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
A7 F50 I2 R1	209	44.2	1360995	98.7%	1343302	150.3

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,457,324	T→C	D316D (GAT→GAC)	gspD →	general secretory pathway component, cryptic

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,457,324	0	T	C	100.0%	139.9 / NA	39	D316D (GAT→GAC)	gspD	general secretory pathway component, cryptic
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/18); total (21/18)

TGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGATGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGAAATGGACTAAACCT  >  NC_000913/3457194‑3457470

tGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGt                                                                                                                                >  2:554526/1‑151 (MQ=255)

 gAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTc                                                                                                                               <  1:533408/151‑1 (MQ=255)

    atatGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCAtt                                                                                                                            >  1:507893/1‑151 (MQ=255)

       tGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTAcc                                                                                                                         >  1:192068/1‑151 (MQ=255)

           aaaGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGc                                                                                                                       <  2:114110/149‑1 (MQ=255)

           aaaGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCt                                                                                                                      <  2:396002/150‑1 (MQ=255)

            aaGCCACGAATCTGGTGGAAGTGCTAACCGTTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGa                                                                                                                    <  2:424695/151‑1 (MQ=255)

                     aTCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAgtccgt                                                                                                           >  1:345271/1‑151 (MQ=255)

                            ggAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGaa                                                                                                    <  1:290091/151‑1 (MQ=255)

                                  gCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTc                                                                                              >  2:342247/1‑151 (MQ=255)

                                   cTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCg                                                                                             >  1:671216/1‑151 (MQ=255)

                                                ccGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTg                                                                                 <  2:590534/150‑1 (MQ=255)

                                                   aaaaGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGcgcg                                                                             >  2:581614/1‑151 (MQ=255)

                                                       gCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTg                                                                         >  1:39097/1‑151 (MQ=255)

                                                        cTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTgg                                                                        >  2:18583/1‑151 (MQ=255)

                                                               aTGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCg                                                                 <  1:38703/151‑1 (MQ=255)

                                                               aTGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCg                                                                 >  1:280370/1‑151 (MQ=255)

                                                                  aaaaaGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCg                                                              >  1:415896/1‑151 (MQ=255)

                                                                   aaaaGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGt                                                             >  1:354956/1‑151 (MQ=255)

                                                                    aaaGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTg                                                            <  1:92332/151‑1 (MQ=255)

                                                                           aTGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGt                                                     >  1:308133/1‑151 (MQ=255)

                                                                            tGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTg                                                    >  2:336924/1‑151 (MQ=255)

                                                                                  tAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGtt                                              >  1:314633/1‑151 (MQ=255)

                                                                                   aaGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGCGCTGGTTg                                             >  2:10377/1‑151 (MQ=255)

                                                                                    aGCCCTCCTCTTCTGGCGCGATGGATACCGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGa                                            <  1:176906/151‑1 (MQ=255)

                                                                                       cctcctCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGc                                         >  1:342038/1‑151 (MQ=255)

                                                                                          cctcTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAat                                      <  1:554542/151‑1 (MQ=255)

                                                                                                 tGGCGCGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGtt                               >  1:188749/1‑151 (MQ=255)

                                                                                                   gcgcGATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTg                              >  1:668843/1‑150 (MQ=255)

                                                                                                     gcgATGGATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAg                           <  1:360203/151‑1 (MQ=255)

                                                                                                          ggATAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAg                      <  2:140573/151‑1 (MQ=255)

                                                                                                            aTAACGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGa                    <  1:500604/151‑1 (MQ=255)

                                                                                                                cGTCGCCATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGa                <  1:99466/151‑1 (MQ=255)

                                                                                                                      cATTACCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGAAATGGa          <  2:463309/151‑1 (MQ=255)

                                                                                                                          aCCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGAAATGGACTaa      <  1:493315/151‑1 (MQ=255)

                                                                                                                          aCCGCCGACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGAAATGGACTa       >  1:657410/1‑150 (MQ=255)

                                                                                                                            cgccgACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGAAATGGACTAAAc    <  1:58408/151‑1 (MQ=255)

                                                                                                                              ccgACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGAAATGGACTAAACCt  >  2:242306/1‑151 (MQ=255)

                                                                                                                              ccgACGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGAAATGGACTAAACCt  <  2:449330/151‑1 (MQ=255)

TGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATTACCGCCGATGAACAGACTAACTCTCTGGTCATTACCGCTGACCAGTCCGTCCAGGAAAAACTCGCCACGGTAATTGCGCGTCTGGACATTCGCCGTGCACAGGTGCTGGTTGAGGCAATCATCGTTGAAGTTCAGGATGGAAATGGACTAAACCT  >  NC_000913/3457194‑3457470

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A