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 F2 I194 R1
|
197 |
32.2 |
1845014 |
95.2% |
1756453 |
85.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NZ_CP009273 |
3,248,409 |
A→C |
K3T (AAA→ACA) |
BW25113_RS16135 → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NZ_CP009273 | 3,248,409 | 0 | A | C | 100.0%
| 107.9
/ NA
| 32 | K3T (AAA→ACA) | BW25113_RS16135 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base C (19/13); total (19/13) |
ACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAG > NZ_CP009273/3248326‑3248494
|
aCGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAAtt > 1:720420/1‑90 (MQ=255)
tGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGcc > 1:285629/1‑90 (MQ=255)
ggTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCa > 2:474235/1‑90 (MQ=255)
ggTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCa > 1:854463/1‑90 (MQ=255)
gTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCaa > 2:866349/1‑90 (MQ=255)
aTTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAgcgc < 1:474235/90‑1 (MQ=255)
aCTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCgg > 2:249834/1‑90 (MQ=255)
tGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTg < 2:720420/90‑1 (MQ=255)
gcgcgcTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGa > 2:796736/1‑90 (MQ=255)
gcgcgcTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGa > 1:751681/1‑90 (MQ=255)
gcgcgcTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGa > 2:272512/1‑90 (MQ=255)
tGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCgtg < 2:486441/90‑1 (MQ=255)
aGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGa > 2:636612/1‑90 (MQ=255)
ttGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGa > 1:588132/1‑90 (MQ=255)
gTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGc > 2:657604/1‑90 (MQ=255)
ttttACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCAc > 1:372065/1‑86 (MQ=255)
ttttACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCAc < 2:372065/86‑1 (MQ=255)
ttttACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGcc > 2:791852/1‑90 (MQ=255)
ttttACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGcc > 2:65741/1‑90 (MQ=255)
ttttACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGcc > 1:218945/1‑90 (MQ=255)
ttttACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGcc > 1:70565/1‑90 (MQ=255)
ttttACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGcc > 1:186718/1‑90 (MQ=255)
gagaTGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAAtttt < 2:380359/90‑1 (MQ=255)
gagaTGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAAtttt < 2:596047/90‑1 (MQ=255)
gagaTGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTAGTGGCGAAAGAACCTGCTCGCACCGCCAAAAAtttt < 2:21500/90‑1 (MQ=255)
atgatgatgAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGc < 2:12710/90‑1 (MQ=255)
atgatgatgAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGc < 1:511627/90‑1 (MQ=255)
atgatgatgAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGc < 1:249834/90‑1 (MQ=255)
gatgatgaGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTa < 2:751681/90‑1 (MQ=255)
atgatgaGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTAt < 2:26839/90‑1 (MQ=255)
gatgaGTACAAAGTTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGa < 2:808299/90‑1 (MQ=255)
aGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAagag > 1:506214/1‑90 (MQ=255)
|
ACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAATTTTGGCTATGAAGAG > NZ_CP009273/3248326‑3248494
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
AGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAGATGTTGAGCGA > NZ_CP009273/3248315‑3248505
|
AGGCTAACCTTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAAT < SRR3722072.852121/100‑1 (MQ=60)
GGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATT > SRR3722072.733236/1‑100 (MQ=60)
AACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCC > SRR3722072.290542/1‑100 (MQ=60)
ACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCA > SRR3722072.869215/1‑100 (MQ=60)
ATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATctgtctct > SRR3722072.383953/1‑92 (MQ=60)
ATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGA < SRR3722072.482881/100‑1 (MQ=60)
AATCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGA > SRR3722072.764959/1‑100 (MQ=60)
GCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGA > SRR3722072.598648/1‑100 (MQ=60)
GTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC > SRR3722072.189961/1‑100 (MQ=60)
GTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC > SRR3722072.222668/1‑100 (MQ=60)
GTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC > SRR3722072.378678/1‑100 (MQ=60)
GTCTAGTTGTTTTTACAGGGAGATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC > SRR3722072.71877/1‑100 (MQ=60)
agacagGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAG < SRR3722072.184832/94‑1 (MQ=60)
GATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAG > SRR3722072.515339/1‑100 (MQ=60)
ATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAGA < SRR3722072.520828/100‑1 (MQ=60)
ATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAGA > SRR3722072.52941/1‑100 (MQ=60)
ATGATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAGA < SRR3722072.254054/100‑1 (MQ=60)
GATGATGAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCCAAAAAATTTTGGCTATGAAGAGAT > SRR3722072.72621/1‑100 (MQ=60)
GAGTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAGATGTTGAGC > SRR3722072.106510/1‑100 (MQ=60)
GTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATctgtctcttatacacatctccgagcc > SRR3722072.757003/1‑74 (MQ=60)
GTACAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAGATGTTGAGCGA > SRR3722072.909842/1‑100 (MQ=60)
|
AGGCTAACATTACGCTGGTTGCCGATTCCCCACTGCGCGCTTTGCTGATAGATTTGCCTGTCTAGTTGTTTTTACAGGGAGATGATGATGAGTAAAAAATTGGCCAAAAAGCGCCAGCCGGTGAAGCCCGTGGTGGCGAAAGAACCTGCTCGCACCGCC‑AAAAATTTTGGCTATGAAGAGATGTTGAGCGA > NZ_CP009273/3248315‑3248505
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
