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
A1 F28 I2 R1	330	0.0	2544031	91.9%	2337964	62.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,824,380	2 bp→AA	pseudogene (513‑514/687 nt)	rph →	ECK3633:JW3618:b3643; ribonuclease PH

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,824,380	0	G	A	100.0%	215.3 / NA	63	pseudogene (513/687 nt)	rph	ECK3633:JW3618:b3643; ribonuclease PH
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (0/63); total (0/63)
*	W3110S.gb	3,824,381	0	G	A	100.0%	225.2 / NA	63	pseudogene (514/687 nt)	rph	ECK3633:JW3618:b3643; ribonuclease PH
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (0/63); total (0/63)

CGCAGTTTCTGTCGGAATTGTGAACGGCGAAGCGGTTTGCGATCTGGAATACGTTGAAGACTCTGCCGCAGAGACCGACATGAACGTAGT  >  W3110S.gb/3824347‑3824436

||

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:2215861/64‑2 (MQ=255)

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:898674/64‑2 (MQ=255)

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:457597/64‑2 (MQ=255)

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:2278430/64‑2 (MQ=255)

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:2208302/64‑2 (MQ=255)

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:1833406/64‑2 (MQ=255)

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:1520370/64‑2 (MQ=255)

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:1344732/64‑2 (MQ=255)

cGCAGTTTCTGTCGGTATTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGActca                            <  1:1064406/64‑2 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCTGCAGAGACCGa              <  1:2302635/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:2097455/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1298475/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1125899/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1017396/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:2239796/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1098970/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:2324566/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:499360/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:2467261/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:2472355/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:2475643/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:386268/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:255712/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:354794/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:371384/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:707387/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1988391/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:840629/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:719821/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1129509/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1823125/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1526187/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1528191/62‑1 (MQ=255)

             ggtaTTGTAAACGGTGAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGa              <  1:1569692/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGTAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1876502/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:734208/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1040896/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:844713/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:83959/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:807364/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:757492/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:690385/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:547968/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:638138/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:68371/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:2000684/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1260859/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1429590/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1508215/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1244355/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1585419/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1857751/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:360475/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:205324/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:20918/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:2094628/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:2210415/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:2337599/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:2445217/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:2532162/62‑1 (MQ=255)

                         ggtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGACGCAGAGACCGACATGAACGTAGt  <  1:41716/62‑1 (MQ=255)

                          gtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1574072/62‑1 (MQ=255)

                          gtgAAGCAATTTGCGATCTGGAATACGTTGAAGACTCAGCCGCAGAGACCGACATGAACGTAGt  <  1:1571057/62‑1 (MQ=255)

||

CGCAGTTTCTGTCGGAATTGTGAACGGCGAAGCGGTTTGCGATCTGGAATACGTTGAAGACTCTGCCGCAGAGACCGACATGAACGTAGT  >  W3110S.gb/3824347‑3824436

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A