTCAAGCATTGCAAAAAGTTGAACAGTACGCTTTGAACAAACTAAACATATTTGTTTCTAGCAAAAT  >  CP006881/3722995‑3723260

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A