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
A6 F1 I1 R1	750	51.0	2595496	93.6%	2429384	106.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	738,853	G→A	254 (TAG→TAA)	ybfD →	H repeat‑associated putative transposase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	738,853	0	G	A	100.0%	132.7 / NA	42	254 (TAG→TAA)	ybfD	H repeat‑associated putative transposase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (20/22); total (20/22)

GCTGAAAGAATTAAATAATCCCAAGCATGACAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAGAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCAACGTCTACACTTACTCC  >  NC_000913/738724‑738978

gCTGAAAGAATTAAATAATCCCAAGCATGACAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAg                                                                                                                      <  1:1020517/139‑1 (MQ=255)

   gAAAGAATTAAATAATCCCAAGCATGACAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTa                                                                                                                   <  2:208324/139‑1 (MQ=255)

                  tCCCAAGCATGACAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTAcc                                                                                                    >  1:942018/1‑139 (MQ=255)

                             aCAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCt                                                                                                                    >  2:266322/1‑112 (MQ=255)

                             aCAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCt                                                                                                                    <  1:266322/112‑1 (MQ=255)

                             aCAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTc                                                                                         >  2:298946/1‑139 (MQ=255)

                             aCAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTc                                                                                         >  2:82732/1‑139 (MQ=255)

                                   aCGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCg                                                                                   <  1:82732/139‑1 (MQ=255)

                                             tGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGc                                                                         <  2:942018/139‑1 (MQ=255)

                                                              gagaAGACACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCt                                                                                                                    <  2:742302/79‑1 (MQ=255)

                                                              gagaAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCt                                                                                                                    >  1:742302/1‑79 (MQ=255)

                                                                    aaaCCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTaca                                                  <  1:298946/139‑1 (MQ=255)

                                                                               cATATTGTTTGCGATGTCCCTGGTGAGCTTATTGATTTCACGTTTGAATTAAAAGGGCAGCTATGGTTAGAAAc                                                                                                        <  1:792390/74‑1 (MQ=18)

                                                                               cATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAAc                                                                                                        >  2:792390/1‑74 (MQ=255)

                                                                                     gTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGt                                                           <  2:840090/113‑1 (MQ=255)

                                                                                     gTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGt                                                           >  1:840090/1‑113 (MQ=255)

                                                                                      tttGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACaa                                >  1:1055987/1‑139 (MQ=255)

                                                                                       ttGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACaaa                               >  1:1066014/1‑139 (MQ=255)

                                                                                        tGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAggg                                                                                                                         <  1:82789/48‑1 (MQ=255)

                                                                                        tGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAggg                                                                                                                         >  2:82789/1‑48 (MQ=255)

                                                                                        tGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGc                                                                                                                        >  1:265289/1‑49 (MQ=255)

                                                                                        tGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGc                                                                                                                        <  2:265289/49‑1 (MQ=255)

                                                                                        tGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTc                                                          <  1:392279/111‑1 (MQ=255)

                                                                                        tGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTc                                                          >  2:392279/1‑111 (MQ=255)

                                                                                        tGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTc                                    <  1:577152/133‑1 (MQ=255)

                                                                                        tGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTc                                    >  2:577152/1‑133 (MQ=255)

                                                                                         gCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCg                                                                                   <  1:345479/85‑1 (MQ=255)

                                                                                         gCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCg                                                                                   >  2:345479/1‑85 (MQ=255)

                                                                                            aTGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCa                          >  1:471304/1‑139 (MQ=255)

                                                                                                   tgatgaGCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGCGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCa                   <  2:1120819/139‑1 (MQ=255)

                                                                                                         gCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCg                                                                                   <  2:537033/69‑1 (MQ=255)

                                                                                                         gCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCg                                                                                   >  1:537033/1‑69 (MQ=255)

                                                                                                         gCTTATTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCAACGTCt             <  2:471304/139‑1 (MQ=255)

                                                                                                             aTTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTAcc                                                                                                    >  1:950298/1‑48 (MQ=255)

                                                                                                             aTTGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTAcc                                                                                                    <  2:950298/48‑1 (MQ=255)

                                                                                                              ttGATTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCAACGTCTACACt        <  2:1055987/139‑1 (MQ=255)

                                                                                                                 aTTTCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCAACGTCTACACTTAc     <  2:499330/139‑1 (MQ=255)

                                                                                                                    tCACGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCAACGTCTACACTTACTcc  >  2:628002/1‑139 (MQ=255)

                                                                                                                       cGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCAACGTCTaca          >  2:1235273/1‑128 (MQ=255)

                                                                                                                       cGTTTGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCAACGTCTaca          <  1:1235273/128‑1 (MQ=255)

                                                                                                                           tGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGt                                                           <  2:320462/75‑1 (MQ=255)

                                                                                                                           tGAATAAAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGt                                                           >  1:320462/1‑75 (MQ=255)

GCTGAAAGAATTAAATAATCCCAAGCATGACAGTTACGCAATTAGTGAAAAGAGTCACGGCAGAGAAGAAACCCGTCTTCATATTGTTTGCGATGTCCCTGATGAGCTTATTGATTTCACGTTTGAATAGAAAGGGCAGCTATGGTTAGAAACTACCTGACGTCAGTCCTTGCGGGGAGCAGGCTTTCGTAAATTTGTCCTGCTACAACAGGATTAACTTCACAAATATCATTTCTCAACGTCTACACTTACTCC  >  NC_000913/738724‑738978

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