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 F1 I1 R1	760	58.2	3022526	90.8%	2744453	102.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	852,869	C→T	43 (TAG→TAA)	mntS ←	Mn(2)‑response protein, MntR‑repressed

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	852,869	0	C	T	100.0%	166.9 / NA	52	43 (TAG→TAA)	mntS	Mn(2)‑response protein, MntR‑repressed
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (25/27); total (25/27)

CCGCCGTTCAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGCTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACTCATTCATAAGAC  >  NC_000913/852733‑853002

ccgccgTTCAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTa                                                                                                                                     >  1:1146008/1‑139 (MQ=255)

ccgccgTTCAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTa                                                                                                                                     >  1:528963/1‑139 (MQ=255)

ccgccgTTCAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTa                                                                                                                                     >  1:170938/1‑139 (MQ=255)

        cAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCgg                                                                                                                             <  2:1176724/139‑1 (MQ=255)

                ctactGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCgg                                                                                                                             <  1:587218/131‑1 (MQ=255)

                ctactGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCgg                                                                                                                             >  2:587218/1‑131 (MQ=255)

                ctactGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCg                                                                                                                              >  2:1107454/1‑130 (MQ=255)

                ctactGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCg                                                                                                                              <  1:1107454/130‑1 (MQ=255)

                ctactGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTa                                                                                                                     >  2:677665/1‑139 (MQ=255)

                     gACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTtg                                                                                                                >  1:1382357/1‑139 (MQ=255)

                       cGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTtgct                                                                                                              <  2:170938/139‑1 (MQ=255)

                                 ttttGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTttgtt                                                                                                    <  1:1344993/139‑1 (MQ=255)

                                 ttttGCGAAGGGGATAGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTttgtt                                                                                                    <  2:320251/139‑1 (MQ=255)

                                             gATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATc                                                                                        >  2:454722/1‑139 (MQ=255)

                                               ttGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGc                                                                                      <  1:536115/139‑1 (MQ=255)

                                                tGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                     <  1:454722/139‑1 (MQ=255)

                                                tGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                     <  2:1434516/139‑1 (MQ=255)

                                                tGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                     <  1:110890/139‑1 (MQ=255)

                                                tGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                     <  2:1382357/139‑1 (MQ=255)

                                                     aTCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCg                                                                                       <  1:1482693/132‑1 (MQ=255)

                                                     aTCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCg                                                                                       >  2:1482693/1‑132 (MQ=255)

                                                     aTCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCacaaca                                                                                >  2:362900/1‑139 (MQ=255)

                                                     aTCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCacaaca                                                                                >  1:1345685/1‑139 (MQ=255)

                                                     aTCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCacaaca                                                                                >  2:1045084/1‑139 (MQ=255)

                                                          aCAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATagag                                                                           >  1:724213/1‑139 (MQ=255)

                                                             aaaaGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGagc                                                                        >  2:910585/1‑139 (MQ=255)

                                                                     ggTTTTTCAGACCAAAACGCGTTATGCCTGCATGATAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTaa                                                                <  1:910585/139‑1 (MQ=255)

                                                                          ttCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTttgtt                                                                                                    >  1:149217/1‑98 (MQ=255)

                                                                          ttCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTttgtt                                                                                                    <  2:149217/98‑1 (MQ=255)

                                                                                 cAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATc                                                                                                                   >  1:85261/1‑76 (MQ=255)

                                                                                 cAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATc                                                                                                                   <  2:85261/76‑1 (MQ=255)

                                                                                 cAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATagagag                                                                         >  1:435022/1‑118 (MQ=255)

                                                                                 cAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATagagag                                                                         <  2:435022/118‑1 (MQ=255)

                                                                                    aaCGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAggg                                                 >  1:1354521/1‑139 (MQ=255)

                                                                                         gTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAAt                                            >  1:1056694/1‑139 (MQ=255)

                                                                                                 tGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                     <  2:250093/90‑1 (MQ=255)

                                                                                                 tGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGca                                                                                     >  1:250093/1‑90 (MQ=255)

                                                                                                  gCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAaca                                   <  2:528963/139‑1 (MQ=255)

                                                                                                   cATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAacac                                  >  2:1366973/1‑139 (MQ=255)

                                                                                                    aTGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACAcg                                 <  1:1045084/139‑1 (MQ=255)

                                                                                                       aaaGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTtgctg                                                                                                             <  2:141493/60‑1 (MQ=255)

                                                                                                       aaaGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTtgctg                                                                                                             >  1:141493/1‑60 (MQ=255)

                                                                                                       aaaGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGttt                                                                                                       >  1:473713/1‑66 (MQ=255)

                                                                                                       aaaGCAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGttt                                                                                                       <  2:473713/66‑1 (MQ=255)

                                                                                                           cAGGAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATac                          >  2:1077853/1‑139 (MQ=255)

                                                                                                             ggAGTGAAGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATacac                        <  2:1495115/139‑1 (MQ=255)

                                                                                                                    aGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACAt                                                                               >  2:279025/1‑77 (MQ=255)

                                                                                                                    aGCGGCGTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACAt                                                                               <  1:279025/77‑1 (MQ=255)

                                                                                                                        gcgTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACtc             <  1:1077853/139‑1 (MQ=255)

                                                                                                                         cgTACCGCGACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACtca            <  1:677665/139‑1 (MQ=255)

                                                                                                                                cgACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACTCATTCATaa     <  1:362900/139‑1 (MQ=255)

                                                                                                                                cgACGCCGTTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACTCATTCATaa     <  2:1345685/139‑1 (MQ=255)

                                                                                                                                   cgccgtTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACTCATTCATAAGAc  >  2:919538/1‑139 (MQ=255)

CCGCCGTTCAGGTCAACTACTGACGAACAAATCTTTTGCGAAGGGGATTGCAAATCCGACAAAAAGTGGGGTTTTTCAGACCAAAACGCGTTATGCCTGCATGAAAGCAGGAGTGAAGCGGCGTACCGCGACGCCGCTATTTATCGGAAGGTTTATCTTGCTGCGGTTTGTTGTTGACCATATCGCACAACATAGAGAGCAGCATTAACCGTACTTTAAAGGGAGAATGACTAAACACGCGCATACACCTCTTGAACTCATTCATAAGAC  >  NC_000913/852733‑853002

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A