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 |
|
A0 F0 I1 R1
|
155 |
25.8 |
2285122 |
88.0% |
2010907 |
104.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260479 |
1,464,365 |
Δ1 bp |
coding (49/552 nt) |
h16_A1354 → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260479 | 1,464,365 | 0 | A | . | 100.0%
| 163.2
/ NA
| 36 | coding (49/552 nt) | h16_A1354 | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (0/0); new base . (17/19); total (17/19) |
GATTTCGTGGGCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGCAGTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAACTGCTGGTGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGCTGCACGG > AM260479/1464238‑1464487
|
gATTTCGTGGGCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTgccgc < 1:737824/134‑1 (MQ=255)
cgcgGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCAc < 1:1069137/134‑1 (MQ=255)
aaTGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCt > 2:641957/1‑134 (MQ=255)
tGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCAc > 1:431308/1‑108 (MQ=255)
tGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCAc < 2:431308/108‑1 (MQ=255)
tGAGGGCACCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCAt > 2:747949/1‑134 (MQ=255)
aaTCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAgg < 2:1139041/134‑1 (MQ=255)
gTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACagccg < 1:405874/134‑5 (MQ=255)
ggAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTg > 1:370173/1‑94 (MQ=255)
ggAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTg < 2:370173/94‑1 (MQ=255)
gCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTgg < 1:463381/73‑1 (MQ=255)
gCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTgg > 2:463381/1‑73 (MQ=255)
ccTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCg < 1:100796/80‑1 (MQ=255)
ccTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCg > 2:100796/1‑80 (MQ=255)
tcatcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtac > 2:307527‑M1/1‑103 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAg > 2:587293/1‑73 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAg > 2:9681/1‑73 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAg < 1:9681/73‑1 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAg < 1:587293/73‑1 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCgg > 1:164543/1‑80 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCgg < 2:164543/80‑1 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACag < 1:211066/94‑2 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACag > 2:211066/1‑93 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtaccag < 2:96625‑M1/134‑34 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtac > 1:983639‑M1/1‑101 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtac > 1:96625‑M1/1‑101 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggat < 1:541166‑M1/127‑27 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggat > 2:541166‑M1/1‑101 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggat < 1:810812‑M1/127‑27 (MQ=255)
atcaGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggat > 2:810812‑M1/1‑101 (MQ=255)
aGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtaccagag < 1:641957‑M1/133‑36 (MQ=255)
gggCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtacca > 2:1118729‑M1/1‑91 (MQ=255)
gggCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtacca < 1:1118729‑M1/123‑33 (MQ=255)
gCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgt < 1:680041‑M1/117‑29 (MQ=255)
gCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgt > 2:680041‑M1/1‑89 (MQ=255)
gAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGcgctgcacgggctgcggcgcctggatgtaccagagcacggcattggg < 1:307527‑M1/134‑48 (MQ=255)
|
GATTTCGTGGGCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGCAGTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAACTGCTGGTGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGCTGCACGG > AM260479/1464238‑1464487
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ 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
BRESEQ :: bam2aln output
CGATTTCGTGGGCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGCAGTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAACTGCTGGTGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGCTGCACGGGCTGCGGCGCCTGGA > AM260479/1464237‑1464502
|
CGATTTCGTGGGCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGG < GWNJ‑0478:712:GW2002102894th:2:2111:12079:92079/150‑1 (MQ=60)
tacgcttttctctttttttttttttttttttcaagcagaagacggcatacgagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGC < GWNJ‑0478:712:GW2002102894th:2:1101:1721:66475/52‑1 (MQ=60)
GCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGC < GWNJ‑0478:712:GW2002102894th:2:2213:6111:41809/150‑1 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacagGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTG < GWNJ‑0478:712:GW2002102894th:2:1210:1873:51273/103‑1 (MQ=60)
GTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCctgtctcttat > GWNJ‑0478:712:GW2002102894th:2:1209:5823:84573/1‑138 (MQ=60)
GCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCtgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:2211:12259:10454/1‑116 (MQ=60)
gcgagtgtctcgtgggctcggagatgtgtataagaGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGG < GWNJ‑0478:712:GW2002102894th:2:1106:17296:24776/115‑1 (MQ=60)
gagattagcgagtgtctcgtgggctcggagatgtgtataagagacaGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGT < GWNJ‑0478:712:GW2002102894th:2:1101:20836:63859/104‑1 (MQ=60)
cgagatagcgagtgtctcgtgggctcggagatgtgtataagagacaGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGT < GWNJ‑0478:712:GW2002102894th:2:2101:12157:88289/104‑1 (MQ=60)
ATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCctgtctcttatacacatctccgagcc > GWNJ‑0478:712:GW2002102894th:2:1207:13005:42793/1‑124 (MQ=60)
ggctcggagatgtgtataagagacaGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCAC < GWNJ‑0478:712:GW2002102894th:2:1112:17019:29735/125‑1 (MQ=60)
CGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGG < GWNJ‑0478:712:GW2002102894th:2:1208:15633:46764/150‑1 (MQ=60)
CCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAgcctgtctcttatacacatctccgagcccacgagacactcgc > GWNJ‑0478:712:GW2002102894th:2:1111:2452:82735/1‑108 (MQ=60)
CCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACC > GWNJ‑0478:712:GW2002102894th:2:2207:11964:82580/1‑147 (MQ=60)
CCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACC > GWNJ‑0478:712:GW2002102894th:2:1107:3148:100132/1‑147 (MQ=60)
CCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgc < GWNJ‑0478:712:GW2002102894th:2:1214:7686:32376/150‑3 (MQ=60)
CCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgc < GWNJ‑0478:712:GW2002102894th:2:2115:1904:75520/150‑3 (MQ=60)
cagGTCATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgcat < GWNJ‑0478:712:GW2002102894th:2:2106:5970:69511/147‑5 (MQ=60)
CATCAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgcattggg < GWNJ‑0478:712:GW2002102894th:2:2215:15980:84991/149‑9 (MQ=60)
CAGCTGGTGGGCGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgcattgggtga < GWNJ‑0478:712:GW2002102894th:2:2104:5257:36844/149‑12 (MQ=60)
CGAACCGTCCAGC‑GTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAGCCGCTGGCGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGgcattgggtgagccgccgaatat < GWNJ‑0478:712:GW2002102894th:2:1203:18477:59194/150‑24 (MQ=60)
|
CGATTTCGTGGGCGCGGCAATGGGTGCAGCACAATGGCTGAGGGCGCCGCCGCGCAATCATCGCCGTGACAGGAGATGCCATGCACGCCTGTGACCTGTGTCATCAGCTGGTGGGCGAACCGTCCAGCAGTGCCGCCACACGAGCACCTGGCTGCCTCTGGCATTGCGGCCATGAGCAACCGGTGCAAGGTCGACAACTGCTGGTGCTGCACGGGCTGCGGCGCCTGGATGTACCAGAGCACGCTGCACGGGCTGCGGCGCCTGGA > AM260479/1464237‑1464502
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
