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
A10 F28 I1 R1	126	51.4	1736588	99.0%	1719222	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,696,443	C→T	intergenic (‑372/+19)	uidA ← / ← uidR	beta‑glucuronidase/DNA‑binding transcriptional repressor UidR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,696,443	0	C	T	100.0%	190.1 / NA	56	intergenic (‑372/+19)	uidA/uidR	beta‑glucuronidase/DNA‑binding transcriptional repressor UidR
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (23/33); total (23/33)

CGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAG  >  NC_000913/1696306‑1696575

cgAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCctgc                                                                                                                                    >  1:155433/1‑140 (MQ=255)

   gCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGa                                                                                                                                 >  2:275902/1‑140 (MQ=255)

             aaCGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAagaga                                                                                                                         >  1:724096/1‑138 (MQ=255)

             aaCGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAagaga                                                                                                                         <  2:724096/138‑1 (MQ=255)

              aCGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAagagagag                                                                                                                      <  2:377671/140‑1 (MQ=255)

              aCGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAagagagag                                                                                                                      <  2:516180/140‑1 (MQ=255)

              aCGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAagaga                                                                                                                         <  1:174809/137‑1 (MQ=255)

              aCGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAagaga                                                                                                                         >  2:174809/1‑137 (MQ=255)

                  tAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATc                                                                                                                  >  2:557137/1‑140 (MQ=255)

                      ctctCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGa                                                                                                              <  2:521227/140‑1 (MQ=255)

                       tctcATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCTCAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGAt                                                                                                             <  1:448674/140‑1 (MQ=255)

                       tctcATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGAt                                                                                                             <  2:155433/140‑1 (MQ=255)

                       tctcATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGAt                                                                                                             <  1:297218/140‑1 (MQ=255)

                       tctcATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGAt                                                                                                             <  1:331145/140‑1 (MQ=255)

                          cATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCg                                                                                                          >  1:660247/1‑140 (MQ=255)

                              aCATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGAt                                                                                                             >  2:79872/1‑133 (MQ=255)

                              aCATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGAt                                                                                                             <  1:79872/133‑1 (MQ=255)

                                 tatGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGa                                                                                                   >  2:424917/1‑140 (MQ=255)

                                   tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                                                                                                 <  1:687336/140‑1 (MQ=255)

                                   tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                                                                                                 >  1:74606/1‑140 (MQ=255)

                                   tGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                                                                                                 >  1:428681/1‑140 (MQ=255)

                                     gCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGAt                                                                                                             <  2:77148/126‑1 (MQ=255)

                                     gCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGAt                                                                                                             >  1:77148/1‑126 (MQ=255)

                                     gCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATAcc                                                                                               <  1:51935/140‑1 (MQ=255)

                                       tACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGc                                                                                             >  1:272784/1‑140 (MQ=255)

                                       tACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGc                                                                                             <  2:272784/140‑1 (MQ=255)

                                         cAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCa                                                                                           >  1:778619/1‑140 (MQ=255)

                                          aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGCAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                                                                                                 <  2:803460/133‑1 (MQ=255)

                                          aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGc                                                                                                           <  2:864783/123‑1 (MQ=255)

                                          aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGc                                                                                                           >  1:864783/1‑123 (MQ=255)

                                          aGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATa                                                                                                 >  1:803460/1‑133 (MQ=255)

                                                tatTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcg                                                                                    <  2:74606/140‑1 (MQ=255)

                                                   tttGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATcgcgc                                                                                 >  2:251546/1‑140 (MQ=255)

                                                        ggggAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAAt                                                                            >  2:711681/1‑140 (MQ=255)

                                                             aTTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTg                                                                       <  2:187573/140‑1 (MQ=255)

                                                                             aaGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                       <  1:424917/140‑1 (MQ=255)

                                                                             aaGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                       <  2:660247/140‑1 (MQ=255)

                                                                             aaGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCa                                                       <  1:251546/140‑1 (MQ=255)

                                                                                          gCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCtt                                          >  2:535257/1‑140 (MQ=255)

                                                                                          gCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCtt                                          >  1:547010/1‑140 (MQ=255)

                                                                                                agaAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCtt                                    <  2:428681/140‑1 (MQ=255)

                                                                                                     ttACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                               <  1:184966/140‑1 (MQ=255)

                                                                                                     ttACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                               <  2:437012/140‑1 (MQ=255)

                                                                                                     ttACGATATGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                               <  1:711681/140‑1 (MQ=255)

                                                                                                          atatGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                          <  2:547010/140‑1 (MQ=255)

                                                                                                          atatGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                          <  2:725803/140‑1 (MQ=255)

                                                                                                            atGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                               <  1:728192/133‑1 (MQ=255)

                                                                                                            atGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGata                               >  2:728192/1‑133 (MQ=255)

                                                                                                            atGAAACGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCa                        <  1:265682/140‑1 (MQ=255)

                                                                                                               aaaCGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                          >  2:306218/1‑135 (MQ=255)

                                                                                                               aaaCGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGc                          <  1:306218/135‑1 (MQ=255)

                                                                                                               aaaCGCGGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTa                     <  2:315593/140‑1 (MQ=255)

                                                                                                                    cgGGCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCg                <  1:557137/140‑1 (MQ=255)

                                                                                                                     gggCACAGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGt               >  2:383631/1‑140 (MQ=255)

                                                                                                                          caGTTATCACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTc          <  1:535257/140‑1 (MQ=255)

                                                                                                                                 cACCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCca   >  1:840691/1‑140 (MQ=255)

                                                                                                                                  aCCAGCCTGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCcag  >  1:484725/1‑140 (MQ=255)

CGAGCGTATTGGGAACGATAAACTCTCATGACATATGGCTACAGTGAATATTTTGGGGGGAATTCTCCGAAGCCGGGAAGGATAATTTTTGCACAGAGAAATTACGATATGAAACGCGGGCACAGTTATCACCAGCCCGCCGAAAAAGAGAGAGAATCAGGATGCGGTTAAGATACCGCCAATCATCGCGCGTAATCCCTGAGCAAACGACGCTTCACGCGCCAGGTCTTCCGCTTCGATATCGGCCAGTACACCGTAGGTCAGATCCAG  >  NC_000913/1696306‑1696575

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A