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 F1 I2 R1	780	68.3	3343050	93.5%	3125751	102.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,309,006	(C)_6→5	intergenic (‑82/+27)	nlpI ← / ← pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,309,001	0	C	.	100.0%	156.6 / NA	38	intergenic (‑77/+32)	nlpI/pnp	lipoprotein involved in osmotic sensitivity and filamentation/polynucleotide phosphorylase/polyadenylase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base . (20/18); total (20/18)

GCATCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGCCCCCCGCCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGAC  >  NC_000913/3308868‑3309112

acATCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGccccca                                                                                                            >  1:911523/2‑138 (MQ=255)

   tCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccaccg                                                                                                         >  2:86861/1‑135 (MQ=255)

   tCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccaccg                                                                                                         <  1:94489/139‑5 (MQ=255)

   tCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccccaccg                                                                                                         >  1:413187/1‑135 (MQ=255)

         aaGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCgg                                                                                                  <  2:911523/139‑1 (MQ=255)

              tAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGc                                                                                             >  2:647582/1‑139 (MQ=255)

                    cTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATgg                                                                                       <  1:86861/139‑1 (MQ=255)

                     tGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGc                                                                                      >  1:1373445/1‑139 (MQ=255)

                      gTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCa                                                                                     >  2:494755/1‑139 (MQ=255)

                       tCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAggg                                                                                              <  1:1284612/129‑1 (MQ=255)

                       tCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAggg                                                                                              >  2:1284612/1‑129 (MQ=255)

                             cGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTAc                                                                              <  1:494755/139‑1 (MQ=255)

                                         gcAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTca                                                                  >  1:879743/1‑139 (MQ=255)

                                          cAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTcag                                                                 <  2:879743/139‑1 (MQ=255)

                                                aGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCg                                                           <  2:1373445/139‑1 (MQ=255)

                                                  gCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATgg                                                                                       >  1:875637/1‑109 (MQ=255)

                                                  gCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATgg                                                                                       <  2:875637/109‑1 (MQ=255)

                                                    ttCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccc                                                                                                              <  2:954144/85‑1 (MQ=255)

                                                    ttCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGcccc                                                                                                              >  1:954144/1‑85 (MQ=255)

                                                     tCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCt                                                      >  2:303536/1‑139 (MQ=255)

                                                       aTTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGGGGGCaaa                                                                                          >  1:15997/1‑101 (MQ=255)

                                                       aTTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGGGGGCaaa                                                                                          <  2:15997/101‑1 (MQ=255)

                                                                  ccGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTgcag                                         <  2:413187/139‑1 (MQ=255)

                                                                     aaGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGcagcag                                      >  2:594927/1‑139 (MQ=255)

                                                                            cGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTgaga                               >  2:1442100/1‑139 (MQ=255)

                                                                             ggTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGAc                              <  1:1442100/139‑1 (MQ=255)

                                                                              gTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACt                             >  2:1245102/1‑139 (MQ=255)

                                                                                  aatgaaCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCTCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTc                         >  2:456016/1‑139 (MQ=255)

                                                                                     gaaCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGt                      <  1:647582/139‑1 (MQ=255)

                                                                                     gaaCGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGt                      <  1:456016/139‑1 (MQ=255)

                                                                                         gTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCg                                                  >  2:1319631/1‑107 (MQ=255)

                                                                                         gTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCg                                                  <  1:1319631/107‑1 (MQ=255)

                                                                                         gTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGct                  >  2:237895/1‑139 (MQ=255)

                                                                                                    ggTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGt                      >  2:644441/1‑124 (MQ=255)

                                                                                                    ggTTGCTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGt                      <  1:644441/124‑1 (MQ=255)

                                                                                                         cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCg                                                                                                   <  2:278985/42‑1 (MQ=255)

                                                                                                         cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCg                                                                                                   >  1:278985/1‑42 (MQ=255)

                                                                                                         cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCg                                                                           <  2:1024195/66‑1 (MQ=255)

                                                                                                         cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCg                                                                           >  1:1024195/1‑66 (MQ=255)

                                                                                                         cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCgg                                                 <  2:770633/92‑1 (MQ=255)

                                                                                                         cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCgg                                                 >  1:770633/1‑92 (MQ=255)

                                                                                                         cTAACAAGGCGTCCTGCCCGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGAc  >  2:605393/1‑139 (MQ=255)

                                                                                                                         cccGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCg                                                           >  2:246821/1‑66 (MQ=255)

                                                                                                                         cccGGTTAAAAG‑CCCCCACCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCg                                                           <  1:246821/66‑1 (MQ=255)

GCATCCTGCAAGCGTAAGTGCTGTCGCAACGAAACACCAGCGCAAAAAAGGCTTCATTTCCCACTCCCGAAGACCACGGTTGAATGAACGTCCTGTTCCCGGTTGCTAACAAGGCGTCCTGCCCGGTTAAAAGCCCCCCGCCGCAGCGGAGGGCAAATGGCAACCTTACTCGCCCTGTTCAGCAGCCGGAGCTTCCGGTGCTGCAGCAGGTTGAGACTGCTCAGTCGCTTCTTTAATGCTCAGAC  >  NC_000913/3308868‑3309112

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A