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
A13 F1 I2 R1	762	35.5	1545288	95.5%	1475750	117.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	662,153	C→A	E42D (GAG→GAT)	lipB ←	octanoyltransferase, octanoyl‑[ACP]:protein N‑octanoyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	662,153	0	C	A	93.9%	98.0 / ‑0.3	33	E42D (GAG→GAT)	lipB	octanoyltransferase, octanoyl‑[ACP]:protein N‑octanoyltransferase
Reads supporting (aligned to +/- strand): ref base C (0/0); major base A (15/16); minor base T (1/1); total (16/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.07e-01

CATCACCTGTTGCCCCGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGCTCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGAAGACCGAGCTGGCGGACAAGAATTTTATCCTGATACAAAACGG  >  NC_000913/662024‑662283

catCACCTGTTGCCCCGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGAccagc                                                                                                                           <  2:489786/139‑1 (MQ=255)

 atCACCTGTTGCCCCGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGTTCGAccagcc                                                                                                                          >  2:478645/1‑139 (MQ=255)

     ccTGTTGCCCCGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGAt                                                                                                                      >  1:648802/1‑139 (MQ=255)

       tGTTGCCCCGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGAttt                                                                                                                    >  1:75272/1‑139 (MQ=255)

           gCCCCGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTtcatc                                                                                                                <  1:156695/139‑1 (MQ=255)

            ccccGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTtcatca                                                                                                               <  2:664373/139‑1 (MQ=255)

            ccccGGCCCGTGATAAGTCACATGCCAACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAACATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTtcatca                                                                                                               <  2:448694/139‑1 (MQ=255)

              ccGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAg                                                                                                             >  1:65046/1‑139 (MQ=255)

                      tGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTat                                                                                                     >  1:371710/1‑139 (MQ=255)

                                ccTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGt                                                                                           >  2:566375/1‑139 (MQ=255)

                                 cTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTa                                                                                          <  2:381434/139‑1 (MQ=255)

                                      cACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGt                                                                                     >  1:419565/1‑139 (MQ=255)

                                         cgcgATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGaa                                                                                  >  1:514715/1‑139 (MQ=255)

                                           cgATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGTGGGTATCGGTGAAtt                                                                                <  2:514715/139‑1 (MQ=255)

                                               cGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATg                                                                            <  1:173780/139‑1 (MQ=255)

                                                 ctctGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCa                                                                          <  2:648802/139‑1 (MQ=255)

                                                            cGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGgag                                                               >  1:445566/1‑139 (MQ=255)

                                                                     aCCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCg                                                      <  1:382603/139‑1 (MQ=255)

                                                                      cccGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCa                                                                          >  2:639806/1‑118 (MQ=255)

                                                                      cccGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCa                                                                          <  1:639806/118‑1 (MQ=255)

                                                                       ccGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGTTCGACCAGCCAAATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTa                                                    <  1:478645/139‑1 (MQ=255)

                                                                         ggCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAg                                                  >  2:36388/1‑139 (MQ=255)

                                                                             ttAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGAccag                                                                                                                            >  1:319532/1‑61 (MQ=255)

                                                                             ttAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGAccag                                                                                                                            <  2:319532/61‑1 (MQ=255)

                                                                              tAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGa                                             >  2:41993/1‑139 (MQ=255)

                                                                                                 cctgcctgACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGAAGACCGAGCTGGCGGACaa                          <  2:358394/139‑1 (MQ=255)

                                                                                                       tgACCTTGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGAAGACCGAGCTGGCGGACAAGAAttt                    <  2:106184/139‑1 (MQ=255)

                                                                                                            ttGGGTGAATACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGAAGACCGAGCTGGCGGACAAGAATTTTATcc               <  1:36388/139‑1 (MQ=255)

                                                                                                               ggTGAATACCGGATAGTGATCGACCAGCCAGATTtcatca                                                                                                               >  2:467768/1‑40 (MQ=255)

                                                                                                               ggTGAATACCGGATAGTGATCGACCAGCCAGATTtcatca                                                                                                               <  1:467768/40‑1 (MQ=255)

                                                                                                                    aTACCGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGAAGACCGAGCTGGCGGACAAGAATTTTATCCTGATACaa       >  1:724440/1‑139 (MQ=255)

                                                                                                                        cGGATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGAAGACCGAGCTGGCGGACAAGAATTTTATCCTGATACAAAACg   >  2:339759/1‑139 (MQ=255)

                                                                                                                         ggATAGTGATCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGAAGACCGAGCTGGCGGACAAGAATTTTATCCTGATACAAAACgg  <  1:339759/139‑1 (MQ=255)

CATCACCTGTTGCCCCGGCCCGTGATAAGTCACCTGCCCACCGCGATCGCTCTGGATCACCGGAATATCACCCGGCATTAAAATGTGCTCCGCTTTTCCTGCCTGACCTTGGGTGAATACCGGATAGTGCTCGACCAGCCAGATTTCATCAAGGGTACTATCATCGCGGGTATCGGTGAATTCATGCATAGCCTGGGAGATTGGCTCGTAAGGCTGAAGACCGAGCTGGCGGACAAGAATTTTATCCTGATACAAAACGG  >  NC_000913/662024‑662283

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `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