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 F1 I1 R1	776	60.0	3074904	90.1%	2770488	104.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,614,260	G→A	260 (TAG→TAA)	yjjV →	putative DNase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,614,260	0	G	A	100.0%	133.0 / NA	42	260 (TAG→TAA)	yjjV	putative DNase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (23/19); total (23/19)

GCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGT  >  NC_000913/4614137‑4614394

gCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAg                                                                                                                              >  1:1054076/1‑134 (MQ=255)

gCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAg                                                                                                                              <  2:1054076/134‑1 (MQ=255)

gCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGtt                                                                                                                         >  2:839553/1‑139 (MQ=255)

gCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGtt                                                                                                                         >  2:661616/1‑139 (MQ=255)

          ccGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCAt                                                                                                               <  1:661616/139‑1 (MQ=255)

           cGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATc                                                                                                              >  2:232231/1‑139 (MQ=255)

               gCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGc                                                                                                          <  1:464140/139‑1 (MQ=255)

                       cccGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGgcg                                                                                                  <  2:1009055/139‑1 (MQ=255)

                                 cGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGtt                                                                                                                         <  2:584282/106‑1 (MQ=255)

                                 cGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGtt                                                                                                                         >  1:584282/1‑106 (MQ=255)

                                               aGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTaa                                                                          <  1:280021/139‑1 (MQ=255)

                                                          gAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATc                                                               <  1:232231/139‑1 (MQ=255)

                                                                             cgcAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATc                                                               <  1:195289/120‑1 (MQ=255)

                                                                             cgcAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATc                                                               >  2:195289/1‑120 (MQ=255)

                                                                             cgcAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGcc                                            >  2:1487386/1‑139 (MQ=255)

                                                                                  gCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCgg                                                                                                                                   <  2:1067369/47‑1 (MQ=255)

                                                                                  gCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCgg                                                                                                                                   >  1:1067369/1‑47 (MQ=255)

                                                                                        cTTAATAACACGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGTACCGTAGGc                                 >  1:982439/1‑139 (MQ=255)

                                                                                               acacGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAg                                                                                                                              <  1:644140/39‑1 (MQ=255)

                                                                                               acacGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAg                                                                                                                              >  2:644140/1‑39 (MQ=255)

                                                                                                cacGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAg                         >  1:229292/1‑139 (MQ=255)

                                                                                                  cGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCAcgcc                                                                                                                   >  1:424823/1‑47 (MQ=255)

                                                                                                  cGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCAcgcc                                                                                                                   <  2:424823/47‑1 (MQ=255)

                                                                                                  cGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATc                                                               >  1:1237156/1‑99 (MQ=255)

                                                                                                  cGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATc                                                               <  2:1237156/99‑1 (MQ=255)

                                                                                                  cGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGc                       >  2:563496/1‑139 (MQ=255)

                                                                                                  cGTATACGTTGTTTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGc                       >  2:535834/1‑139 (MQ=255)

                                                                                                         gttgttTAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCAcg                <  1:535834/139‑1 (MQ=255)

                                                                                                             tttAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATc                                                               >  1:438417/1‑88 (MQ=255)

                                                                                                             tttAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATc                                                               <  2:438417/88‑1 (MQ=255)

                                                                                                             tttAACGTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCAcgccgc            >  1:864485/1‑139 (MQ=255)

                                                                                                                   gTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGt                                                   >  2:447653/1‑94 (MQ=255)

                                                                                                                   gTGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGt                                                   <  1:447653/94‑1 (MQ=255)

                                                                                                                    tGCCGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGc     <  1:1487386/139‑1 (MQ=255)

                                                                                                                      ccGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAg   >  2:148229/1‑139 (MQ=255)

                                                                                                                       cGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTaa                                                                          >  2:113501/1‑67 (MQ=18)

                                                                                                                       cGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTaa                                                                          <  1:113501/67‑1 (MQ=18)

                                                                                                                       cGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTa                                                        >  1:922848/1‑85 (MQ=255)

                                                                                                                       cGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTa                                                        <  2:922848/85‑1 (MQ=255)

                                                                                                                       cGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCg                                      <  2:332508/103‑1 (MQ=255)

                                                                                                                       cGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCg                                      >  1:332508/1‑103 (MQ=255)

                                                                                                                       cGTAAGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGt  >  2:730898/1‑139 (MQ=255)

GCCTAACCGCCCGGAGCAGGCTGCCCGTGTGTTCGCCGTGCTTTGCGAGTTGCGCCGGGAACCGGCGGATGAGATTGCGCAAGCGTTGCTTAATAACACGTATACGTTGTTTAACGTGCCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGTTGGCGCACAATGCCTGATGCGACGCTTAACGCGTCTTATCATGCCTACAGGTTTGTGCCGAACCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAGT  >  NC_000913/4614137‑4614394

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `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