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
A4 F28 I1 R1	159	82.1	2830106	99.3%	2810295	139.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,957,223	G→A	P200S (CCG→TCG)	ilvY ←	DNA‑binding transcriptional dual regulator IlvY

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,957,223	0	G	A	100.0%	152.9 / NA	45	P200S (CCG→TCG)	ilvY	DNA‑binding transcriptional dual regulator IlvY
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (21/24); total (21/24)

CTTCCGGCAACAATGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGGCCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCACCGGGCAGGGCAGCGCGGGGGCAATCAGCACTACTGCCAGATTCTCCAGCATCGAAAACGCCAC  >  NC_000913/3957088‑3957355

cTTCCGGCAACAATGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGAcccc                                                                                                                                  >  1:873762/1‑140 (MQ=255)

cTTCCGGCAACAATGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGAcccc                                                                                                                                  >  1:364774/1‑140 (MQ=255)

cTTCCGGCAACAATGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGAcccc                                                                                                                                  >  2:276160/1‑140 (MQ=255)

   ccGGCAACAATGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGa                                                                                                                               <  2:1096650/140‑1 (MQ=255)

    cGGCAACAATGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGAt                                                                                                                              <  2:1093578/140‑1 (MQ=255)

    cGGCAACAATGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGAt                                                                                                                              <  1:276160/140‑1 (MQ=255)

          caaTGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCa                                                                                                                        >  2:586440/1‑140 (MQ=255)

            aTGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCata                                                                                                                      <  2:862789/140‑1 (MQ=255)

                    ccacAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACgg                                                                                                              <  1:487833/140‑1 (MQ=255)

                    ccacAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACgg                                                                                                              <  1:182284/140‑1 (MQ=255)

                        aGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCAcc                                                                                                          >  2:16084/1‑140 (MQ=255)

                             aGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACgg                                                                                                              <  2:501462/131‑1 (MQ=255)

                             aGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACgg                                                                                                              >  1:501462/1‑131 (MQ=255)

                             aGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGa                                                                                                     >  1:224889/1‑140 (MQ=255)

                             aGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGa                                                                                                     <  1:618527/140‑1 (MQ=255)

                               tGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGAcc                                                                                                   >  1:181682/1‑140 (MQ=255)

                                    ccaTCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTcc                                                                                              >  2:475042/1‑140 (MQ=255)

                                     caTCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCg                                                                                             <  1:16084/140‑1 (MQ=255)

                                       tCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTTAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGc                                                                                           <  1:353528/140‑1 (MQ=255)

                                        cGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCt                                                                                          <  1:1230459/140‑1 (MQ=255)

                                         gATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCtt                                                                                         >  2:54906/1‑140 (MQ=255)

                                         gATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCtt                                                                                         >  1:1344496/1‑140 (MQ=255)

                                         gATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCtt                                                                                         <  2:224889/140‑1 (MQ=255)

                                           tACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTtct                                                                                       <  2:181682/140‑1 (MQ=255)

                                              cATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTa                                                                                    >  1:718679/1‑140 (MQ=255)

                                               aTCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTAc                                                                                   >  1:270107/1‑140 (MQ=255)

                                                tCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTAcc                                                                                  >  2:27838/1‑140 (MQ=255)

                                                 cGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCg                                                                                 <  1:207365/140‑1 (MQ=255)

                                                  gCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGa                                                                                <  2:270107/140‑1 (MQ=255)

                                                    ttCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGaca                                                                              <  2:1344496/140‑1 (MQ=255)

                                                      cATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACAcc                                                                            <  1:265687/140‑1 (MQ=255)

                                                        tGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTg                                                                          >  2:227532/1‑140 (MQ=255)

                                                              ccAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGacac                                                                             >  1:1065539/1‑131 (MQ=255)

                                                              ccAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGacac                                                                             <  2:1065539/131‑1 (MQ=255)

                                                              ccAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACg                                                                    >  1:1233910/1‑140 (MQ=255)

                                                                aaCCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCa                                                                  <  1:227532/140‑1 (MQ=255)

                                                                aaCCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCa                                                                  <  1:475042/140‑1 (MQ=255)

                                                                aaCCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCa                                                                  <  1:586440/140‑1 (MQ=255)

                                                                aaCCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGATGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCa                                                                  <  2:822287/140‑1 (MQ=255)

                                                                                        aCTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCACCGGGCAGGGCAGCGCggggg                                             >  1:388718/1‑137 (MQ=255)

                                                                                        aCTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCACCGGGCAGGGCAGCGCggggg                                             <  2:388718/137‑1 (MQ=255)

                                                                                            aTTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCACCGGGCAGGGCAGCGCGGGGGCAATCAg                                      <  2:718679/140‑1 (MQ=255)

                                                                                                      gTCGAAACCACAGTTCAATGCGGCGGCGTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCACCGGGCAGGGCAGCGCGGGGGCAATCAGCACTACTGcc                            >  2:510015/1‑140 (MQ=255)

                                                                                                                           ggcggcgTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCACCGGGCAGGGCAGCGCGGGGGCAATCAGCACTACTGCCAGATTCTCCAGCATCGAAAAc       >  1:537560/1‑140 (MQ=255)

                                                                                                                                cgTACCGACCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCACCGGGCAGGGCAGCGCGGGGGCAATCAGCACTACTGCCAGATTCTCCAGCATCGAAAACGCCAc  >  2:1235580/1‑140 (MQ=255)

CTTCCGGCAACAATGCCACGCCACAGCCGAGTGCCACCATCGATACCATCGCTTCATGCCCGCCAACCGTGGCGTAAATCATCGGGTTACTGATTTTATTGCGTCGAAACCACAGTTCAATGCGGCGGCGTACCGGCCCCTGATCGGCCATAATAAACGGCACCGTTGACCAGTCCGGCTTCTCTACCGACACCTGATTACGCACCGGGCAGGGCAGCGCGGGGGCAATCAGCACTACTGCCAGATTCTCCAGCATCGAAAACGCCAC  >  NC_000913/3957088‑3957355

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A