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
A12 F28 I1 R1	227	52.0	1764248	99.3%	1751898	138.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,954,576	T→C	intergenic (+163/+2)	cmoB → / ← torZ	tRNA U34 carboxymethyltransferase/trimethylamine N‑oxide reductase 2

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,954,576	0	T	C	77.1%	89.8 / 24.2	48	intergenic (+163/+2)	cmoB/torZ	tRNA U34 carboxymethyltransferase/trimethylamine N‑oxide reductase 2
Reads supporting (aligned to +/- strand): ref base T (7/4); new base C (21/16); total (28/20)
Fisher's exact test for biased strand distribution p-value = 7.41e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.18e-01

ATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAA  >  NC_000913/1954452‑1954709

aTCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTAc                                                                                                                                  <  2:513916/130‑1 (MQ=255)

aTCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTAc                                                                                                                                  >  1:513916/1‑130 (MQ=255)

aTCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAg                                                                                                                        <  1:272859/140‑1 (MQ=255)

    ggCCTACAAAACATTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAgctgg                                                                                                                    <  1:402003/140‑1 (MQ=255)

          cAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATc                                                                                                              >  1:797398/1‑140 (MQ=255)

                 ttGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGcc                                                                                                       >  2:806260/1‑140 (MQ=255)

                          cAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTc                                                                                              <  1:390512/140‑1 (MQ=255)

                                 ttGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCAt                                                                                       <  1:806260/140‑1 (MQ=255)

                                  tGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCAtt                                                                                      >  1:260960/1‑140 (MQ=255)

                                       ggACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCg                                                                                 >  1:554995/1‑140 (MQ=255)

                                         aCTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGta                                                                               >  1:134930/1‑140 (MQ=255)

                                         aCTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGta                                                                               >  1:25393/1‑140 (MQ=255)

                                         aCTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGta                                                                               >  2:97693/1‑140 (MQ=255)

                                           tATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGtata                                                                             <  2:554995/140‑1 (MQ=255)

                                           tATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGtata                                                                             >  2:736392/1‑140 (MQ=255)

                                            aTGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTatat                                                                            >  1:641141/1‑140 (MQ=255)

                                            aTGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTatat                                                                            >  1:746895/1‑140 (MQ=255)

                                            aTGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGCCTGATCAAACCCCGTTAACTTCGGTGCATTGCCCGTatat                                                                            >  2:864658/1‑140 (MQ=255)

                                             tGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATAtt                                                                           <  2:641141/140‑1 (MQ=255)

                                                aGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATAttttt                                                                        <  2:260960/140‑1 (MQ=255)

                                                   ccTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGa                                                                     >  1:19366/1‑140 (MQ=255)

                                                       aTAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGAtata                                                                 >  1:149114/1‑140 (MQ=255)

                                                       aTAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATAtttt                                                                         <  1:373566/132‑1 (MQ=255)

                                                       aTAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATAtttt                                                                         >  2:373566/1‑132 (MQ=255)

                                                       aTAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATAtt                                                                           >  1:159699/1‑130 (MQ=255)

                                                       aTAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATAtt                                                                           <  2:159699/130‑1 (MQ=255)

                                                       aTAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGAtata                                                                 >  2:68436/1‑140 (MQ=255)

                                                       aTAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGAtata                                                                 >  2:161613/1‑140 (MQ=255)

                                                       aTAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGAtata                                                                 >  2:103772/1‑140 (MQ=255)

                                                          aGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATacac                                                              <  2:797398/140‑1 (MQ=255)

                                                              tAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAAc                                                          <  1:401943/140‑1 (MQ=255)

                                                                   cATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGa                                                     >  2:260650/1‑140 (MQ=255)

                                                                     tCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGt                                                   >  1:869986/1‑140 (MQ=255)

                                                                        ggCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTAc                                                <  2:134930/140‑1 (MQ=255)

                                                                         gCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTAcc                                               <  1:494416/140‑1 (MQ=255)

                                                                         gCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTAcc                                               >  2:494416/1‑140 (MQ=255)

                                                                           aGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCgg                                             >  2:196149/1‑140 (MQ=255)

                                                                              tttACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGcac                                          <  1:103772/140‑1 (MQ=255)

                                                                               ttACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGcaca                                         <  2:746895/140‑1 (MQ=255)

                                                                                       gCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTTGATATACACCAACGCTGAGTTACCGGCACAGGCATTTg                                 >  2:514394/1‑140 (MQ=255)

                                                                                        cATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGc                                >  1:380937/1‑140 (MQ=255)

                                                                                                cAGCGCCCGTTTCCGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCg                        >  2:11185/1‑140 (MQ=255)

                                                                                                 aGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGa                       >  2:704031/1‑140 (MQ=255)

                                                                                                            ccGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGatat            <  1:736392/140‑1 (MQ=255)

                                                                                                             cGGGCGCTATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATc           <  2:19366/140‑1 (MQ=255)

                                                                                                                    tATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGtt    <  1:68436/140‑1 (MQ=255)

                                                                                                                    tATTCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGtt    <  2:869986/140‑1 (MQ=255)

                                                                                                                      ttCACGCCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTaa  >  1:631836/1‑140 (MQ=255)

ATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTCCGGGCGCTATTCACGTCTTACGCCTGAACAGCTGGCTGATCAAACGCCGTTAACTTCGGTGCATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAA  >  NC_000913/1954452‑1954709

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