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
A0 F0 I1 R1	715	38.4	1606192	96.6%	1551581	120.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,598,617	C→T	531 (TAG→TAA)	lsrK ←	autoinducer‑2 (AI‑2) kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,598,617	0	C	T	100.0%	116.9 / NA	37	531 (TAG→TAA)	lsrK	autoinducer‑2 (AI‑2) kinase
Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (17/20); total (17/20)

CGTACTGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAACTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGGTGTGTGCGT  >  NC_000913/1598489‑1598751

cGTACTGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAg                                                                                                                               >  2:244228/1‑139 (MQ=255)

   aCTGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGgcg                                                                                                                            <  1:758850/139‑1 (MQ=255)

    cTGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGgcgc                                                                                                                           <  1:58601/139‑1 (MQ=255)

     tGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATATTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCt                                                                                                                          <  2:413788/139‑1 (MQ=255)

       gTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCttt                                                                                                                        >  2:121316/1‑139 (MQ=255)

               aCGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTTTCAATGAAATTATAACCCAGGCGCTTTCCATAacg                                                                                                                <  2:462884/139‑1 (MQ=255)

                      aTCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                         <  2:774250/139‑1 (MQ=255)

                          gCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGt                                                                                                     <  2:281369/139‑1 (MQ=255)

                           cAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTc                                                                                                    <  1:527791/139‑1 (MQ=255)

                                                 gCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTg                                                                             >  2:310634/1‑139 (MQ=255)

                                                  ctctAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGa                                                                            <  1:121316/139‑1 (MQ=255)

                                                  ctctAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGa                                                                            >  2:328884/1‑139 (MQ=255)

                                                  ctctAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGa                                                                            <  1:328884/139‑1 (MQ=255)

                                                             gggAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAAc                                                                 >  2:464139/1‑139 (MQ=255)

                                                                          aaCTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTa                                                    >  2:345841/1‑139 (MQ=255)

                                                                          aaCTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTa                                                    >  1:281634/1‑139 (MQ=255)

                                                                                aCTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGt                                              <  1:244228/139‑1 (MQ=255)

                                                                                    aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAActgcctgc                                                          <  1:523313/123‑1 (MQ=255)

                                                                                    aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAActgcctgc                                                          >  2:523313/1‑123 (MQ=255)

                                                                                    aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAAt                                          >  2:742096/1‑139 (MQ=255)

                                                                                    aaaaaCTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAAt                                          <  2:768804/139‑1 (MQ=255)

                                                                                          tAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGAt                                    <  2:781367/139‑1 (MQ=255)

                                                                                            aCAGCCACGGTCATCATGATGTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGATTCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATa                                   >  1:492160/1‑139 (MQ=255)

                                                                                                              atgTGGCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCggg                <  2:696172/139‑1 (MQ=255)

                                                                                                                  ggCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGa                                                                                               <  1:603152/57‑1 (MQ=255)

                                                                                                                  ggCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGa                                                                                               >  2:603152/1‑57 (MQ=255)

                                                                                                                  ggCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTg            >  2:325480/1‑139 (MQ=255)

                                                                                                                  ggCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTg            <  1:152250/139‑1 (MQ=255)

                                                                                                                   gCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                         >  1:7685/1‑46 (MQ=255)

                                                                                                                   gCTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGAcgtcgt                                                                                                         <  2:7685/46‑1 (MQ=255)

                                                                                                                    cTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGTCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTGCCGGGTCTGgt          <  1:464139/139‑1 (MQ=255)

                                                                                                                    cTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGgt          <  1:409277/139‑1 (MQ=255)

                                                                                                                    cTGTCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGgt          >  2:589761/1‑139 (MQ=255)

                                                                                                                       tCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGgtgtg       >  1:406097/1‑139 (MQ=255)

                                                                                                                       tCAATGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGgtgtg       >  1:244351/1‑139 (MQ=255)

                                                                                                                         aaTGAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGGtgtgtg     >  2:702973/1‑139 (MQ=255)

                                                                                                                            gAAATTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGGTGTGTGCGt  <  1:325480/139‑1 (MQ=255)

CGTACTGGTGATGGAACGATGAATCTGCAAGCTGGCTTTTAACAAGCCAGCTCTAAAAGAAGGGAAATAAGAATAACTATACTCAAAAACTAACAGCCACGGTCATCATGATGTGGCTGTCAATGAAACTATAACCCAGGCGCTTTCCATAACGACGTCGTCAGTCCATGA‑TCAACCAGCCCCAGCTGATCCTGATAAACTGCCTGCCACTTATCGCGTGAATCCTGATAAAGTTCATGCTTTTCCGGGTCTGGTGTGTGCGT  >  NC_000913/1598489‑1598751

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A